Research Publications
This bibliography contains publications from research funded by the Genomic Science Program. Most publications are from FY 2021 and beyond, though older publications appear in some cases. If you are a GSP-funded researcher and don’t see your publications listed below, contact Marissa Mills ([email protected]) to get your publications added.
| Year | DOI | Authors | Title | Journal | Volume/Pages |
|---|---|---|---|---|---|
| 10.1002/9781119312994.apr0348 | Ding, L., J.-G. Chen, A. M. Jones and S. M. Assmann | Heterotrimeric G-Protein-Coupled Signaling in Higher Plants | Annual Plant Reviews online | 30–63 | |
| 2000 | 10.1128/AEM.66.8.3616-3620.2000 | Marsh, T. L., P. Saxman, J. Cole and J. Tiedje | Terminal restriction fragment length polymorphism analysis program, a web-based research tool for microbial community analysis | Applied and Environmental Microbiology | 66(8) 3616–20 |
| 2004 | 10.1126/science.1093857 | Venter, J. C., K. Remington, J. F. Heidelberg, A. L. Halpern, D. Rusch, et al. | Environmental genome shotgun sequencing of the Sargasso Sea | Science | 304(5667) 66–74 |
| 2004 | 10.1073/pnas.0401526101 | Lindell, D., M. B. Sullivan, Z. I. Johnson, A. C. Tolonen, F. Rohwer and S. W. Chisholm | Transfer of photosynthesis genes to and from Prochlorococcus viruses | Proceedings of the National Academy of Sciences of the United States of America | 101(30) 11013–8 |
| 2004 | 10.1128/JB.186.14.4457-4465.2004 | Friedman, L. and R. Kolter | Two genetic loci produce distinct carbohydrate-rich structural components of the Pseudomonas aeruginosa biofilm matrix | Journal of Bacteriology | 186(14) 4457–65 |
| 2004 | 10.1046/j.1365-2958.2003.03877.x | Friedman, L. and R. Kolter | Genes involved in matrix formation in Pseudomonas aeruginosa PA14 biofilms | Molecular Microbiology | 51(3) 675–90 |
| 2005 | 10.1093/bioinformatics/bti613 | Xing, Y. and C. Lee | Assessing the application of Ka/Ks ratio test to alternatively spliced exons | Bioinformatics | 21(19) 3701-3703 |
| 2005 | 10.1371/journal.pbio.0030144 | Sullivan, M. B., M. L. Coleman, P. Weigele, F. Rohwer and S. W. Chisholm | Three Prochlorococcus cyanophage genomes: signature features and ecological interpretations | PLoS Biology | 3(5) e144 |
| 2005 | 10.1128/JB.187.3.940-948.2005 | Romano, J. D. and R. Kolter | Pseudomonas-Saccharomyces interactions: influence of fungal metabolism on bacterial physiology and survival | Journal of Bacteriology | 187(3) 940–8 |
| 2005 | 10.1128/JB.187.10.3551-3555.2005 | Reguera, G. and R. Kolter | Virulence and the environment: a novel role for Vibrio cholerae toxin-coregulated pili in biofilm formation on chitin | Journal of Bacteriology | 187(10) 3551–5 |
| 2005 | 10.1016/j.str.2005.01.019 | Johnson, E., D. Cascio, M. R. Sawaya, M. Gingery and I. Schröder | Crystal structures of a tetrahedral open pore ferritin from the hyperthermophilic Archaeon Archaeoglobus fulgidus | Structure | 13(4) 637-648 |
| 2005 | 10.1093/bioinformatics/bti346 | Garrity, G. M. and T. G. Lilburn | Self-organizing and self-correcting classifications of biological data | Bioinformatics | 21(10) 2309-2314 |
| 2005 | 10.1093/nar/gki038 | Cole, J. R., B. Chai, R. J. Farris, Q. Wang, S. A. Kulam, D. M. McGarrell, G. M. Garrity and J. M. Tiedje | The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis | Nucleic Acids Research | 33(Suppl_1) D294–6 |
| 2006 | 10.1021/ja058831y | Xu, Q., H. Guo, A. Wlodawer and H. Guo | The importance of dynamics in substrate-assisted catalysis and specificity | Journal of the American Chemical Society | 128(18) 5994–5 |
| 2006 | 10.1093/nar/gkl396 | Xing, Y., T. Yu, Y. N. Wu, M. Roy, J. Kim and C. Lee | An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs | Nucleic Acids Research | 34(10) 3150-3160 |
| 2006 | 10.1002/qua.20810 | Walewski, Ł., D. Krachtus, S. Fischer, J. C. Smith, P. Bała and B. Lesyng | SCC-DFTB energy barriers for single and double proton transfer processes in the model molecular systems malonaldehyde and porphycene | International Journal of Quantum Chemistry | 106(3) 636–40 |
| 2006 | 10.1371/journal.pbio.0040234 | Sullivan, M. B., D. Lindell, J. A. Lee, L. R. Thompson, J. P. Bielawski and S. W. Chisholm | Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts | PLoS Biology | 4(8) e234 |
| 2006 | 10.1016/j.str.2006.02.001 | Smith, J. C. | Tight in titin | Structure | 14(3) 389–90 |
| 2006 | 10.1021/bi052433q | Schwarzl, S. M., J. C. Smith and S. Fischer | Insights into the chemomechanical coupling of the myosin motor from simulation of its ATP hydrolysis mechanism | Biochemistry | 45(18) 5830–47 |
| 2006 | 10.1021/jp055314t | Moritsugu, K. and J. C. Smith | Temperature-dependent protein dynamics: a simulation-based probabilistic diffusion-vibration Langevin description | Journal of Physical Chemistry B | 110(11) 5807–16 |
| 2006 | 10.1155/JAMDS/2006/16018 | Moffat, J. | Mathematical modelling of information age conflict | Journal of Applied Mathematics and Decision Sciences | 2006 |
| 2006 | 10.1002/prot.20981 | Mesentean, S., S. Fischer and J. C. Smith | Analyzing large-scale structural change in proteins: comparison of principal component projection and Sammon mapping | Proteins | 64(1) 210–8 |
| 2006 | 10.1021/ja055962q | Kurkal-Siebert, V. and J. C. Smith | Low-temperature protein dynamics: a simulation analysis of interprotein vibrations and the boson peak at 150 k | Journal of the American Chemical Society | 128(7) 2356–64 |
| 2006 | 10.1016/j.jnoncrysol.2006.01.115 | Kurkal-Siebert, V., R. M. Daniel, J. L. Finney, M. Tehei, R. V. Dunn and J. C. Smith | Enzyme hydration, activity and flexibility: A neutron scattering approach | Journal of Non-Crystalline Solids | 352(42–49) 4387–93 |
| 2006 | 10.1016/j.jmb.2006.06.022 | Koppole, S., J. C. Smith and S. Fischer | Simulations of the myosin II motor reveal a nucleotide-state sensing element that controls the recovery stroke | Journal of Molecular Biology | 361(3) 604–16 |
| 2006 | 10.1021/ct600092c | Imhof, P., F. Noe, S. Fischer and J. C. Smith | AM1/d Parameters for Magnesium in Metalloenzymes | Journal of Chemical Theory and Computation | 2(4) 1050–6 |
| 2006 | 10.1021/bi060461i | Guo, H., A. Wlodawer, T. Nakayama, Q. Xu and H. Guo | Catalytic role of proton transfers in the formation of a tetrahedral adduct in a serine carboxyl peptidase | Biochemistry | 45(30) 9129–37 |
| 2006 | 10.1073/pnas.0510013103 | Glass, J. I., N. Assad-Garcia, N. Alperovich, S. Yooseph, M. R. Lewis, M. Maruf, C. A. Hutchison, 3rd, H. O. Smith and J. C. Venter | Essential genes of a minimal bacterium | Proceedings of the National Academy of Sciences of the United States of America | 103(2) 425–30 |
| 2006 | 10.1038/sj.cdd.4401807 | Efferth, T., S. M. Schwarzl, J. Smith and R. Osieka | Role of glucose-6-phosphate dehydrogenase for oxidative stress and apoptosis | Cell Death and Differentiation | 13(3) 527–8 |
| 2006 | 10.1039/b516451f | Bondar, A. N., J. C. Smith and S. Fischer | Structural and energetic determinants of primary proton transfer in bacteriorhodopsin | Photochemical and Photobiological Sciences | 5(6) 547–52 |
| 2006 | 10.1021/ja060731k | Baudry, J. | Van der waals interactions and decrease of the rotational barrier of methyl-sized rotators: a theoretical study | Journal of the American Chemical Society | 128(34) 11088–93 |
| 2006 | 10.1039/b610075a | Balog, E., J. C. Smith and D. Perahia | Conformational heterogeneity and low-frequency vibrational modes of proteins | Physical Chemistry Chemical Physics | 8(47) 5543–8 |
| 2007 | 10.1016/j.inffus.2005.04.003 | Zheng, Y., E. A. Essock, B. C. Hansen and A. M. Haun | A new metric based on extended spatial frequency and its application to DWT based fusion algorithms | Information Fusion | 8(2 SPEC. ISS.) 177-192 |
| 2007 | 10.1021/bi061737p | Xu, Q., H. B. Guo, A. Wlodawer, T. Nakayama and H. Guo | The QM/MM molecular dynamics and free energy simulations of the acylation reaction catalyzed by the serine-carboxyl peptidase kumamolisin-As | Biochemistry | 46(12) 3784–92 |
| 2007 | 10.1021/jp0670743 | Xu, Q., H. Guo, A. Gorin and H. Guo | Stabilization of a transition-state analogue at the active site of yeast cytosine deaminase: importance of proton transfers | Journal of Physical Chemistry B | 111(23) 6501–6 |
| 2007 | 10.1529/biophysj.105.079723 | Topham, C. M. and J. C. Smith | Orientation preferences of backbone secondary amide functional groups in peptide nucleic acid complexes: quantum chemical calculations reveal an intrinsic preference of cationic D-amino acid-based chiral PNA analogues for the P-form | Biophysical Journal | 92(3) 769–86 |
| 2007 | Smith, J. C., A. N. Bondar, S. Suhai and P. T. Frangopol | Computer Simulations of Local Anesthetic Mechanisms Quantum Chemical Investigation of Procaine | Romanian Reports in Physics | 59(2) 289–99 | |
| 2007 | 10.1117/12.727781 | Privitera, G., S. Tudisco, L. Lanzanò, F. Musumeci, S. Privitera, A. Scordino, D. Tudisco, M. Mazzillo and G. Condorelli | Single photon spectrometer for biomedical application: New developments | Progress in Biomedical Optics and Imaging - Proceedings of SPIE | 6628 |
| 2007 | 10.1039/9781847557773-00099 | Nutt, D. R. and J. C. Smith | Choosing an Appropriate Water Model for Use in Biomolecular Simulations | Physics and Chemistry of Ice | 451–8 |
| 2007 | 10.1021/ct700053u | Nutt, D. R. and J. C. Smith | Molecular Dynamics Simulations of Proteins: Can the Explicit Water Model Be Varied? | Journal of Chemical Theory and Computation | 3(4) 1550–60 |
| 2007 | 10.1093/bioinformatics/btm241 | Newberg, L. A., W. A. Thompson, S. Conlan, T. M. Smith, L. A. McCue and C. E. Lawrence | A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction | Bioinformatics | 23(14) 1718-1727 |
| 2007 | 10.1529/biophysj.107.111898 | Moritsugu, K. and J. C. Smith | Coarse-grained biomolecular simulation with REACH: realistic extension algorithm via covariance Hessian | Biophysical Journal | 93(10) 3460–9 |
| 2007 | 10.1016/j.jmb.2006.12.058 | Mesentean, S., S. Koppole, J. C. Smith and S. Fischer | The principal motions involved in the coupling mechanism of the recovery stroke of the myosin motor | Journal of Molecular Biology | 367(2) 591–602 |
| 2007 | 10.1073/pnas.0708199104 | Meinhold, L., J. C. Smith, A. Kitao and A. H. Zewail | Picosecond fluctuating protein energy landscape mapped by pressure temperature molecular dynamics simulation | Proceedings of the National Academy of Sciences of the United States of America | 104(44) 17261–5 |
| 2007 | 10.1002/prot.21246 | Meinhold, L. and J. C. Smith | Protein dynamics from X-ray crystallography: anisotropic, global motion in diffuse scattering patterns | Proteins | 66(4) 941–53 |
| 2007 | 10.1103/PhysRevLett.99.138101 | Meinhold, L., F. Merzel and J. C. Smith | Lattice dynamics of a protein crystal | Physical Review Letters | 99(13) 138101 |
| 2007 | Mazzotti, A., E. Stucchi, G. L. Fradelizio, L. Zanzi and P. Scandone | Re-processing of the CROP-04 seismic data | Bollettino della Societa Geologica Italiana, Supplemento | 7 141-153 | |
| 2007 | 10.1016/j.str.2007.06.008 | Koppole, S., J. C. Smith and S. Fischer | The structural coupling between ATPase activation and recovery stroke in the myosin II motor | Structure | 15(7) 825–37 |
| 2007 | 10.1093/bioinformatics/btm343 | Kim, N. and C. Lee | QPRIMER: A quick web-based application for designing conserved PCR primers from multigenome alignments | Bioinformatics | 23(17) 2331-2333 |
| 2007 | 10.1093/nar/gkl884 | Kim, N., A. V. Alekseyenko, M. Roy and C. Lee | The ASAP II database: Analysis and comparative genomics of alternative splicing in 15 animal species | Nucleic Acids Research | 35(SUPPL. 1) D93-D98 |
| 2007 | 10.1186/gb-2007-8-12-r264 | Kannan, N., J. Wu, G. S. Anand, S. Yooseph, A. F. Neuwald, J. C. Venter and S. S. Taylor | Evolution of allostery in the cyclic nucleotide binding module | Genome Biology | 8(12) R264 |
| 2007 | 10.1371/journal.pbio.0050017 | Kannan, N., S. S. Taylor, Y. Zhai, J. C. Venter and G. Manning | Structural and functional diversity of the microbial kinome | PLoS Biology | 5(3) e17 |
| 2007 | 10.1073/pnas.0702981104 | Guo, H. B. and H. Guo | Mechanism of histone methylation catalyzed by protein lysine methyltransferase SET7/9 and origin of product specificity | Proceedings of the National Academy of Sciences of the United States of America | 104(21) 8797–802 |
| 2007 | 10.1016/B978-012374212-4.50049-3 | Fantini, S. and P. Taroni | Optical Mammography | Cancer Imaging | 445-453 |
| 2007 | 10.1128/JB.01343-06 | Earl, A. M., R. Losick and R. Kolter | Bacillus subtilis genome diversity | Journal of Bacteriology | 189(3) 1163–70 |
| 2007 | 10.1002/chem.200700358 | de Hatten, X., Z. Cournia, I. Huc, J. C. Smith and N. Metzler-Nolte | Force-field development and molecular dynamics simulations of ferrocene-peptide conjugates as a scaffold for hydrogenase mimics | Chemistry | 13(29) 8139–52 |
| 2007 | 10.1073/pnas.0701401104 | Daidone, I., M. B. Ulmschneider, A. Di Nola, A. Amadei and J. C. Smith | Dehydration-driven solvent exposure of hydrophobic surfaces as a driving force in peptide folding | Proceedings of the National Academy of Sciences of the United States of America | 104(39) 15230–5 |
| 2007 | 10.1021/jp065172i | Cournia, Z., G. M. Ullmann and J. C. Smith | Differential effects of cholesterol, ergosterol and lanosterol on a dipalmitoyl phosphatidylcholine membrane: a molecular dynamics simulation study | Journal of Physical Chemistry B | 111(7) 1786–801 |
| 2007 | 10.1093/nar/gkl889 | Cole, J. R., B. Chai, R. J. Farris, Q. Wang, A. S. Kulam-Syed-Mohideen, D. M. McGarrell, A. M. Bandela, E. Cardenas, G. M. Garrity and J. M. Tiedje | The ribosomal database project (RDP-II): Introducing myRDP space and quality controlled public data | Nucleic Acids Research | 35(SUPPL. 1) D169-D172 |
| 2007 | 10.1080/02770900701595568 | Cicutto, L. and M. Ashby | The importance of a community-based asthma helpline | Journal of Asthma | 44(9) 705-710 |
| 2007 | 10.1038/nbt1316 | Chen, F. and R. A. Dixon | Lignin modification improves fermentable sugar yields for biofuel production | Nature Biotechnology | 25(7) 759–61 |
| 2007 | 10.1016/j.cell.2007.10.053 | Bonneau, R., M. T. Facciotti, D. J. Reiss, A. K. Schmid, M. Pan, et al. | A predictive model for transcriptional control of physiology in a free living cell | Cell | 131(7) 1354–65 |
| 2007 | 10.1016/j.jsb.2006.10.007 | Bondar, A. N., S. Suhai, S. Fischer, J. C. Smith and M. Elstner | Suppression of the back proton-transfer from Asp85 to the retinal Schiff base in bacteriorhodopsin: a theoretical analysis of structural elements | Journal of Structural Biology | 157(3) 454–69 |
| 2007 | 10.1186/1471-2105-8-456 | Bare, J. C., P. T. Shannon, A. K. Schmid and N. S. Baliga | The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications | BMC Bioinformatics | 8 456 |
| 2007 | 10.1093/bioinformatics/btl647 | Alekseyenko, A. V. and C. J. Lee | Nested Containment List (NCList): A new algorithm for accelerating interval query of genome alignment and interval databases | Bioinformatics | 23(11) 1386-1393 |
| 2008 | 10.1002/mrc.2201 | Yelle, D. J., J. Ralph and C. R. Frihart | Characterization of nonderivatized plant cell walls using high-resolution solution-state NMR spectroscopy | Magnetic Resonance in Chemistry | 46(6) 508–17 |
| 2008 | 10.1371/journal.pone.0001456 | Williamson, S. J., D. B. Rusch, S. Yooseph, A. L. Halpern, K. B. Heidelberg, J. I. Glass, C. Andrews-Pfannkoch, D. Fadrosh, C. S. Miller, G. Sutton, M. Frazier and J. C. Venter | The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples | PLoS One | 3(1) e1456 |
| 2008 | 10.1016/j.copbio.2008.02.014 | Weng, J. K., X. Li, N. D. Bonawitz and C. Chapple | Emerging strategies of lignin engineering and degradation for cellulosic biofuel production | Current Opinion in Biotechnology | 19(2) 166–72 |
| 2008 | 10.1002/jcc.20902 | Voltz, K., J. Trylska, V. Tozzini, V. Kurkal-Siebert, J. Langowski and J. Smith | Coarse-grained force field for the nucleosome from self-consistent multiscaling | Journal of Computational Chemistry | 29(9) 1429–39 |
| 2008 | 10.1021/pr800031f | Van, P. T., A. K. Schmid, N. L. King, A. Kaur, M. Pan, K. Whitehead, T. Koide, M. T. Facciotti, Y. A. Goo, E. W. Deutsch, D. J. Reiss, P. Mallick and N. S. Baliga | Halobacterium salinarum NRC-1 PeptideAtlas: toward strategies for targeted proteomics and improved proteome coverage | Journal of Proteome Research | 7(9) 3755–64 |
| 2008 | 10.1529/biophysj.108.135442 | Tran, L. M., M. L. Rizk and J. C. Liao | Ensemble modeling of metabolic networks | Biophysical Journal | 95(12) 5606–17 |
| 2008 | Shealy, P., R. Mukhopadhyay, S. Smith and H. Valafar | Automated assignment of backbone resonances using residual dipolar couplings acquired from a protein with known structure | Proceedings of the 2008 International Conference on Bioinformatics and Computational Biology, BIOCOMP 2008 | 646-652 | |
| 2008 | 10.1111/j.1462-2920.2008.01626.x | Shaw, A. K., A. L. Halpern, K. Beeson, B. Tran, J. C. Venter and J. B. Martiny | It's all relative: ranking the diversity of aquatic bacterial communities | Environmental Microbiology | 10(9) 2200–10 |
| 2008 | 10.2993/0278-0771(2008)28[110:HEOMSF]2.0.CO;2 | Sepez, J. | Historical ecology of Makah subsistence foraging patterns | Journal of Ethnobiology | 28(1) 110-133 |
| 2008 | 10.1016/j.bbamem.2008.06.014 | Sengupta, D., J. C. Smith and G. M. Ullmann | Partitioning of amino-acid analogues in a five-slab membrane model | Biochimica et Biophysica Acta (BBA) - Biomembranes | 1778(10) 2234–43 |
| 2008 | 10.1007/s12155-008-9025-7 | Saballos, A., W. Vermerris, L. Rivera and G. Ejeta | Allelic Association, Chemical Characterization and Saccharification Properties of brown midrib Mutants of Sorghum (Sorghum bicolor (L.) Moench) | BioEnergy Research | 1(3–4) 193–204 |
| 2008 | 10.1093/bioinformatics/btm592 | Reiss, D. J., M. T. Facciotti and N. S. Baliga | Model-based deconvolution of genome-wide DNA binding | Bioinformatics | 24(3) 396–403 |
| 2008 | 10.1088/1742-6596/125/1/012055 | Petridis, L. and J. C. Smith | Cellulosic ethanol: progress towards a simulation model of lignocellulosic biomass | Journal of Physics: Conference Series | 125 |
| 2008 | 10.1073/pnas.0809160105 | Oda, Y., F. W. Larimer, P. S. Chain, S. Malfatti, M. V. Shin, L. M. Vergez, L. Hauser, M. L. Land, S. Braatsch, J. T. Beatty, D. A. Pelletier, A. L. Schaefer and C. S. Harwood | Multiple genome sequences reveal adaptations of a phototrophic bacterium to sediment microenvironments | Proceedings of the National Academy of Sciences of the United States of America | 105(47) 18543–8 |
| 2008 | 10.1021/ja8034027 | Nutt, D. R. and J. C. Smith | Dual function of the hydration layer around an antifreeze protein revealed by atomistic molecular dynamics simulations | Journal of the American Chemical Society | 130(39) 13066–73 |
| 2008 | 10.1103/PhysRevLett.100.188103 | Neusius, T., I. Daidone, I. M. Sokolov and J. C. Smith | Subdiffusion in peptides originates from the fractal-like structure of configuration space | Physical Review Letters | 100(18) 188103 |
| 2008 | 10.1529/biophysj.108.131714 | Moritsugu, K. and J. C. Smith | REACH coarse-grained biomolecular simulation: transferability between different protein structural classes | Biophysical Journal | 95(4) 1639–48 |
| 2008 | 10.1529/biophysj.107.121418 | Meinhold, L., D. Clement, M. Tehei, R. Daniel, J. L. Finney and J. C. Smith | Protein dynamics and stability: the distribution of atomic fluctuations in thermophilic and mesophilic dihydrofolate reductase derived using elastic incoherent neutron scattering | Biophysical Journal | 94(12) 4812–8 |
| 2008 | 10.1002/anie.200802679 | McLain, S. E., A. K. Soper, I. Daidone, J. C. Smith and A. Watts | Charge-based interactions between peptides observed as the dominant force for association in aqueous solution | Angewandte Chemie International Edition | 47(47) 9059–62 |
| 2008 | Mahrooz, A., M. Nouri, M. R. Rashidi, N. Aslanabadi, D. Qujeq and A. Azari | Paraoxonase and Arylesterase activities of human serum paraoxonase in coronary artery disease | Koomesh | 10(1) 1-6+1 | |
| 2008 | 10.1111/j.1365-313X.2008.03457.x | Li, X., J. K. Weng and C. Chapple | Improvement of biomass through lignin modification | The Plant Journal | 54(4) 569–81 |
| 2008 | 10.1103/PhysRevLett.100.138102 | Kurkal-Siebert, V., R. Agarwal and J. C. Smith | Hydration-dependent dynamical transition in protein: protein interactions at ≈ 240 K | Physical Review Letters | 100(13) 138102 |
| 2008 | 10.1021/jp076641z | Krishnan, M., V. Kurkal-Siebert and J. C. Smith | Methyl group dynamics and the onset of anharmonicity in myoglobin | Journal of Physical Chemistry B | 112(17) 5522–33 |
| 2008 | 10.1007/s12155-008-9004-z | Kim, H., J. Ralph and T. Akiyama | Solution-state 2D NMR of Ball-milled Plant Cell Wall Gels in DMSO-d6 | BioEnergy Research | 1(1) 56–66 |
| 2008 | 10.1007/s12155-008-9020-z | Jackson, L. A., G. L. Shadle, R. Zhou, J. Nakashima, F. Chen and R. A. Dixon | Improving Saccharification Efficiency of Alfalfa Stems Through Modification of the Terminal Stages of Monolignol Biosynthesis | BioEnergy Research | 1(3–4) 180–92 |
| 2008 | 10.1021/bi801685f | Imker, H. J., J. Singh, B. P. Warlick, F. R. Tabita and J. A. Gerlt | Mechanistic diversity in the RuBisCO superfamily: a novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum | Biochemistry | 47(43) 11171–3 |
| 2008 | 10.1016/j.jmb.2007.12.073 | Grintsevich, E. E., S. A. Benchaar, D. Warshaviak, P. Boontheung, F. Halgand, J. P. Whitelegge, K. F. Faull, R. R. Ogorzalek Loo, D. Sept, J. A. Loo and E. Reisler | Mapping the Cofilin Binding Site on Yeast G-Actin by Chemical Cross-Linking | Journal of Molecular Biology | 377(2) 395-409 |
| 2008 | 10.1093/nar/gkm815 | Faith, J. J., M. E. Driscoll, V. A. Fusaro, E. J. Cosgrove, B. Hayete, F. S. Juhn, S. J. Schneider and T. S. Gardner | Many Microbe Microarrays Database: Uniformly normalized Affymetrix compendia with structured experimental metadata | Nucleic Acids Research | 36(SUPPL. 1) D866-D870 |
| 2008 | 10.1016/j.copbio.2008.10.010 | Cardenas, E. and J. M. Tiedje | New tools for discovering and characterizing microbial diversity | Current Opinion in Biotechnology | 19(6) 544–9 |
| 2008 | 10.1016/j.ijhydene.2008.07.102 | Burrows, E., F. Chaplen and R. Ely | Optimization of media nutrient composition for increased photofermentative hydrogen production by Synechocystis sp. PCC 6803 | International Journal of Hydrogen Energy | 33(21) 6092–9 |
| 2008 | 10.1021/jp801916f | Bondar, A. N., J. Baudry, S. Suhai, S. Fischer and J. C. Smith | Key role of active-site water molecules in bacteriorhodopsin proton-transfer reactions | Journal of Physical Chemistry B | 112(47) 14729–41 |
| 2008 | 10.1016/j.ymben.2008.02.001 | Bernstein, J. R., T. Bulter and J. C. Liao | Transfer of the high-GC cyclohexane carboxylate degradation pathway from Rhodopseudomonas palustris to Escherichia coli for production of biotin | Metabolic Engineering | 10(45720) 131-140 |
| 2008 | 10.1021/ac800795f | Benton, H. P., D. M. Wong, S. A. Trauger and G. Siuzdak | XCMS2: processing tandem mass spectrometry data for metabolite identification and structural characterization | Analytical Chemistry | 80(16) 6382–9 |
| 2008 | 10.1021/bi801425e | Becker, V., D. Sengupta, R. Ketteler, G. M. Ullmann, J. C. Smith and U. Klingmuller | Packing density of the erythropoietin receptor transmembrane domain correlates with amplification of biological responses | Biochemistry | 47(45) 11771–82 |
| 2008 | 10.1080/10635150802434394 | Alekseyenko, A. V., C. J. Lee and M. A. Suchard | Wagner and Dollo: A stochastic duet by composing two parsimonious solos | Systematic Biology | 57(5) 772-784 |
| 2009 | 10.1088/0031-9155/54/17/008 | Zhou, J. and J. Qi | Theoretical analysis and simulation study of a high-resolution zoom-in PET system | Physics in Medicine and Biology | 54(17) 5193–208 |
| 2009 | 10.1007/978-3-642-02498-6_3 | Zhou, J. and J. Qi | High-resolution adaptive PET imaging | International Conference on Information Processing in Medical Imaging | 21 26–37 |
| 2009 | 10.1038/hdy.2009.26 | Zakharov, E. V., N. F. Lobo, C. Nowak and J. J. Hellmann | Introgression as a likely cause of mtDNA paraphyly in two allopatric skippers (Lepidoptera: Hesperiidae) | Heredity | 102(6) 590–9 |
| 2009 | 10.1111/j.1469-8137.2008.02663.x | Yin, T. M., X. Y. Zhang, L. E. Gunter, S. X. Li, S. D. Wullschleger, M. R. Huang and G. A. Tuskan | Microsatellite primer resource for Populus developed from the mapped sequence scaffolds of the Nisqually-1 genome | New Phytologist | 181(2) 498–503 |
| 2009 | 10.1002/chem.200902297 | Xu, Q., Y. Z. Chu, H. B. Guo, J. C. Smith and H. Guo | Energy triplets for writing epigenetic marks: insights from QM/MM free-energy simulations of protein lysine methyltransferases | Chemistry | 15(46) 12596–9 |
| 2009 | 10.1002/pro.105 | Xu, J., M. F. Crowley and J. C. Smith | Building a foundation for structure-based cellulosome design for cellulosic ethanol: Insight into cohesin-dockerin complexation from computer simulation | Protein Science | 18(5) 949–59 |
| 2009 | 10.1186/1471-2180-9-149 | Xia, Q., T. Wang, E. L. Hendrickson, T. J. Lie, M. Hackett and J. A. Leigh | Quantitative proteomics of nutrient limitation in the hydrogenotrophic methanogen Methanococcus maripaludis | BMC Microbiology | 9 |
| 2009 | 10.1016/j.ymben.2009.08.004 | Wong, W. W. and J. C. Liao | Microbial maximal specific growth rate as a square-root function of biomass yield and two kinetic parameters | Metabolic Engineering | 11(6) 409–14 |
| 2009 | 10.1073/pnas.0812874106 | Wikoff, W. R., A. T. Anfora, J. Liu, P. G. Schultz, S. A. Lesley, E. C. Peters and G. Siuzdak | Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites | Proceedings of the National Academy of Sciences of the United States of America | 106(10) 3698–703 |
| 2009 | Widya, I., R. G. A. Bults, M. H. A. Huis In't Veld and M. M. R. Vollenbroek-Hutten | Scenario-based requirements elicitation in a pain-teletreatment application | ICSOFT 2009 - 4th International Conference on Software and Data Technologies, Proceedings | 2 406-413 | |
| 2009 | 10.1371/journal.pone.0005485 | Whitehead, K., M. Pan, K. Masumura, R. Bonneau and N. S. Baliga | Diurnally entrained anticipatory behavior in archaea | PLoS One | 4(5) e5485 |
| 2009 | 10.1186/1471-2229-9-88 | Vogel, J. P., M. Tuna, H. Budak, N. Huo, Y. Q. Gu and M. A. Steinwand | Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon | BMC Plant Biology | 9 88 |
| 2009 | 10.1021/ct900256k | Ulmschneider, J. P., J. P. Doux, J. A. Killian, J. C. Smith and M. B. Ulmschneider | Peptide Partitioning and Folding into Lipid Bilayers | Journal of Chemical Theory and Computation | 5(9) 2202–5 |
| 2009 | 10.1021/ja9064365 | Thukral, L., J. C. Smith and I. Daidone | Common folding mechanism of a β-hairpin peptide via non-native turn formation revealed by unbiased molecular dynamics simulations | Journal of the American Chemical Society | 131(50) 18147–52 |
| 2009 | 10.1007/s10933-008-9266-7 | Swindles, G. T., D. J. Charman, H. M. Roe and P. A. Sansum | Environmental controls on peatland testate amoebae (Protozoa: Rhizopoda) in the North of Ireland: Implications for Holocene palaeoclimate studies | Journal of Paleolimnology | 42(1) 123-140 |
| 2009 | Su, X., H. Hou, G. Li, R. Lin and S. Cai | Product distribution of thermal cracking of exo-tetrahydrodicyclopentadiene | Acta Chimica Sinica | 67(7) 587-592 | |
| 2009 | 10.1104/pp.109.137059 | Stewart, J. J., T. Akiyama, C. Chapple, J. Ralph and S. D. Mansfield | The effects on lignin structure of overexpression of ferulate 5-hydroxylase in hybrid poplar | Plant Physiology | 150(2) 621–35 |
| 2009 | 10.1002/prot.22350 | Splettstoesser, T., F. Noe, T. Oda and J. C. Smith | Nucleotide-dependence of G-actin conformation from multiple molecular dynamics simulations and observation of a putatively polymerization-competent superclosed state | Proteins | 76(2) 353–64 |
| 2009 | 10.1021/ja809660g | Spies, M. A., J. G. Reese, D. Dodd, K. L. Pankow, S. R. Blanke and J. Baudry | Determinants of catalytic power and ligand binding in glutamate racemase | Journal of the American Chemical Society | 131(14) 5274–84 |
| 2009 | 10.1155/2009/350424 | Sobel, S. G., H. M. Hastings and M. Testa | Spatial Heterogeneity and Imperfect Mixing in Chemical Reactions: Visualization of Density-Driven Pattern Formation | Research Letters in Physical Chemistry | 2009 1–4 |
| 2009 | Smith, J. C. | Overcoming Plant Recalcitrance: Supercomputers Tackle Biofuel Production Problems | SciDAC Review | (15) 34–45 | |
| 2009 | 10.1021/ja9034158 | Shen, T., P. Langan, A. D. French, G. P. Johnson and S. Gnanakaran | Conformational flexibility of soluble cellulose oligomers: chain length and temperature dependence | Journal of the American Chemical Society | 131(41) 14786–94 |
| 2009 | 10.1021/ct900292r | Schulz, R., B. Lindner, L. Petridis and J. C. Smith | Scaling of Multimillion-Atom Biological Molecular Dynamics Simulation on a Petascale Supercomputer | Journal of Chemical Theory and Computation | 5(10) 2798–808 |
| 2009 | 10.1016/j.bpj.2008.10.007 | Schulz, R., M. Krishnan, I. Daidone and J. C. Smith | Instantaneous normal modes and the protein glass transition | Biophysical Journal | 96(2) 476–84 |
| 2009 | 10.1126/science.1178534 | Schnable, P. S., D. Ware, R. S. Fulton, J. C. Stein, F. Wei, et al. | The B73 maize genome: complexity, diversity, and dynamics | Science | 326(5956) 1112–5 |
| 2009 | 10.1038/msb.2009.40 | Schmid, A. K., D. J. Reiss, M. Pan, T. Koide and N. S. Baliga | A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability | Molecular Systems Biology | 5 282 |
| 2009 | 10.1104/pp.109.136408 | Sattler, S. E., A. J. Saathoff, E. J. Haas, N. A. Palmer, D. L. Funnell-Harris, G. Sarath and J. F. Pedersen | A nonsense mutation in a cinnamyl alcohol dehydrogenase gene is responsible for the Sorghum brown midrib6 phenotype | Plant Physiology | 150(2) 584–95 |
| 2009 | 10.1534/genetics.108.098996 | Saballos, A., G. Ejeta, E. Sanchez, C. Kang and W. Vermerris | A genomewide analysis of the cinnamyl alcohol dehydrogenase family in sorghum [Sorghum bicolor (L.) Moench] identifies SbCAD2 as the brown midrib6 gene | Genetics | 181(2) 783–95 |
| 2009 | 10.1364/oe.17.012532 | Saar, B. G., G. R. Holtom, C. W. Freudiger, C. Ackermann, W. Hill and X. S. Xie | Intracavity wavelength modulation of an optical parametric oscillator for coherent Raman microscopy | Optics Express | 17(15) 12532–9 |
| 2009 | 10.1016/j.jtice.2009.05.003 | Rizk, M. L. and J. C. Liao | Ensemble modeling and related mathematical modeling of metabolic networks | Journal of the Taiwan Institute of Chemical Engineers | 40(6) 595-601 |
| 2009 | 10.1021/ja809767v | Phatak, P., J. S. Frahmcke, M. Wanko, M. Hoffmann, P. Strodel, J. C. Smith, S. Suhai, A. N. Bondar and M. Elstner | Long-distance proton transfer with a break in the bacteriorhodopsin active site | Journal of the American Chemical Society | 131(20) 7064–78 |
| 2009 | 10.1002/jcc.21075 | Petridis, L. and J. C. Smith | A molecular mechanics force field for lignin | Journal of Computational Chemistry | 30(3) 457–67 |
| 2009 | 10.1080/08927010902995564 | Pérez-Roa, R. E., M. A. Anderson, D. Rittschof, C. G. Hunt and D. R. Noguera | Involvement of reactive oxygen species in the electrochemical inhibition of barnacle (Amphibalanus amphitrite) settlement | Biofouling | 25(6) 563-571 |
| 2009 | 10.1104/pp.109.136804 | Penning, B. W., C. T. Hunter, 3rd, R. Tayengwa, A. L. Eveland, C. K. Dugard, A. T. Olek, W. Vermerris, K. E. Koch, D. R. McCarty, M. F. Davis, S. R. Thomas, M. C. McCann and N. C. Carpita | Genetic resources for maize cell wall biology | Plant Physiology | 151(4) 1703–28 |
| 2009 | 10.1038/ismej.2008.116 | Pearson, A. and D. B. Rusch | Distribution of microbial terpenoid lipid cyclases in the global ocean metagenome | The ISME Journal | 3(3) 352–63 |
| 2009 | 10.1021/ja9016123 | Parks, J. M., H. Guo, C. Momany, L. Liang, S. M. Miller, A. O. Summers and J. C. Smith | Mechanism of Hg-C protonolysis in the organomercurial lyase MerB | Journal of the American Chemical Society | 131(37) 13278–85 |
| 2009 | 10.1111/j.1755-0998.2008.02203.x | Nowak, C., C. M. Brown and J. J. Hellmann | Microsatellite markers for the hybridizing tiger swallowtails, Papilio glaucus and P. canadensis, and their applicability to historic specimens and congeneric species | Molecular Ecology Resources | 9(3) 800–3 |
| 2009 | 10.1103/PhysRevE.80.011109 | Neusius, T., I. M. Sokolov and J. C. Smith | Subdiffusion in time-averaged, confined random walks | Physical Review E | 80(1) 011109 |
| 2009 | 10.1016/j.cpc.2009.01.007 | Moritsugu, K. and J. C. Smith | REACH: A program for coarse-grained biomolecular simulation | Computer Physics Communications | 180(7) 1188–95 |
| 2009 | 10.1016/j.bpj.2009.05.015 | Moritsugu, K., V. Kurkal-Siebert and J. C. Smith | REACH coarse-grained normal mode analysis of protein dimer interaction dynamics | Biophysical Journal | 97(4) 1158–67 |
| 2009 | 10.1007/s00239-009-9290-x | Montague, M., C. Barnes, H. O. Smith, R. Y. Chuang and S. Vashee | The evolution of RecD outside of the RecBCD complex | Journal of Molecular Evolution | 69(4) 360–71 |
| 2009 | 10.1002/cphc.200800502 | Min, W., S. Lu, G. R. Holtom and X. S. Xie | Triple-resonance coherent anti-stokes Raman scattering microspectroscopy | ChemPhysChem | 10(2) 344–7 |
| 2009 | 10.1117/12.809802 | Min, W., C. W. Freudiger, S. J. Lu, C. W. He, J. X. Kang and X. S. Xie | Stimulated Raman scattering microscopy for biomedical imaging | Multiphoton Microscopy in the Biomedical Sciences IX | 7183 718320 |
| 2009 | 10.1016/j.copbio.2009.10.001 | McInerney, M. J., J. R. Sieber and R. P. Gunsalus | Syntrophy in anaerobic global carbon cycles | Current Opinion in Biotechnology | 20(6) 623–32 |
| 2009 | 10.1038/nmeth.1348 | Manichaikul, A., L. Ghamsari, E. F. Hom, C. Lin, R. R. Murray, et al. | Metabolic network analysis integrated with transcript verification for sequenced genomes | Nature Methods | 6(8) 589–92 |
| 2009 | 10.1186/1754-6834-2-30 | Lau, M. W., C. Gunawan and B. E. Dale | The impacts of pretreatment on the fermentability of pretreated lignocellulosic biomass: A comparative evaluation between ammonia fiber expansion and dilute acid pretreatment | Biotechnology for Biofuels | 2(1) 45668 |
| 2009 | 10.1021/ja901276n | Krishnan, M. and J. C. Smith | Response of small-scale, methyl rotors to protein-ligand association: a simulation analysis of calmodulin-peptide binding | Journal of the American Chemical Society | 131(29) 10083–91 |
| 2009 | 10.1063/1.3108363 | Krishnan, M., R. Schulz and J. C. Smith | Protein Dynamical Transition Role of Methyl Dynamics and Local Diffusion | AIP Conference Proceedings | 1102(1) |
| 2009 | 10.1109/NSSMIC.2009.5401623 | Komarov, S., Y. Yin, H. Wu and Y.-C. Tai | Simulation study of charge collection in highly pixilated CdZnTe detector for PET imaging | 2009 IEEE Nuclear Science Symposium Conference Record (NSS/MIC) | 2892–95 |
| 2009 | 10.1038/msb.2009.42 | Koide, T., D. J. Reiss, J. C. Bare, W. L. Pang, M. T. Facciotti, et al. | Prevalence of transcription promoters within archaeal operons and coding sequences | Molecular Systems Biology | 5 285 |
| 2009 | 10.1038/nrmicro2107 | Koide, T., W. L. Pang and N. S. Baliga | The role of predictive modelling in rationally re-engineering biological systems | Nature Reviews Microbiology | 7(4) 297–305 |
| 2009 | 10.1007/s11367-009-0106-4 | Kim, S. and B. E. Dale | Regional variations in greenhouse gas emissions of biobased products in the United States-corn-based ethanol and soybean oil | International Journal of Life Cycle Assessment | 14(6) 540-546 |
| 2009 | 10.1364/ol.34.002051 | Kieu, K., B. G. Saar, G. R. Holtom, X. S. Xie and F. W. Wise | High-power picosecond fiber source for coherent Raman microscopy | Optics Letters | 34(13) 2051–3 |
| 2009 | 10.1080/13504500903336405 | Jiang, Y. and S. M. Swinton | Market interactions, farmers' choices, and the sustainability of growing advanced biofuels: A missing perspective? | International Journal of Sustainable Development and World Ecology | 16(6) 438-450 |
| 2009 | 10.1088/0031-9155/54/14/015 | James, S. S., Y. Yang, Y. Wu, R. Farrell, P. Dokhale, K. S. Shah and S. R. Cherry | Experimental characterization and system simulations of depth of interaction PET detectors using 0.5 mm and 0.7 mm LSO arrays | Physics in Medicine and Biology | 54(14) 4605–19 |
| 2009 | 10.1021/bi900585m | Imhof, P., S. Fischer and J. C. Smith | Catalytic mechanism of DNA backbone cleavage by the restriction enzyme EcoRV: a quantum mechanical/molecular mechanical analysis | Biochemistry | 48(38) 9061–75 |
| 2009 | 10.1093/mp/ssp047 | Hedenstrom, M., S. Wiklund-Lindstrom, T. Oman, F. Lu, L. Gerber, P. Schatz, B. Sundberg and J. Ralph | Identification of lignin and polysaccharide modifications in Populus wood by chemometric analysis of 2D NMR spectra from dissolved cell walls | Molecular Plant | 2(5) 933–42 |
| 2009 | 10.1007/s12539-008-0011-8 | Guo, H., A. Gorin and H. Guo | A peptide-linkage deletion procedure for estimate of energetic contributions of individual peptide groups in a complex environment: Application to parallel β-sheets | Interdisciplinary Sciences: Computational Life Sciences | 1(1) 12–20 |
| 2009 | 10.1038/nmeth.1318 | Gibson, D. G., L. Young, R. Y. Chuang, J. C. Venter, C. A. Hutchison, 3rd and H. O. Smith | Enzymatic assembly of DNA molecules up to several hundred kilobases | Nature Methods | 6(5) 343–5 |
| 2009 | 10.1016/j.copbio.2009.05.003 | da Costa Sousa, L., S. P. Chundawat, V. Balan and B. E. Dale | 'Cradle-to-grave' assessment of existing lignocellulose pretreatment technologies | Current Opinion in Biotechnology | 20(3) 339-347 |
| 2009 | 10.1016/j.ymben.2009.04.002 | Contador, C. A., M. L. Rizk, J. A. Asenjo and J. C. Liao | Ensemble modeling for strain development of L-lysine-producing Escherichia coli | Metabolic Engineering | 11(4–5) 221–33 |
| 2009 | 10.1093/nar/gkn879 | Cole, J. R., Q. Wang, E. Cardenas, J. Fish, B. Chai, R. J. Farris, A. S. Kulam-Syed-Mohideen, D. M. McGarrell, T. Marsh, G. M. Garrity and J. M. Tiedje | The Ribosomal Database Project: improved alignments and new tools for rRNA analysis | Nucleic Acids Research | 37(Suppl_1) D141–5 |
| 2009 | 10.1016/j.bpj.2009.03.018 | Cheng, X., I. Ivanov, H. Wang, S. M. Sine and J. A. McCammon | Molecular-dynamics simulations of ELIC-a prokaryotic homologue of the nicotinic acetylcholine receptor | Biophysical Journal | 96(11) 4502–13 |
| 2009 | 10.1002/btpr.213 | Burrows, E. H., W. K. Wong, X. Fern, F. W. Chaplen and R. L. Ely | Optimization of pH and nitrogen for enhanced hydrogen production by Synechocystis sp. PCC 6803 via statistical and machine learning methods | Biotechnology Progress | 25(4) 1009–17 |
| 2009 | 10.1038/msb.2009.34 | Brynildsen, M. P. and J. C. Liao | An integrated network approach identifies the isobutanol response network of Escherichia coli | Molecular Systems Biology | 5 277 |
| 2009 | 10.1007/s00214-009-0565-5 | Bondar, A.-N., J. C. Smith and M. Elstner | Mechanism of a proton pump analyzed with computer simulations | Theoretical Chemistry Accounts | 125(3–6) 353–63 |
| 2009 | 10.1560/ijc.49.2.155 | Bondar, A.-N. and J. C. Smith | Water Molecules in Short- and Long-Distance Proton Transfer Steps of Bacteriorhodopsin Proton Pumping | Israel Journal of Chemistry | 49(2) 155–61 |
| 2009 | 10.1038/nbt.1586 | Atsumi, S., W. Higashide and J. C. Liao | Direct photosynthetic recycling of carbon dioxide to isobutyraldehyde | Nature Biotechnology | 27(12) 1177–80 |
| 2009 | 10.1038/ismej.2009.45 | Allen, M. A., F. M. Lauro, T. J. Williams, D. Burg, K. S. Siddiqui, et al. | The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: The role of genome evolution in cold adaptation | ISME Journal | 3(9) 1012-1035 |
| 2010 | 10.1073/pnas.1012900107 | Zhou, R., L. Jackson, G. Shadle, J. Nakashima, S. Temple, F. Chen and R. A. Dixon | Distinct cinnamoyl CoA reductases involved in parallel routes to lignin in Medicago truncatula | Proceedings of the National Academy of Sciences of the United States of America | 107(41) 17803–8 |
| 2010 | 10.1128/mBio.00169-10 | Zhou, J., Y. Deng, F. Luo, Z. He, Q. Tu and X. Zhi | Functional molecular ecological networks | mBio | 1(4) |
| 2010 | 10.1073/pnas.1009170107 | Zhao, Q., H. Wang, Y. Yin, Y. Xu, F. Chen and R. A. Dixon | Syringyl lignin biosynthesis is directly regulated by a secondary cell wall master switch | Proceedings of the National Academy of Sciences of the United States of America | 107(32) 14496–501 |
| 2010 | 10.1111/j.1365-313X.2010.04223.x | Zhao, Q., L. Gallego-Giraldo, H. Wang, Y. Zeng, S. Y. Ding, F. Chen and R. A. Dixon | An NAC transcription factor orchestrates multiple features of cell wall development in Medicago truncatula | The Plant Journal | 63(1) 100–14 |
| 2010 | 10.1016/j.plaphy.2010.01.023 | Zhao, N., J. Guan, J. L. Ferrer, N. Engle, M. Chern, P. Ronald, T. J. Tschaplinski and F. Chen | Biosynthesis and emission of insect-induced methyl salicylate and methyl benzoate from rice | Plant Physiology and Biochemistry | 48(4) 279–87 |
| 2010 | 10.1016/j.envsoft.2010.05.012 | Zhang, X. and R. Srinivasan | GIS-based spatial precipitation estimation using next generation radar and raingauge data | Environmental Modelling and Software | 25(12) 1781-1788 |
| 2010 | 10.1007/s12155-010-9079-1 | Zeng, Y. N., B. G. Saar, M. G. Friedrich, F. Chen, Y. S. Liu, R. A. Dixon, M. E. Himmel, X. S. Xie and S. Y. Ding | Imaging Lignin-Downregulated Alfalfa Using Coherent Anti-Stokes Raman Scattering Microscopy | BioEnergy Research | 3(3) 272–7 |
| 2010 | 10.1016/j.fcr.2010.03.014 | Zeid, M., J. K. Yu, I. Goldowitz, M. E. Denton, D. E. Costich, C. T. Jayasuriya, M. Saha, R. Elshire, D. Benscher, F. Breseghello, J. Munkvold, R. K. Varshney, G. Belay and M. E. Sorrells | Cross-amplification of EST-derived markers among 16 grass species | Field Crops Research | 118(1) 28–35 |
| 2010 | 10.1016/j.jmb.2010.06.026 | Zahran, M., I. Daidone, J. C. Smith and P. Imhof | Mechanism of DNA recognition by the restriction enzyme EcoRV | Journal of Molecular Biology | 401(3) 415–32 |
| 2010 | 10.1038/nature09530 | Yooseph, S., K. H. Nealson, D. B. Rusch, J. P. McCrow, C. L. Dupont, et al. | Genomic and functional adaptation in surface ocean planktonic prokaryotes | Nature | 468(7320) 60–6 |
| 2010 | 10.1007/s12155-009-9072-8 | Yilmaz, L. S., W. S. Kontur, A. P. Sanders, U. Sohmen, T. J. Donohue and D. R. Noguera | Electron Partitioning During Light-and Nutrient-Powered Hydrogen Production by Rhodobacter sphaeroides | BioEnergy Research | 3(1) 55–66 |
| 2010 | 10.1007/s11240-010-9826-1 | Yang, X., C.-Y. Ye, Z.-M. Cheng, T. J. Tschaplinski, S. D. Wullschleger, W. Yin, X. Xia and G. A. Tuskan | Genomic aspects of research involving polyploid plants | Plant Cell, Tissue and Organ Culture | 104(3) 387–97 |
| 2010 | 10.1073/pnas.0914506107 | Yang, S., M. L. Land, D. M. Klingeman, D. A. Pelletier, T. Y. Lu, S. L. Martin, H. B. Guo, J. C. Smith and S. D. Brown | Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae | Proceedings of the National Academy of Sciences of the United States of America | 107(23) 10395–400 |
| 2010 | 10.1007/s12539-010-0070-5 | Xu, Q., X. Ye, L. Y. Li, Z. M. Cheng and H. Guo | Structural basis for the action of xyloglucan endotransglycosylases/hydrolases: insights from homology modeling | Interdisciplinary Sciences: Computational Life Sciences | 2(2) 133–9 |
| 2010 | 10.1021/jp102785s | Xu, Q., L. Li and H. Guo | Understanding the mechanism of deacylation reaction catalyzed by the serine carboxyl peptidase kumamolisin-As: insights from QM/MM free energy simulations | Journal of Physical Chemistry B | 114(32) 10594–600 |
| 2010 | 10.1093/protein/gzq049 | Xu, J. and J. C. Smith | Probing the mechanism of cellulosome attachment to the Clostridium thermocellum cell surface: computer simulation of the Type II cohesin-dockerin complex and its variants | Protein Engineering, Design and Selection | 23(10) 759–68 |
| 2010 | Xu, J., G. R. Bao, H. Wang, P. Zhu, F. S. Li, Y. Z. Li, S. Luo and S. Y. Li | Experimental study on hydrolysis of rubber seed oil in sub-critical water | Huaxue Gongcheng/Chemical Engineering (China) | 38(1) 46-49 | |
| 2010 | 10.1016/j.enzmictec.2009.11.001 | Ximenes, E., Y. Kim, N. Mosier, B. Dien and M. Ladisch | Inhibition of cellulases by phenols | Enzyme and Microbial Technology | 46(3–4) 170–6 |
| 2010 | 10.1128/mBio.00246-10 | Wilmes, P., B. P. Bowen, B. C. Thomas, R. S. Mueller, V. J. Denef, N. C. VerBerkmoes, R. L. Hettich, T. R. Northen and J. F. Banfield | Metabolome-proteome differentiation coupled to microbial divergence | mBio | 1(5) |
| 2010 | 10.1111/j.1365-313X.2010.04391.x | Weng, J. K., H. Mo and C. Chapple | Over-expression of F5H in COMT-deficient Arabidopsis leads to enrichment of an unusual lignin and disruption of pollen wall formation | The Plant Journal | 64(6) 898–911 |
| 2010 | 10.1105/tpc.109.073528 | Weng, J. K., T. Akiyama, N. D. Bonawitz, X. Li, J. Ralph and C. Chapple | Convergent evolution of syringyl lignin biosynthesis via distinct pathways in the lycophyte Selaginella and flowering plants | The Plant Cell | 22(4) 1033–45 |
| 2010 | 10.1104/pp.110.155119 | Vanholme, R., B. Demedts, K. Morreel, J. Ralph and W. Boerjan | Lignin biosynthesis and structure | Plant Physiology | 153(3) 895–905 |
| 2010 | 10.1016/j.bpj.2010.03.043 | Ulmschneider, M. B., J. C. Smith and J. P. Ulmschneider | Peptide partitioning properties from direct insertion studies | Biophysical Journal | 98(12) L60–2 |
| 2010 | 10.1186/1471-2164-11-600 | Tyler, L., J. N. Bragg, J. Wu, X. Yang, G. A. Tuskan and J. P. Vogel | Annotation and comparative analysis of the glycoside hydrolase genes in Brachypodium distachyon | BMC Genomics | 11 600 |
| 2010 | 10.1186/1751-0473-5-7 | Tenenbaum, D., J. C. Bare and N. S. Baliga | GTC: A web server for integrating systems biology data with web tools and desktop applications | Source Code for Biology and Medicine | 5 7 |
| 2010 | 10.4056/sigs.651139 | Tanenbaum, D. M., J. Goll, S. Murphy, P. Kumar, N. Zafar, M. Thiagarajan, R. Madupu, T. Davidsen, L. Kagan, S. Kravitz, D. B. Rusch and S. Yooseph | The JCVI standard operating procedure for annotating prokaryotic metagenomic shotgun sequencing data | Standards in Genomic Sciences | 2(2) 229–37 |
| 2010 | 10.1088/0031-9155/55/2/N04 | St James, S., Y. Yang, S. L. Bowen, J. Qi and S. R. Cherry | Simulation study of spatial resolution and sensitivity for the tapered depth of interaction PET detectors for small animal imaging | Physics in Medicine and Biology | 55(2) N63–74 |
| 2010 | 10.1007/s12155-009-9075-5 | Slater, S., K. Keegstra and T. J. Donohue | The US department of energy great lakes bioenergy research center: Midwestern Biomass as a resource for renewable fuels | Bioenergy Research | 3(1) 45721 |
| 2010 | 10.1016/j.pbi.2010.03.001 | Simmons, B. A., D. Loqué and J. Ralph | Advances in modifying lignin for enhanced biofuel production | Current Opinion in Plant Biology | 13(3) 312-319 |
| 2010 | 10.1111/j.1462-2920.2010.02237.x | Sieber, J. R., D. R. Sims, C. Han, E. Kim, A. Lykidis, A. L. Lapidus, E. McDonnald, L. Rohlin, D. E. Culley, R. Gunsalus and M. J. McInerney | The genome of Syntrophomonas wolfei: new insights into syntrophic metabolism and biohydrogen production | Environmental Microbiology | 12(8) 2289–301 |
| 2010 | 10.1002/biot.201000129 | Schmidt, B. J., X. Lin-Schmidt, A. Chamberlin, K. Salehi-Ashtiani and J. A. Papin | Metabolic systems analysis to advance algal biotechnology | Biotechnology Journal | 5(7) 660–70 |
| 2010 | 10.1007/s12155-009-9074-6 | Santoro, N., S. L. Cantu, C. E. Tornqvist, T. G. Falbel, J. L. Bolivar, S. E. Patterson, M. Pauly and J. D. Walton | A high-throughput platform for screening milligram quantities of plant biomass for lignocellulose digestibility | Bioenergy Research | 3(1) 93-102 |
| 2010 | 10.1021/bk-2010-1052.ch007 | Saharay, M., H.-B. Guo, J. C. Smith and H. Guo | QM/MM Analysis of Cellulase Active Sites and Actions of the Enzymes on Substrates | Computational Modeling in Lignocellulosic Biofuel Production | 1052 135–54 |
| 2010 | 10.1371/journal.pone.0012947 | Saharay, M., H. Guo and J. C. Smith | Catalytic mechanism of cellulose degradation by a cellobiohydrolase, CelS | PLoS One | 5(10) e12947 |
| 2010 | 10.1109/NSSMIC.2010.5874246 | Sabet, H., H. N. Liang, Y. S. Li and W. Chang | Development of a Modular Detector System for C-SPECT | IEEE Nuclear Science Symposuim & Medical Imaging Conference | 2545–8 |
| 2010 | 10.1002/anie.201000900 | Saar, B. G., Y. Zeng, C. W. Freudiger, Y. S. Liu, M. E. Himmel, X. S. Xie and S. Y. Ding | Label-free, real-time monitoring of biomass processing with stimulated Raman scattering microscopy | Angewandte Chemie International Edition | 49(32) 5476–9 |
| 2010 | 10.1073/pnas.1009513107 | Rusch, D. B., A. C. Martiny, C. L. Dupont, A. L. Halpern and J. C. Venter | Characterization of Prochlorococcus clades from iron-depleted oceanic regions | Proceedings of the National Academy of Sciences of the United States of America | 107(37) 16184–9 |
| 2010 | 10.1186/1471-2164-11-430 | Roske, K., M. F. Foecking, S. Yooseph, J. I. Glass, M. J. Calcutt and K. S. Wise | A versatile palindromic amphipathic repeat coding sequence horizontally distributed among diverse bacterial and eucaryotic microbes | BMC Genomics | 11 430 |
| 2010 | 10.1109/TNB.2010.2081375 | Rosen, G. L. and S. D. Essinger | Comparison of statistical methods to classify environmental genomic fragments | IEEE Transactions on Nanobioscience | 9(4) 310–6 |
| 2010 | 10.1016/j.jtbi.2010.07.023 | Reznik, E. and D. Segrè | On the stability of metabolic cycles | Journal of Theoretical Biology | 266(4) 536-549 |
| 2010 | 10.1007/s11101-009-9141-9 | Ralph, J. | Hydroxycinnamates in lignification | Phytochemistry Reviews | 9(1) 65-83 |
| 2010 | 10.1186/1471-2164-11-674 | Pechanova, O., C. Y. Hsu, J. P. Adams, T. Pechan, L. Vandervelde, J. Drnevich, S. Jawdy, A. Adeli, J. C. Suttle, A. M. Lawrence, T. J. Tschaplinski, A. Seguin and C. Yuceer | Apoplast proteome reveals that extracellular matrix contributes to multistress response in poplar | BMC Genomics | 11 674 |
| 2010 | 10.1016/j.pbi.2009.12.009 | Pauly, M. and K. Keegstra | Plant cell wall polymers as precursors for biofuels | Current Opinion in Plant Biology | 13(3) 304-311 |
| 2010 | 10.1016/j.ymben.2010.04.002 | Paula Alonso, A., V. L. Dale and Y. Shachar-Hill | Understanding fatty acid synthesis in developing maize embryos using metabolic flux analysis | Metabolic Engineering | 12(5) 488-497 |
| 2010 | 10.1002/0471227617.eoc217 | Parks, J. M., P. Imhof and J. C. Smith | Understanding Enzyme Catalysis Using Computer Simulation | Encyclopedia of Catalysis | |
| 2010 | 10.1534/genetics.110.113910 | Okada, M., C. Lanzatella, M. C. Saha, J. Bouton, R. Wu and C. M. Tobias | Complete switchgrass genetic maps reveal subgenome collinearity, preferential pairing and multilocus interactions | Genetics | 185(3) 745–60 |
| 2010 | 10.1021/jp909677p | Moritsugu, K., B. M. Njunda and J. C. Smith | Theory and normal-mode analysis of change in protein vibrational dynamics on ligand binding | Journal of Physical Chemistry B | 114(3) 1479–85 |
| 2010 | 10.1073/pnas.1006175107 | McKinlay, J. B. and C. S. Harwood | Carbon dioxide fixation as a central redox cofactor recycling mechanism in bacteria | Proceedings of the National Academy of Sciences of the United States of America | 107(26) 11669–75 |
| 2010 | 10.1016/j.copbio.2010.02.012 | McKinlay, J. B. and C. S. Harwood | Photobiological production of hydrogen gas as a biofuel | Current Opinion in Biotechnology | 21(3) 244–51 |
| 2010 | 10.1016/j.virol.2010.04.010 | Lynch, R. M., R. Rong, B. Li, T. Shen, W. Honnen, J. Mulenga, S. Allen, A. Pinter, S. Gnanakaran and C. A. Derdeyn | Subtype-specific conservation of isoleucine 309 in the envelope V3 domain is linked to immune evasion in subtype C HIV-1 infection | Virology | 404(1) 59–70 |
| 2010 | 10.1016/j.bpj.2010.07.066 | Lopez, M., V. Kurkal-Siebert, R. V. Dunn, M. Tehei, J. L. Finney, J. C. Smith and R. M. Daniel | Activity and dynamics of an enzyme, pig liver esterase, in near-anhydrous conditions | Biophysical Journal | 99(8) L62–4 |
| 2010 | 10.1016/j.soilbio.2010.02.006 | Liang, C. and T. C. Balser | Mass spectrometric characterization of amino sugar aldononitrile acetate derivatives used for isotope enrichment assessment of microbial residues | Soil Biology and Biochemistry | 42(6) 904-909 |
| 2010 | 10.1021/ac100026r | Li, Z., L. Q. Chu, J. V. Sweedler and P. W. Bohn | Spatial correlation of confocal Raman scattering and secondary ion mass spectrometric molecular images of lignocellulosic materials | Analytical Chemistry | 82(7) 2608–11 |
| 2010 | 10.1016/j.biortech.2010.01.136 | Li, Z., P. W. Bohn and J. V. Sweedler | Comparison of sample pre-treatments for laser desorption ionization and secondary ion mass spectrometry imaging of Miscanthus x giganteus | Bioresource Technology | 101(14) 5578–85 |
| 2010 | 10.1109/NSSMIC.2010.5874190 | Li, Y. S., M. Rozler and W. Chang | View Sampling Requirements for Cardiac SPECT | IEEE Nuclear Science Symposuim & Medical Imaging Conference | 2282–7 |
| 2010 | 10.1186/1754-6834-3-27 | Li, X., E. Ximenes, Y. Kim, M. Slininger, R. Meilan, M. Ladisch and C. Chapple | Lignin monomer composition affects Arabidopsis cell-wall degradability after liquid hot water pretreatment | Biotechnology for Biofuels | 3 27 |
| 2010 | 10.1105/tpc.110.074161 | Li, X., N. D. Bonawitz, J. K. Weng and C. Chapple | The growth reduction associated with repressed lignin biosynthesis in Arabidopsis thaliana is independent of flavonoids | The Plant Cell | 22(5) 1620–32 |
| 2010 | 10.1016/j.biortech.2009.09.044 | Li, B. Z., V. Balan, Y. J. Yuan and B. E. Dale | Process optimization to convert forage and sweet sorghum bagasse to ethanol based on ammonia fiber expansion (AFEX) pretreatment | Bioresource Technology | 101(4) 1285-1292 |
| 2010 | 10.1186/1754-6834-3-11 | Lau, M. W., C. Gunawan, V. Balan and B. E. Dale | Comparing the fermentation performance of Escherichia coli KO11, Saccharomyces cerevisiae 424A(LNH-ST) and Zymomonas mobilis AX101 for cellulosic ethanol production | Biotechnology for Biofuels | 3 |
| 2010 | 10.1016/j.biortech.2010.04.076 | Lau, M. W. and B. E. Dale | Effect of primary degradation-reaction products from Ammonia Fiber Expansion (AFEX)-treated corn stover on the growth and fermentation of Escherichia coli KO11 | Bioresource Technology | 101(20) 7849-7855 |
| 2010 | 10.1007/s12010-010-8962-8 | Lau, M. J., M. W. Lau, C. Gunawan and B. E. Dale | Ammonia fiber expansion (AFEX) pretreatment, enzymatic hydrolysis, and fermentation on empty palm fruit bunch fiber (EPFBF) for cellulosic ethanol production | Applied Biochemistry and Biotechnology | 162(7) 1847-1857 |
| 2010 | 10.1007/978-1-4419-1528-3_15 | Laguna, R., G. S. Joshi, A. W. Dangel, A. K. Luther and F. R. Tabita | Integrative control of carbon, nitrogen, hydrogen, and sulfur metabolism: the central role of the Calvin-Benson-Bassham cycle | Advances in experimental medicine and biology | 675 265-271 |
| 2010 | 10.1104/pp.110.155242 | Lacayo, C. I., A. J. Malkin, H. Y. Holman, L. Chen, S. Y. Ding, M. S. Hwang and M. P. Thelen | Imaging cell wall architecture in single Zinnia elegans tracheary elements | Plant Physiology | 154(1) 121–33 |
| 2010 | 10.1038/nbt.1716 | Kosuri, S., N. Eroshenko, E. M. Leproust, M. Super, J. Way, J. B. Li and G. M. Church | Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips | Nature Biotechnology | 28(12) 1295–9 |
| 2010 | 10.1186/1752-0509-4-53 | Kim, J. and J. L. Reed | OptORF: Optimal metabolic and regulatory perturbations for metabolic engineering of microbial strains | BMC Systems Biology | 4 |
| 2010 | 10.1186/1532-429x-12-s1-p121 | Kim, H.-W., K. Souibri, D. Lee and G. Pohost | Development of control system for optimal stress during cardiac MR spectroscopy | Journal of Cardiovascular Magnetic Resonance | 12(Supplement 1) P121 |
| 2010 | 10.1039/b916070a | Kim, H. and J. Ralph | Solution-state 2D NMR of ball-milled plant cell wall gels in DMSO-d6/pyridine-d5 | Organic & Biomolecular Chemistry | 8(3) 576–91 |
| 2010 | 10.1038/msb.2010.50 | Kaur, A., P. T. Van, C. R. Busch, C. K. Robinson, M. Pan, W. L. Pang, D. J. Reiss, J. DiRuggiero and N. S. Baliga | Coordination of frontline defense mechanisms under severe oxidative stress | Molecular Systems Biology | 6 393 |
| 2010 | 10.1093/database/baq012 | Karpinets, T. V., M. F. Romine, D. D. Schmoyer, G. H. Kora, M. H. Syed, M. R. Leuze, M. H. Serres, B. H. Park, N. F. Samatova and E. C. Uberbacher | Shewanella knowledgebase: integration of the experimental data and computational predictions suggests a biological role for transcription of intergenic regions | Database | 2010 baq012 |
| 2010 | 10.1016/j.biortech.2010.06.026 | Jin, M., M. W. Lau, V. Balan and B. E. Dale | Two-step SSCF to convert AFEX-treated switchgrass to ethanol using commercial enzymes and Saccharomyces cerevisiae 424A(LNH-ST) | Bioresource Technology | 101(21) 8171-8178 |
| 2010 | 10.1073/pnas.0911359107 | James, C. N., P. J. Horn, C. R. Case, S. K. Gidda, D. Zhang, R. T. Mullen, J. M. Dyer, R. G. Anderson and K. D. Chapman | Disruption of the Arabidopsis CGI-58 homologue produces Chanarin-Dorfman-like lipid droplet accumulation in plants | Proceedings of the National Academy of Sciences of the United States of America | 107(41) 17833–8 |
| 2010 | 10.1128/AEM.01143-10 | Huang, J. J., E. K. Heiniger, J. B. McKinlay and C. S. Harwood | Production of hydrogen gas from light and the inorganic electron donor thiosulfate by Rhodopseudomonas palustris | Applied and Environmental Microbiology | 76(23) 7717–22 |
| 2010 | 10.1073/pnas.1011987107 | Hong, S., H. R. Song, K. Lutz, R. A. Kerstetter, T. P. Michael and C. R. McClung | Type II protein arginine methyltransferase 5 (PRMT5) is required for circadian period determination in Arabidopsis thaliana | Proceedings of the National Academy of Sciences of the United States of America | 107(49) 21211–6 |
| 2010 | 10.1007/s12155-009-9068-4 | Hansey, C. N., A. J. Lorenz and N. de Leon | Cell wall composition and ruminant digestibility of various maize tissues across development | Bioenergy Research | 3(1) 28-37 |
| 2010 | 10.1016/j.apcatb.2009.11.001 | Gürbüz, E. I., E. L. Kunkes and J. A. Dumesic | Integration of C-C coupling reactions of biomass-derived oxygenates to fuel-grade compounds | Applied Catalysis B: Environmental | 94(45659) 134-141 |
| 2010 | 10.1016/j.jmb.2010.03.020 | Guo, H. B., A. Johs, J. M. Parks, L. Olliff, S. M. Miller, A. O. Summers, L. Liang and J. C. Smith | Structure and conformational dynamics of the metalloregulator MerR upon binding of Hg(II) | Journal of Molecular Biology | 398(4) 555–68 |
| 2010 | 10.4049/jimmunol.0901888 | Guan, Y., D. R. Ranoa, S. Jiang, S. K. Mutha, X. Li, J. Baudry and R. I. Tapping | Human TLRs 10 and 1 share common mechanisms of innate immune sensing but not signaling | Journal of Immunology | 184(9) 5094–103 |
| 2010 | 10.1007/s11120-010-9555-7 | Grossman, A. R., S. J. Karpowicz, M. Heinnickel, D. Dewez, B. Hamel, R. Dent, K. K. Niyogi, X. Johnson, J. Alric, F. A. Wollman, H. Li and S. S. Merchant | Phylogenomic analysis of the Chlamydomonas genome unmasks proteins potentially involved in photosynthetic function and regulation | Photosynthesis Research | 106(45659) 45733 |
| 2010 | 10.1007/s00425-010-1181-2 | Grant, E. H., T. Fujino, E. P. Beers and A. M. Brunner | Characterization of NAC domain transcription factors implicated in control of vascular cell differentiation in Arabidopsis and Populus | Planta | 232(2) 337–52 |
| 2010 | 10.1007/s12155-009-9065-7 | Gardiner, M. A., J. K. Tuell, R. Isaacs, J. Gibbs, J. S. Ascher and D. A. Landis | Implications of three biofuel crops for beneficial arthropods in agricultural landscapes | Bioenergy Research | 3(1) 45827 |
| 2010 | 10.1007/s12155-009-9066-6 | Gao, D., S. P. S. Chundawat, T. Liu, S. Hermanson, K. Gowda, P. Brumm, B. E. Dale and V. Balan | Strategy for identification of novel fungal and bacterial glycosyl hydrolase hybrid mixtures that can efficiently saccharify pretreated lignocellulosic biomass | Bioenergy Research | 3(1) 67-81 |
| 2010 | 10.1142/S0217979210056864 | Friedman, B. A. and G. C. Levine | Topological Entanglement Entropy in the Second Landau Level | International Journal of Modern Physics B | 24(24) 4707–15 |
| 2010 | 10.1073/pnas.1002720107 | Feng, S., S. J. Cokus, X. Zhang, P. Y. Chen, M. Bostick, et al. | Conservation and divergence of methylation patterning in plants and animals | Proceedings of the National Academy of Sciences of the United States of America | 107(19) 8689–94 |
| 2010 | 10.1186/1752-0509-4-64 | Facciotti, M. T., W. L. Pang, F. Y. Lo, K. Whitehead, T. Koide, et al. | Large scale physiological readjustment during growth enables rapid, comprehensive and inexpensive systems analysis | BMC Systems Biology | 4 64 |
| 2010 | 10.1371/journal.pcbi.1000645 | Daidone, I., H. Neuweiler, S. Doose, M. Sauer and J. C. Smith | Hydrogen-bond driven loop-closure kinetics in unfolded polypeptide chains | PLoS Computational Biology | 6(1) e1000645 |
| 2010 | 10.1007/s12155-009-9073-7 | da Jesus, E. C., E. Susilawati, S. L. Smith, Q. Wang, B. Chai, R. Farris, J. L. M. Rodrigues, K. D. Thelen and J. M. Tiedje | Bacterial communities in the rhizosphere of biofuel crops grown on marginal lands as evaluated by 16S rRNA gene pyrosequences | Bioenergy Research | 3(1) 20-27 |
| 2010 | 10.1073/pnas.1001665107 | Cuvelier, M. L., A. E. Allen, A. Monier, J. P. McCrow, M. Messie, et al. | Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton | Proceedings of the National Academy of Sciences of the United States of America | 107(33) 14679–84 |
| 2010 | 10.3835/plantgenome2010.04.0010 | Costich, D. E., B. Friebe, M. J. Sheehan, M. D. Casler and E. S. Buckler | Genome-size Variation in Switchgrass (Panicum virgatum): Flow Cytometry and Cytology Reveal Rampant Aneuploidy | Plant Genome | 3(3) 130–41 |
| 2010 | 10.1016/j.biortech.2010.06.027 | Chundawat, S. P. S., R. Vismeh, L. N. Sharma, J. F. Humpula, L. da Costa Sousa, C. K. Chambliss, A. D. Jones, V. Balan and B. E. Dale | Multifaceted characterization of cell wall decomposition products formed during ammonia fiber expansion (AFEX) and dilute acid based pretreatments | Bioresource Technology | 101(21) 8429-8438 |
| 2010 | 10.1533/9781845699611.1.24 | Chundawat, S. P. S., V. Balan, L. D. C. Sousa and B. E. Dale | Thermochemical pretreatment of lignocellulosic biomass | Bioalcohol Production: Biochemical Conversion of Lignocellulosic Biomass | 24-72 |
| 2010 | 10.1021/ct9006458 | Chu, Y., Q. Xu and H. Guo | Understanding Energetic Origins of Product Specificity of SET8 from QM/MM Free Energy Simulations: What Causes the Stop of Methyl Addition during Histone Lysine Methylation? | Journal of Chemical Theory and Computation | 6(4) 1380–9 |
| 2010 | 10.1016/j.biortech.2009.10.096 | Chu, L. Q., R. Masyuko, J. V. Sweedler and P. W. Bohn | Base-induced delignification of Miscanthus x giganteus studied by three-dimensional confocal Raman imaging | Bioresource Technology | 101(13) 4919–25 |
| 2010 | 10.1109/BIBM.2010.5706554 | Chen, X., X. H. Hu, X. J. Shen and G. Rosen | Probabilistic Topic Modeling for Genomic Data Interpretation | 2010 IEEE International Conference on Bioinformatics and Biomedicine | 149–52 |
| 2010 | 10.1107/S1744309109055158 | Chan, S., I. Giuroiu, I. Chernishof, M. R. Sawaya, J. Chiang, R. P. Gunsalus, M. A. Arbing and L. J. Perry | Apo and ligand-bound structures of ModA from the archaeon Methanosarcina acetivorans | Acta Crystallographica Section F Structural Biology Communications | 66(Part 3) 242–50 |
| 2010 | 10.4155/bfs.09.5 | Çetinkol, Ö. P., D. C. Dibble, G. Cheng, M. S. Kent, B. Knierim, M. Auer, D. E. Wemmer, J. G. Pelton, Y. B. Melnichenko, J. Ralph, B. A. Simmons and B. M. Holmes | Understanding the impact of ionic liquid pretreatment on eucalyptus | Biofuels | 1(1) 33-46 |
| 2010 | 10.1007/s12155-009-9071-9 | Casler, M. D. | Changes in mean and genetic variance during two cycles of within-family selection in switchgrass | Bioenergy Research | 3(1) 47-54 |
| 2010 | 10.1104/pp.110.156158 | Carpita, N. C. and M. C. McCann | The maize mixed-linkage (1→3),(1→4)-β-D-glucan polysaccharide is synthesized at the golgi membrane | Plant Physiology | 153(3) 1362–71 |
| 2010 | 10.1093/bioinformatics/btq206 | Bryant Jr, D. W., R. Shen, H. D. Priest, W. K. Wong and T. C. Mockler | Supersplat-spliced RNA-seq alignment | Bioinformatics | 26(12) 1500-1505 |
| 2010 | 10.1016/j.copbio.2010.03.006 | Bevan, M. W., D. F. Garvin and J. P. Vogel | Brachypodium distachyon genomics for sustainable food and fuel production | Current Opinion in Biotechnology | 21(2) 211–7 |
| 2010 | 10.1021/ja101370e | Berezniak, T., M. Zahran, P. Imhof, A. Jaschke and J. C. Smith | Magnesium-dependent active-site conformational selection in the Diels-Alderase ribozyme | Journal of the American Chemical Society | 132(36) 12587–96 |
| 2010 | 10.2134/jeq2008.0506 | Beltran, B. J., D. M. Amatya, M. Youssef, M. Jones, T. J. Callahan, R. Wayne Skaggs and J. E. Nettles | Impacts of fertilization on water quality of a drained pine plantation: A worst case scenario | Journal of Environmental Quality | 39(1) 293-303 |
| 2010 | 10.1107/S0907444910029483 | Bellesia, G., A. Asztalos, T. Shen, P. Langan, A. Redondo and S. Gnanakaran | In silico studies of crystalline cellulose and its degradation by enzymes | Acta Crystallographica Section D Biological Crystallography | 66(Part 11) 1184–8 |
| 2010 | 10.1186/1471-2105-11-382 | Bare, J. C., T. Koide, D. J. Reiss, D. Tenenbaum and N. S. Baliga | Integration and visualization of systems biology data in context of the genome | BMC Bioinformatics | 11 382 |
| 2010 | 10.1007/s12155-009-9067-5 | Banerjee, G., J. S. Scott-Craig and J. D. Walton | Improving enzymes for biomass conversion: A basic research perspective | Bioenergy Research | 3(1) 82-92 |
| 2010 | 10.1186/1754-6834-3-22 | Banerjee, G., S. Car, J. S. Scott-Craig, M. S. Borrusch and J. D. Walton | Rapid optimization of enzyme mixtures for deconstruction of diverse pretreatment/biomass feedstock combinations | Biotechnology for Biofuels | 3 |
| 2010 | 10.1016/j.biortech.2010.07.028 | Banerjee, G., S. Car, J. S. Scott-Craig, M. S. Borrusch, M. Bongers and J. D. Walton | Synthetic multi-component enzyme mixtures for deconstruction of lignocellulosic biomass | Bioresource Technology | 101(23) 9097-9105 |
| 2010 | 10.1186/1754-6834-3-1 | Bals, B., C. Rogers, M. Jin, V. Balan and B. Dale | Evaluation of ammonia fibre expansion (AFEX) pretreatment for enzymatic hydrolysis of switchgrass harvested in different seasons and locations | Biotechnology for Biofuels | 3 |
| 2010 | 10.1186/1754-6834-3-1 | Arantes, V. and J. N. Saddler | Access to cellulose limits the efficiency of enzymatic hydrolysis: The role of amorphogenesis | Biotechnology for Biofuels | 3(1) 45668 |
| 2010 | 10.1128/AEM.00204-10 | Andrews-Pfannkoch, C., D. W. Fadrosh, J. Thorpe and S. J. Williamson | Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages | Applied and Environmental Microbiology | 76(15) 5039–45 |
| 2010 | 10.1128/AEM.00056-10 | Allam, A. B., L. Reyes, N. Assad-Garcia, J. I. Glass and M. B. Brown | Enhancement of targeted homologous recombination in Mycoplasma mycoides subsp. capri by inclusion of heterologous recA | Applied and Environmental Microbiology | 76(20) 6951–4 |
| 2011 | 10.1016/j.tetlet.2011.05.038 | Zhu, Y. and J. Ralph | Stereoselective synthesis of 1-O-β-feruloyl and 1-O-β-sinapoyl glucopyranoses | Tetrahedron Letters | 52(29) 3729-3731 |
| 2011 | 10.1534/g3.111.000364 | Zhu, C., X. Li and J. Yu | Integrating Rare-Variant Testing, Function Prediction, and Gene Network in Composite Resequencing-Based Genome-Wide Association Studies (CR-GWAS) | G3 Genes|Genomes|Genetics | 1(3) 233–43 |
| 2011 | 10.1038/ismej.2011.11 | Zhou, J., L. Wu, Y. Deng, X. Zhi, Y. H. Jiang, Q. Tu, J. Xie, J. D. Van Nostrand, Z. He and Y. Yang | Reproducibility and quantitation of amplicon sequencing-based detection | The ISME Journal | 5(8) 1303–13 |
| 2011 | 10.1117/12.878799 | Zhou, J. and J. Y. Qi | Fast iterative image reconstruction using sparse matrix factorization with GPU acceleration | Medical Imaging 2011: Physics of Medical Imaging | 7961 |
| 2011 | 10.1088/0031-9155/56/20/015 | Zhou, J. and J. Qi | Fast and efficient fully 3D PET image reconstruction using sparse system matrix factorization with GPU acceleration | Physics in Medicine and Biology | 56(20) 6739–57 |
| 2011 | 10.1109/TMI.2010.2064173 | Zhou, J. and J. Qi | Adaptive imaging for lesion detection using a zoom-in PET system | IEEE Transactions on Medical Imaging | 30(1) 119–30 |
| 2011 | 10.1128/mBio.00122-11 | Zhou, J., Y. Deng, F. Luo, Z. He and Y. Yang | Phylogenetic molecular ecological network of soil microbial communities in response to elevated CO2 | mBio | 2(4) |
| 2011 | 10.1111/j.1365-313X.2011.04508.x | Zhao, C., A. Hanada, S. Yamaguchi, Y. Kamiya and E. P. Beers | The Arabidopsis Myb genes MYR1 and MYR2 are redundant negative regulators of flowering time under decreased light intensity | The Plant Journal | 66(3) 502–15 |
| 2011 | 10.1007/s10709-011-9597-6 | Zhang, Y., J. E. Zalapa, A. R. Jakubowski, D. L. Price, A. Acharya, Y. Wei, E. C. Brummer, S. M. Kaeppler and M. D. Casler | Post-glacial evolution of Panicum virgatum: Centers of diversity and gene pools revealed by SSR markers and cpDNA sequences | Genetica | 139(7) 933-948 |
| 2011 | 10.1016/j.jhydrol.2011.09.002 | Zhang, X., F. Liang, B. Yu and Z. Zong | Explicitly integrating parameter, input, and structure uncertainties into Bayesian Neural Networks for probabilistic hydrologic forecasting | Journal of Hydrology | 409(45720) 696-709 |
| 2011 | 10.1038/nbt.1775 | Zhang, F., L. Cong, S. Lodato, S. Kosuri, G. M. Church and P. Arlotta | Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription | Nature Biotechnology | 29(2) 149–53 |
| 2011 | 10.1016/j.febslet.2011.07.036 | Zahran, M., T. Berezniak, P. Imhof and J. C. Smith | Role of magnesium ions in DNA recognition by the EcoRV restriction endonuclease | FEBS Letters | 585(17) 2739–43 |
| 2011 | 10.1101/gr.122218.111 | Yoon, S. H., D. J. Reiss, J. C. Bare, D. Tenenbaum, M. Pan, et al. | Parallel evolution of transcriptome architecture during genome reorganization | Genome Research | 21(11) 1892–904 |
| 2011 | 10.1186/1471-2105-12-20 | Yok, N. G. and G. L. Rosen | Combining gene prediction methods to improve metagenomic gene annotation | BMC Bioinformatics | 12 20 |
| 2011 | 10.1128/AEM.01733-10 | Yilmaz, L. S., S. Parnerkar and D. R. Noguera | mathFISH, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization | Applied and Environmental Microbiology | 77(3) 1118–22 |
| 2011 | 10.1371/journal.pcbi.1002230 | Yelton, A. P., B. C. Thomas, S. L. Simmons, P. Wilmes, A. Zemla, M. P. Thelen, N. Justice and J. F. Banfield | A semi-quantitative, synteny-based method to improve functional predictions for hypothetical and poorly annotated bacterial and archaeal genes | PLoS Computational Biology | 7(10) e1002230 |
| 2011 | 10.1515/HF.2011.029 | Yelle, D. J., J. Ralph and C. R. Frihart | Delineating pMDI model reactions with loblolly pine via solution-state NMR spectroscopy. Part 2. Non-catalyzed reactions with the wood cell wall | Holzforschung | 65(2) 145-154 |
| 2011 | 10.1515/Hf.2011.028 | Yelle, D. J., J. Ralph and C. R. Frihart | Delineating pMDI model reactions with loblolly pine via solution-state NMR spectroscopy. Part 1. Catalyzed reactions with wood models and wood polymers | Holzforschung | 65(2) 131–43 |
| 2011 | 10.1007/s11295-011-0431-1 | Ye, X., S. Yuan, H. Guo, F. Chen, G. A. Tuskan and Z.-M. Cheng | Evolution and divergence in the coding and promoter regions of the Populus gene family encoding xyloglucan endotransglycosylase/hydrolases | Tree Genetics & Genomes | 8(1) 177–94 |
| 2011 | 10.1021/jp1086812 | Yao, J., Q. Xu, F. Chen and H. Guo | QM/MM free energy simulations of salicylic acid methyltransferase: effects of stabilization of TS-like structures on substrate specificity | Journal of Physical Chemistry B | 115(2) 389–96 |
| 2011 | 10.1021/bi102021p | Yao, J., R. B. Nellas, M. M. Glover and T. Shen | Stability and sugar recognition ability of ricin-like carbohydrate binding domains | Biochemistry | 50(19) 4097–104 |
| 2011 | 10.1101/gr.109280.110 | Yang, X., T. J. Tschaplinski, G. B. Hurst, S. Jawdy, P. E. Abraham, P. K. Lankford, R. M. Adams, M. B. Shah, R. L. Hettich, E. Lindquist, U. C. Kalluri, L. E. Gunter, C. Pennacchio and G. A. Tuskan | Discovery and annotation of small proteins using genomics, proteomics, and computational approaches | Genome Research | 21(4) 634–41 |
| 2011 | 10.1002/jssc.201100533 | Yang, S., R. E. Synovec, M. G. Kalyuzhnaya and M. E. Lidstrom | Development of a solid phase extraction protocol coupled with liquid chromatography mass spectrometry to analyze central carbon metabolites in lake sediment microcosms | Journal of Separation Science | 34(24) 3597–605 |
| 2011 | 10.1063/1.3552945 | Xu, Z., X. Cheng and H. Yang | Treecode-based generalized Born method | Journal of Chemical Physics | 134(6) 064107 |
| 2011 | 10.4208/cicp.160410.200910a | Xu, Z., W. Cai and X. Cheng | Image Charge Method for Reaction Fields in a Hybrid Ion-Channel Model | Communications in Computational Physics | 9(4) 1056–70 |
| 2011 | 10.1021/jp1122294 | Xu, Q., J. Yao, A. Wlodawer and H. Guo | Clarification of the mechanism of acylation reaction and origin of substrate specificity of the serine-carboxyl peptidase sedolisin through QM/MM free energy simulations | Journal of Physical Chemistry B | 115(10) 2470–6 |
| 2011 | 10.1016/j.enzmictec.2010.09.006 | Ximenes, E., Y. Kim, N. Mosier, B. Dien and M. Ladisch | Deactivation of cellulases by phenols | Enzyme and Microbial Technology | 48(1) 54–60 |
| 2011 | 10.1126/science.1197258 | Wolfe-Simon, F., J. Switzer Blum, T. R. Kulp, G. W. Gordon, S. E. Hoeft, J. Pett-Ridge, J. F. Stolz, S. M. Webb, P. K. Weber, P. C. Davies, A. D. Anbar and R. S. Oremland | A bacterium that can grow by using arsenic instead of phosphorus | Science | 332(6034) 1163–6 |
| 2011 | 10.1371/journal.pgen.1002430 | Wisniewski-Dye, F., K. Borziak, G. Khalsa-Moyers, G. Alexandre, L. O. Sukharnikov, et al. | Azospirillum genomes reveal transition of bacteria from aquatic to terrestrial environments | PLoS Genetics | 7(12) e1002430 |
| 2011 | 10.1016/j.soilbio.2010.04.017 | Williamson, K. E., J. Kan, S. W. Polson and S. J. Williamson | Optimizing the indirect extraction of prokaryotic DNA from soils | Soil Biology and Biochemistry | 43(4) 736–48 |
| 2011 | 10.1016/j.biocontrol.2011.06.014 | Werling, B. P., T. D. Meehan, C. Gratton and D. A. Landis | Influence of habitat and landscape perenniality on insect natural enemies in three candidate biofuel crops | Biological Control | 59(2) 304-312 |
| 2011 | 10.1105/tpc.110.081547 | Weng, J. K., T. Akiyama, J. Ralph and C. Chapple | Independent recruitment of an O-methyltransferase for syringyl lignin biosynthesis in Selaginella moellendorffii | The Plant Cell | 23(7) 2708–24 |
| 2011 | 10.1093/bioinformatics/btr421 | Wei, D., L. V. Alpert and C. E. Lawrence | RNAG: A new gibbs sampler for predicting RNA secondary structure for unaligned sequences | Bioinformatics | 27(18) 2486-2493 |
| 2011 | 10.1371/journal.pone.0017906 | Wang, Z., X. C. Zhang, M. H. Le, D. Xu, G. Stacey and J. Cheng | A protein domain co-occurrence network approach for predicting protein function and inferring species phylogeny | PLoS One | 6(3) e17906 |
| 2011 | 10.1063/1.3518450 | Wang, S., T. Shen and P. G. Wolynes | The interplay of nonlinearity and architecture in equilibrium cytoskeletal mechanics | Journal of Chemical Physics | 134(1) 014510 |
| 2011 | 10.1128/AEM.01834-10 | Wang, J., J. D. Van Nostrand, L. Wu, Z. He, G. Li and J. Zhou | Microarray-based evaluation of whole-community genome DNA amplification methods | Applied and Environmental Microbiology | 77(12) 4241–5 |
| 2011 | 10.1111/j.1744-7909.2010.01020.x | Vermerris, W. | Survey of genomics approaches to improve bioenergy traits in maize, sorghum and sugarcane | Journal of Integrative Plant Biology | 53(2) 105–19 |
| 2011 | 10.1016/j.pbi.2011.03.022 | Veneault-Fourrey, C. and F. Martin | Mutualistic interactions on a knife-edge between saprotrophy and pathogenesis | Current Opinion in Plant Biology | 14(4) 444–50 |
| 2011 | 10.1021/ja204042f | Ulmschneider, J. P., J. C. Smith, S. H. White and M. B. Ulmschneider | In silico partitioning and transmembrane insertion of hydrophobic peptides under equilibrium conditions | Journal of the American Chemical Society | 133(39) 15487–95 |
| 2011 | 10.1371/journal.pcbi.1002137 | Thukral, L., I. Daidone and J. C. Smith | Structured pathway across the transition state for peptide folding revealed by molecular dynamics simulations | PLoS Computational Biology | 7(9) e1002137 |
| 2011 | Takasuka, T. E., A. J. Brook, C. R. Currie and B. G. Fox | Discovery and characterization of cellulolytic enzymes from the wood wasp symbiont Streptomyces Sp. ActE | Catalysis and Reaction Engineering Division - Core Programming Topic at the 2011 AIChE Annual Meeting | 2 716 | |
| 2011 | 10.1016/j.enpol.2011.05.039 | Swinton, S. M., B. A. Babcock, L. K. James and V. Bandaru | Higher US crop prices trigger little area expansion so marginal land for biofuel crops is limited | Energy Policy | 39(9) 5254-5258 |
| 2011 | 10.1128/JB.05380-11 | Svenning, M. M., A. G. Hestnes, I. Wartiainen, L. Y. Stein, M. G. Klotz, et al. | Genome sequence of the Arctic methanotroph Methylobacter tundripaludum SV96 | Journal of Bacteriology | 193(22) 6418–9 |
| 2011 | 10.1128/JB.00278-11 | Stein, L. Y., F. Bringel, A. A. DiSpirito, S. Han, M. S. Jetten, et al. | Genome sequence of the methanotrophic alphaproteobacterium Methylocystis sp. strain Rockwell (ATCC 49242) | Journal of Bacteriology | 193(10) 2668–9 |
| 2011 | 10.1021/ct200181t | Srinivas, G., X. Cheng and J. C. Smith | A Solvent-Free Coarse Grain Model for Crystalline and Amorphous Cellulose Fibrils | Journal of Chemical Theory and Computation | 7(8) 2539–48 |
| 2011 | 10.1002/prot.23017 | Splettstoesser, T., K. C. Holmes, F. Noe and J. C. Smith | Structural modeling and molecular dynamics simulation of the actin filament | Proteins | 79(7) 2033–43 |
| 2011 | 10.1111/j.1365-313X.2011.04686.x | Sorensen, I., F. A. Pettolino, A. Bacic, J. Ralph, F. Lu, M. A. O'Neill, Z. Fei, J. K. Rose, D. S. Domozych and W. G. Willats | The charophycean green algae provide insights into the early origins of plant cell walls | The Plant Journal | 68(2) 201–11 |
| 2011 | 10.1093/ajae/aar018 | Song, F., J. Zhao and S. M. Swinton | Switching to perennial energy crops under uncertainty and costly reversibility | American Journal of Agricultural Economics | 93(3) 764-779 |
| 2011 | 10.2174/97816080521961110101 | Smith, J. C., M. Krishnan, L. Petridis and N. Smolin | Integration of Neutron Scattering with Computer Simulation to Study the Structure and Dynamics of Biological Systems | Dynamics of Biological Macromolecules by Neutron Scattering | 99–108 |
| 2011 | 10.1093/bib/bbr036 | Sjolander, K., R. S. Datta, Y. Shen and G. M. Shoffner | Ortholog identification in the presence of domain architecture rearrangement | Briefings in Bioinformatics | 12(5) 413–22 |
| 2011 | 10.1093/nar/gkq1211 | Schmid, A. K., M. Pan, K. Sharma and N. S. Baliga | Two transcription factors are necessary for iron homeostasis in a salt-dwelling archaeon | Nucleic Acids Research | 39(7) 2519–33 |
| 2011 | 10.1109/Tns.2011.2163190 | Rozler, M. and W. Chang | Collimator Interchange System for Adaptive Cardiac Imaging in C-SPECT | IEEE Transactions on Nuclear Science | 58(5) 2226–33 |
| 2011 | 10.1016/j.biortech.2010.10.033 | Rosenbaum, M. A., H. Y. Bar, Q. K. Beg, D. Segrè, J. Booth, M. A. Cotta and L. T. Angenent | Shewanella oneidensis in a lactate-fed pure-culture and a glucose-fed co-culture with Lactococcus lactis with an electrode as electron acceptor | Bioresource Technology | 102(3) 2623-2628 |
| 2011 | 10.1093/bioinformatics/btq619 | Rosen, G. L., E. R. Reichenberger and A. M. Rosenfeld | NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads | Bioinformatics | 27(1) 127–9 |
| 2011 | 10.1155/2011/495849 | Rosen, G. L., R. Polikar, D. A. Caseiro, S. D. Essinger and B. A. Sokhansanj | Discovering the unknown: improving detection of novel species and genera from short reads | Journal of Biomedicine and Biotechnology | 2011 495849 |
| 2011 | 10.1186/1471-2164-12-S1-S3 | Rodionov, D. A., P. S. Novichkov, E. D. Stavrovskaya, I. A. Rodionova, X. Li, et al. | Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus | BMC Genomics | 12(SUPPL. 1) |
| 2011 | 10.1002/btpr.506 | Rizk, M. L., R. Laguna, K. M. Smith, F. R. Tabita and J. C. Liao | Redox homeostasis phenotypes in RubisCO-deficient Rhodobacter sphaeroides via ensemble modeling | Biotechnology Progress | 27(1) 15–22 |
| 2011 | 10.1128/JB.00325-11 | Reaves, M. L. and J. D. Rabinowitz | Characteristic phenotypes associated with ptsN-null mutants in Escherichia coli K-12 are absent in strains with functional ilvG | Journal of Bacteriology | 193(18) 4576–81 |
| 2011 | 10.1088/0031-9155/56/17/N01 | Qi, J., Y. Yang, J. Zhou, Y. Wu and S. R. Cherry | Experimental assessment of resolution improvement of a zoom-in PET | Physics in Medicine and Biology | 56(17) N165–74 |
| 2011 | 10.1063/1.3592153 | Prinz, J. H., J. D. Chodera, V. S. Pande, W. C. Swope, J. C. Smith and F. Noe | Optimal use of data in parallel tempering simulations for the construction of discrete-state Markov models of biomolecular dynamics | Journal of Chemical Physics | 134(24) 244108 |
| 2011 | 10.1137/100789191 | Prinz, J.-H., M. Held, J. C. Smith and F. Noé | Efficient Computation, Sensitivity, and Error Analysis of Committor Probabilities for Complex Dynamical Processes | Multiscale Modeling and Simulation | 9(2) 545–67 |
| 2011 | 10.1128/EC.00016-11 | Pomraning, K. R., K. M. Smith and M. Freitag | Bulk segregant analysis followed by high-throughput sequencing reveals the Neurospora cell cycle gene, ndc-1, to be allelic with the gene for ornithine decarboxylase, spe-1 | Eukaryotic Cell | 10(6) 724–33 |
| 2011 | 10.1007/978-1-61779-040-9_19 | Plett, J. M., B. Montanini, A. Kohler, S. Ottonello and F. Martin | Tapping genomics to unravel ectomycorrhizal symbiosis | Fungal Genomics | 722 249–81 |
| 2011 | 10.1016/j.tig.2010.10.005 | Plett, J. M. and F. Martin | Blurred boundaries: lifestyle lessons from ectomycorrhizal fungal genomes | Trends in Genetics | 27(1) 14–22 |
| 2011 | 10.1002/9781119949138.ch12 | Plett, J. M. and F. Martin | Mutualistic Effectors: Architects of Symbiosis | Effectors in Plant-Microbe Interactions | 295–326 |
| 2011 | 10.1016/j.cub.2011.05.033 | Plett, J. M., M. Kemppainen, S. D. Kale, A. Kohler, V. Legue, A. Brun, B. M. Tyler, A. G. Pardo and F. Martin | A secreted effector protein of Laccaria bicolor is required for symbiosis development | Current Biology | 21(14) 1197–203 |
| 2011 | 10.1074/jbc.M111.263004 | Pingali, S. V., H. M. O'Neill, J. McGaughey, V. S. Urban, C. S. Rempe, L. Petridis, J. C. Smith, B. R. Evans and W. T. Heller | Small angle neutron scattering reveals pH-dependent conformational changes in Trichoderma reesei cellobiohydrolase I: implications for enzymatic activity | Journal of Biological Chemistry | 286(37) 32801–9 |
| 2011 | 10.1093/nar/gkq1091 | Pieper, U., B. M. Webb, D. T. Barkan, D. Schneidman-Duhovny, A. Schlessinger, et al. | ModBase, a database of annotated comparative protein structure models, and associated resources | Nucleic Acids Research | 39(Suppl_1) D465–74 |
| 2011 | 10.1021/bi200066k | Philip, V., J. Harris, R. Adams, D. Nguyen, J. Spiers, J. Baudry, E. E. Howell and R. J. Hinde | A survey of aspartate-phenylalanine and glutamate-phenylalanine interactions in the protein data bank: searching for anion-π pairs | Biochemistry | 50(14) 2939–50 |
| 2011 | 10.1117/1.3594090 | Petrovic, J. P., P. S. Matavulj, L. R. Pinto and S. R. Zivanovic | Interplay of device structure and intrinsic polymer photophysics and its effects on the ITO/PEDOT:PSS/MEH-PPV/Al photocurrent spectra | Journal of Nanophotonics | 5(1) 051808 |
| 2011 | 10.1021/bk-2010-1052.ch003 | Petridis, L., J. Xu, M. F. Crowley, J. C. Smith and X. Cheng | Atomistic Simulation of Lignocellulosic Biomass and Associated Cellulosomal Protein Complexes | Computational Modeling in Lignocellulosic Biofuel Production | 1052 55–73 |
| 2011 | 10.1021/ja206839u | Petridis, L., R. Schulz and J. C. Smith | Simulation analysis of the temperature dependence of lignin structure and dynamics | Journal of the American Chemical Society | 133(50) 20277–87 |
| 2011 | 10.1103/PhysRevE.83.061911 | Petridis, L., S. V. Pingali, V. Urban, W. T. Heller, H. M. O'Neill, M. Foston, A. Ragauskas and J. C. Smith | Self-similar multiscale structure of lignin revealed by neutron scattering and molecular dynamics simulation | Physical Review E | 83(6) 061911 |
| 2011 | 10.1074/mcp.M110.006049 | Pan, C., C. R. Fischer, D. Hyatt, B. P. Bowen, R. L. Hettich and J. F. Banfield | Quantitative tracking of isotope flows in proteomes of microbial communities | Molecular & Cellular Proteomics | 10(4) M110.006049 |
| 2011 | 10.1371/journal.pone.0028827 | Pan, C. | Measuring dissociation rate constants of protein complexes through subunit exchange: experimental design and theoretical modeling | PLoS One | 6(12) e28827 |
| 2011 | 10.1073/pnas.1004646108 | Noe, F., S. Doose, I. Daidone, M. Lollmann, M. Sauer, J. D. Chodera and J. C. Smith | Dynamical fingerprints for probing individual relaxation processes in biomolecular dynamics with simulations and kinetic experiments | Proceedings of the National Academy of Sciences of the United States of America | 108(12) 4822–7 |
| 2011 | 10.1007/s00253-011-3121-x | Newcomb, M., J. Millen, C. Y. Chen and J. H. Wu | Co-transcription of the celC gene cluster in Clostridium thermocellum | Applied Microbiology and Biotechnology | 90(2) 625–34 |
| 2011 | 10.1103/PhysRevE.83.021902 | Neusius, T., I. Daidone, I. M. Sokolov and J. C. Smith | Configurational subdiffusion of peptides: a network study | Physical Review E | 83(2) 021902 |
| 2011 | 10.1016/B978-0-12-386489-5.00004-X | Myrold, D. D., J. Pett-Ridge and P. J. Bottomley | Nitrogen mineralization and assimilation at millimeter scales | Methods in Enzymology | 496 91–114 |
| 2011 | 10.1073/pnas.1106212108 | Murphy, R. L., R. R. Klein, D. T. Morishige, J. A. Brady, W. L. Rooney, F. R. Miller, D. V. Dugas, P. E. Klein and J. E. Mullet | Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photoperiodic flowering in sorghum | Proceedings of the National Academy of Sciences of the United States of America | 108(39) 16469–74 |
| 2011 | 10.1016/j.geoderma.2011.07.017 | Muñoz, J. D. and A. Kravchenko | Soil carbon mapping using on-the-go near infrared spectroscopy, topography and aerial photographs | Geoderma | 166(1) 102-110 |
| 2011 | 10.1111/j.1462-2920.2011.02486.x | Mueller, R. S., B. D. Dill, C. Pan, C. P. Belnap, B. C. Thomas, N. C. VerBerkmoes, R. L. Hettich and J. F. Banfield | Proteome changes in the initial bacterial colonist during ecological succession in an acid mine drainage biofilm community | Environmental Microbiology | 13(8) 2279–92 |
| 2011 | 10.1007/s12539-011-0111-8 | Mostofian, B., J. C. Smith and X. Cheng | The solvation structures of cellulose microfibrils in ionic liquids | Interdisciplinary Sciences: Computational Life Sciences | 3(4) 308–20 |
| 2011 | 10.1186/gb-2011-12-5-r44 | Miller, C. S., B. J. Baker, B. C. Thomas, S. W. Singer and J. F. Banfield | EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data | Genome Biology | 12(5) R44 |
| 2011 | 10.1016/j.bpj.2011.08.020 | Miao, Y. and J. Baudry | Active-site hydration and water diffusion in cytochrome P450cam: a highly dynamic process | Biophysical Journal | 101(6) 1493–503 |
| 2011 | 10.1128/mBio.00323-10 | McKinlay, J. B. and C. S. Harwood | Calvin cycle flux, pathway constraints, and substrate oxidation state together determine the H2 biofuel yield in photoheterotrophic bacteria | mBio | 2(2) |
| 2011 | 10.1111/j.1469-8137.2011.03688.x | Martin, F., D. Cullen, D. Hibbett, A. Pisabarro, J. W. Spatafora, S. E. Baker and I. V. Grigoriev | Sequencing the fungal tree of life | New Phytologist | 190(4) 818–21 |
| 2011 | 10.1371/journal.pone.0025260 | Malone, B. M., F. Tan, S. M. Bridges and Z. Peng | Comparison of four ChIP-Seq analytical algorithms using rice endosperm H3K27 trimethylation profiling data | PLoS One | 6(9) e25260 |
| 2011 | 10.1016/j.virusres.2011.05.010 | Malmstrom, C. M., U. Melcher and N. A. Bosque-Pérez | The expanding field of plant virus ecology: Historical foundations, knowledge gaps, and research directions | Virus Research | 159(2) 84-94 |
| 2011 | 10.1186/1472-6750-11-54 | Lutz, K. A., W. Wang, A. Zdepski and T. P. Michael | Isolation and analysis of high quality nuclear DNA with reduced organellar DNA for plant genome sequencing and resequencing | BMC Biotechnology | 11 |
| 2011 | 10.1166/jbmb.2011.1131 | Lu, F. C. and J. Ralph | Solution-State NMR of Lignocellulosic Biomass | Journal of Biobased Materials and Bioenergy | 5(2) 169–80 |
| 2011 | 10.1016/B978-0-12-387661-4.00004-5 | Lovley, D. R., T. Ueki, T. Zhang, N. S. Malvankar, P. M. Shrestha, et al. | Geobacter: the microbe electric's physiology, ecology, and practical applications | Advances in Microbial Physiology | 59 1–100 |
| 2011 | 10.1039/c1ee02229f | Lovley, D. R. | Live wires: direct extracellular electron exchange for bioenergy and the bioremediation of energy-related contamination | Energy & Environmental Science | 4(12) 4896–906 |
| 2011 | 10.4056/sigs.1694706 | Lorenzi, H. A., J. Hoover, J. Inman, T. Safford, S. Murphy, L. Kagan and S. J. Williamson | The Viral MetaGenome Annotation Pipeline(VMGAP): an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data | Standards in Genomic Sciences | 4(3) 418–29 |
| 2011 | 10.1016/j.mimet.2011.05.007 | Liang, C., X. Zhang, L. Wei, H. He, A. J. Higbee and T. C. Balser | Investigation of the molecular ion structure for aldononitrile acetate derivatized muramic acid | Journal of Microbiological Methods | 86(2) 224-230 |
| 2011 | 10.1007/s10533-010-9525-3 | Liang, C., G. Cheng, D. L. Wixon and T. C. Balser | An Absorbing Markov Chain approach to understanding the microbial role in soil carbon stabilization | Biogeochemistry | 106(3) 303-309 |
| 2011 | 10.1021/bi2004476 | Li, T., W. G. Choi, I. S. Wallace, J. Baudry and D. M. Roberts | Arabidopsis thaliana NIP7;1: an anther-specific boric acid transporter of the aquaporin superfamily regulated by an unusual tyrosine in helix 2 of the transport pore | Biochemistry | 50(31) 6633–41 |
| 2011 | 10.1007/s12010-010-9136-4 | Li, L., X. Jiang, H. Guan, P. Wang and H. Guo | Three alginate lyases from marine bacterium Pseudomonas fluorescens HZJ216: purification and characterization | Applied Biochemistry and Biotechnology | 164(3) 305–17 |
| 2011 | 10.1016/j.biortech.2011.04.005 | Li, C., G. Cheng, V. Balan, M. S. Kent, M. Ong, S. P. S. Chundawat, L. D. Sousa, Y. B. Melnichenko, B. E. Dale, B. A. Simmons and S. Singh | Influence of physico-chemical changes on enzymatic digestibility of ionic liquid and AFEX pretreated corn stover | Bioresource Technology | 102(13) 6928-6936 |
| 2011 | 10.1038/ismej.2011.40 | Levine, U. Y., T. K. Teal, G. P. Robertson and T. M. Schmidt | Agriculture's impact on microbial diversity and associated fluxes of carbon dioxide and methane | ISME Journal | 5(10) 1683-1691 |
| 2011 | 10.1103/PhysRevA.83.013623 | Levine, G. C., B. A. Friedman and M. J. Bantegui | Detecting many-body entanglement in noninteracting ultracold atomic Fermi gases | Physical Review A | 83(1) |
| 2011 | 10.1103/PhysRevB.83.125118 | Levine, G. C. and B. A. Friedman | Projective approach to the entanglement entropy of one-dimensional fermions | Physical Review B | 83(12) |
| 2011 | 10.1016/B978-0-12-385112-3.00006-8 | Leigh, J. A. | Growth of methanogens under defined hydrogen conditions | Methods in Enzymology | 494 111-118 |
| 2011 | 10.3390/info2010017 | Lee, C. | Empirical information metrics for prediction power and experiment planning | Information (Switzerland) | 2(1) 17-40 |
| 2011 | 10.1007/s00203-010-0652-y | Laguna, R., F. R. Tabita and B. E. Alber | Acetate-dependent photoheterotrophic growth and the differential requirement for the Calvin-Benson-Bassham reductive pentose phosphate cycle in Rhodobacter sphaeroides and Rhodopseudomonas palustris | Archives of Microbiology | 193(2) 151-154 |
| 2011 | 10.1007/s00294-010-0328-9 | Labbe, J., C. Murat, E. Morin, F. Le Tacon and F. Martin | Survey and analysis of simple sequence repeats in the Laccaria bicolor genome, with development of microsatellite markers | Current Genetics | 57(2) 75–88 |
| 2011 | 10.1128/AEM.05273-11 | Kontur, W. S., E. C. Ziegelhoffer, M. A. Spero, S. Imam, D. R. Noguera and T. J. Donohue | Pathways involved in reductant distribution during photobiological H2 production by Rhodobacter sphaeroides | Applied and Environmental Microbiology | 77(20) 7425–9 |
| 2011 | 10.1016/j.copbio.2011.04.018 | Klitgord, N. and D. Segrè | Ecosystems biology of microbial metabolism | Current Opinion in Biotechnology | 22(4) 541-546 |
| 2011 | 10.1063/1.3626274 | Klein, H. C., X. Cheng, J. C. Smith and T. Shen | Transfer matrix approach to the hydrogen-bonding in cellulose Iα fibrils describes the recalcitrance to thermal deconstruction | Journal of Chemical Physics | 135(8) 085106 |
| 2011 | 10.1016/j.enzmictec.2011.01.007 | Kim, Y., E. Ximenes, N. S. Mosier and M. R. Ladisch | Soluble inhibitors/deactivators of cellulase enzymes from lignocellulosic biomass | Enzyme and Microbial Technology | 48(4–5) 408–15 |
| 2011 | 10.1016/j.enzmictec.2011.04.009 | Kapich, A. N., T. V. Korneichik, K. E. Hammel and A. Hatakka | Comparative evaluation of manganese peroxidase- and Mn(III)-initiated peroxidation of C18 unsaturated fatty acids by different methods | Enzyme and Microbial Technology | 49(1) 25-29 |
| 2011 | 10.1134/S0021364011120083 | Kagan, M. Y., D. V. Efremov, M. S. Marienko and V. V. Val'kov | Triplet p-Wave Superconductivity in the Low-Density Extended Hubbard Model with Coulomb Repulsion | JETP Letters | 93(12) 725–30 |
| 2011 | 10.1016/j.tcb.2011.07.005 | Juhas, M., L. Eberl and J. I. Glass | Essence of life: essential genes of minimal genomes | Trends in Cell Biology | 21(10) 562–8 |
| 2011 | 10.1016/j.jmb.2011.08.042 | Johs, A., I. M. Harwood, J. M. Parks, R. E. Nauss, J. C. Smith, L. Liang and S. M. Miller | Structural characterization of intramolecular Hg2+ transfer between flexibly linked domains of mercuric ion reductase | Journal of Molecular Biology | 413(3) 639–56 |
| 2011 | 10.1104/pp.110.165654 | Jahn, C. E., J. K. McKay, R. Mauleon, J. Stephens, K. L. McNally, D. R. Bush, H. Leung and J. E. Leach | Genetic variation in biomass traits among 20 diverse rice varieties | Plant Physiology | 155(1) 157–68 |
| 2011 | 10.1186/1752-0509-5-116 | Imam, S., S. Yilmaz, U. Sohmen, A. S. Gorzalski, J. L. Reed, D. R. Noguera and T. J. Donohue | iRsp1095: a genome-scale reconstruction of the Rhodobacter sphaeroides metabolic network | BMC Systems Biology | 5 116 |
| 2011 | 10.1016/j.jchromb.2011.02.049 | Humpula, J. F., S. P. S. Chundawat, R. Vismeh, A. D. Jones, V. Balan and B. E. Dale | Rapid quantification of major reaction products formed during thermochemical pretreatment of lignocellulosic biomass using GC-MS | Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences | 879(13-14) 1018-1022 |
| 2011 | 10.1007/s00248-010-9797-0 | Hulcr, J., A. S. Adams, K. Raffa, R. W. Hofstetter, K. D. Klepzig and C. R. Currie | Presence and Diversity of Streptomyces in Dendroctonus and Sympatric Bark Beetle Galleries Across North America | Microbial Ecology | 61(4) 759-768 |
| 2011 | 10.1021/bi201008f | Hu, X., A. L. Norris, J. Baudry and E. H. Serpersu | Coenzyme A binding to the aminoglycoside acetyltransferase (3)-IIIb increases conformational sampling of antibiotic binding site | Biochemistry | 50(48) 10559–65 |
| 2011 | 10.1063/1.3643077 | Hu, X., N. Elghobashi-Meinhardt, D. Gembris and J. C. Smith | Response of water to electric fields at temperatures below the glass transition: a molecular dynamics analysis | Journal of Chemical Physics | 135(13) 134507 |
| 2011 | 10.1007/s10858-011-9494-4 | Hu, K., W. M. Westler and J. L. Markley | Two-dimensional concurrent HMQC-COSY as an approach for small molecule chemical shift assignment and compound identification | Journal of Biomolecular NMR | 49(45720) 291-296 |
| 2011 | 10.3390/life1010019 | House, C. H., E. J. Beal and V. J. Orphan | The Apparent Involvement of ANMEs in Mineral Dependent Methane Oxidation, as an Analog for Possible Martian Methanotrophy | Life | 1(1) 19–33 |
| 2011 | 10.1074/jbc.M110.186353 | Horn, P. J., N. R. Ledbetter, C. N. James, W. D. Hoffman, C. R. Case, G. F. Verbeck and K. D. Chapman | Visualization of lipid droplet composition by direct organelle mass spectrometry | Journal of Biological Chemistry | 286(5) 3298–306 |
| 2011 | 10.4161/psb.6.10.17133 | Horn, P. J. and K. D. Chapman | Organellar lipidomics | Plant Signaling & Behavior | 6(10) 1594–6 |
| 2011 | 10.1007/s00253-011-3344-x | Hoover, S. W., W. D. Marner, A. K. Brownson, R. M. Lennen, T. M. Wittkopp, J. Yoshitani, S. Zulkifly, L. E. Graham, S. D. Chaston, K. D. McMahon and B. F. Pfleger | Bacterial production of free fatty acids from freshwater macroalgal cellulose | Applied Microbiology and Biotechnology | 91(2) 435-446 |
| 2011 | 10.1103/PhysRevLett.107.148102 | Hong, L., N. Smolin, B. Lindner, A. P. Sokolov and J. C. Smith | Three classes of motion in the dynamic neutron-scattering susceptibility of a globular protein | Physical Review Letters | 107(14) 148102 |
| 2011 | 10.1128/JB.01479-10 | Hirakawa, H., Y. Oda, S. Phattarasukol, C. D. Armour, J. C. Castle, C. K. Raymond, C. R. Lappala, A. L. Schaefer, C. S. Harwood and E. P. Greenberg | Activity of the Rhodopseudomonas palustris p-coumaroyl-homoserine lactone-responsive transcription factor RpaR | Journal of Bacteriology | 193(10) 2598–607 |
| 2011 | 10.1021/jp201887v | Hembree, W. I. and J. Baudry | Three-dimensional mapping of microenvironmental control of methyl rotational barriers | Journal of Physical Chemistry B | 115(26) 8575–80 |
| 2011 | 10.1007/s11783-011-0301-y | He, Z. L., J. D. Van Nostrand, Y. Deng and J. Z. Zhou | Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities | Frontiers of Environmental Science & Engineering in China | 5(1) 1–20 |
| 2011 | 10.1111/j.1744-7909.2011.01044.x | Guo, J., X. Yang, D. J. Weston and J. G. Chen | Abscisic acid receptors: past, present and future | Journal of Integrative Plant Biology | 53(6) 469–79 |
| 2011 | 10.1002/9783527636402.ch20 | Guo, H.-B., J. M. Parks, A. Johs and J. C. Smith | Mercury Detoxification by Bacteria Simulations of Transcription Activation and Mercury-Carbon Bond Cleavage | Modeling of Molecular Properties | 311–24 |
| 2011 | 10.1128/AEM.05255-11 | Gottel, N. R., H. F. Castro, M. Kerley, Z. Yang, D. A. Pelletier, M. Podar, T. Karpinets, E. Uberbacher, G. A. Tuskan, R. Vilgalys, M. J. Doktycz and C. W. Schadt | Distinct microbial communities within the endosphere and rhizosphere of Populus deltoides roots across contrasting soil types | Applied and Environmental Microbiology | 77(17) 5934–44 |
| 2011 | 10.1186/1746-4811-7-24 | Gonzalez-Ballester, D., W. Pootakham, F. Mus, W. Yang, C. Catalanotti, L. Magneschi, A. De Montaigu, J. J. Higuera, M. Prior, A. Galván, E. Fernandez and A. R. Grossman | Reverse genetics in Chlamydomonas: A platform for isolating insertional mutants | Plant Methods | 7(1) |
| 2011 | 10.1103/PhysRevLett.107.267801 | Godec, A., J. C. Smith and F. Merzel | Increase of both order and disorder in the first hydration shell with increasing solute polarity | Physical Review Letters | 107(26) 267801 |
| 2011 | 10.1371/journal.ppat.1002209 | Gnanakaran, S., T. Bhattacharya, M. Daniels, B. F. Keele, P. T. Hraber, et al. | Recurrent signature patterns in HIV-1 B clade envelope glycoproteins associated with either early or chronic infections | PLoS Pathogens | 7(9) e1002209 |
| 2011 | 10.1128/AEM.00032-11 | Gladden, J. M., M. Allgaier, C. S. Miller, T. C. Hazen, J. S. VanderGheynst, P. Hugenholtz, B. A. Simmons and S. W. Singer | Glycoside hydrolase activities of thermophilic bacterial consortia adapted to switchgrass | Applied and Environmental Microbiology | 77(16) 5804–12 |
| 2011 | 10.1186/1471-2164-12-S1-S4 | Ghamsari, L., S. Balaji, Y. Shen, X. Yang, D. Balcha, C. Fan, T. Hao, H. Yu, J. A. Papin and K. Salehi-Ashtiani | Genome-wide functional annotation and structural verification of metabolic ORFeome of Chlamydomonas reinhardtii | BMC Genomics | 12(Supplement 1) S4 |
| 2011 | 10.1016/j.compbiolchem.2011.04.007 | Garbarine, E., J. DePasquale, V. Gadia, R. Polikar and G. Rosen | Information-theoretic approaches to SVM feature selection for metagenome read classification | Computational Biology and Chemistry | 35(3) 199–209 |
| 2011 | 10.1186/1754-6834-4-5 | Gao, D., N. Uppugundla, S. P. S. Chundawat, X. Yu, S. Hermanson, K. Gowda, P. Brumm, D. Mead, V. Balan and B. E. Dale | Hemicellulases and auxiliary enzymes for improved conversion of lignocellulosic biomass to monosaccharides | Biotechnology for Biofuels | 4 |
| 2011 | 10.1093/nar/gkr692 | Fujishima, K., J. Sugahara, C. S. Miller, B. J. Baker, M. Di Giulio, K. Takesue, A. Sato, M. Tomita, J. F. Banfield and A. Kanai | A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity | Nucleic Acids Research | 39(22) 9695–704 |
| 2011 | 10.1016/j.bpj.2010.11.077 | Fritsch, S., I. Ivanov, H. Wang and X. Cheng | Ion selectivity mechanism in a bacterial pentameric ligand-gated ion channel | Biophysical Journal | 100(2) 390–8 |
| 2011 | 10.1088/1367-2630/13/5/055006 | Friedman, B. A., G. C. Levine and D. Luna | Entanglement entropy of random fractional quantum Hall systems | New Journal of Physics | 13 055006 |
| 2011 | 10.3791/3146 | Fadrosh, D. W., C. Andrews-Pfannkoch and S. J. Williamson | Separation of single-stranded DNA, double-stranded DNA and RNA from an environmental viral community using hydroxyapatite chromatography | Journal of Visualized Experiments | (55) e3146 |
| 2011 | 10.1109/IEMBS.2011.6091087 | Essinger, S., R. Polikar and G. Rosen | Ordering samples along environmental gradients using particle swarm optimization | 2011 Annual International Conference of the IEEE Engineering in Medicine and Biology Society | 2011 4382–5 |
| 2011 | 10.1145/1996023.1996028 | Ellingson, S. R. and J. Baudry | High-throughput virtual molecular docking: Hadoop implementation of AutoDock4 on a private cloud | Proceedings of the Second International Workshop on Emerging Computational Methods for the Life Sciences | 33–38 |
| 2011 | 10.1016/j.biombioe.2011.09.010 | Egbendewe-Mondzozo, A., S. M. Swinton, C. R. Izaurralde, D. H. Manowitz and X. Zhang | Biomass supply from alternative cellulosic crops and crop residues: A spatially explicit bioeconomic modeling approach | Biomass and Bioenergy | 35(11) 4636-4647 |
| 2011 | 10.1111/j.1574-6968.2010.02156.x | Edwards, A. N., P. Siuti, A. N. Bible, G. Alexandre, S. T. Retterer, M. J. Doktycz and J. L. Morrell-Falvey | Characterization of cell surface and extracellular matrix remodeling of Azospirillum brasilense chemotaxis-like 1 signal transduction pathway mutants by atomic force microscopy | FEMS Microbiology Letters | 314(2) 131–9 |
| 2011 | 10.1038/nchembio.685 | Doucette, C. D., D. J. Schwab, N. S. Wingreen and J. D. Rabinowitz | α-Ketoglutarate coordinates carbon and nitrogen utilization via enzyme I inhibition | Nature Chemical Biology | 7(12) 894–901 |
| 2011 | 10.1016/j.jala.2010.08.005 | Donath Ii, M. J., M. A. Dominguez and S. T. Withers Iii | Development of an automated platform for high-throughput P1-phage transduction of Escherichia coli | Journal of Laboratory Automation | 16(2) 141-147 |
| 2011 | 10.1016/B978-0-12-381294-0.00012-2 | Dekas, A. E. and V. J. Orphan | Identification of diazotrophic microorganisms in marine sediment via fluorescence in situ hybridization coupled to nanoscale secondary ion mass spectrometry (FISH-NanoSIMS) | Methods in Enzymology | 486 281–305 |
| 2011 | 10.1186/1471-2180-11-64 | Cruz-García, C., A. E. Murray, J. L. M. Rodrigues, J. A. Gralnick, L. A. McCue, M. F. Romine, F. E. Löffler and J. M. Tiedje | Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1 | BMC Microbiology | 11 |
| 2011 | 10.1002/jcc.21696 | Collignon, B., R. Schulz, J. C. Smith and J. Baudry | Task-parallel message passing interface implementation of Autodock4 for docking of very large databases of compounds using high-performance super-computers | Journal of Computational Chemistry | 32(6) 1202–9 |
| 2011 | 10.1073/pnas.1113971108 | Chuck, G. S., C. Tobias, L. Sun, F. Kraemer, C. Li, D. Dibble, R. Arora, J. N. Bragg, J. P. Vogel, S. Singh, B. A. Simmons, M. Pauly and S. Hake | Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass | Proceedings of the National Academy of Sciences of the United States of America | 108(42) 17550–5 |
| 2011 | 10.1128/JB.05999-11 | Christman, H. D., E. L. Campbell and J. C. Meeks | Global transcription profiles of the nitrogen stress response resulting in heterocyst or hormogonium development in Nostoc punctiforme | Journal of Bacteriology | 193(24) 6874–86 |
| 2011 | 10.1371/journal.pone.0022196 | Childs, K. L., R. M. Davidson and C. R. Buell | Gene coexpression network analysis as a source of functional annotation for rice genes | PLoS One | 6(7) e22196 |
| 2011 | 10.1186/1471-2164-12-S1-S7 | Chen, Y., E. Apolinario, L. Brachova, Z. Kelman, Z. Li, B. J. Nikolau, L. Showman, K. Sowers and J. Orban | A nuclear magnetic resonance based approach to accurate functional annotation of putative enzymes in the methanogen Methanosarcina acetivorans | BMC Genomics | 12(SUPPL. 1) |
| 2011 | 10.1186/gb-2011-12-7-r62 | Chen, P. Y., S. Feng, J. W. J. Joo, S. E. Jacobsen and M. Pellegrini | A comparative analysis of DNA methylation across human embryonic stem cell lines | Genome Biology | 12(7) |
| 2011 | 10.1111/j.1365-313X.2011.04520.x | Chen, F., D. Tholl, J. Bohlmann and E. Pichersky | The family of terpene synthases in plants: a mid-size family of genes for specialized metabolism that is highly diversified throughout the kingdom | The Plant Journal | 66(1) 212–29 |
| 2011 | 10.1038/msb.2011.52 | Chang, R. L., L. Ghamsari, A. Manichaikul, E. F. Hom, S. Balaji, W. Fu, Y. Shen, T. Hao, B. O. Palsson, K. Salehi-Ashtiani and J. A. Papin | Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism | Molecular Systems Biology | 7 518 |
| 2011 | 10.1128/AEM.00612-11 | Carrieri, D., G. Ananyev, O. Lenz, D. A. Bryant and G. C. Dismukes | Contribution of a sodium ion gradient to energy conservation during fermentation in the cyanobacterium Arthrospira (Spirulina) maxima CS-328 | Applied and Environmental Microbiology | 77(20) 7185–94 |
| 2011 | 10.1063/1.3660745 | Cantrell, S. A. and J. H. Cantrell | Renormalization, resonance bifurcation, and phase contrast in dynamic atomic force microscopy | Journal of Applied Physics | 110(9) |
| 2011 | 10.1016/j.biortech.2010.10.042 | Burrows, E. H., F. W. Chaplen and R. L. Ely | Effects of selected electron transport chain inhibitors on 24-h hydrogen production by Synechocystis sp. PCC 6803 | Bioresource Technology | 102(3) 3062–70 |
| 2011 | 10.1038/ismej.2010.164 | Burke, C., T. Thomas, M. Lewis, P. Steinberg and S. Kjelleberg | Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis | The ISME Journal | 5(4) 590–600 |
| 2011 | 10.1073/pnas.1101591108 | Burke, C., P. Steinberg, D. Rusch, S. Kjelleberg and T. Thomas | Bacterial community assembly based on functional genes rather than species | Proceedings of the National Academy of Sciences of the United States of America | 108(34) 14288–93 |
| 2011 | 10.1007/s12010-010-9070-5 | Brumm, P., D. Mead, J. Boyum, C. Drinkwater, K. Gowda, D. Stevenson and P. Weimer | Functional annotation of Fibrobacter succinogenes S85 carbohydrate active enzymes | Applied Biochemistry and Biotechnology | 163(5) 649-657 |
| 2011 | 10.1007/s12010-010-9029-6 | Brumm, P., S. Hermanson, B. Hochstein, J. Boyum, N. Hermersmann, K. Gowda and D. Mead | Mining Dictyoglomus turgidum for enzymatically active carbohydrases | Applied Biochemistry and Biotechnology | 163(2) 205-214 |
| 2011 | 10.1073/pnas.1102444108 | Brown, S. D., A. M. Guss, T. V. Karpinets, J. M. Parks, N. Smolin, et al. | Mutant alcohol dehydrogenase leads to improved ethanol tolerance in Clostridium thermocellum | Proceedings of the National Academy of Sciences of the United States of America | 108(33) 13752–7 |
| 2011 | 10.1002/wsbm.136 | Brooks, A. N., S. Turkarslan, K. D. Beer, F. Y. Lo and N. S. Baliga | Adaptation of cells to new environments | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 3(5) 544–61 |
| 2011 | 10.1104/pp.111.179531 | Brkljacic, J., E. Grotewold, R. Scholl, T. Mockler, D. F. Garvin, et al. | Brachypodium as a model for the grasses: today and the future | Plant Physiology | 157(1) 3–13 |
| 2011 | 10.1186/1471-2164-12-S1-S6 | Bowen, B. P., C. R. Fischer, R. Baran, J. F. Banfield and T. Northen | Improved genome annotation through untargeted detection of pathway-specific metabolites | BMC Genomics | 12(Supplement 1) S6 |
| 2011 | 10.1007/s00232-010-9329-3 | Bondar, A. N., S. Fischer and J. C. Smith | Water pathways in the bacteriorhodopsin proton pump | Journal of Membrane Biology | 239(1–2) 73–84 |
| 2011 | 10.1007/s00214-011-1054-1 | Bondar, A.-N., M. Knapp-Mohammady, S. Suhai, S. Fischer and J. C. Smith | Ground-state properties of the retinal molecule: from quantum mechanical to classical mechanical computations of retinal proteins | Theoretical Chemistry Accounts | 130(4–6) 1169–83 |
| 2011 | 10.1371/journal.pcbi.1002279 | Biswas, M., K. Voltz, J. C. Smith and J. Langowski | Role of histone tails in structural stability of the nucleosome | PLoS Computational Biology | 7(12) e1002279 |
| 2011 | 10.1016/j.agee.2011.01.005 | Bhardwaj, A. K., P. Jasrotia, S. K. Hamilton and G. P. Robertson | Ecological management of intensively cropped agro-ecosystems improves soil quality with sustained productivity | Agriculture, Ecosystems and Environment | 140(45720) 419-429 |
| 2011 | 10.1038/ismej.2010.200 | Belnap, C. P., C. Pan, V. J. Denef, N. F. Samatova, R. L. Hettich and J. F. Banfield | Quantitative proteomic analyses of the response of acidophilic microbial communities to different pH conditions | The ISME Journal | 5(7) 1152–61 |
| 2011 | 10.1186/1754-6834-4-16 | Banerjee, G., S. Car, J. S. Scott-Craig, D. B. Hodge and J. D. Walton | Alkaline peroxide pretreatment of corn stover: Effects of biomass, peroxide, and enzyme loading and composition on yields of glucose and xylose | Biotechnology for Biofuels | 4 |
| 2011 | 10.1016/j.biortech.2010.08.058 | Bals, B., C. Wedding, V. Balan, E. Sendich and B. Dale | Evaluating the impact of ammonia fiber expansion (AFEX) pretreatment conditions on the cost of ethanol production | Bioresource Technology | 102(2) 1277-1283 |
| 2011 | 10.1021/jp108493g | Balog, E., D. Perahia, J. C. Smith and F. Merzel | Vibrational softening of a protein on ligand binding | Journal of Physical Chemistry B | 115(21) 6811–7 |
| 2011 | 10.1016/j.enpol.2010.10.044 | Babcock, B. A., S. Marette and D. Tréguer | Opportunity for profitable investments in cellulosic biofuels | Energy Policy | 39(2) 714-719 |
| 2011 | 10.1128/AEM.05374-11 | Amador-Noguez, D., I. A. Brasg, X. J. Feng, N. Roquet and J. D. Rabinowitz | Metabolome remodeling during the acidogenic-solventogenic transition in Clostridium acetobutylicum | Applied and Environmental Microbiology | 77(22) 7984–97 |
| 2011 | 10.1016/j.ymben.2010.10.002 | Alonso, A. P., D. L. Val and Y. Shachar-Hill | Central metabolic fluxes in the endosperm of developing maize seeds and their implications for metabolic engineering | Metabolic Engineering | 13(1) 96-107 |
| 2011 | 10.3791/2880 | Allison, D. P., C. J. Sullivan, N. P. Mortensen, S. T. Retterer and M. Doktycz | Bacterial immobilization for imaging by atomic force microscopy | Journal of Visualized Experiments | (54) |
| 2011 | 10.1371/journal.pone.0017722 | Allen, L. Z., T. Ishoey, M. A. Novotny, J. S. McLean, R. S. Lasken and S. J. Williamson | Single virus genomics: a new tool for virus discovery | PLoS One | 6(3) e17722 |
| 2011 | 10.1083/jcb.201010111 | Adeyo, O., P. J. Horn, S. Lee, D. D. Binns, A. Chandrahas, K. D. Chapman and J. M. Goodman | The yeast lipin orthologue Pah1p is important for biogenesis of lipid droplets | Journal of Cell Biology | 192(6) 1043–55 |
| 2011 | 10.1038/ismej.2011.14 | Adams, A. S., M. S. Jordan, S. M. Adams, G. Suen, L. A. Goodwin, K. W. Davenport, C. R. Currie and K. F. Raffa | Cellulose-degrading bacteria associated with the invasive woodwasp Sirex noctilio | ISME Journal | 5(8) 1323-1331 |
| 2012 | 10.1117/12.970325 | Zivanovic, S., A. Thapa, M. Koorie, S. Animilli, A. Gunasekaran, J. Melancon and D. Genov | Surface Plasmon Enhanced P3HT: PCBM Photovoltaic Devices | Next Generation (Nano) Photonic and Cell Technologies for Solar Energy Conversion III | 8471 |
| 2012 | 10.1111/j.1365-313X.2011.04771.x | Zhuang, X., T. G. Kollner, N. Zhao, G. Li, Y. Jiang, L. Zhu, J. Ma, J. Degenhardt and F. Chen | Dynamic evolution of herbivore-induced sesquiterpene biosynthesis in sorghum and related grass crops | The Plant Journal | 69(1) 70–80 |
| 2012 | 10.1007/s12155-011-9151-5 | Zhu, Y., A. Mohammadi and J. Ralph | Facile Synthesis of 4-Hydroxycinnamaldehydes | Bioenergy Research | 5(2) 407-411 |
| 2012 | 10.1186/1471-2164-13-437 | Zhu, M., X. Deng, T. Joshi, D. Xu, G. Stacey and J. Cheng | Reconstructing differentially co-expressed gene modules and regulatory networks of soybean cells | BMC Genomics | 13 437 |
| 2012 | 10.1038/Nclimate1331 | Zhou, J. Z., K. Xue, J. P. Xie, Y. Deng, L. Y. Wu, X. H. Cheng, S. F. Fei, S. P. Deng, Z. L. He, J. D. Van Nostrand and Y. Q. Luo | Microbial mediation of carbon-cycle feedbacks to climate warming | Nature Climate Change | 2(2) 106–10 |
| 2012 | 10.1186/1471-2148-12-6 | Zhang, X. C., Z. Wang, X. Zhang, M. H. Le, J. Sun, D. Xu, J. Cheng and G. Stacey | Evolutionary dynamics of protein domain architecture in plants | BMC Evolutionary Biology | 12 6 |
| 2012 | 10.1038/nrmicro2763 | Zengler, K. and B. O. Palsson | A road map for the development of community systems (CoSy) biology | Nature Reviews Microbiology | 10(5) 366–72 |
| 2012 | 10.1002/bit.23335 | Zeng, M., E. Ximenes, M. R. Ladisch, N. S. Mosier, W. Vermerris, C. P. Huang and D. M. Sherman | Tissue-specific biomass recalcitrance in corn stover pretreated with liquid hot-water: SEM imaging (part 2) | Biotechnology and Bioengineering | 109(2) 398–404 |
| 2012 | 10.1038/ismej.2011.201 | Zeigler Allen, L., E. E. Allen, J. H. Badger, J. P. McCrow, I. T. Paulsen, L. D. Elbourne, M. Thiagarajan, D. B. Rusch, K. H. Nealson, S. J. Williamson, J. C. Venter and A. E. Allen | Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic | The ISME Journal | 6(7) 1403–14 |
| 2012 | 10.1021/jp2102868 | Yi, Z., Y. Miao, J. Baudry, N. Jain and J. C. Smith | Derivation of mean-square displacements for protein dynamics from elastic incoherent neutron scattering | Journal of Physical Chemistry B | 116(16) 5028–36 |
| 2012 | 10.1021/ci200364m | Yao, J., Y. Chu, R. An and H. Guo | Understanding product specificity of protein lysine methyltransferases from QM/MM molecular dynamics and free energy simulations: the effects of mutation on SET7/9 beyond the Tyr/Phe switch | Journal of Chemical Information and Modeling | 52(2) 449–56 |
| 2012 | 10.1016/j.chroma.2012.03.072 | Yang, S., J. S. Nadeau, E. M. Humston-Fulmer, J. C. Hoggard, M. E. Lidstrom and R. E. Synovec | Gas chromatography-mass spectrometry with chemometric analysis for determining 12C and 13C labeled contributions in metabolomics and 13C flux analysis | Journal of Chromatography A | 1240 156–64 |
| 2012 | 10.1016/j.molcel.2012.07.013 | Xu, Y. F., X. Zhao, D. S. Glass, F. Absalan, D. H. Perlman, J. R. Broach and J. D. Rabinowitz | Regulation of yeast pyruvate kinase by ultrasensitive allostery independent of phosphorylation | Molecular Cell | 48(1) 52–62 |
| 2012 | 10.1038/nchembio.941 | Xu, Y. F., D. Amador-Noguez, M. L. Reaves, X. J. Feng and J. D. Rabinowitz | Ultrasensitive regulation of anapleurosis via allosteric activation of PEP carboxylase | Nature Chemical Biology | 8(6) 562–8 |
| 2012 | 10.1007/s11104-012-1265-9 | Xu, X., R. A. Sherry, S. L. Niu, J. Z. Zhou and Y. Q. Luo | Long-term experimental warming decreased labile soil organic carbon in a tallgrass prairie | Plant and Soil | 361(1–2) 307–15 |
| 2012 | 10.1111/j.1365-2486.2012.02651.x | Xu, X., S. L. Niu, R. A. Sherry, X. H. Zhou, J. Z. Zhou and Y. Q. Luo | Interannual variability in responses of belowground net primary productivity (NPP) and NPP partitioning to long-term warming and clipping in a tallgrass prairie | Global Change Biology | 18(5) 1648–56 |
| 2012 | 10.1016/j.soilbio.2012.03.007 | Xu, X., Y. Q. Luo and J. Z. Zhou | Carbon quality and the temperature sensitivity of soil organic carbon decomposition in a tallgrass prairie | Soil Biology and Biochemistry | 50 142–8 |
| 2012 | 10.1007/s12127-011-0083-8 | Xu, J., F. Han and H. Li | Separation principle and Monte Carlo studies for differential mobility spectrometry | International Journal for Ion Mobility Spectrometry | 15(3) 91-98 |
| 2012 | 10.1371/journal.pone.0047399 | Xu, B., N. Sathitsuksanoh, Y. Tang, M. K. Udvardi, J. Y. Zhang, Z. Shen, M. Balota, K. Harich, P. Y. Zhang and B. Zhao | Overexpression of AtLOV1 in Switchgrass alters plant architecture, lignin content, and flowering time | PLoS One | 7(12) e47399 |
| 2012 | 10.1073/pnas.1201700109 | Wu, Y., X. Li, W. Xiang, C. Zhu, Z. Lin, et al. | Presence of tannins in sorghum grains is conditioned by different natural alleles of Tannin1 | Proceedings of the National Academy of Sciences of the United States of America | 109(26) 10281–6 |
| 2012 | 10.1016/j.cub.2012.07.054 | Worden, A. Z., J. Janouskovec, D. McRose, A. Engman, R. M. Welsh, S. Malfatti, S. G. Tringe and P. J. Keeling | Global distribution of a wild alga revealed by targeted metagenomics | Current Biology | 22(17) R675–7 |
| 2012 | 10.1038/ismej.2011.200 | Woebken, D., L. C. Burow, L. Prufert-Bebout, B. M. Bebout, T. M. Hoehler, J. Pett-Ridge, A. M. Spormann, P. K. Weber and S. W. Singer | Identification of a novel cyanobacterial group as active diazotrophs in a coastal microbial mat using NanoSIMS analysis | The ISME Journal | 6(7) 1427–39 |
| 2012 | 10.1128/JB.00761-12 | Wise, K. S., M. J. Calcutt, M. F. Foecking, R. Madupu, R. T. DeBoy, K. Roske, M. L. Hvinden, T. R. Martin, A. S. Durkin, J. I. Glass and B. A. Methe | Complete genome sequences of Mycoplasma leachii strain PG50T and the pathogenic Mycoplasma mycoides subsp. mycoides small colony biotype strain Gladysdale | Journal of Bacteriology | 194(16) 4448–9 |
| 2012 | 10.1371/journal.pone.0042047 | Williamson, S. J., L. Z. Allen, H. A. Lorenzi, D. W. Fadrosh, D. Brami, M. Thiagarajan, J. P. McCrow, A. Tovchigrechko, S. Yooseph and J. C. Venter | Metagenomic exploration of viruses throughout the Indian Ocean | PLoS One | 7(10) e42047 |
| 2012 | 10.1094/MPMI-09-11-0253 | Weston, D. J., D. A. Pelletier, J. L. Morrell-Falvey, T. J. Tschaplinski, S. S. Jawdy, et al. | Pseudomonas fluorescens induces strain-dependent and strain-independent host plant responses in defense networks, primary metabolism, photosynthesis, and fitness | Molecular Plant-Microbe Interactions | 25(6) 765–78 |
| 2012 | 10.1007/s11103-012-9909-y | Wang, Y., A. P. Alonso, C. G. Wilkerson and K. Keegstra | Deep EST profiling of developing fenugreek endosperm to investigate galactomannan biosynthesis and its regulation | Plant Molecular Biology | 79(3) 243-258 |
| 2012 | 10.1093/mp/ssr098 | Wang, H. Z. and R. A. Dixon | On-off switches for secondary cell wall biosynthesis | Molecular Plant | 5(2) 297-303 |
| 2012 | 10.1074/jbc.M111.305839 | Wang, H. L., X. Cheng and S. M. Sine | Intramembrane proton binding site linked to activation of bacterial pentameric ion channel | Journal of Biological Chemistry | 287(9) 6482–9 |
| 2012 | 10.1128/AEM.01602-12 | Wang, H., Z. He, Z. Lu, J. Zhou, J. D. Van Nostrand, X. Xu and Z. Zhang | Genetic linkage of soil carbon pools and microbial functions in subtropical freshwater wetlands in response to experimental warming | Applied and Environmental Microbiology | 78(21) 7652–61 |
| 2012 | 10.1016/B978-0-12-416023-1.00002-1 | Wagner, A., L. Donaldson and J. Ralph | Lignification and lignin manipulations in conifers | Advances in Botanical Research | 61 37-76 |
| 2012 | 10.1016/j.bpj.2011.11.4028 | Voltz, K., J. Trylska, N. Calimet, J. C. Smith and J. Langowski | Unwrapping of nucleosomal DNA ends: a multiscale molecular dynamics study | Biophysical Journal | 102(4) 849–58 |
| 2012 | 10.1186/1471-2164-13-27 | Vining, K. J., K. R. Pomraning, L. J. Wilhelm, H. D. Priest, M. Pellegrini, T. C. Mockler, M. Freitag and S. H. Strauss | Dynamic DNA cytosine methylation in the Populus trichocarpa genome: tissue-level variation and relationship to gene expression | BMC Genomics | 13 27 |
| 2012 | 10.1021/pr200895f | Vincent, D., A. Kohler, S. Claverol, E. Solier, J. Joets, J. Gibon, M. H. Lebrun, C. Plomion and F. Martin | Secretome of the free-living mycelium from the ectomycorrhizal basidiomycete Laccaria bicolor | Journal of Proteome Research | 11(1) 157–71 |
| 2012 | 10.1371/journal.pone.0039128 | Urbina, H. and M. Blackwell | Multilocus phylogenetic study of the Scheffersomyces yeast clade and characterization of the N-terminal region of xylose reductase gene | PLoS One | 7(6) e39128 |
| 2012 | 10.1016/j.bpj.2012.06.040 | Ulmschneider, J. P., J. C. Smith, M. B. Ulmschneider, A. S. Ulrich and E. Strandberg | Reorientation and dimerization of the membrane-bound antimicrobial peptide PGLa from microsecond all-atom MD simulations | Biophysical Journal | 103(3) 472–82 |
| 2012 | 10.1186/1754-6834-5-71 | Tschaplinski, T. J., R. F. Standaert, N. L. Engle, M. Z. Martin, A. K. Sangha, et al. | Down-regulation of the caffeic acid O-methyltransferase gene in switchgrass reveals a novel monolignol analog | Biotechnology for Biofuels | 5(1) 71 |
| 2012 | 10.1007/s10533-011-9636-5 | Treseder, K. K., T. C. Balser, M. A. Bradford, E. L. Brodie, E. A. Dubinsky, V. T. Eviner, K. S. Hofmockel, J. T. Lennon, U. Y. Levine, B. J. MacGregor, J. Pett-Ridge and M. P. Waldrop | Integrating microbial ecology into ecosystem models: challenges and priorities | Biogeochemistry | 109(1–3) 7–18 |
| 2012 | 10.1007/s00216-012-6120-6 | Tfaily, M. M., S. Hodgkins, D. C. Podgorski, J. P. Chanton and W. T. Cooper | Comparison of dialysis and solid-phase extraction for isolation and concentration of dissolved organic matter prior to Fourier transform ion cyclotron resonance mass spectrometry | Analytical and Bioanalytical Chemistry | 404(2) 447–57 |
| 2012 | 10.1016/B978-0-444-59506-5.50013-4 | Smith, J., S. Cremaschi and D. Crunkleton | CFD-Based Optimization of a Flooded Bed Bioreactor for Algae Production | Computer Aided Chemical Engineering | 31 910-914 |
| 2012 | 10.1186/1471-2164-13-499 | Shrestha, R. P., B. Tesson, T. Norden-Krichmar, S. Federowicz, M. Hildebrand and A. E. Allen | Whole transcriptome analysis of the silicon response of the diatom Thalassiosira pseudonana | BMC Genomics | 13 499 |
| 2012 | 10.1021/bi201763d | Shen, Y. Q., F. Bonnot, E. M. Imsand, J. M. RoseFigura, K. Sjolander and J. P. Klinman | Distribution and properties of the genes encoding the biosynthesis of the bacterial cofactor, pyrroloquinoline quinone | Biochemistry | 51(11) 2265–75 |
| 2012 | 10.1021/ci200485a | Sharma, H., X. Cheng and J. K. Buolamwini | Homology model-guided 3D-QSAR studies of HIV-1 integrase inhibitors | Journal of Chemical Information and Modeling | 52(2) 515–44 |
| 2012 | 10.4161/psb.7.1.18491 | Schnabel, E., A. Karve, T. Kassaw, A. Mukherjee, X. Zhou, T. Hall and J. Frugoli | The M. truncatula SUNN gene is expressed in vascular tissue, similarly to RDN1, consistent with the role of these nodulation regulation genes in long distance signaling | Plant Signaling & Behavior | 7(1) 4–6 |
| 2012 | 10.1007/s12155-012-9197-z | Sattler, S. E., N. A. Palmer, A. Saballos, A. M. Greene, Z. G. Xin, G. Sarath, W. Vermerris and J. F. Pedersen | Identification and Characterization of Four Missense Mutations in Brown midrib 12 (Bmr12), the Caffeic O-Methyltranferase (COMT) of Sorghum | BioEnergy Research | 5(4) 855–65 |
| 2012 | 10.1002/ep.10628 | Sangha, A. K., L. Petridis, J. C. Smith, A. Ziebell and J. M. Parks | Molecular simulation as a tool for studying lignin | Environmental Progress & Sustainable Energy | 31(1) 47–54 |
| 2012 | 10.1021/jp2122449 | Sangha, A. K., J. M. Parks, R. F. Standaert, A. Ziebell, M. Davis and J. C. Smith | Radical coupling reactions in lignin synthesis: a density functional theory study | Journal of Physical Chemistry B | 116(16) 4760–8 |
| 2012 | 10.1016/j.agee.2012.08.011 | Sanford, G. R., J. L. Posner, R. D. Jackson, C. J. Kucharik, J. L. Hedtcke and T. L. Lin | Soil carbon lost from Mollisols of the North Central U.S.A. with 20 years of agricultural best management practices | Agriculture, Ecosystems and Environment | 162 68-76 |
| 2012 | 10.1371/journal.pone.0048285 | Saha, R., A. T. Verseput, B. M. Berla, T. J. Mueller, H. B. Pakrasi and C. D. Maranas | Reconstruction and comparison of the metabolic potential of cyanobacteria Cyanothece sp. ATCC 51142 and Synechocystis sp. PCC 6803 | PLoS One | 7(10) e48285 |
| 2012 | 10.1111/j.1365-313X.2012.04933.x | Saballos, A., S. E. Sattler, E. Sanchez, T. P. Foster, Z. Xin, C. Kang, J. F. Pedersen and W. Vermerris | Brown midrib2 (Bmr2) encodes the major 4-coumarate:coenzyme A ligase involved in lignin biosynthesis in sorghum (Sorghum bicolor (L.) Moench) | The Plant Journal | 70(5) 818–30 |
| 2012 | 10.1109/TNS.2012.2210908 | Rozler, M., H. Liang and W. Chang | Development of a Cost-Effective Modular Pixelated NaI(Tl) Detector for Clinical SPECT Applications | IEEE Transactions on Nuclear Science | 59(5) 1831–40 |
| 2012 | 10.1016/j.fuel.2012.03.049 | Rothamer, D. A. and J. H. Jennings | Study of the knocking propensity of 2,5-dimethylfuran-gasoline and ethanol-gasoline blends | Fuel | 98 203-212 |
| 2012 | 10.1128/AEM.01946-12 | Rotaru, A. E., P. M. Shrestha, F. Liu, T. Ueki, K. Nevin, Z. M. Summers and D. R. Lovley | Interspecies electron transfer via hydrogen and formate rather than direct electrical connections in cocultures of Pelobacter carbinolicus and Geobacter sulfurreducens | Applied and Environmental Microbiology | 78(21) 7645–51 |
| 2012 | 10.1155/2012/873589 | Rohlin, L., D. R. Leon, U. Kim, J. A. Loo, R. R. Ogorzalek Loo and R. P. Gunsalus | Identification of the major expressed S-layer and cell surface-layer-related proteins in the model methanogenic archaea: Methanosarcina barkeri Fusaro and Methanosarcina acetivorans C2A | Archaea | 2012 873589 |
| 2012 | 10.1101/gr.125146.111 | Rodgers-Melnick, E., S. P. Mane, P. Dharmawardhana, G. T. Slavov, O. R. Crasta, S. H. Strauss, A. M. Brunner and S. P. Difazio | Contrasting patterns of evolution following whole genome versus tandem duplication events in Populus | Genome Research | 22(1) 95–105 |
| 2012 | 10.1007/s12155-011-9161-3 | Robertson, B. A., C. Porter, D. A. Landis and D. W. Schemske | Agroenergy Crops Influence the Diversity, Biomass, and Guild Structure of Terrestrial Arthropod Communities | Bioenergy Research | 5(1) 179-188 |
| 2012 | 10.1073/pnas.1207530109 | Risser, D. D., F. C. Wong and J. C. Meeks | Biased inheritance of the protein PatN frees vegetative cells to initiate patterned heterocyst differentiation | Proceedings of the National Academy of Sciences of the United States of America | 109(38) 15342–7 |
| 2012 | 10.1104/pp.112.204453 | Rigal, A., Y. S. Yordanov, I. Perrone, A. Karlberg, E. Tisserant, C. Bellini, V. B. Busov, F. Martin, A. Kohler, R. Bhalerao and V. Legue | The AINTEGUMENTA LIKE1 homeotic transcription factor PtAIL1 controls the formation of adventitious root primordia in poplar | Plant Physiology | 160(4) 1996–2006 |
| 2012 | 10.1038/ismej.2012.48 | Reith, F., J. Brugger, C. M. Zammit, A. L. Gregg, K. C. Goldfarb, G. L. Andersen, T. Z. DeSantis, Y. M. Piceno, E. L. Brodie, Z. Lu, Z. He, J. Zhou and S. A. Wakelin | Influence of geogenic factors on microbial communities in metallogenic Australian soils | The ISME Journal | 6(11) 2107–18 |
| 2012 | 10.1007/s12155-012-9218-y | Ralph, J., T. Akiyama, H. D. Coleman and S. D. Mansfield | Effects on Lignin Structure of Coumarate 3-Hydroxylase Downregulation in Poplar | Bioenergy Research | 5(4) 1009-1019 |
| 2012 | 10.2135/cropsci2011.04.0192 | Qian, J. Y., G. Q. Jia, H. Zhi, W. Li, Y. F. Wang, H. Q. Li, Z. L. Shang, A. N. Doust and X. M. Diao | Sensitivity to Gibberellin of Dwarf Foxtail Millet Varieties | Crop Science | 52(3) 1068–75 |
| 2012 | 10.5936/csbj.201209012 | Pourmir, A. and T. W. Johannes | Directed evolution: selection of the host organism | Computational and Structural Biotechnology Journal | 2 e201209012 |
| 2012 | 10.1002/jcc.22947 | Pool, R., J. Heringa, M. Hoefling, R. Schulz, J. C. Smith and K. A. Feenstra | Enabling grand-canonical Monte Carlo: extending the flexibility of GROMACS through the GromPy python interface module | Journal of Computational Chemistry | 33(12) 1207–14 |
| 2012 | 10.1007/978-3-642-30826-0_6 | Plett, J. M., A. Kohler and F. Martin | 6 De-Constructing a Mutualist: How the Molecular Blueprints of Model Symbiotic Fungi Are Changing Our Understanding of Mutualism | Fungal Associations | 9 93–117 |
| 2012 | 10.1016/j.fgb.2012.01.002 | Plett, J. M., J. Gibon, A. Kohler, K. Duffy, P. J. Hoegger, R. Velagapudi, J. Han, U. Kues, I. V. Grigoriev and F. Martin | Phylogenetic, genomic organization and expression analysis of hydrophobin genes in the ectomycorrhizal basidiomycete Laccaria bicolor | Fungal Genetics and Biology | 49(3) 199–209 |
| 2012 | 10.1111/j.1399-3054.2011.01538.x | Petzold, H. E., M. Zhao and E. P. Beers | Expression and functions of proteases in vascular tissues | Physiologia Plantarum | 145(1) 121–9 |
| 2012 | 10.1007/978-1-61779-827-6_13 | Pett-Ridge, J. and P. K. Weber | NanoSIP: NanoSIMS Applications for Microbial Biology | Microbial Systems Biology: Methods and Protocols | 375–408 |
| 2012 | 10.1371/journal.pone.0040236 | Petrus, A. K., K. S. Swithers, C. Ranjit, S. Wu, H. M. Brewer, J. P. Gogarten, L. Pasa-Tolic and K. M. Noll | Genes for the major structural components of Thermotogales species' togas revealed by proteomic and evolutionary analyses of OmpA and OmpB homologs | PLoS One | 7(6) e40236 |
| 2012 | 10.1021/jp310345j | Pan, J., X. Cheng, F. A. Heberle, B. Mostofian, N. Kucerka, P. Drazba and J. Katsaras | Interactions between ether phospholipids and cholesterol as determined by scattering and molecular dynamics simulations | Journal of Physical Chemistry B | 116(51) 14829–38 |
| 2012 | 10.1016/j.jcat.2012.03.014 | O'Neill, B. J., E. I. Gürbüz and J. A. Dumesic | Reaction kinetics studies of the conversions of formic acid and butyl formate over carbon-supported palladium in the liquid phase | Journal of Catalysis | 290 193-201 |
| 2012 | 10.1002/bit.24569 | Noor-Mohammadi, S., A. Pourmir and T. W. Johannes | Method to assemble and integrate biochemical pathways into the chloroplast genome of Chlamydomonas reinhardtii | Biotechnology and Bioengineering | 109(11) 2896–903 |
| 2012 | 10.1016/j.biombioe.2012.01.037 | Nikièma, P., D. E. Rothstein and R. O. Miller | Initial greenhouse gas emissions and nitrogen leaching losses associated with converting pastureland to short-rotation woody bioenergy crops in northern Michigan, USA | Biomass and Bioenergy | 39 413-426 |
| 2012 | 10.1039/c2an15790j | Nie, B., R. N. Masyuko and P. W. Bohn | Correlation of surface-enhanced Raman spectroscopy and laser desorption-ionization mass spectrometry acquired from silver nanoparticle substrates | Analyst | 137(6) 1421–7 |
| 2012 | 10.1016/j.bpj.2012.08.046 | Nickels, J. D., H. O'Neill, L. Hong, M. Tyagi, G. Ehlers, K. L. Weiss, Q. Zhang, Z. Yi, E. Mamontov, J. C. Smith and A. P. Sokolov | Dynamics of protein and its hydration water: neutron scattering studies on fully deuterated GFP | Biophysical Journal | 103(7) 1566–75 |
| 2012 | 10.1093/molbev/msr224 | Nguyen, T. A., J. Brescic, D. J. Vinyard, T. Chandrasekar and G. C. Dismukes | Identification of an oxygenic reaction center psbADC operon in the cyanobacterium Gloeobacter violaceus PCC 7421 | Molecular Biology and Evolution | 29(1) 35–8 |
| 2012 | 10.1063/1.3700183 | Nellas, R. B., M. M. Glover, D. Hamelberg and T. Shen | High-pressure effect on the dynamics of solvated peptides | Journal of Chemical Physics | 136(14) 145103 |
| 2012 | 10.1186/1752-0509-6-150 | Navid, A. and E. Almaas | Genome-level transcription data of Yersinia pestis analyzed with a new metabolic constraint-based approach | BMC Systems Biology | 6 150 |
| 2012 | 10.1007/978-1-61779-827-6_18 | Navid, A. | Development of constraint-based system-level models of microbial metabolism | Microbial Systems Biology: Methods and Protocols | 881 531–49 |
| 2012 | 10.1126/science.1216861 | Nam, H., N. E. Lewis, J. A. Lerman, D. H. Lee, R. L. Chang, D. Kim and B. O. Palsson | Network context and selection in the evolution to enzyme specificity | Science | 337(6098) 1101–4 |
| 2012 | 10.1016/j.cub.2012.07.025 | Nagel, D. H. and S. A. Kay | Complexity in the wiring and regulation of plant circadian networks | Current Biology | 22(16) R648–57 |
| 2012 | 10.1093/database/bas013 | Nag, A., T. V. Karpinets, C. H. Chang and M. Bar-Peled | Enhancing a Pathway-Genome Database (PGDB) to capture subcellular localization of metabolites and enzymes: the nucleotide-sugar biosynthetic pathways of Populus trichocarpa | Database | 2012 bas013 |
| 2012 | 10.1186/1754-6834-5-27 | Muttoni, G., J. M. Johnson, N. Santoro, C. J. Rhiner, K. J. H. Von Mogel, S. M. Kaeppler and N. De Leon | A high-throughput core sampling device for the evaluation of maize stalk composition | Biotechnology for Biofuels | 5 |
| 2012 | 10.1016/j.copbio.2012.01.014 | Montague, M. G., C. Lartigue and S. Vashee | Synthetic genomics: potential and limitations | Current Opinion in Biotechnology | 23(5) 659–65 |
| 2012 | 10.1021/jp209536e | Mintz, B. J. and J. M. Parks | Benchmark interaction energies for biologically relevant noncovalent complexes containing divalent sulfur | Journal of Physical Chemistry A | 116(3) 1086–92 |
| 2012 | 10.1016/j.biombioe.2011.10.018 | Miesel, J. R., M. J. Renz, J. E. Doll and R. D. Jackson | Effectiveness of weed management methods in establishment of switchgrass and a native species mixture for biofuels in Wisconsin | Biomass and Bioenergy | 36 121-131 |
| 2012 | 10.1021/ja3097898 | Miao, Y., Z. Yi, D. C. Glass, L. Hong, M. Tyagi, J. Baudry, N. Jain and J. C. Smith | Temperature-dependent dynamical transitions of different classes of amino acid residue in a globular protein | Journal of the American Chemical Society | 134(48) 19576–9 |
| 2012 | 10.1016/j.bpj.2012.10.013 | Miao, Y., Z. Yi, C. Cantrell, D. C. Glass, J. Baudry, N. Jain and J. C. Smith | Coupled flexibility change in cytochrome P450cam substrate binding determined by neutron scattering, NMR, and molecular dynamics simulation | Biophysical Journal | 103(10) 2167–76 |
| 2012 | 10.1093/ajae/aar142 | Miao, R., D. A. Hennessy and B. A. Babcock | Investment in cellulosic biofuel refineries: Do waivable biofuel mandates matter? | American Journal of Agricultural Economics | 94(3) 750-762 |
| 2012 | 10.1080/10448632.2012.695714 | Merzel, F., M. R. Johnson and J. C. Smith | Normal modes and neutrons: defining collective, functional biomolecular motions | Neutron News | 23(3) 26–30 |
| 2012 | 10.4056/sigs.2605792 | Mead, D. A., S. Lucas, A. Copeland, A. Lapidus, J. F. Cheng, et al. | Complete genome sequence of Paenibacillus strain Y4.12MC10, a novel Paenibacillus lautus strain isolated from obsidian hot spring in yellowstone national park | Standards in Genomic Sciences | 6(3) 366-385 |
| 2012 | 10.1021/bm3004836 | McRae, S., X. Chen, K. Kratz, D. Samanta, E. Henchey, S. Schneider and T. Emrick | Pentafluorophenyl ester-functionalized phosphorylcholine polymers: preparation of linear, two-arm, and grafted polymer-protein conjugates | Biomacromolecules | 13(7) 2099–109 |
| 2012 | 10.1016/j.sbi.2012.02.005 | McLaughlin, L. S., R. J. F. Haft and K. T. Forest | Structural insights into the Type II secretion nanomachine | Current Opinion in Structural Biology | 22(2) 208-216 |
| 2012 | 10.3389/fmicb.2012.00419 | McGlynn, S. E., E. S. Boyd, J. W. Peters and V. J. Orphan | Classifying the metal dependence of uncharacterized nitrogenases | Frontiers in Microbiology | 3 419 |
| 2012 | 10.1038/ismej.2011.175 | Mayali, X., P. K. Weber, E. L. Brodie, S. Mabery, P. D. Hoeprich and J. Pett-Ridge | High-throughput isotopic analysis of RNA microarrays to quantify microbial resource use | The ISME Journal | 6(6) 1210–21 |
| 2012 | 10.1099/ijs.0.024349-0 | Maune, M. W. and R. S. Tanner | Description of Anaerobaculum hydrogeniformans sp. nov., an anaerobe that produces hydrogen from glucose, and emended description of the genus Anaerobaculum | International Journal of Systematic and Evolutionary Microbiology | 62(Part 4) 832–8 |
| 2012 | 10.1007/s13280-012-0275-4 | Masukawa, H., M. Kitashima, K. Inoue, H. Sakurai and R. P. Hausinger | Genetic engineering of cyanobacteria to enhance biohydrogen production from sunlight and water | Ambio | 41(SUPPL.2) 169-173 |
| 2012 | 10.1007/978-3-642-33823-6_21 | Martin, F. and G. Bonito | Ten Years of Genomics for Ectomycorrhizal Fungi: What Have We Achieved and Where Are We Heading? | Edible Ectomycorrhizal Mushrooms | 34 383–401 |
| 2012 | 10.1038/nprot.2012.064 | Mansfield, S. D., H. Kim, F. Lu and J. Ralph | Whole plant cell wall characterization using solution-state 2D NMR | Nature Protocols | 7(9) 1579-1589 |
| 2012 | 10.1038/ismej.2011.147 | Luo, C., D. Tsementzi, N. C. Kyrpides and K. T. Konstantinidis | Individual genome assembly from complex community short-read metagenomic datasets | The ISME Journal | 6(4) 898–901 |
| 2012 | 10.1371/journal.pone.0030087 | Luo, C., D. Tsementzi, N. Kyrpides, T. Read and K. T. Konstantinidis | Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample | PLoS One | 7(2) e30087 |
| 2012 | 10.1002/cssc.201100734 | Liu, Y. and D. R. Bond | Long-distance electron transfer by G. sulfurreducens biofilms results in accumulation of reduced c-type cytochromes | ChemSusChem | 5(6) 1047–53 |
| 2012 | 10.1039/c2ee22459c | Liu, F. H., A. E. Rotaru, P. M. Shrestha, N. S. Malvankar, K. P. Nevin and D. R. Lovley | Promoting direct interspecies electron transfer with activated carbon | Energy & Environmental Science | 5(10) 8982–9 |
| 2012 | 10.1016/j.cpc.2012.02.010 | Lindner, B. and J. C. Smith | Sassena — X-ray and neutron scattering calculated from molecular dynamics trajectories using massively parallel computers | Computer Physics Communications | 183(7) 1491–501 |
| 2012 | 10.1016/j.apsoil.2011.11.015 | Liang, C., E. D. C. Jesus, D. S. Duncan, R. D. Jackson, J. M. Tiedje and T. C. Balser | Soil microbial communities under model biofuel cropping systems in southern Wisconsin, USA: Impact of crop species and soil properties | Applied Soil Ecology | 54 24-31 |
| 2012 | 10.1063/1.4765337 | Lian, M., C. P. Collier, M. J. Doktycz and S. T. Retterer | Monodisperse alginate microgel formation in a three-dimensional microfluidic droplet generator | Biomicrofluidics | 6(4) 44108 |
| 2012 | 10.1021/pr200748h | Li, Z., R. M. Adams, K. Chourey, G. B. Hurst, R. L. Hettich and C. Pan | Systematic comparison of label-free, metabolic labeling, and isobaric chemical labeling for quantitative proteomics on LTQ Orbitrap Velos | Journal of Proteome Research | 11(3) 1582–90 |
| 2012 | 10.1016/B978-0-12-394277-7.00006-3 | Li, X., C. S. Zhu, J. K. Wang and J. M. Yu | Computer Simulation in Plant Breeding | Advances in Agronomy | 116 219–64 |
| 2012 | 10.1186/1754-6834-5-38 | Li, M., C. Foster, S. Kelkar, Y. Pu, D. Holmes, A. Ragauskas, C. M. Saffron and D. B. Hodge | Structural characterization of alkaline hydrogen peroxide pretreated grasses exhibiting diverse lignin phenotypes | Biotechnology for Biofuels | 5 |
| 2012 | 10.1186/1471-2229-12-65 | Li, C., H. Rudi, E. J. Stockinger, H. Cheng, M. Cao, S. E. Fox, T. C. Mockler, B. Westereng, S. Fjellheim, O. A. Rognli and S. R. Sandve | Comparative analyses reveal potential uses of Brachypodium distachyon as a model for cold stress responses in temperate grasses | BMC Plant Biology | 12 |
| 2012 | 10.1038/nrmicro2737 | Lewis, N. E., H. Nagarajan and B. O. Palsson | Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods | Nature Reviews Microbiology | 10(4) 291–305 |
| 2012 | 10.1103/PhysRevB.86.174202 | Levine, G. C., M. J. Bantegui and J. A. Burg | Full counting statistics in a disordered free fermion system | Physical Review B | 86(17) |
| 2012 | 10.4137/GRSB.S9357 | Leuze, M. R., T. V. Karpinets, M. H. Syed, A. S. Beliaev and E. C. Uberbacher | Binding Motifs in Bacterial Gene Promoters Modulate Transcriptional Effects of Global Regulators CRP and ArcA | Gene Regulation and Systems Biology | 6 93–107 |
| 2012 | 10.1016/j.tibtech.2012.09.006 | Lennen, R. M. and B. F. Pfleger | Engineering Escherichia coli to synthesize free fatty acids | Trends in Biotechnology | 30(12) 659-667 |
| 2012 | 10.1371/journal.pone.0044224 | Lee, C. K., C. W. Herbold, S. W. Polson, K. E. Wommack, S. J. Williamson, I. R. McDonald and S. C. Cary | Groundtruthing next-gen sequencing for microbial ecology-biases and errors in community structure estimates from PCR amplicon pyrosequencing | PLoS One | 7(9) e44224 |
| 2012 | 10.1021/ci3002217 | Latendresse, M., J. P. Malerich, M. Travers and P. D. Karp | Accurate atom-mapping computation for biochemical reactions | Journal of Chemical Information and Modeling | 52(11) 2970–82 |
| 2012 | 10.1016/j.jprot.2012.03.017 | Lanni, E. J., S. S. Rubakhin and J. V. Sweedler | Mass spectrometry imaging and profiling of single cells | Journal of Proteomics | 75(16) 5036–51 |
| 2012 | 10.1089/ind.2012.0012 | Langan, P., B. R. Evans, M. Foston, W. T. Heller, H. O'Neill, L. Petridis, S. V. Pingali, A. J. Ragauskas, J. C. Smith, V. S. Urban and B. H. Davison | Neutron Technologies for Bioenergy Research | Industrial Biotechnology | 8(4) 209–16 |
| 2012 | 10.1371/journal.pone.0032491 | Lan, Y., Q. Wang, J. R. Cole and G. L. Rosen | Using the RDP classifier to predict taxonomic novelty and reduce the search space for finding novel organisms | PLoS One | 7(3) e32491 |
| 2012 | 10.1093/nar/gks751 | Lajoie, M. J., C. J. Gregg, J. A. Mosberg, G. C. Washington and G. M. Church | Manipulating replisome dynamics to enhance lambda Red-mediated multiplex genome engineering | Nucleic Acids Research | 40(22) e170 |
| 2012 | 10.1371/journal.pone.0040197 | Labbe, J., C. Murat, E. Morin, G. A. Tuskan, F. Le Tacon and F. Martin | Characterization of transposable elements in the ectomycorrhizal fungus Laccaria bicolor | PLoS One | 7(8) e40197 |
| 2012 | 10.1021/jp2104853 | Krishnan, M. and J. C. Smith | Reconstruction of protein side-chain conformational free energy surfaces from NMR-derived methyl axis order parameters | Journal of Physical Chemistry B | 116(14) 4124–33 |
| 2012 | 10.1109/Tnano.2012.2186823 | Koorie, M. A., Y. Khopkar, H. F. Ji and S. R. Zivanovic | Single Mesowire Transistor From Perylene Tetracarboxylic Diimide | IEEE Transactions on Nanotechnology | 11(3) 448–50 |
| 2012 | 10.1128/JB.01214-12 | Kontur, W. S., W. S. Schackwitz, N. Ivanova, J. Martin, K. Labutti, S. Deshpande, H. N. Tice, C. Pennacchio, E. Sodergren, G. M. Weinstock, D. R. Noguera and T. J. Donohue | Revised sequence and annotation of the Rhodobacter sphaeroides 2.4.1 genome | Journal of Bacteriology | 194(24) 7016–7 |
| 2012 | 10.1016/j.copbio.2011.10.003 | Kontur, W. S., D. R. Noguera and T. J. Donohue | Maximizing reductant flow into microbial H2 production | Current Opinion in Biotechnology | 23(3) 382–9 |
| 2012 | 10.1088/0031-9155/57/22/7355 | Komarov, S., Y. Yin, H. Wu, J. Wen, H. Krawczynski, L. J. Meng and Y. C. Tai | Investigation of the limitations of the highly pixilated CdZnTe detector for PET applications | Physics in Medicine and Biology | 57(22) 7355–80 |
| 2012 | 10.1002/stem.1005 | Klempin, F., R. A. Marr and D. A. Peterson | Modification of pax6 and olig2 expression in adult hippocampal neurogenesis selectively induces stem cell fate and alters both neuronal and glial populations | Stem Cells | 30(3) 500–9 |
| 2012 | 10.1186/1754-6834-5-37 | Kim, S., S. Lowman, G. Hou, J. Nowak, B. Flinn and C. Mei | Growth promotion and colonization of switchgrass (Panicum virgatum) cv. Alamo by bacterial endophyte Burkholderia phytofirmans strain PsJN | Biotechnology for Biofuels | 5(1) 37 |
| 2012 | 10.1016/j.biombioe.2012.07.015 | Kim, S., B. E. Dale and R. G. Ong | An alternative approach to indirect land use change: Allocating greenhouse gas effects among different uses of land | Biomass and Bioenergy | 46 447-452 |
| 2012 | 10.1093/nar/gkr1022 | Kelly, L., K. H. Huang, H. Ding and S. W. Chisholm | ProPortal: a resource for integrated systems biology of Prochlorococcus and its phage | Nucleic Acids Research | 40(D1) D632–40 |
| 2012 | 10.1111/j.1469-8137.2012.04288.x | Karve, A. A., S. S. Jawdy, L. E. Gunter, S. M. Allen, X. Yang, G. A. Tuskan, S. D. Wullschleger and D. J. Weston | Initial characterization of shade avoidance response suggests functional diversity between Populus phytochrome B genes | New Phytologist | 196(3) 726–37 |
| 2012 | 10.1016/j.cell.2012.05.044 | Karr, J. R., J. C. Sanghvi, D. N. Macklin, M. V. Gutschow, J. M. Jacobs, B. Bolival, Jr., N. Assad-Garcia, J. I. Glass and M. W. Covert | A whole-cell computational model predicts phenotype from genotype | Cell | 150(2) 389–401 |
| 2012 | 10.1093/nar/gks403 | Karpinets, T. V., B. H. Park and E. C. Uberbacher | Analyzing large biological datasets with association networks | Nucleic Acids Research | 40(17) e131 |
| 2012 | 10.1128/AEM.01938-12 | Justice, N. B., C. Pan, R. Mueller, S. E. Spaulding, V. Shah, C. L. Sun, A. P. Yelton, C. S. Miller, B. C. Thomas, M. Shah, N. VerBerkmoes, R. Hettich and J. F. Banfield | Heterotrophic archaea contribute to carbon cycling in low-pH, suboxic biofilm communities | Applied and Environmental Microbiology | 78(23) 8321–30 |
| 2012 | 10.1186/1471-2164-13-S1-S15 | Joshi, T., K. Patil, M. R. Fitzpatrick, L. D. Franklin, Q. Yao, et al. | Soybean Knowledge Base (SoyKB): a web resource for soybean translational genomics | BMC Genomics | 13(Supplement 1) S15 |
| 2012 | 10.1021/bi300557y | Johnson, Q. R., R. B. Nellas and T. Shen | Solvent-dependent gating motions of an extremophilic lipase from Pseudomonas aeruginosa | Biochemistry | 51(31) 6238–45 |
| 2012 | 10.1111/j.1469-8137.2012.04087.x | Johnson, D., F. Martin, J. W. G. Cairney and I. C. Anderson | The importance of individuals: intraspecific diversity of mycorrhizal plants and fungi in ecosystems | New Phytologist | 194(3) 614–28 |
| 2012 | 10.1016/j.biortech.2012.01.150 | Jin, M., C. Gunawan, V. Balan, M. W. Lau and B. E. Dale | Simultaneous saccharification and co-fermentation (SSCF) of AFEX™ pretreated corn stover for ethanol production using commercial enzymes and Saccharomyces cerevisiae 424A(LNH-ST) | Bioresource Technology | 110 587-594 |
| 2012 | 10.1016/j.biortech.2012.01.154 | Jin, M., V. Balan, C. Gunawan and B. E. Dale | Quantitatively understanding reduced xylose fermentation performance in AFEX TM treated corn stover hydrolysate using Saccharomyces cerevisiae 424A (LNH-ST) and Escherichia coli KO11 | Bioresource Technology | 111 294-300 |
| 2012 | 10.1016/j.ijhydene.2012.05.100 | Jiao, Y. Q., A. Navid, B. J. Stewart, J. B. McKinlay, M. P. Thelen and J. Pett-Ridge | Syntrophic metabolism of a co-culture containing Clostridium cellulolyticum and Rhodopseudomonas palustris for hydrogen production | International Journal of Hydrogen Energy | 37(16) 11719–26 |
| 2012 | 10.1093/mp/sss032 | Jensen, J. K., A. Schultink, K. Keegstra, C. G. Wilkerson and M. Pauly | RNA-seq analysis of developing nasturtium seeds (Tropaeolum majus): Identification and characterization of an additional galactosyltransferase involved in xyloglucan biosynthesis | Molecular Plant | 5(5) 984-992 |
| 2012 | 10.1111/j.1462-2920.2011.02518.x | Jansson, J. K., J. D. Neufeld, M. A. Moran and J. A. Gilbert | Omics for understanding microbial functional dynamics | Environmental Microbiology | 14(1) 1–3 |
| 2012 | 10.1016/B978-0-12-386897-8.00017-6 | Izaurralde, R. C., W. B. McGill and J. R. Williams | Development and Application of the EPIC Model for Carbon Cycle, Greenhouse Gas Mitigation, and Biofuel Studies | Managing Agricultural Greenhouse Gases: Coordinated Agricultural Research through GRACEnet to Address our Changing Climate | 293-308 |
| 2012 | 10.1093/bioinformatics/bts429 | Hyatt, D., P. F. LoCascio, L. J. Hauser and E. C. Uberbacher | Gene and translation initiation site prediction in metagenomic sequences | Bioinformatics | 28(17) 2223–30 |
| 2012 | 10.1038/ng.2309 | Hufford, M. B., X. Xu, J. Van Heerwaarden, T. Pyhäjärvi, J. M. Chia, et al. | Comparative population genomics of maize domestication and improvement | Nature Genetics | 44(7) 808-811 |
| 2012 | 10.1105/tpc.112.096586 | Hu, J., A. Baker, B. Bartel, N. Linka, R. T. Mullen, S. Reumann and B. K. Zolman | Plant peroxisomes: biogenesis and function | The Plant Cell | 24(6) 2279–303 |
| 2012 | 10.1128/JB.00061-12 | Hu, B. and M. Lidstrom | CcrR, a TetR family transcriptional regulator, activates the transcription of a gene of the Ethylmalonyl coenzyme A pathway in Methylobacterium extorquens AM1 | Journal of Bacteriology | 194(11) 2802–8 |
| 2012 | 10.1105/tpc.111.094581 | Horn, P. J., A. R. Korte, P. B. Neogi, E. Love, J. Fuchs, K. Strupat, L. Borisjuk, V. Shulaev, Y. J. Lee and K. D. Chapman | Spatial mapping of lipids at cellular resolution in embryos of cotton | The Plant Cell | 24(2) 622–36 |
| 2012 | 10.1002/rcm.6194 | Horn, P. J., U. Joshi, A. K. Behrendt, K. D. Chapman and G. F. Verbeck | On-stage liquid-phase lipid microextraction coupled to nanospray mass spectrometry for detailed, nano-scale lipid analysis | Rapid Communications in Mass Spectrometry | 26(8) 957–62 |
| 2012 | 10.1111/j.1365-313X.2011.04868.x | Horn, P. J. and K. D. Chapman | Lipidomics in tissues, cells and subcellular compartments | The Plant Journal | 70(1) 69–80 |
| 2012 | 10.1103/PhysRevLett.108.238102 | Hong, L., X. Cheng, D. C. Glass and J. C. Smith | Surface hydration amplifies single-well protein atom diffusion propagating into the macromolecular core | Physical Review Letters | 108(23) 238102 |
| 2012 | 10.1007/s00425-012-1677-z | Hong, J. J., Y. S. Park, A. Bravo, K. K. Bhattarai, D. A. Daniels and M. J. Harrison | Diversity of morphology and function in arbuscular mycorrhizal symbioses in Brachypodium distachyon | Planta | 236(3) 851–65 |
| 2012 | 10.1111/j.1462-2920.2011.02560.x | Hodkinson, B. P., N. R. Gottel, C. W. Schadt and F. Lutzoni | Photoautotrophic symbiont and geography are major factors affecting highly structured and diverse bacterial communities in the lichen microbiome | Environmental Microbiology | 14(1) 147–61 |
| 2012 | 10.1016/j.fuel.2012.01.033 | He, Y., S. E. Barnes, D. W. Crunkleton and G. L. Price | Comparison of ginger oil conversion over MFI, BEA, and FAU | Fuel | 96(1) 469–75 |
| 2012 | 10.1016/j.mrfmmm.2011.10.011 | Harper, M. and C. J. Lee | Genome-wide analysis of mutagenesis bias and context sensitivity of N-methyl-N'-nitro-N-nitrosoguanidine (NTG) | Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis | 731(45659) 64-67 |
| 2012 | 10.1007/s00425-012-1592-3 | Harholt, J., J. K. Jensen, Y. Verhertbruggen, C. Søgaard, S. Bernard, M. Nafisi, C. P. Poulsen, N. Geshi, Y. Sakuragi, A. Driouich, J. P. Knox and H. V. Scheller | ARAD proteins associated with pectic Arabinan biosynthesis form complexes when transiently overexpressed in planta | Planta | 236(1) 115-128 |
| 2012 | 10.1007/s00253-012-3968-5 | Haft, R. J. F., J. G. Gardner and D. H. Keating | Quantitative colorimetric measurement of cellulose degradation under microbial culture conditions | Applied Microbiology and Biotechnology | 94(1) 223-229 |
| 2012 | 10.1021/jp3084293 | Guo, H. B., F. He, B. Gu, L. Liang and J. C. Smith | Time-dependent density functional theory assessment of UV absorption of benzoic acid derivatives | Journal of Physical Chemistry A | 116(48) 11870–9 |
| 2012 | 10.1063/1.4730658 | Guo, H. | Narrowing the Gap in Understanding Protein Structure and Function through Computer Simulations | AIP Conference Proceedings | 1456(1) 180–6 |
| 2012 | 10.1093/ae/58.3.172 | Grieshop, M. J., B. P. Werling, K. Buehrer, J. Perrone, R. Isaacs and D. Landis | Big Brother is Watching: Studying Insect Predation in the Age of Digital Surveillance | American Entomologist | 58(3) 172-182 |
| 2012 | 10.1166/jnn.2012.5713 | Gong, Z., Y. H. Tseng, Y. He and L. Que | Studies of self-reciprocating characteristic of carbon nanotube film-based cantilevers under light and thermal radiation | Journal of Nanoscience and Nanotechnology | 12(1) 350–5 |
| 2012 | 10.1353/pbm.2012.0040 | Glass, J. I. | Synthetic genomics and the construction of a synthetic bacterial cell | Perspectives in Biology and Medicine | 55(4) 473–89 |
| 2012 | 10.1021/bm300460f | Glass, D. C., K. Moritsugu, X. Cheng and J. C. Smith | REACH coarse-grained simulation of a cellulose fiber | Biomacromolecules | 13(9) 2634–44 |
| 2012 | 10.1007/s12155-011-9134-6 | Garlock, R. J., Y. S. Wong, V. Balan and B. E. Dale | AFEX pretreatment and enzymatic conversion of black locust (Robinia pseudoacacia L.) to soluble sugars | Bioenergy Research | 5(2) 306-318 |
| 2012 | 10.1016/j.biombioe.2011.12.036 | Garlock, R. J., B. Bals, P. Jasrotia, V. Balan and B. E. Dale | Influence of variable species composition on the saccharification of AFEX™ pretreated biomass from unmanaged fields in comparison to corn stover | Biomass and Bioenergy | 37 49-59 |
| 2012 | 10.1007/s10529-011-0742-1 | Gardner, J. G., L. A. Zeitler, W. J. S. Wigstrom, K. C. Engel and D. H. Keating | A high-throughput solid phase screening method for identification of lignocellulose-degrading bacteria from environmental isolates | Biotechnology Letters | 34(1) 81-89 |
| 2012 | 10.1016/B978-0-12-415931-0.00018-5 | Gardner, J. G. and D. H. Keating | Genetic and functional genomic approaches for the study of plant cell wall degradation in cellvibrio japonicus | Methods in Enzymology | 510 331-347 |
| 2012 | 10.1371/journal.pone.0044467 | Frost, C. J., B. Nyamdari, C. J. Tsai and S. A. Harding | The tonoplast-localized sucrose transporter in Populus (PtaSUT4) regulates whole-plant water relations, responses to water stress, and photosynthesis | PLoS One | 7(8) e44467 |
| 2012 | 10.1007/s11306-011-0344-x | Fischer, C. R., P. Wilmes, B. P. Bowen, T. R. Northen and J. F. Banfield | Deuterium-exchange metabolomics identifies N-methyl lyso phosphatidylethanolamines as abundant lipids in acidophilic mixed microbial communities | Metabolomics | 8(4) 566–78 |
| 2012 | 10.1016/j.tplants.2012.02.005 | Fernie, A. R., T. Obata, A. E. Allen, W. L. Araujo and C. Bowler | Leveraging metabolomics for functional investigations in sequenced marine diatoms | Trends in Plant Science | 17(7) 395–403 |
| 2012 | 10.1371/journal.pone.0050854 | Fernandes, N., P. Steinberg, D. Rusch, S. Kjelleberg and T. Thomas | Community structure and functional gene profile of bacteria on healthy and diseased thalli of the red seaweed Delisea pulchra | PLoS One | 7(12) e50854 |
| 2012 | 10.1371/journal.pone.0044112 | Ersoz, E. S., M. H. Wright, J. L. Pangilinan, M. J. Sheehan, C. Tobias, M. D. Casler, E. S. Buckler and D. E. Costich | SNP discovery with EST and NextGen sequencing in switchgrass (Panicum virgatum L.) | PLoS One | 7(9) e44112 |
| 2012 | 10.1002/9780470559277.ch110190 | Eroshenko, N., S. Kosuri, A. H. Marblestone, N. Conway and G. M. Church | Gene Assembly from Chip-Synthesized Oligonucleotides | Current Protocols in Chemical Biology | 4 1–17 |
| 2012 | 10.1186/1754-6834-5-59 | Elumalai, S., Y. Tobimatsu, J. H. Grabber, X. Pan and J. Ralph | Epigallocatechin gallate incorporation into lignin enhances the alkaline delignification and enzymatic saccharification of cell walls | Biotechnology for Biofuels | 5 |
| 2012 | 10.1038/ismej.2011.189 | Dupont, C. L., D. B. Rusch, S. Yooseph, M. J. Lombardo, R. A. Richter, et al. | Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage | The ISME Journal | 6(6) 1186–99 |
| 2012 | 10.1016/B978-0-12-394423-8.00001-9 | Dufour, Y. S. and T. J. Donohue | Signal correlations in ecological niches can shape the organization and evolution of bacterial gene regulatory networks | Advances in Microbial Physiology | 61 1–36 |
| 2012 | 10.1186/1471-2105-13-113 | Deng, Y., Y. H. Jiang, Y. Yang, Z. He, F. Luo and J. Zhou | Molecular ecological network analyses | BMC Bioinformatics | 13 113 |
| 2012 | 10.1128/AEM.06924-11 | Deng, Y., Z. He, M. Xu, Y. Qin, J. D. Van Nostrand, L. Wu, B. A. Roe, G. Wiley, S. E. Hobbie, P. B. Reich and J. Zhou | Elevated carbon dioxide alters the structure of soil microbial communities | Applied and Environmental Microbiology | 78(8) 2991–5 |
| 2012 | 10.1371/journal.pone.0038333 | Cui, Y., M. Y. Lee, N. Huo, J. Bragg, L. Yan, et al. | Fine mapping of the Bsr1 barley stripe mosaic virus resistance gene in the model grass Brachypodium distachyon | PLoS One | 7(6) e38333 |
| 2012 | 10.1074/jbc.M112.352104 | Crosby, H. A., D. A. Pelletier, G. B. Hurst and J. C. Escalante-Semerena | System-wide studies of N-lysine acetylation in Rhodopseudomonas palustris reveal substrate specificity of protein acetyltransferases | Journal of Biological Chemistry | 287(19) 15590–601 |
| 2012 | 10.1371/journal.pcbi.1002781 | Collins, S. B., E. Reznik and D. Segre | Temporal expression-based analysis of metabolism | PLoS Computational Biology | 8(11) e1002781 |
| 2012 | 10.1016/j.indcrop.2011.07.025 | Chundawat, S. P. S., L. Chang, C. Gunawan, V. Balan, C. McMahan and B. E. Dale | Guayule as a feedstock for lignocellulosic biorefineries using ammonia fiber expansion (AFEX) pretreatment | Industrial Crops and Products | 37(1) 486-492 |
| 2012 | 10.1371/journal.pone.0037674 | Chu, Y., J. Yao and H. Guo | QM/MM MD and free energy simulations of G9a-like protein (GLP) and its mutants: understanding the factors that determine the product specificity | PLoS One | 7(5) e37674 |
| 2012 | 10.1093/database/bar061 | Childs, K. L., K. Konganti and C. R. Buell | The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species | Database | 2012 bar061 |
| 2012 | 10.1039/9781849735049-00087 | Cheng, X., J. M. Parks, L. Petridis, B. Lindner, R. Schulz, H.-B. Guo, G. Srinivas and J. C. Smith | Molecular Simulation in the Energy Biosciences | Innovations in Biomolecular Modeling and Simulations | 1 87–114 |
| 2012 | 10.1007/978-1-62703-050-2_11 | Cheng, X. and I. Ivanov | Molecular Dynamics | Computational Toxicology | 929 243–85 |
| 2012 | 10.1021/bc200667s | Chen, X., S. S. Parelkar, E. Henchey, S. Schneider and T. Emrick | PolyMPC-doxorubicin prodrugs | Bioconjugate Chemistry | 23(9) 1753–63 |
| 2012 | 10.1109/tcbb.2011.113 | Chen, X., X. Hu, T. Y. Lim, X. Shen, E. K. Park and G. L. Rosen | Exploiting the functional and taxonomic structure of genomic data by probabilistic topic modeling | IEEE/ACM Transactions on Computational Biology and Bioinformatics | 9(4) 980–91 |
| 2012 | 10.1080/07352689.2011.616052 | Chen, H., M. J. Stout, Q. Qian and F. Chen | Genetic, Molecular and Genomic Basis of Rice Defense against Insects | Critical Reviews in Plant Sciences | 31(1) 74–91 |
| 2012 | 10.1194/jlr.R021436 | Chapman, K. D., J. M. Dyer and R. T. Mullen | Biogenesis and functions of lipid droplets in plants: Thematic Review Series: Lipid Droplet Synthesis and Metabolism: from Yeast to Man | Journal of Lipid Research | 53(2) 215–26 |
| 2012 | 10.1093/nar/gkr1014 | Caspi, R., T. Altman, K. Dreher, C. A. Fulcher, P. Subhraveti, et al. | The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases | Nucleic Acids Research | 40(D1) D742–53 |
| 2012 | 10.1111/j.1462-2920.2011.02668.x | Caro-Quintero, A. and K. T. Konstantinidis | Bacterial species may exist, metagenomics reveal | Environmental Microbiology | 14(2) 347–55 |
| 2012 | 10.1038/ismej.2011.142 | Burow, L. C., D. Woebken, B. M. Bebout, P. J. McMurdie, S. W. Singer, J. Pett-Ridge, L. Prufert-Bebout, A. M. Spormann, P. K. Weber and T. M. Hoehler | Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay | The ISME Journal | 6(4) 863–74 |
| 2012 | 10.1111/j.1365-2958.2012.08130.x | Burgos, R., G. E. Wood, L. Young, J. I. Glass and P. A. Totten | RecA mediates MgpB and MgpC phase and antigenic variation in Mycoplasma genitalium, but plays a minor role in DNA repair | Molecular Microbiology | 85(4) 669–83 |
| 2012 | 10.1016/j.jbiotec.2011.12.001 | Brune, I., S. Götker, J. Schneider, D. A. Rodionov and A. Tauch | Negative transcriptional control of biotin metabolism genes by the TetR-type regulator BioQ in biotin-auxotrophic Corynebacterium glutamicum ATCC 13032 | Journal of Biotechnology | 159(3) 225-234 |
| 2012 | 10.1128/JB.01243-12 | Brown, S. D., S. M. Utturkar, D. M. Klingeman, C. M. Johnson, S. L. Martin, M. L. Land, T. Y. Lu, C. W. Schadt, M. J. Doktycz and D. A. Pelletier | Twenty-one genome sequences from Pseudomonas species and 19 genome sequences from diverse bacteria isolated from the rhizosphere and endosphere of Populus deltoides | Journal of Bacteriology | 194(21) 5991–3 |
| 2012 | 10.1128/JB.00198-12 | Brown, S. D., D. M. Klingeman, T. Y. Lu, C. M. Johnson, S. M. Utturkar, M. L. Land, C. W. Schadt, M. J. Doktycz and D. A. Pelletier | Draft genome sequence of Rhizobium sp. strain PDO1-076, a bacterium isolated from Populus deltoides | Journal of Bacteriology | 194(9) 2383–4 |
| 2012 | 10.1007/s10858-011-9576-3 | Brothers, M. C., A. E. Nesbitt, M. J. Hallock, S. G. Rupasinghe, M. Tang, J. Harris, J. Baudry, M. A. Schuler and C. M. Rienstra | VITAL NMR: using chemical shift derived secondary structure information for a limited set of amino acids to assess homology model accuracy | Journal of Biomolecular NMR | 52(1) 41–56 |
| 2012 | 10.1186/1471-2164-13-533 | Broadbent, J. R., E. C. Neeno-Eckwall, B. Stahl, K. Tandee, H. Cai, W. Morovic, P. Horvath, J. Heidenreich, N. T. Perna, R. Barrangou and J. L. Steele | Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation | BMC Genomics | 13(1) |
| 2012 | 10.1371/journal.pone.0041916 | Bragg, J. N., J. Wu, S. P. Gordon, M. E. Guttman, R. Thilmony, G. R. Lazo, Y. Q. Gu and J. P. Vogel | Generation and characterization of the Western Regional Research Center Brachypodium T-DNA insertional mutant collection | PLoS One | 7(9) e41916 |
| 2012 | 10.1002/cssc.201100748 | Bond, D. R., S. M. Strycharz-Glaven, L. M. Tender and C. I. Torres | On electron transport through Geobacter biofilms | ChemSusChem | 5(6) 1099–105 |
| 2012 | 10.1371/journal.pone.0042116 | Blanchette, C., C. I. Lacayo, N. O. Fischer, M. Hwang and M. P. Thelen | Enhanced cellulose degradation using cellulase-nanosphere complexes | PLoS One | 7(8) e42116 |
| 2012 | 10.1209/0295-5075/97/38004 | Biswas, M., T. Wocjan, J. Langowski and J. C. Smith | DNA bending potentials for loop-mediated nucleosome repositioning | Europhysics Letters | 97(3) |
| 2012 | 10.1073/pnas.1201731109 | Bertrand, E. M., A. E. Allen, C. L. Dupont, T. M. Norden-Krichmar, J. Bai, R. E. Valas and M. A. Saito | Influence of cobalamin scarcity on diatom molecular physiology and identification of a cobalamin acquisition protein | Proceedings of the National Academy of Sciences of the United States of America | 109(26) E1762–71 |
| 2012 | 10.3389/fmicb.2012.00375 | Bertrand, E. M. and A. E. Allen | Influence of vitamin B auxotrophy on nitrogen metabolism in eukaryotic phytoplankton | Frontiers in Microbiology | 3 375 |
| 2012 | 10.1104/pp.112.204164 | Berim, A., D. C. Hyatt and D. R. Gang | A set of regioselective O-methyltransferases gives rise to the complex pattern of methoxylated flavones in sweet basil | Plant Physiology | 160(2) 1052–69 |
| 2012 | 10.1002/jcc.22993 | Berezniak, T., A. Jaschke, J. C. Smith and P. Imhof | Stereoselection in the Diels-Alderase ribozyme: a molecular dynamics study | Journal of Computational Chemistry | 33(19) 1603–14 |
| 2012 | 10.1038/nbt.2196 | Bennetzen, J. L., J. Schmutz, H. Wang, R. Percifield, J. Hawkins, et al. | Reference genome sequence of the model plant Setaria | Nature Biotechnology | 30(6) 555–61 |
| 2012 | 10.1007/978-1-4471-2903-5_7 | Balan, V., S. Kumar, B. Bals, S. Chundawat, M. Jin and B. Dale | Biochemical and thermochemical conversion of switchgrass to biofuels | Green Energy and Technology | 94 153-185 |
| 2012 | 10.1093/mp/sss054 | Baker, R. F., K. A. Leach and D. M. Braun | SWEET as sugar: new sucrose effluxers in plants | Molecular Plant | 5(4) 766–8 |
| 2012 | 10.1371/journal.pone.0048053 | Aziz, R. K., S. Devoid, T. Disz, R. A. Edwards, C. S. Henry, G. J. Olsen, R. Olson, R. Overbeek, B. Parrello, G. D. Pusch, R. L. Stevens, V. Vonstein and F. Xia | SEED Servers: High-Performance Access to the SEED Genomes, Annotations, and Metabolic Models | PLoS ONE | 7(10) |
| 2012 | 10.1038/ismej.2012.10 | Aylward, F. O., K. E. Burnum, J. J. Scott, G. Suen, S. G. Tringe, et al. | Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens | ISME Journal | 6(9) 1688-1701 |
| 2012 | 10.1186/1754-6834-5-55 | Asztalos, A., M. Daniels, A. Sethi, T. Shen, P. Langan, A. Redondo and S. Gnanakaran | A coarse-grained model for synergistic action of multiple enzymes on cellulose | Biotechnology for Biofuels | 5(1) 55 |
| 2012 | 10.1016/j.copbio.2011.12.005 | Ashworth, J., E. J. Wurtmann and N. S. Baliga | Reverse engineering systems models of regulation: discovery, prediction and mechanisms | Current Opinion in Biotechnology | 23(4) 598–603 |
| 2012 | 10.1073/pnas.1120595109 | Arbing, M. A., S. Chan, A. Shin, T. Phan, C. J. Ahn, L. Rohlin and R. P. Gunsalus | Structure of the surface layer of the methanogenic archaean Methanosarcina acetivorans | Proceedings of the National Academy of Sciences of the United States of America | 109(29) 11812–7 |
| 2012 | 10.1093/nar/gks864 | Antunes, A., E. Camiade, M. Monot, E. Courtois, F. Barbut, N. V. Sernova, D. A. Rodionov, I. Martin-Verstraete and B. Dupuy | Global transcriptional control by glucose and carbon regulator CcpA in Clostridium difficile | Nucleic Acids Research | 40(21) 10701-10718 |
| 2012 | 10.1128/AEM.02214-12 | Al-Hinai, M. A., A. G. Fast and E. T. Papoutsakis | Novel system for efficient isolation of Clostridium double-crossover allelic exchange mutants enabling markerless chromosomal gene deletions and DNA integration | Applied and Environmental Microbiology | 78(22) 8112–21 |
| 2012 | 10.1016/j.ymben.2012.08.003 | Agnew, D. E., A. K. Stevermer, J. Youngquist and B. F. Pfleger | Engineering Escherichia coli for production of C12-C14 polyhydroxyalkanoate from glucose | Metabolic Engineering | 14(6) 705-713 |
| 2013 | 10.1039/c3ra42818d | Zhu, Y. M., M. Regner, F. C. Lu, H. Kim, A. Mohammadi, T. J. Pearson and J. Ralph | Preparation of monolignol γ-acetate, γ-p-hydroxycinnamate, and γ-p-hydroxybenzoate conjugates: selective deacylation of phenolic acetates with hydrazine acetate | RSC Advances | 3(44) 21964–71 |
| 2013 | 10.1007/s00425-013-1858-4 | Zhu, R., O. Shevchenko, C. Ma, S. Maury, M. Freitag and S. H. Strauss | Poplars with a PtDDM1-RNAi transgene have reduced DNA methylation and show aberrant post-dormancy morphology | Planta | 237(6) 1483–93 |
| 2013 | 10.1186/1471-2105-14-278 | Zhu, M., J. L. Dahmen, G. Stacey and J. Cheng | Predicting gene regulatory networks of soybean nodulation from RNA-Seq transcriptome data | BMC Bioinformatics | 14 278 |
| 2013 | 10.1128/mBio.00324-13 | Zhou, J., Y. H. Jiang, Y. Deng, Z. Shi, B. Y. Zhou, K. Xue, L. Wu, Z. He and Y. Yang | Random sampling process leads to overestimation of β-diversity of microbial communities | mBio | 4(3) e00324-13 |
| 2013 | 10.1021/es4018656 | Zhou, A., Z. He, Y. Qin, Z. Lu, Y. Deng, Q. Tu, C. L. Hemme, J. D. Van Nostrand, L. Wu, T. C. Hazen, A. P. Arkin and J. Zhou | StressChip as a high-throughput tool for assessing microbial community responses to environmental stresses | Environmental Science & Technology | 47(17) 9841–9 |
| 2013 | 10.1073/pnas.1312234110 | Zhao, Q., Y. Tobimatsu, R. Zhou, S. Pattathil, L. Gallego-Giraldo, C. Fu, L. A. Jackson, M. G. Hahn, H. Kim, F. Chen, J. Ralph and R. A. Dixon | Loss of function of cinnamyl alcohol dehydrogenase 1 leads to unconventional lignin and a temperature-sensitive growth defect in Medicago truncatula | Proceedings of the National Academy of Sciences of the United States of America | 110(33) 13660–5 |
| 2013 | 10.1016/j.phytochem.2013.06.014 | Zhao, N., J. Yao, M. Chaiprasongsuk, G. Li, J. Guan, T. J. Tschaplinski, H. Guo and F. Chen | Molecular and biochemical characterization of the jasmonic acid methyltransferase gene from black cottonwood (Populus trichocarpa) | Phytochemistry | 94 74–81 |
| 2013 | 10.1080/07352689.2013.789648 | Zhao, N., G. D. Wang, A. Norris, X. L. Chen and F. Chen | Studying Plant Secondary Metabolism in the Age of Genomics | Critical Reviews in Plant Sciences | 32(6) 369–82 |
| 2013 | 10.4161/psb.27325 | Zhao, C. and E. Beers | Alternative splicing of Myb-related genes MYR1 and MYR2 may modulate activities through changes in dimerization, localization, or protein folding | Plant Signaling & Behavior | 8(11) e27325 |
| 2013 | 10.1016/j.scitotenv.2013.06.056 | Zhang, X., R. C. Izaurralde, J. G. Arnold, J. R. Williams and R. Srinivasan | Modifying the Soil and Water Assessment Tool to simulate cropland carbon flux: Model development and initial evaluation | Science of the Total Environment | 463-464 810-822 |
| 2013 | 10.1016/j.envsoft.2013.03.013 | Zhang, X., P. Beeson, R. Link, D. Manowitz, R. C. Izaurralde, A. Sadeghi, A. M. Thomson, R. Sahajpal, R. Srinivasan and J. G. Arnold | Efficient multi-objective calibration of a computationally intensive hydrologic model with parallel computing software in Python | Environmental Modelling and Software | 46 208-218 |
| 2013 | 10.1016/j.agrformet.2013.07.015 | Zenone, T., I. Gelfand, J. Chen, S. K. Hamilton and G. P. Robertson | From set-aside grassland to annual and perennial cellulosic biofuel crops: Effects of land use change on carbon balance | Agricultural and Forest Meteorology | 182-183 45669 |
| 2013 | 10.1890/12-2018.1 | Zeglin, L. H., P. J. Bottomley, A. Jumpponen, C. W. Rice, M. Arango, A. Lindsley, A. McGowan, P. Mfombep and D. D. Myrold | Altered precipitation regime affects the function and composition of soil microbial communities on multiple time scales | Ecology | 94(10) 2334–45 |
| 2013 | 10.1016/j.ymben.2013.10.006 | Youngquist, J. T., M. H. Schumacher, J. P. Rose, T. C. Raines, M. C. Politz, M. F. Copeland and B. F. Pfleger | Production of medium chain length fatty alcohols from glucose in Escherichia coli | Metabolic Engineering | 20 177-186 |
| 2013 | 10.1007/s00253-013-4911-0 | Youngquist, J. T., J. P. Rose and B. F. Pfleger | Free fatty acid production in Escherichia coli under phosphate-limited conditions | Applied Microbiology and Biotechnology | 97(11) 5149–59 |
| 2013 | 10.1101/gr.153916.112 | Yoon, S. H., S. Turkarslan, D. J. Reiss, M. Pan, J. A. Burn, K. C. Costa, T. J. Lie, J. Slagel, R. L. Moritz, M. Hackett, J. A. Leigh and N. S. Baliga | A systems level predictive model for global gene regulation of methanogenesis in a hydrogenotrophic methanogen | Genome Research | 23(11) 1839–51 |
| 2013 | 10.1038/ncomms3833 | Yoo, H., J. R. Widhalm, Y. Qian, H. Maeda, B. R. Cooper, A. S. Jannasch, I. Gonda, E. Lewinsohn, D. Rhodes and N. Dudareva | An alternative pathway contributes to phenylalanine biosynthesis in plants via a cytosolic tyrosine:phenylpyruvate aminotransferase | Nature Communications | 4 2833 |
| 2013 | 10.1007/s12155-012-9247-6 | Yelle, D. J., P. Kaparaju, C. G. Hunt, K. Hirth, H. Kim, J. Ralph and C. Felby | Two-dimensional NMR evidence for cleavage of lignin and xylan substituents in wheat straw through hydrothermal pretreatment and enzymatic hydrolysis | Bioenergy Research | 6(1) 211-221 |
| 2013 | 10.1111/tpj.12073 | Ye, C. Y., T. Li, H. Yin, D. J. Weston, G. A. Tuskan, T. J. Tschaplinski and X. Yang | Evolutionary analyses of non-family genes in plants | The Plant Journal | 73(5) 788–97 |
| 2013 | 10.1080/08927022.2012.714467 | Yao, J., Q. Xu and H. Guo | QM/MM and free-energy simulations of deacylation reaction catalysed by sedolisin, a serine-carboxyl peptidase | Molecular Simulation | 39(3) 206–13 |
| 2013 | 10.1002/chem.201301310 | Yao, J., A. Wlodawer and H. Guo | Understanding the autocatalytic process of pro-kumamolisin activation from molecular dynamics and quantum mechanical/molecular mechanical (QM/MM) free-energy simulations | Chemistry | 19(33) 10849–52 |
| 2013 | 10.1111/gcb.12065 | Yang, Y., L. Wu, Q. Lin, M. Yuan, D. Xu, H. Yu, Y. Hu, J. Duan, X. Li, Z. He, K. Xue, J. van Nostrand, S. Wang and J. Zhou | Responses of the functional structure of soil microbial community to livestock grazing in the Tibetan alpine grassland | Global Change Biology | 19(2) 637–48 |
| 2013 | 10.3389/fmicb.2013.00070 | Yang, S., J. B. Matsen, M. Konopka, A. Green-Saxena, J. Clubb, M. Sadilek, V. J. Orphan, D. Beck and M. G. Kalyuzhnaya | Global Molecular Analyses of Methane Metabolism in Methanotrophic Alphaproteobacterium, Methylosinus trichosporium OB3b. Part II. Metabolomics and 13C-Labeling Study | Frontiers in Microbiology | 4 70 |
| 2013 | 10.1016/j.chroma.2013.08.059 | Yang, S., J. C. Hoggard, M. E. Lidstrom and R. E. Synovec | Comprehensive discovery of 13C labeled metabolites in the bacterium Methylobacterium extorquens AM1 using gas chromatography-mass spectrometry | Journal of Chromatography A | 1317 175–85 |
| 2013 | 10.1002/bit.24958 | Yang, D., J. M. Moran-Mirabal, J. Y. Parlange and L. P. Walker | Investigation of the porous structure of cellulosic substrates through confocal laser scanning microscopy | Biotechnology and Bioengineering | 110(11) 2836–45 |
| 2013 | 10.1038/msb.2013.21 | Xu, Y. F., F. Letisse, F. Absalan, W. Lu, E. Kuznetsova, G. Brown, A. A. Caudy, A. F. Yakunin, J. R. Broach and J. D. Rabinowitz | Nucleotide degradation and ribose salvage in yeast | Molecular Systems Biology | 9 665 |
| 2013 | 10.1186/1471-2180-13-124 | Xu, M., Z. He, Y. Deng, L. Wu, J. D. van Nostrand, S. E. Hobbie, P. B. Reich and J. Zhou | Elevated CO2 influences microbial carbon and nitrogen cycling | BMC Microbiology | 13 124 |
| 2013 | 10.1155/2013/423189 | Wu, X., J. Wu, Y. Luo, J. Bragg, O. Anderson, J. Vogel and Y. Q. Gu | Phylogenetic, Molecular, and Biochemical Characterization of Caffeic Acid o-Methyltransferase Gene Family in Brachypodium distachyon | International Journal of Plant Genomics | 2013 423189 |
| 2013 | 10.1002/biot.201200276 | Wasylenko, T. M. and G. Stephanopoulos | Kinetic isotope effects significantly influence intracellular metabolite 13C labeling patterns and flux determination | Biotechnology Journal | 8(9) 1080–9 |
| 2013 | 10.1016/j.jmr.2013.04.013 | Warshaviak, D. T., V. V. Khramtsov, D. Cascio, C. Altenbach and W. L. Hubbell | Structure and dynamics of an imidazoline nitroxide side chain with strongly hindered internal motion in proteins | Journal of Magnetic Resonance | 232 53-61 |
| 2013 | 10.1093/bioinformatics/btt329 | Wang, Y., T. H. Ahn, Z. Li and C. Pan | Sipros/ProRata: a versatile informatics system for quantitative community proteomics | Bioinformatics | 29(16) 2064–5 |
| 2013 | 10.1002/anie.201305075 | Wang, X., T. Yang, X. Cheng and Q. Shen | Enantioselective electrophilic trifluoromethylthiolation of β-ketoesters: a case of reactivity and selectivity bias for organocatalysis | Angewandte Chemie International Edition | 52(49) 12860–4 |
| 2013 | 10.1186/1752-0509-7-120 | Wang, Q., K. P. Venkataramanan, H. Huang, E. T. Papoutsakis and C. H. Wu | Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress | BMC Systems Biology | 7 120 |
| 2013 | 10.1128/mBio.00592-13 | Wang, Q., J. F. Quensen, 3rd, J. A. Fish, T. K. Lee, Y. Sun, J. M. Tiedje and J. R. Cole | Ecological patterns of nifH genes in four terrestrial climatic zones explored with targeted metagenomics using FrameBot, a new informatics tool | mBio | 4(5) e00592-13 |
| 2013 | 10.1371/journal.pone.0064929 | Wang, J., L. Chen, Y. Wang, J. Zhang, Y. Liang and D. Xu | A computational systems biology study for understanding salt tolerance mechanism in rice | PLoS One | 8(6) e64929 |
| 2013 | 10.1016/B978-0-12-394430-6.00017-0 | Wang, H. H., M. T. Mee and G. M. Church | Applications of Engineered Synthetic Ecosystems | Synthetic Biology | 317-325 |
| 2013 | 10.1007/s11103-012-9985-z | Wagner, A., Y. Tobimatsu, G. Goeminne, L. Phillips, H. Flint, D. Steward, K. Torr, L. Donaldson, W. Boerjan and J. Ralph | Suppression of CCR impacts metabolite profile and cell wall composition in Pinus radiata tracheary elements | Plant Molecular Biology | 81(45659) 105-117 |
| 2013 | 10.1103/PhysRevE.88.052706 | Vural, D., L. Hong, J. C. Smith and H. R. Glyde | Long-time mean-square displacements in proteins | Physical Review E | 88(5) 052706 |
| 2013 | 10.1002/biot.201200315 | Vu, T. T., E. A. Hill, L. A. Kucek, A. E. Konopka, A. S. Beliaev and J. L. Reed | Computational evaluation of Synechococcus sp. PCC 7002 metabolism for chemical production | Biotechnology Journal | 8(5) 619–30 |
| 2013 | 10.1007/978-1-4419-5947-8_17 | Vermerris, W. and A. Saballos | Genetic enhancement of sorghum for biomass utilization | Genomics of the Saccharinae | 11 391–425 |
| 2013 | 10.1002/9781118297674.ch47 | Veneault-Fourrey, C., J. M. Plett and F. Martin | Who is Controlling whom within the Ectomycorrhizal Symbiosis: Insights from Genomic and Functional Analyses | Molecular Microbial Ecology of the Rhizosphere | 501–12 |
| 2013 | 10.3852/12-094 | Urbina, H., R. Frank and M. Blackwell | Scheffersomyces cryptocercus: a new xylose-fermenting yeast associated with the gut of wood roaches and new combinations in the Sugiyamaella yeast clade | Mycologia | 105(3) 650–60 |
| 2013 | 10.5248/123.233 | Urbina, H. and M. Blackwell | New combinations, Scheffersomyces amazonensis and S. ergatensis | Mycotaxon | 123 233–4 |
| 2013 | 10.1098/rsob.120186 | Urano, D., J. G. Chen, J. R. Botella and A. M. Jones | Heterotrimeric G protein signalling in the plant kingdom | Open Biology | 3(3) 120186 |
| 2013 | 10.1111/tpj.12299 | Tobimatsu, Y., A. Wagner, L. Donaldson, P. Mitra, C. Niculaes, O. Dima, J. I. Kim, N. Anderson, D. Loque, W. Boerjan, C. Chapple and J. Ralph | Visualization of plant cell wall lignification using fluorescence-tagged monolignols | The Plant Journal | 76(3) 357–66 |
| 2013 | 10.1016/j.febslet.2013.02.021 | Tjellström, H., M. Strawsine, J. Silva, E. B. Cahoon and J. B. Ohlrogge | Disruption of plastid acyl:acyl carrier protein synthetases increases medium chain fatty acid accumulation in seeds of transgenic Arabidopsis | FEBS Letters | 587(7) 936-942 |
| 2013 | 10.1073/pnas.1313452110 | Tisserant, E., M. Malbreil, A. Kuo, A. Kohler, A. Symeonidi, et al. | Genome of an arbuscular mycorrhizal fungus provides insight into the oldest plant symbiosis | Proceedings of the National Academy of Sciences of the United States of America | 110(50) 20117–22 |
| 2013 | 10.3389/fpls.2013.00218 | Tanger, P., J. L. Field, C. E. Jahn, M. W. Defoort and J. E. Leach | Biomass for thermochemical conversion: targets and challenges | Frontiers in Plant Science | 4 218 |
| 2013 | 10.1038/srep01030 | Takasuka, T. E., A. J. Book, G. R. Lewin, C. R. Currie and B. G. Fox | Aerobic deconstruction of cellulosic biomass by an insect-associated Streptomyces | Scientific Reports | 3 |
| 2013 | 10.1186/1471-2164-14-597 | Sun, E. I., S. A. Leyn, M. D. Kazanov, M. H. Saier, P. S. Novichkov and D. A. Rodionov | Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1016/j.soilbio.2013.05.007 | Sul, W. J., S. Asuming-Brempong, Q. Wang, D. M. Tourlousse, C. R. Penton, Y. Deng, J. L. M. Rodrigues, S. G. K. Adiku, J. W. Jones, J. Zhou, J. R. Cole and J. M. Tiedje | Tropical agricultural land management influences on soil microbial communities through its effect on soil organic carbon | Soil Biology and Biochemistry | 65 33-38 |
| 2013 | 10.1111/pce.12036 | Sukumar, P., V. Legue, A. Vayssieres, F. Martin, G. A. Tuskan and U. C. Kalluri | Involvement of auxin pathways in modulating root architecture during beneficial plant-microorganism interactions | Plant, Cell & Environment | 36(5) 909–19 |
| 2013 | 10.1523/JNEUROSCI.0539-13.2013 | Su, Y. Y., M. Ye, L. Li, C. Liu, J. Pan, W. W. Liu, Y. Jiang, X. Y. Jiang, X. Zhang, Y. Shu and L. Bao | KIF5B promotes the forward transport and axonal function of the voltage-gated sodium channel Nav1.8 | Journal of Neuroscience | 33(45) 17884-17896 |
| 2013 | 10.1016/j.biombioe.2012.12.017 | Smith, S. L., K. D. Thelen and S. J. MacDonald | Yield and quality analyses of bioenergy crops grown on a regulatory brownfield | Biomass and Bioenergy | 49 123-130 |
| 2013 | 10.1021/ie302478d | Smith, J. D., A. A. Neto, S. Cremaschi and D. W. Crunkleton | CFD-Based Optimization of a Flooded Bed Algae Bioreactor | Industrial & Engineering Chemistry Research | 52(22) 7181–8 |
| 2013 | 10.1016/j.str.2013.11.005 | Smith, J. C. and B. Roux | Eppur si muove! The 2013 Nobel Prize in Chemistry | Structure | 21(12) 2102–5 |
| 2013 | 10.1021/jp402024s | Shen, T., X. Qi and R. B. Nellas | Nucleation dynamics of active particles | Journal of Physical Chemistry B | 117(42) 12844–9 |
| 2013 | 10.1016/j.bmcl.2013.09.009 | Sharma, H., T. W. Sanchez, N. Neamati, M. Detorio, R. F. Schinazi, X. Cheng and J. K. Buolamwini | Synthesis, docking, and biological studies of phenanthrene β-diketo acids as novel HIV-1 integrase inhibitors | Bioorganic & Medicinal Chemistry Letters | 23(22) 6146–51 |
| 2013 | 10.1111/1462-2920.12086 | Shakya, M., C. Quince, J. H. Campbell, Z. K. Yang, C. W. Schadt and M. Podar | Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities | Environmental Microbiology | 15(6) 1882–99 |
| 2013 | 10.1371/journal.pone.0076382 | Shakya, M., N. Gottel, H. Castro, Z. K. Yang, L. Gunter, J. Labbe, W. Muchero, G. Bonito, R. Vilgalys, G. Tuskan, M. Podar and C. W. Schadt | A multifactor analysis of fungal and bacterial community structure in the root microbiome of mature Populus deltoides trees | PLoS One | 8(10) e76382 |
| 2013 | 10.1111/nph.12545 | Selosse, M. A. and F. Martin | Mycorrhizas and New Phytologist: une vraie histoire d'amour | New Phytologist | 200(3) 587–9 |
| 2013 | 10.1016/j.ibiod.2013.04.006 | Schilling, J. S., S. M. Duncan, G. N. Presley, T. R. Filley, J. A. Jurgens and R. A. Blanchette | Colocalizing incipient reactions in wood degraded by the brown rot fungus Postia placenta | International Biodeterioration & Biodegradation | 83 56–62 |
| 2013 | 10.1128/AEM.01417-13 | Schaefer, A. L., C. R. Lappala, R. P. Morlen, D. A. Pelletier, T. Y. Lu, P. K. Lankford, C. S. Harwood and E. P. Greenberg | LuxR- and luxI-type quorum-sensing circuits are prevalent in members of the Populus deltoides microbiome | Applied and Environmental Microbiology | 79(18) 5745–52 |
| 2013 | 10.1007/s00442-012-2577-4 | Schadel, C., Y. Luo, R. David Evans, S. Fei and S. M. Schaeffer | Separating soil CO2 efflux into C-pool-specific decay rates via inverse analysis of soil incubation data | Oecologia | 171(3) 721–32 |
| 2013 | 10.1007/s10570-013-9974-7 | Sawada, D., Y. Nishiyama, L. Petridis, R. Parthasarathi, S. Gnanakaran, V. T. Forsyth, M. Wada and P. Langan | Structure and dynamics of a complex of cellulose with EDA: insights into the action of amines on cellulose | Cellulose | 20(4) 1563–71 |
| 2013 | 10.1371/journal.pone.0073523 | Sathitsuksanoh, N., B. Xu, B. Zhao and Y. H. Zhang | Overcoming biomass recalcitrance by combining genetically modified switchgrass and cellulose solvent-based lignocellulose pretreatment | PLoS One | 8(9) e73523 |
| 2013 | 10.1016/j.soilbio.2013.09.002 | Sanford, G. R. and C. J. Kucharik | Effect of methodological consideration on soil carbon parameter estimates obtained via the acid hydrolysis-incubation method | Soil Biology and Biochemistry | 67 295-305 |
| 2013 | 10.3835/plantgenome2012.06.0007 | Ruzicka, D., S. Chamala, F. H. Barrios-Masias, F. Martin, S. Smith, L. E. Jackson, W. B. Barbazuk and D. P. Schachtman | Inside Arbuscular Mycorrhizal Roots - Molecular Probes to Understand the Symbiosis | Plant Genome | 6(2) |
| 2013 | 10.1128/genomeA.00030-12 | Rusch, D. B., M. J. Lombardo, J. Yee-Greenbaum, M. Novotny, L. M. Brinkac, R. S. Lasken and C. L. Dupont | Draft genome sequence of a single cell of SAR86 clade subgroup IIIa | Genome Announcements | 1(1) |
| 2013 | 10.1016/j.copbio.2012.10.021 | Rubakhin, S. S., E. J. Lanni and J. V. Sweedler | Progress toward single cell metabolomics | Current Opinion in Biotechnology | 24(1) 95–104 |
| 2013 | 10.1016/j.cbpa.2013.03.039 | Rothamer, D. A. and T. J. Donohue | Chemistry and combustion of fit-for-purpose biofuels | Current Opinion in Chemical Biology | 17(3) 522-528 |
| 2013 | 10.1111/1462-2920.12096 | Rodionova, I. A., S. A. Leyn, M. D. Burkart, N. Boucher, K. M. Noll, A. L. Osterman and D. A. Rodionov | Novel inositol catabolic pathway in Thermotoga maritima | Environmental Microbiology | 15(8) 2254–66 |
| 2013 | 10.1371/journal.pcbi.1002882 | Rockwell, G., N. J. Guido and G. M. Church | Redirector: designing cell factories by reconstructing the metabolic objective | PloS Computational Biology | 9(1) e1002882 |
| 2013 | 10.1007/s10533-012-9802-4 | Robertson, G. P., T. W. Bruulsema, R. J. Gehl, D. Kanter, D. L. Mauzerall, C. A. Rotz and C. O. Williams | Nitrogen-climate interactions in US agriculture | Biogeochemistry | 114(45660) 41-70 |
| 2013 | 10.1007/s12155-012-9258-3 | Robertson, B. A., D. A. Landis, T. S. Sillett, E. R. Loomis and R. A. Rice | Perennial Agroenergy Feedstocks as En Route Habitat for Spring Migratory Birds | Bioenergy Research | 6(1) 311-320 |
| 2013 | 10.1021/ct300296k | Riccardi, D., H. B. Guo, J. M. Parks, B. Gu, L. Liang and J. C. Smith | Cluster-Continuum Calculations of Hydration Free Energies of Anions and Group 12 Divalent Cations | Journal of Chemical Theory and Computation | 9(1) 555–69 |
| 2013 | 10.1021/jz401075b | Riccardi, D., H.-B. Guo, J. M. Parks, B. Gu, A. O. Summers, S. M. Miller, L. Liang and J. C. Smith | Why Mercury Prefers Soft Ligands | Journal of Physical Chemistry Letters | 4(14) 2317–22 |
| 2013 | 10.1186/1745-6150-8-7 | Reznik, E., S. Yohe and D. Segrè | Invariance and optimality in the regulation of an enzyme | Biology Direct | 8(1) |
| 2013 | 10.1098/rsif.2013.0087 | Reznik, E., A. Watson and O. Chaudhary | The stubborn roots of metabolic cycles | Journal of The Royal Society Interface | 10(83) 20130087 |
| 2013 | 10.1063/1.4793573 | Reznik, E., T. J. Kaper and D. Segrè | The dynamics of hybrid metabolic-genetic oscillators | Chaos | 23(1) |
| 2013 | 10.1016/j.febslet.2013.07.032 | Reznik, E., O. Chaudhary and D. Segrè | The average enzyme principle | FEBS Letters | 587(17) 2891-2894 |
| 2013 | 10.1038/nature12445 | Reaves, M. L., B. D. Young, A. M. Hosios, Y. F. Xu and J. D. Rabinowitz | Pyrimidine homeostasis is accomplished by directed overflow metabolism | Nature | 500(7461) 237–41 |
| 2013 | 10.1186/1471-2164-14-873 | Ravcheev, D. A., A. Godzik, A. L. Osterman and D. A. Rodionov | Polysaccharides utilization in human gut bacterium Bacteroides thetaiotaomicron: Comparative genomics reconstruction of metabolic and regulatory networks | BMC Genomics | 14(1) |
| 2013 | 10.1186/1471-2164-14-94 | Ravcheev, D. A., A. A. Best, N. V. Sernova, M. D. Kazanov, P. S. Novichkov and D. A. Rodionov | Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1038/ncomms2743 | Qiu, Y., H. Nagarajan, M. Embree, W. Shieu, E. Abate, K. Juarez, B. K. Cho, J. G. Elkins, K. P. Nevin, C. L. Barrett, D. R. Lovley, B. O. Palsson and K. Zengler | Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks | Nature Communications | 4 1755 |
| 2013 | 10.1088/1478-3975/10/2/026005 | Qi, X., R. B. Nellas, M. W. Byrn, M. H. Russell, A. N. Bible, G. Alexandre and T. Shen | Swimming motility plays a key role in the stochastic dynamics of cell clumping | Physical Biology | 10(2) 026005 |
| 2013 | 10.1093/bioinformatics/btt055 | Pronk, S., S. Pall, R. Schulz, P. Larsson, P. Bjelkmar, R. Apostolov, M. R. Shirts, J. C. Smith, P. M. Kasson, D. van der Spoel, B. Hess and E. Lindahl | GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit | Bioinformatics | 29(7) 845–54 |
| 2013 | 10.1186/1745-6150-8-9 | Podar, M., K. S. Makarova, D. E. Graham, Y. I. Wolf, E. V. Koonin and A. L. Reysenbach | Insights into archaeal evolution and symbiosis from the genomes of a nanoarchaeon and its inferred crenarchaeal host from Obsidian Pool, Yellowstone National Park | Biology Direct | 8 9 |
| 2013 | 10.1128/AEM.01702-13 | Penton, C. R., D. St Louis, J. R. Cole, Y. Luo, L. Wu, E. A. Schuur, J. Zhou and J. M. Tiedje | Fungal diversity in permafrost and tallgrass prairie soils under experimental warming conditions | Applied and Environmental Microbiology | 79(22) 7063–72 |
| 2013 | 10.3389/fmicb.2013.00279 | Penton, C. R., T. A. Johnson, J. F. Quensen, 3rd, S. Iwai, J. R. Cole and J. M. Tiedje | Functional genes to assess nitrogen cycling and aromatic hydrocarbon degradation: primers and processing matter | Frontiers in Microbiology | 4 279 |
| 2013 | 10.1371/journal.pone.0069058 | Payne, A. C., M. Andregg, K. Kemmish, M. Hamalainen, C. Bowell, A. Bleloch, N. Klejwa, W. Lehrach, K. Schatz, H. Stark, A. Marblestone, G. Church, C. S. Own and W. Andregg | Molecular threading: mechanical extraction, stretching and placement of DNA molecules from a liquid-air interface | PLoS One | 8(7) e69058 |
| 2013 | 10.1186/1471-2164-14-663 | Patyshakuliyeva, A., E. Jurak, A. Kohler, A. Baker, E. Battaglia, et al. | Carbohydrate utilization and metabolism is highly differentiated in Agaricus bisporus | BMC Genomics | 14 663 |
| 2013 | 10.1111/tpj.12088 | Patel, D., M. Basu, S. Hayes, I. Majlath, F. M. Hetherington, T. J. Tschaplinski and K. A. Franklin | Temperature-dependent shade avoidance involves the receptor-like kinase ERECTA | The Plant Journal | 73(6) 980–92 |
| 2013 | 10.1126/science.1230667 | Parks, J. M., A. Johs, M. Podar, R. Bridou, R. A. Hurt, Jr., et al. | The genetic basis for bacterial mercury methylation | Science | 339(6125) 1332–5 |
| 2013 | 10.1105/tpc.113.111898 | Park, S., S. K. Gidda, C. N. James, P. J. Horn, N. Khuu, D. C. Seay, J. Keereetaweep, K. D. Chapman, R. T. Mullen and J. M. Dyer | The α/β hydrolase CGI-58 and peroxisomal transport protein PXA1 coregulate lipid homeostasis and signaling in Arabidopsis | The Plant Cell | 25(5) 1726–39 |
| 2013 | 10.1186/1471-2164-14-759 | Park, J. J., S. Lechno-Yossef, C. P. Wolk and C. Vieille | Cell-specific gene expression in Anabaena variabilis grown phototrophically, mixotrophically, and heterotrophically | BMC Genomics | 14(1) |
| 2013 | 10.1371/journal.pgen.1003839 | Park, D. M., M. S. Akhtar, A. Z. Ansari, R. Landick and P. J. Kiley | The Bacterial Response Regulator ArcA Uses a Diverse Binding Site Architecture to Regulate Carbon Oxidation Globally | PLoS Genetics | 9(10) |
| 2013 | 10.1007/s00253-012-4423-3 | Paper, J. M., J. S. Scott-Craig, D. Cavalier, A. Faik, R. E. Wiemels, M. S. Borrusch, M. Bongers and J. D. Walton | α-Fucosidases with different substrate specificities from two species of Fusarium | Applied Microbiology and Biotechnology | 97(12) 5371-5380 |
| 2013 | 10.1371/journal.pcbi.1002880 | Pang, W. L., A. Kaur, A. V. Ratushny, A. Cvetkovic, S. Kumar, M. Pan, A. P. Arkin, J. D. Aitchison, M. W. Adams and N. S. Baliga | Metallochaperones regulate intracellular copper levels | PLoS Computational Biology | 9(1) e1002880 |
| 2013 | 10.1038/ncomms3881 | Ortega, D. R., C. Yang, P. Ames, J. Baudry, J. S. Parkinson and I. B. Zhulin | A phenylalanine rotameric switch for signal-state control in bacterial chemoreceptors | Nature Communications | 4 2881 |
| 2013 | 10.1371/journal.pcbi.1003337 | Ortega, D. R., G. Mo, K. Lee, H. Zhou, J. Baudry, F. W. Dahlquist and I. B. Zhulin | Conformational coupling between receptor and kinase binding sites through a conserved salt bridge in a signaling complex scaffold protein | PLoS Computational Biology | 9(11) e1003337 |
| 2013 | 10.1371/journal.pone.0062595 | Orellana, M. V., W. L. Pang, P. M. Durand, K. Whitehead and N. S. Baliga | A role for programmed cell death in the microbial loop | PLoS One | 8(5) e62595 |
| 2013 | 10.1111/1462-2920.12081 | Nuccio, E. E., A. Hodge, J. Pett-Ridge, D. J. Herman, P. K. Weber and M. K. Firestone | An arbuscular mycorrhizal fungus significantly modifies the soil bacterial community and nitrogen cycling during litter decomposition | Environmental Microbiology | 15(6) 1870–81 |
| 2013 | 10.1186/1471-2164-14-745 | Novichkov, P. S., A. E. Kazakov, D. A. Ravcheev, S. A. Leyn, G. Y. Kovaleva, R. A. Sutormin, M. D. Kazanov, W. Riehl, A. P. Arkin, I. Dubchak and D. A. Rodionov | RegPrecise 3.0 - A resource for genome-scale exploration of transcriptional regulation in bacteria | BMC Genomics | 14(1) |
| 2013 | 10.1007/s10021-013-9661-4 | Niu, S. L., R. A. Sherry, X. H. Zhou and Y. Q. Luo | Ecosystem Carbon Fluxes in Response to Warming and Clipping in a Tallgrass Prairie | Ecosystems | 16(6) 948–61 |
| 2013 | 10.1002/jrs.4380 | Nie, B., C. L. He and L. J. Liu | Surface-enhanced Raman scattering within silver-nanoparticle-decorated nanometric apertures | Journal of Raman Spectroscopy | 44(11) 1512–7 |
| 2013 | 10.1021/bi400537z | Nellas, R. B., Q. R. Johnson and T. Shen | Solvent-induced α- to 310-helix transition of an amphiphilic peptide | Biochemistry | 52(40) 7137–44 |
| 2013 | 10.1038/nbt.2655 | Nekrasov, V., B. Staskawicz, D. Weigel, J. D. G. Jones and S. Kamoun | Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided endonuclease | Nature Biotechnology | 31(8) 691-693 |
| 2013 | 10.1016/j.bbagrm.2013.03.005 | Nagarajan, V. K., C. I. Jones, S. F. Newbury and P. J. Green | XRN 5'→3' exoribonucleases: structure, mechanisms and functions | Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms | 1829(45815) 590–603 |
| 2013 | 10.1186/1475-2859-12-118 | Nagarajan, H., M. Sahin, J. Nogales, H. Latif, D. R. Lovley, A. Ebrahim and K. Zengler | Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of Clostridium ljungdahlii | Microbial Cell Factories | 12 118 |
| 2013 | 10.1038/ncomms3809 | Nagarajan, H., M. Embree, A. E. Rotaru, P. M. Shrestha, A. M. Feist, B. O. Palsson, D. R. Lovley and K. Zengler | Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association | Nature Communications | 4 2809 |
| 2013 | 10.1186/1752-0509-7-142 | Mueller, T. J., B. M. Berla, H. B. Pakrasi and C. D. Maranas | Rapid construction of metabolic models for a family of Cyanobacteria using a multiple source annotation workflow | BMC Systems Biology | 7 142 |
| 2013 | 10.1371/journal.pone.0054468 | Muchero, W., M. M. Sewell, P. Ranjan, L. E. Gunter, T. J. Tschaplinski, T. Yin and G. A. Tuskan | Genome anchored QTLs for biomass productivity in hybrid Populus grown under contrasting environments | PLoS One | 8(1) e54468 |
| 2013 | 10.1007/s10482-012-9811-2 | Motaung, T. E., J. Albertyn, J. L. Kock, C. F. Lee, S. O. Suh, M. Blackwell and C. H. Pohl | Trichosporon vanderwaltii sp. nov., an asexual basidiomycetous yeast isolated from soil and beetles | Antonie Van Leeuwenhoek | 103(2) 313–9 |
| 2013 | 10.1007/s10570-013-0018-0 | Mostofian, B., J. C. Smith and X. Cheng | Simulation of a cellulose fiber in ionic liquid suggests a synergistic approach to dissolution | Cellulose | 21(2) 983–97 |
| 2013 | 10.1140/epje/i2013-13072-5 | Miao, Y., L. Hong, Z. Yi and J. C. Smith | Zaccai neutron resilience and site-specific hydration dynamics in a globular protein | The European Physical Journal E | 36(7) 72 |
| 2013 | 10.1016/j.str.2013.02.008 | Miallau, L., P. Jain, M. A. Arbing, D. Cascio, T. Phan, C. J. Ahn, S. Chan, I. Chernishof, M. Maxson, J. Chiang, W. R. Jacobs Jr and D. S. Eisenberg | Comparative proteomics identifies the cell-associated lethality of M. tuberculosis RelBE-like toxin-antitoxin complexes | Structure | 21(4) 627-637 |
| 2013 | 10.1007/s10841-012-9523-y | Meehan, T. D., J. Glassberg and C. Gratton | Butterfly community structure and landscape composition in agricultural landscapes of the central United States | Journal of Insect Conservation | 17(2) 411-419 |
| 2013 | 10.1016/j.geoderma.2012.07.025 | Mayes, M., S. Jagadamma, H. Ambaye, L. Petridis and V. Lauter | Neutron reflectometry reveals the internal structure of organic compounds deposited on aluminum oxide | Geoderma | 192 182–8 |
| 2013 | 10.1111/j.1574-6941.12000.x | Mayali, X., P. K. Weber and J. Pett-Ridge | Taxon-specific C/N relative use efficiency for amino acids in an estuarine community | FEMS Microbiology Ecology | 83(2) 402–12 |
| 2013 | 10.1534/g3.112.005207 | Mauro-Herrera, M., X. Wang, H. Barbier, T. P. Brutnell, K. M. Devos and A. N. Doust | Genetic control and comparative genomic analysis of flowering time in Setaria (Poaceae) | G3 Genes|Genomes|Genetics | 3(2) 283–95 |
| 2013 | 10.3389/fmicb.2013.00040 | Matsen, J. B., S. Yang, L. Y. Stein, D. Beck and M. G. Kalyuzhnaya | Global molecular analyses of methane metabolism in Methanotrophic alphaproteobacterium, methylosinus trichosporium OB3b. Part I: Transcriptomic study | Frontiers in Microbiology | 4(APR) |
| 2013 | 10.1371/journal.pone.0080640 | Matos, D. A., I. P. Whitney, M. J. Harrington and S. P. Hazen | Cell walls and the developmental anatomy of the Brachypodium distachyon stem internode | PLoS One | 8(11) e80640 |
| 2013 | 10.1038/nmeth.2596 | Martin, M. C., C. Dabat-Blondeau, M. Unger, J. Sedlmair, D. Y. Parkinson, H. A. Bechtel, B. Illman, J. M. Castro, M. Keiluweit, D. Buschke, B. Ogle, M. J. Nasse and C. J. Hirschmugl | 3D spectral imaging with synchrotron Fourier transform infrared spectro-microtomography | Nature Methods | 10(9) 861–4 |
| 2013 | 10.1002/9781118735893.ch8 | Martin, F. and A. Kohler | The Mycorrhizal Symbiosis Genomics | The Ecological Genomics of Fungi | 169–89 |
| 2013 | 10.1038/nmeth.2649 | Mali, P., K. M. Esvelt and G. M. Church | Cas9 as a versatile tool for engineering biology | Nature Methods | 10(10) 957–63 |
| 2013 | 10.1038/nbt.2675 | Mali, P., J. Aach, P. B. Stranges, K. M. Esvelt, M. Moosburner, S. Kosuri, L. Yang and G. M. Church | CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering | Nature Biotechnology | 31(9) 833–8 |
| 2013 | 10.1016/B978-0-12-407863-5.00023-X | Luo, C., L. M. Rodriguez-R and K. T. Konstantinidis | A user's guide to quantitative and comparative analysis of metagenomic datasets | Methods in Enzymology | 531 525-547 |
| 2013 | 10.1371/journal.pgen.1003215 | Lu, F., A. E. Lipka, J. Glaubitz, R. Elshire, J. H. Cherney, M. D. Casler, E. S. Buckler and D. E. Costich | Switchgrass genomic diversity, ploidy, and evolution: novel insights from a network-based SNP discovery protocol | PLoS Genetics | 9(1) e1003215 |
| 2013 | 10.1063/1.4824070 | Lindner, B., Z. Yi, J. H. Prinz, J. C. Smith and F. Noe | Dynamic neutron scattering from conformational dynamics. I. Theory and Markov models | Journal of Chemical Physics | 139(17) 175101 |
| 2013 | 10.1021/bm400442n | Lindner, B., L. Petridis, R. Schulz and J. C. Smith | Solvent-driven preferential association of lignin with regions of crystalline cellulose in molecular dynamics simulation | Biomacromolecules | 14(10) 3390–8 |
| 2013 | 10.1016/j.soilbio.2012.09.006 | Liang, C., D. S. Duncan, T. C. Balser, J. M. Tiedje and R. D. Jackson | Soil microbial residue storage linked to soil legacy under biofuel cropping systems in southern Wisconsin, USA | Soil Biology and Biochemistry | 57 939-942 |
| 2013 | 10.1007/s10570-013-0011-7 | Lian, P., H.-B. Guo, J. C. Smith, D.-Q. Wei and H. Guo | Catalytic mechanism and origin of high activity of cellulase TmCel12A at high temperature: a quantum mechanical/molecular mechanical study | Cellulose | 21(2) 937–49 |
| 2013 | 10.1186/1754-6834-6-119 | Li, Z., C. H. Chen, E. L. Hegg and D. B. Hodge | Rapid and effective oxidative pretreatment of woody biomass at mild reaction conditions and low oxidant loadings | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1038/ismej.2012.120 | Li, X., Y. Deng, Q. Li, C. Lu, J. Wang, H. Zhang, J. Zhu, J. Zhou and Z. He | Shifts of functional gene representation in wheat rhizosphere microbial communities under elevated ozone | The ISME Journal | 7(3) 660–71 |
| 2013 | 10.1038/nbt.2654 | Li, J. F., J. E. Norville, J. Aach, M. McCormack, D. Zhang, J. Bush, G. M. Church and J. Sheen | Multiplex and homologous recombination-mediated genome editing in Arabidopsis and Nicotiana benthamiana using guide RNA and Cas9 | Nature Biotechnology | 31(8) 688-691 |
| 2013 | 10.1016/j.soilbio.2013.07.008 | Li, D. J., C. Schaedel, M. L. Haddix, E. A. Paul, R. Conant, J. W. Li, J. Z. Zhou and Y. Q. Luo | Differential responses of soil organic carbon fractions to warming: Results from an analysis with data assimilation | Soil Biology and Biochemistry | 67 24–30 |
| 2013 | 10.1111/gcb.12273 | Li, D., X. Zhou, L. Wu, J. Zhou and Y. Luo | Contrasting responses of heterotrophic and autotrophic respiration to experimental warming in a winter annual-dominated prairie | Global Change Biology | 19(11) 3553–64 |
| 2013 | 10.1007/978-3-642-32867-1_2 | Levar, C., J. Rollefson and D. R. Bond | Energetic and molecular constraints on the mechanism of environmental Fe (III) reduction by Geobacter | Microbial Metal Respiration: From Geochemistry to Potential Applications | 29–48 |
| 2013 | 10.1016/j.copbio.2013.02.028 | Lennen, R. M. and B. F. Pfleger | Microbial production of fatty acid-derived fuels and chemicals | Current Opinion in Biotechnology | 24(6) 1044-1053 |
| 2013 | 10.1038/ismej.2013.88 | Lee, Y. J., J. D. van Nostrand, Q. Tu, Z. Lu, L. Cheng, T. Yuan, Y. Deng, M. Q. Carter, Z. He, L. Wu, F. Yang, J. Xu and J. Zhou | The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities | The ISME Journal | 7(10) 1974–84 |
| 2013 | 10.1093/dnares/dst016 | Le, Y., H. Chen, R. Zagursky, J. H. Wu and W. Shao | Thermostable DNA ligase-mediated PCR production of circular plasmid (PPCP) and its application in directed evolution via in situ error-prone PCR | DNA Research | 20(4) 375–82 |
| 2013 | 10.1186/2049-2618-1-2 | Lan, Y., A. Kriete and G. L. Rosen | Selecting age-related functional characteristics in the human gut microbiome | Microbiome | 1(1) 2 |
| 2013 | 10.1126/science.1241459 | Lajoie, M. J., A. J. Rovner, D. B. Goodman, H. R. Aerni, A. D. Haimovich, et al. | Genomically recoded organisms expand biological functions | Science | 342(6156) 357–60 |
| 2013 | 10.1126/science.1241460 | Lajoie, M. J., S. Kosuri, J. A. Mosberg, C. J. Gregg, D. Zhang and G. M. Church | Probing the limits of genetic recoding in essential genes | Science | 342(6156) 361–3 |
| 2013 | 10.1371/journal.pone.0068266 | Lacayo, C. I., M. S. Hwang, S. Y. Ding and M. P. Thelen | Lignin depletion enhances the digestibility of cellulose in cultured xylem cells | PLoS One | 8(7) e68266 |
| 2013 | 10.1073/pnas.1301301110 | Kosuri, S., D. B. Goodman, G. Cambray, V. K. Mutalik, Y. Gao, A. P. Arkin, D. Endy and G. M. Church | Composability of regulatory sequences controlling transcription and translation in Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 110(34) 14024–9 |
| 2013 | 10.1128/AEM.03880-12 | Korripally, P., V. I. Timokhin, C. J. Houtman, M. D. Mozuch and K. E. Hammel | Evidence from Serpula lacrymans that 2,5-dimethoxyhydroquinone Is a lignocellulolytic agent of divergent brown rot basidiomycetes | Applied and Environmental Microbiology | 79(7) 2377–83 |
| 2013 | 10.1111/nph.12160 | Konotchick, T., C. L. Dupont, R. E. Valas, J. H. Badger and A. E. Allen | Transcriptomic analysis of metabolic function in the giant kelp, Macrocystis pyrifera, across depth and season | New Phytologist | 198(2) 398–407 |
| 2013 | 10.4155/bfs.12.87 | Keegstra, K. | Interview with professor Kenneth Keegstra | Biofuels | 4(2) 147-150 |
| 2013 | 10.1093/nar/gks1184 | Kazanov, M. D., X. Li, M. S. Gelfand, A. L. Osterman and D. A. Rodionov | Functional diversification of ROK-family transcriptional regulators of sugar catabolism in the Thermotogae phylum | Nucleic Acids Research | 41(2) 790-803 |
| 2013 | 10.1186/1754-1611-7-30 | Karas, B. J., B. Molparia, J. Jablanovic, W. J. Hermann, Y. C. Lin, et al. | Assembly of eukaryotic algal chromosomes in yeast | Journal of Biological Engineering | 7(1) 30 |
| 2013 | 10.1038/ncomms3785 | Kalyuzhnaya, M. G., S. Yang, O. N. Rozova, N. E. Smalley, J. Clubb, et al. | Highly efficient methane biocatalysis revealed in a methanotrophic bacterium | Nature Communications | 4 2785 |
| 2013 | 10.1016/j.pbi.2013.02.001 | Juenger, T. E. | Natural variation and genetic constraints on drought tolerance | Current Opinion in Plant Biology | 16(3) 274–81 |
| 2013 | 10.1016/j.biortech.2013.08.018 | Jin, M., W. Bothfeld, S. Austin, T. K. Sato, A. La Reau, et al. | Effect of storage conditions on the stability and fermentability of enzymatic lignocellulosic hydrolysate | Bioresource Technology | 147 212-220 |
| 2013 | 10.3791/50527 | Jiang, H., H. Barbier and T. Brutnell | Methods for performing crosses in Setaria viridis, a new model system for the grasses | Journal of Visualized Experiments | (80) |
| 2013 | 10.1186/gb-2013-14-12-r145 | Jeong, D. H., S. A. Schmidt, L. A. Rymarquis, S. Park, M. Ganssmann, et al. | Parallel analysis of RNA ends enhances global investigation of microRNAs and target RNAs of Brachypodium distachyon | Genome Biology | 14(12) R145 |
| 2013 | 10.1007/s12374-013-0213-4 | Jeong, D. H. and P. J. Green | The role of rice microRNAs in abiotic stress responses | Journal of Plant Biology | 56(4) 187–97 |
| 2013 | 10.1002/jcc.23164 | Jenkins, D. D., J. B. Harris, E. E. Howell, R. J. Hinde and J. Baudry | STAAR: statistical analysis of aromatic rings | Journal of Computational Chemistry | 34(6) 518–22 |
| 2013 | 10.1186/1754-6834-6-58 | Jabbour, D., M. S. Borrusch, G. Banerjee and J. D. Walton | Enhancement of fermentable sugar yields by α-xylosidase supplementation of commercial cellulases | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1186/1752-0509-7-89 | Imam, S., D. R. Noguera and T. J. Donohue | Global insights into energetic and metabolic networks in Rhodobacter sphaeroides | BMC Systems Biology | 7 |
| 2013 | 10.1111/1462-2920.12039 | Hunt, C. G., C. J. Houtman, D. C. Jones, P. Kitin, P. Korripally and K. E. Hammel | Spatial mapping of extracellular oxidant production by a white rot basidiomycete on wood reveals details of ligninolytic mechanism | Environmental Microbiology | 15(3) 956–66 |
| 2013 | 10.1103/PhysRevLett.110.028104 | Hong, L., D. C. Glass, J. D. Nickels, S. Perticaroli, Z. Yi, M. Tyagi, H. O'Neill, Q. Zhang, A. P. Sokolov and J. C. Smith | Elastic and conformational softness of a globular protein | Physical Review Letters | 110(2) 028104 |
| 2013 | 10.1007/s12155-013-9335-2 | Hoagland, K. C., M. D. Ruark, M. J. Renz and R. D. Jackson | Agricultural management of switchgrass for fuel quality and thermal energy yield on highly erodible land in the driftless area of Southwest Wisconsin | Bioenergy Research | 6(3) 1012-1021 |
| 2013 | 10.1186/1754-6834-6-40 | Harun, S., V. Balan, M. S. Takriff, O. Hassan, J. Jahim and B. E. Dale | Performance of AFEX™ pretreated rice straw as source of fermentable sugars: The influence of particle size | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1021/bm4011358 | Hansen, R. R., J. P. Hinestrosa, K. R. Shubert, J. L. Morrell-Falvey, D. A. Pelletier, J. M. Messman, S. M. Kilbey, 2nd, B. S. Lokitz and S. T. Retterer | Lectin-functionalized poly(glycidyl methacrylate)-block-poly(vinyldimethyl azlactone) surface scaffolds for high avidity microbial capture | Biomacromolecules | 14(10) 3742–8 |
| 2013 | 10.1111/1462-2920.12080 | Hacquard, S., E. Tisserant, A. Brun, V. Legue, F. Martin and A. Kohler | Laser microdissection and microarray analysis of Tuber melanosporum ectomycorrhizas reveal functional heterogeneity between mantle and Hartig net compartments | Environmental Microbiology | 15(6) 1853–69 |
| 2013 | 10.3852/12-087 | Guevara, G., G. Bonito, J. M. Trappe, E. Cazares, G. Williams, R. A. Healy, C. Schadt and R. Vilgalys | New North American truffles (Tuber spp.) and their ectomycorrhizal associations | Mycologia | 105(1) 194–209 |
| 2013 | 10.1126/science.1241934 | Goodman, D. B., G. M. Church and S. Kosuri | Causes and effects of N-terminal codon bias in bacterial genes | Science | 342(6157) 475–9 |
| 2013 | 10.1103/PhysRevLett.111.127801 | Godec, A., J. C. Smith and F. Merzel | Soft collective fluctuations governing hydrophobic association | Physical Review Letters | 111(12) 127801 |
| 2013 | 10.1021/jp400564q | Glass, D. C., M. Krishnan, J. C. Smith and J. Baudry | Three entropic classes of side chain in a globular protein | Journal of Physical Chemistry B | 117(11) 3127–34 |
| 2013 | 10.4161/psb.27141 | Gidda, S. K., S. C. Watt, J. Collins-Silva, A. Kilaru, V. Arondel, O. Yurchenko, P. J. Horn, C. N. James, D. Shintani, J. B. Ohlrogge, K. D. Chapman, R. T. Mullen and J. M. Dyer | Lipid droplet-associated proteins (LDAPs) are involved in the compartmentalization of lipophilic compounds in plant cells | Plant Signaling and Behavior | 8(11) |
| 2013 | 10.1016/j.bpj.2012.12.052 | Ghattyvenkatakrishna, P. K., E. M. Alekozai, G. T. Beckham, R. Schulz, M. F. Crowley, E. C. Uberbacher and X. Cheng | Initial recognition of a cellodextrin chain in the cellulose-binding tunnel may affect cellobiohydrolase directional specificity | Biophysical Journal | 104(4) 904–12 |
| 2013 | 10.1038/nature11811 | Gelfand, I., R. Sahajpal, X. Zhang, R. C. Izaurralde, K. L. Gross and G. P. Robertson | Sustainable bioenergy production from marginal lands in the US Midwest | Nature | 493(7433) 514-517 |
| 2013 | 10.1007/s11244-013-0113-3 | Gallo, J. M. R., D. M. Alonso, M. A. Mellmer, J. H. Yeap, H. C. Wong and J. A. Dumesic | Production of furfural from lignocellulosic biomass using beta zeolite and biomass-derived solvent | Topics in Catalysis | 56(18-20) 1775-1781 |
| 2013 | 10.1128/JB.00634-13 | Gall, D. L., J. Ralph, T. J. Donohue and D. R. Noguera | Benzoyl coenzyme a pathway-mediated metabolism of meta-hydroxy-aromatic acids in Rhodopseudomonas palustris | Journal of Bacteriology | 195(18) 4112–20 |
| 2013 | 10.3389/fmicb.2013.00291 | Fish, J. A., B. Chai, Q. Wang, Y. Sun, C. T. Brown, J. M. Tiedje and J. R. Cole | FunGene: the functional gene pipeline and repository | Frontiers in Microbiology | 4 291 |
| 2013 | 10.1021/cb400210q | Fischer, C. R., B. P. Bowen, C. Pan, T. R. Northen and J. F. Banfield | Stable-isotope probing reveals that hydrogen isotope fractionation in proteins and lipids in a microbial community are different and species-specific | ACS Chemical Biology | 8(8) 1755–63 |
| 2013 | 10.1128/genomeA.00527-13 | Everroad, R. C., D. Woebken, S. W. Singer, L. C. Burow, N. Kyrpides, T. Woyke, L. Goodwin, A. Detweiler, L. Prufert-Bebout and J. Pett-Ridge | Draft Genome Sequence of an Oscillatorian Cyanobacterium, Strain ESFC-1 | Genome Announcements | 1(4) |
| 2013 | 10.1038/nmeth.2681 | Esvelt, K. M., P. Mali, J. L. Braff, M. Moosburner, S. J. Yaung and G. M. Church | Orthogonal Cas9 proteins for RNA-guided gene regulation and editing | Nature Methods | 10(11) 1116–21 |
| 2013 | 10.1002/jcc.23367 | Ellingson, S. R., J. C. Smith and J. Baudry | VinaMPI: facilitating multiple receptor high-throughput virtual docking on high-performance computers | Journal of Computational Chemistry | 34(25) 2212–21 |
| 2013 | 10.1016/j.enpol.2013.02.021 | Egbendewe-Mondzozo, A., S. M. Swinton, R. C. Izaurralde, D. H. Manowitz and X. Zhang | Maintaining environmental quality while expanding biomass production: Sub-regional U.S. policy simulations | Energy Policy | 57 518-531 |
| 2013 | 10.2136/sssaj2013.01.0023 | Duran, B. E. L. and C. J. Kucharik | Comparison of two chamber methods for measuring soil trace-gas fluxes in bioenergy cropping systems | Soil Science Society of America Journal | 77(5) 1601-1612 |
| 2013 | 10.1093/nar/gkt135 | DiCarlo, J. E., J. E. Norville, P. Mali, X. Rios, J. Aach and G. M. Church | Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems | Nucleic Acids Research | 41(7) 4336–43 |
| 2013 | 10.1021/sb400117c | DiCarlo, J. E., A. J. Conley, M. Penttila, J. Jantti, H. H. Wang and G. M. Church | Yeast oligo-mediated genome engineering (YOGE) | ACS Synthetic Biology | 2(12) 741–9 |
| 2013 | 10.7554/eLife.01102 | Di Rienzi, S. C., I. Sharon, K. C. Wrighton, O. Koren, L. A. Hug, B. C. Thomas, J. K. Goodrich, J. T. Bell, T. D. Spector, J. F. Banfield and R. E. Ley | The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria | eLife | 2 e01102 |
| 2013 | 10.1021/jp406266u | Devarajan, A., S. Markutsya, M. H. Lamm, X. Cheng, J. C. Smith, J. Y. Baluyut, Y. Kholod, M. S. Gordon and T. L. Windus | Ab initio study of molecular interactions in cellulose Iα | Journal of Physical Chemistry B | 117(36) 10430–43 |
| 2013 | 10.1146/annurev-ecolsys-110512-135806 | Des Marais, D. L., K. M. Hernandez and T. E. Juenger | Genotype-by-environment interaction and plasticity: Exploring genomic responses of plants to the abiotic environment | Annual Review of Ecology, Evolution, and Systematics | 44 45806 |
| 2013 | 10.1186/1471-2180-13-130 | Decanio, M. S., R. Landick and R. J. Haft | The non-pathogenic Escherichia coli strain W secretes SslE via the virulence-associated type II secretion system beta | BMC microbiology | 13 |
| 2013 | 10.1002/9780470975831.ch3 | Davison, B. H., J. Parks, M. F. Davis and B. S. Donohoe | Plant Cell Walls Basics of Structure, Chemistry, Accessibility and the Influence on Conversion | Aqueous Pretreatment of Plant Biomass for Biological and Chemical Conversion to Fuels and Chemicals | 23–38 |
| 2013 | 10.3390/ijms14047681 | Czarnecki, O., J. Yang, D. J. Weston, G. A. Tuskan and J. G. Chen | A dual role of strigolactones in phosphate acquisition and utilization in plants | International Journal of Molecular Sciences | 14(4) 7681–701 |
| 2013 | 10.1039/c3ra44847a | Culbertson, A., M. Jin, L. Da Costa Sousa, B. E. Dale and V. Balan | In-house cellulase production from AFEX™ pretreated corn stover using Trichoderma reesei RUT C-30 | RSC Advances | 3(48) 25960-25969 |
| 2013 | 10.1186/1471-2105-14-32 | Cotten, C. and J. L. Reed | Mechanistic analysis of multi-omics datasets to generate kinetic parameters for constraint-based metabolic models | BMC Bioinformatics | 14(1) |
| 2013 | 10.1186/1471-2164-14-213 | Cipriano, M. J., P. N. Novichkov, A. E. Kazakov, D. A. Rodionov, A. P. Arkin, M. S. Gelfand and I. Dubchak | RegTransBase - a database of regulatory sequences and interactions based on literature: A resource for investigating transcriptional regulation in prokaryotes | BMC Genomics | 14(1) |
| 2013 | 10.1186/1754-6834-6-45 | Chylla, R. A., R. Van Acker, H. Kim, A. Azapira, P. Mukerjee, J. L. Markley, V. Storme, W. Boerjan and J. Ralph | Plant cell wall profiling by fast maximum likelihood reconstruction (FMLR) and region-of-interest (ROI) segmentation of solution-state 2D 1H-13C NMR spectra | Biotechnology for Biofuels | 6(1) |
| 2013 | 10.1139/cjc-2012-0483 | Chu, Y., G. Li and H. Guo | QM/MM MD and free energy simulations of the methylation reactions catalyzed by protein arginine methyltransferase PRMT3 | Canadian Journal of Chemistry | 91(7) 605–12 |
| 2013 | 10.1371/journal.pone.0053954 | Christopherson, M. R., G. Suen, S. Bramhacharya, K. A. Jewell, F. O. Aylward, D. Mead and P. J. Brumm | The genome sequences of Cellulomonas fimi and “Cellvibrio gilvus” reveal the cellulolytic strategies of two facultative anaerobes, transfer of “Cellvibrio gilvus” to the genus Cellulomonas, and proposal of Cellulomonas gilvus sp. nov | PLoS One | 8(1) e53954 |
| 2013 | 10.1016/j.ymben.2013.04.006 | Chen, X., A. P. Alonso and Y. Shachar-Hill | Dynamic metabolic flux analysis of plant cell wall synthesis | Metabolic Engineering | 18 78-85 |
| 2013 | 10.1021/ci400537n | Chen, Q., J. K. Buolamwini, J. C. Smith, A. Li, Q. Xu, X. Cheng and D. Wei | Impact of resistance mutations on inhibitor binding to HIV-1 integrase | Journal of Chemical Information and Modeling | 53(12) 3297–307 |
| 2013 | 10.1109/Tkde.2012.132 | Chen, C. Q., A. Watve, S. Pramanik and Q. Zhu | The BoND-Tree: An Efficient Indexing Method for Box Queries in Nonordered Discrete Data Spaces | IEEE Transactions on Knowledge and Data Engineering | 25(11) 2629–43 |
| 2013 | 10.1063/1.4772182 | Chaudret, R., J. M. Parks and W. Yang | Pseudobond parameters for QM/MM studies involving nucleosides, nucleotides, and their analogs | Journal of Chemical Physics | 138(4) 045102 |
| 2013 | 10.1126/science.1234012 | Chang, R. L., K. Andrews, D. Kim, Z. Li, A. Godzik and B. O. Palsson | Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli | Science | 340(6137) 1220–3 |
| 2013 | 10.1073/pnas.1300643110 | Chan, Y., J. D. Van Nostrand, J. Zhou, S. B. Pointing and R. L. Farrell | Functional ecology of an Antarctic Dry Valley | Proceedings of the National Academy of Sciences of the United States of America | 110(22) 8990–5 |
| 2013 | 10.1111/1574-6968.12194 | Caspi, R., K. Dreher and P. D. Karp | The challenge of constructing, classifying, and representing metabolic pathways | FEMS Microbiology Letters | 345(2) 85–93 |
| 2013 | 10.1371/journal.pone.0070705 | Cashman, D. J., D. R. Ortega, I. B. Zhulin and J. Baudry | Homology modeling of the CheW coupling protein of the chemotaxis signaling complex | PLoS One | 8(8) e70705 |
| 2013 | 10.1017/S1431927613013482 | Carpenter, K. J., P. K. Weber, M. L. Davisson, J. Pett-Ridge, M. I. Haverty and P. J. Keeling | Correlated SEM, FIB-SEM, TEM, and NanoSIMS imaging of microbes from the hindgut of a lower termite: methods for in situ functional and ecological studies of uncultivable microbes | Microscopy and Microanalysis | 19(6) 1490–501 |
| 2013 | 10.1007/978-3-642-27494-7_3 | Cantrell, J. H. and S. A. Cantrell | Cantilever Dynamics: Theoretical Modeling | Acoustic Scanning Probe Microscopy | 47–100 |
| 2013 | 10.1038/ismej.2012.150 | Burow, L. C., D. Woebken, I. P. Marshall, E. A. Lindquist, B. M. Bebout, L. Prufert-Bebout, T. M. Hoehler, S. G. Tringe, J. Pett-Ridge, P. K. Weber, A. M. Spormann and S. W. Singer | Anoxic carbon flux in photosynthetic microbial mats as revealed by metatranscriptomics | The ISME Journal | 7(4) 817–29 |
| 2013 | 10.4155/bfs.13.44 | Brumm, P. J. | Bacterial genomes: What they teach us about cellulose degradation | Biofuels | 4(6) 669-681 |
| 2013 | 10.3389/fpls.2013.00177 | Bihmidine, S., C. T. Hunter, 3rd, C. E. Johns, K. E. Koch and D. M. Braun | Regulation of assimilate import into sink organs: update on molecular drivers of sink strength | Frontiers in Plant Science | 4 177 |
| 2013 | 10.1016/j.jmb.2013.05.030 | Bianchetti, C. M., P. Brumm, R. W. Smith, K. Dyer, G. L. Hura, T. J. Rutkoski and G. N. Phillips Jr | Structure, dynamics, and specificity of endoglucanase D from clostridium cellulovorans | Journal of Molecular Biology | 425(22) 4267-4285 |
| 2013 | 10.1074/jbc.M112.420448 | Berim, A. and D. R. Gang | The roles of a flavone-6-hydroxylase and 7-O-demethylation in the flavone biosynthetic network of sweet basil | Journal of Biological Chemistry | 288(3) 1795–805 |
| 2013 | 10.1016/j.phytochem.2013.05.001 | Berim, A. and D. R. Gang | Characterization of two candidate flavone 8-O-methyltransferases suggests the existence of two potential routes to nevadensin in sweet basil | Phytochemistry | 92 33–41 |
| 2013 | 10.7717/peerj.23 | Beck, D. A., M. G. Kalyuzhnaya, S. Malfatti, S. G. Tringe, T. Glavina Del Rio, N. Ivanova, M. E. Lidstrom and L. Chistoserdova | A metagenomic insight into freshwater methane-utilizing communities and evidence for cooperation between the Methylococcaceae and the Methylophilaceae | PeerJ | 1 e23 |
| 2013 | 10.1186/1471-2164-14-864 | Barling, A., K. Swaminathan, T. Mitros, B. T. James, J. Morris, O. Ngamboma, M. C. Hall, J. Kirkpatrick, M. Alabady, A. K. Spence, M. E. Hudson, D. S. Rokhsar and S. P. Moose | A detailed gene expression study of the Miscanthus genus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes | BMC Genomics | 14(1) 864 |
| 2013 | 10.1128/genomeA.00239-12 | Aylward, F. O., D. M. Tremmel, G. J. Starrett, D. C. Bruce, P. Chain, et al. | Complete genome of Serratia sp. strain FGI 94, a strain associated with leaf-cutter ant fungus gardens | Genome Announcements | 1(2) |
| 2013 | 10.1128/genomeA.00238-12 | Aylward, F. O., D. M. Tremmel, D. C. Bruce, P. Chain, A. Chen, et al. | Complete genome of Enterobacteriaceae bacterium strain FGI 57, a strain associated with leaf-cutter ant fungus gardens | Genome Announcements | 1(1) |
| 2013 | 10.1186/1471-2105-14-112 | Altman, T., M. Travers, A. Kothari, R. Caspi and P. D. Karp | A systematic comparison of the MetaCyc and KEGG pathway databases | BMC Bioinformatics | 14 112 |
| 2013 | 10.1016/j.mib.2013.10.001 | Allen, A. E., L. Z. Allen and J. P. McCrow | Lineage specific gene family enrichment at the microscale in marine systems | Current Opinion in Microbiology | 16(5) 605–17 |
| 2013 | 10.1007/s10570-013-0026-0 | Alekozai, E. M., P. K. GhattyVenkataKrishna, E. C. Uberbacher, M. F. Crowley, J. C. Smith and X. Cheng | Simulation Analysis of the Cellulase Cel7A Carbohydrate Binding Module on the Surface of the Cellulose Iβ | Cellulose | 21(2) 951–71 |
| 2013 | 10.1016/j.ces.2012.12.023 | Agnew, D. E. and B. F. Pfleger | Synthetic biology strategies for synthesizing polyhydroxyalkanoates from unrelated carbon sources | Chemical Engineering Science | 103 58-67 |
| 2013 | 10.1093/nar/gkt399 | Afrasiabi, C., B. Samad, D. Dineen, C. Meacham and K. Sjolander | The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification | Nucleic Acids Research | 41(W1) W242–8 |
| 2013 | 10.4324/9780203066317 | Ackerman, F. and E. A. Stanton | Climate economics: The state of the art | ||
| 2014 | 10.1021/ic401992y | Zhou, J., D. Riccardi, A. Beste, J. C. Smith and J. M. Parks | Mercury methylation by HgcA: theory supports carbanion transfer to Hg(II) | Inorganic Chemistry | 53(2) 772–7 |
| 2014 | 10.1073/pnas.1324044111 | Zhou, J., Y. Deng, P. Zhang, K. Xue, Y. Liang, J. D. Van Nostrand, Y. Yang, Z. He, L. Wu, D. A. Stahl, T. C. Hazen, J. M. Tiedje and A. P. Arkin | Stochasticity, succession, and environmental perturbations in a fluidic ecosystem | Proceedings of the National Academy of Sciences of the United States of America | 111(9) E836–45 |
| 2014 | 10.1146/annurev-phyto-082712-102237 | Zhao, Q. and R. A. Dixon | Altering the cell wall and its impact on plant disease: from forage to bioenergy | Annual Review of Phytopathology | 52 69–91 |
| 2014 | 10.1186/1471-2229-14-135 | Zhao, K. and L. E. Bartley | Comparative genomic analysis of the R2R3 MYB secondary cell wall regulators of Arabidopsis, poplar, rice, maize, and switchgrass | BMC Plant Biology | 14 135 |
| 2014 | 10.1016/j.scitotenv.2014.01.099 | Zhang, X., R. Sahajpal, D. H. Manowitz, K. Zhao, S. D. LeDuc, M. Xu, W. Xiong, A. Zhang, R. C. Izaurralde, A. M. Thomson, T. O. West and W. M. Post | Multi-scale geospatial agroecosystem modeling: A case study on the influence of soil data resolution on carbon budget estimates | Science of the Total Environment | 479-480(1) 138-150 |
| 2014 | 10.1186/s12870-014-0312-5 | Yurchenko, O. P., S. Park, D. C. Ilut, J. J. Inmon, J. C. Millhollon, Z. Liechty, J. T. Page, M. A. Jenks, K. D. Chapman, J. A. Udall, M. A. Gore and J. M. Dyer | Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium | BMC Plant Biology | 14 312 |
| 2014 | 10.1021/ci400640v | Yue, Y. and H. Guo | Quantum mechanical/molecular mechanical study of catalytic mechanism and role of key residues in methylation reactions catalyzed by dimethylxanthine methyltransferase in caffeine biosynthesis | Journal of Chemical Information and Modeling | 54(2) 593–600 |
| 2014 | 10.1111/1758-2229.12201 | Youngblut, N. D. and D. H. Buckley | Intra-genomic variation in G + C content and its implications for DNA stable isotope probing | Environmental Microbiology Reports | 6(6) 767–75 |
| 2014 | 10.1093/bioinformatics/btu015 | Young, J. D. | INCA: a computational platform for isotopically non-stationary metabolic flux analysis | Bioinformatics | 30(9) 1333–5 |
| 2014 | 10.1002/biot.201300477 | You, L., B. Berla, L. He, H. B. Pakrasi and Y. J. Tang | 13C-MFA delineates the photomixotrophic metabolism of Synechocystis sp. PCC 6803 under light- and carbon-sufficient conditions | Biotechnology Journal | 9(5) 684–92 |
| 2014 | 10.1073/pnas.1405621111 | Yordanov, Y. S., C. Ma, S. H. Strauss and V. B. Busov | EARLY BUD-BREAK 1 (EBB1) is a regulator of release from seasonal dormancy in poplar trees | Proceedings of the National Academy of Sciences of the United States of America | 111(27) 10001–6 |
| 2014 | 10.1080/07352689.2014.870417 | Yin, H. F., C. J. Chen, J. Yang, D. J. Weston, J. G. Chen, W. Muchero, N. Ye, T. J. Tschaplinski, S. D. Wullschleger, Z. M. Cheng, G. A. Tuskan and X. H. Yang | Functional Genomics of Drought Tolerance in Bioenergy Crops | Critical Reviews in Plant Sciences | 33(45691) 205–24 |
| 2014 | 10.1128/AEM.02111-14 | Yelle, D. J., A. N. Kapich, C. J. Houtman, F. Lu, V. I. Timokhin, R. C. Fort, Jr., J. Ralph and K. E. Hammel | A highly diastereoselective oxidant contributes to Ligninolysis by the white rot basidiomycete Ceriporiopsis subvermispora | Applied and Environmental Microbiology | 80(24) 7536–44 |
| 2014 | 10.1371/journal.pone.0098811 | Yaung, S. J., K. M. Esvelt and G. M. Church | CRISPR/Cas9-mediated phage resistance is not impeded by the DNA modifications of phage T4 | PLoS One | 9(6) e98811 |
| 2014 | 10.1007/s12155-013-9364-x | Yang, Z. Y., Z. X. Shen, H. Tetreault, L. Johnson, B. Friebe, T. Frazier, L. K. Huang, C. Burklew, X. Q. Zhang and B. Y. Zhao | Production of Autopolyploid Lowland Switchgrass Lines Through In Vitro Chromosome Doubling | BioEnergy Research | 7(1) 232–42 |
| 2014 | 10.1038/ismej.2013.146 | Yang, Y., Y. Gao, S. Wang, D. Xu, H. Yu, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, Y. Deng and J. Zhou | The microbial gene diversity along an elevation gradient of the Tibetan grassland | The ISME Journal | 8(2) 430–40 |
| 2014 | 10.1016/j.cois.2014.06.004 | Yang, L. H. and C. Gratton | Insects as drivers of ecosystem processes | Current Opinion in Insect Science | 2 26-32 |
| 2014 | 10.1038/ismej.2014.42 | Xu, M., Q. Zhang, C. Xia, Y. Zhong, G. Sun, J. Guo, T. Yuan, J. Zhou and Z. He | Elevated nitrate enriches microbial functional genes for potential bioremediation of complexly contaminated sediments | The ISME Journal | 8(9) 1932–44 |
| 2014 | 10.1016/j.indcrop.2014.05.023 | Xiang, Z., J. Watson, Y. Tobimatsu and T. Runge | Film-forming polymers from distillers' grains: Structural and material properties | Industrial Crops and Products | 59 282-289 |
| 2014 | 10.1007/s10570-014-0379-z | Xiang, Z., R. Anthony, Y. Tobimatsu and T. Runge | Emulsifying properties of an arabinoxylan-protein gum from distillers' grains and the co-production of animal feed | Cellulose | 21(5) 3623-3635 |
| 2014 | 10.1021/jp410422c | Wymore, T., M. J. Field, P. Langan, J. C. Smith and J. M. Parks | Hydrolysis of DFP and the nerve agent (S)-sarin by DFPase proceeds along two different reaction pathways: implications for engineering bioscavengers | Journal of Physical Chemistry B | 118(17) 4479–89 |
| 2014 | 10.1111/mmi.12564 | Wurtmann, E. J., A. V. Ratushny, M. Pan, K. D. Beer, J. D. Aitchison and N. S. Baliga | An evolutionarily conserved RNase-based mechanism for repression of transcriptional positive autoregulation | Molecular Microbiology | 92(2) 369–82 |
| 2014 | 10.1007/s10570-013-0149-3 | Williams, D. L. and D. B. Hodge | Impacts of delignification and hot water pretreatment on the water induced cell wall swelling behavior of grasses and its relation to cellulolytic enzyme hydrolysis and binding | Cellulose | 21(1) 221-235 |
| 2014 | 10.1038/nnano.2014.12 | Welsher, K. and H. Yang | Multi-resolution 3D visualization of the early stages of cellular uptake of peptide-coated nanoparticles | Nature Nanotechnology | 9(3) 198–203 |
| 2014 | 10.1093/jxb/eru221 | Warnasooriya, S. N. and T. P. Brutnell | Enhancing the productivity of grasses under high-density planting by engineering light responses: from model systems to feedstocks | Journal of Experimental Botany | 65(11) 2825–34 |
| 2014 | 10.1021/ac5014783 | Wang, Y., G. Kora, B. P. Bowen and C. Pan | MIDAS: a database-searching algorithm for metabolite identification in metabolomics | Analytical Chemistry | 86(19) 9496–503 |
| 2014 | 10.1111/1574-6941.12219 | Vishnivetskaya, T. A., A. C. Layton, M. C. Lau, A. Chauhan, K. R. Cheng, et al. | Commercial DNA extraction kits impact observed microbial community composition in permafrost samples | FEMS Microbiology Ecology | 87(1) 217–30 |
| 2014 | 10.1021/bi500566q | Vinokur, J. M., T. P. Korman, Z. Cao and J. U. Bowie | Evidence of a novel mevalonate pathway in archaea | Biochemistry | 53(25) 4161-4168 |
| 2014 | 10.1016/j.fgb.2014.08.007 | Veneault-Fourrey, C., C. Commun, A. Kohler, E. Morin, R. Balestrini, J. Plett, E. Danchin, P. Coutinho, A. Wiebenga, R. P. de Vries, B. Henrissat and F. Martin | Genomic and transcriptomic analysis of Laccaria bicolor CAZome reveals insights into polysaccharides remodelling during symbiosis establishment | Fungal Genetics and Biology | 72 168–81 |
| 2014 | 10.1016/B978-0-444-62650-9.00001-4 | Van Nostrand, J. D. and J. Zhou | Applications of Functional Gene Microarrays for Profiling Microbial Communities | Applications of Advanced Omics Technologies: From Genes to Metabolites | 64 3–22 |
| 2014 | 10.1093/bioinformatics/btu391 | Utturkar, S. M., D. M. Klingeman, M. L. Land, C. W. Schadt, M. J. Doktycz, D. A. Pelletier and S. D. Brown | Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences | Bioinformatics | 30(19) 2709–16 |
| 2014 | 10.1186/1754-6834-7-72 | Uppugundla, N., L. Da Costa Sousa, S. P. S. Chundawat, X. Yu, B. Simmons, S. Singh, X. Gao, R. Kumar, C. E. Wyman, B. E. Dale and V. Balan | A comparative study of ethanol production using dilute acid, ionic liquid and AFEX™ pretreated corn stover | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1093/nar/gkt1190 | Turkarslan, S., E. J. Wurtmann, W. J. Wu, N. Jiang, J. C. Bare, K. Foley, D. J. Reiss, P. Novichkov and N. S. Baliga | Network portal: A database for storage, analysis and visualization of biological networks | Nucleic Acids Research | 42(D1) D184-D190 |
| 2014 | 10.1111/1755-0998.12239 | Tu, Q., H. Yu, Z. He, Y. Deng, L. Wu, et al. | GeoChip 4: a functional gene-array-based high-throughput environmental technology for microbial community analysis | Molecular Ecology Resources | 14(5) 914–28 |
| 2014 | 10.1093/nar/gku138 | Tu, Q., Z. He and J. Zhou | Strain/species identification in metagenomes using genome-specific markers | Nucleic Acids Research | 42(8) e67 |
| 2014 | 10.3389/fmicb.2014.00528 | Torto-Alalibo, T., E. Purwantini, J. Lomax, J. C. Setubal, B. Mukhopadhyay and B. M. Tyler | Genetic resources for advanced biofuel production described with the Gene Ontology | Frontiers in Microbiology | 5 528 |
| 2014 | 10.1039/c4cc04692g | Tobimatsu, Y., D. Van de Wouwer, E. Allen, R. Kumpf, B. Vanholme, W. Boerjan and J. Ralph | A click chemistry strategy for visualization of plant cell wall lignification | Chemical Communications | 50(82) 12262–5 |
| 2014 | 10.1016/j.jmb.2014.07.018 | Thompson, M. C., N. M. Wheatley, J. Jorda, M. R. Sawaya, S. D. Gidaniyan, H. Ahmed, Z. Yang, K. N. McCarty, J. P. Whitelegge and T. O. Yeates | Identification of a unique Fe-S cluster binding site in a glycyl-radical type microcompartment shell protein | Journal of molecular biology | 426(19) 3287-3304 |
| 2014 | 10.1371/journal.pone.0104336 | Stephen, C. S., E. V. LaBelle, S. L. Brantley and D. R. Bond | Abundance of the multiheme c-type cytochrome OmcB increases in outer biofilm layers of electrode-grown Geobacter sulfurreducens | PLoS One | 9(8) e104336 |
| 2014 | 10.1021/jp407953p | Srinivas, G., X. Cheng and J. C. Smith | Coarse-grain model for natural cellulose fibrils in explicit water | Journal of Physical Chemistry B | 118(11) 3026–34 |
| 2014 | 10.1016/j.ecolecon.2014.07.027 | Skevas, T., S. M. Swinton, T. D. Meehan, T. N. Kim, C. Gratton and A. Egbendewe-Mondzozo | Integrating agricultural pest biocontrol into forecasts of energy biomass production | Ecological Economics | 106 195-203 |
| 2014 | 10.1073/pnas.1412269111 | Sivan, O., G. Antler, A. V. Turchyn, J. J. Marlow and V. J. Orphan | Iron oxides stimulate sulfate-driven anaerobic methane oxidation in seeps | Proceedings of the National Academy of Sciences of the United States of America | 111(40) E4139–47 |
| 2014 | 10.1016/j.ymben.2014.06.003 | Sherkhanov, S., T. P. Korman and J. U. Bowie | Improving the tolerance of Escherichia coli to medium-chain fatty acid production | Metabolic Engineering | 25 45664 |
| 2014 | 10.1371/journal.pone.0095109 | Sebastian, J., M. K. Wong, E. Tang and J. R. Dinneny | Methods to promote germination of dormant Setaria viridis seeds | PLoS One | 9(4) e95109 |
| 2014 | 10.1104/pp.114.245597 | Schuetz, M., A. Benske, R. A. Smith, Y. Watanabe, Y. Tobimatsu, J. Ralph, T. Demura, B. Ellis and A. L. Samuels | Laccases direct lignification in the discrete secondary cell wall domains of protoxylem | Plant Physiology | 166(2) 798–807 |
| 2014 | 10.1073/pnas.1413456111 | Sawaya, M. R., D. Cascio, M. Gingery, J. Rodriguez, L. Goldschmidt, et al. | Protein crystal structure obtained at 2.9 Å resolution from injecting bacterial cells into an X-ray free-electron laser beam | Proceedings of the National Academy of Sciences of the United States of America | 111(35) 12769-12774 |
| 2014 | 10.1534/g3.114.014001 | Sattler, S. E., A. Saballos, Z. Xin, D. L. Funnell-Harris, W. Vermerris and J. F. Pedersen | Characterization of novel Sorghum brown midrib mutants from an EMS-mutagenized population | G3 Genes|Genomes|Genetics | 4(11) 2115–24 |
| 2014 | 10.1186/1754-6834-7-73 | Sarks, C., M. Jin, T. K. Sato, V. Balan and B. E. Dale | Studying the rapid bioconversion of lignocellulosic sugars into ethanol using high cell density fermentations with cell recycle | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1021/jp411998t | Sangha, A. K., B. H. Davison, R. F. Standaert, M. F. Davis, J. C. Smith and J. M. Parks | Chemical factors that control lignin polymerization | Journal of Physical Chemistry B | 118(1) 164–70 |
| 2014 | 10.1016/j.compag.2014.08.005 | Sahajpal, R., X. Zhang, R. C. Izaurralde, I. Gelfand and G. C. Hurtt | Identifying representative crop rotation patterns and grassland loss in the US Western Corn Belt | Computers and Electronics in Agriculture | 108 173-182 |
| 2014 | 10.1039/c3ee42189a | Rotaru, A. E., P. M. Shrestha, F. H. Liu, M. Shrestha, D. Shrestha, M. Embree, K. Zengler, C. Wardman, K. P. Nevin and D. R. Lovley | A new model for electron flow during anaerobic digestion: direct interspecies electron transfer to Methanosaeta for the reduction of carbon dioxide to methane | Energy & Environmental Science | 7(1) 408–15 |
| 2014 | 10.1128/AEM.00895-14 | Rotaru, A. E., P. M. Shrestha, F. Liu, B. Markovaite, S. Chen, K. P. Nevin and D. R. Lovley | Direct interspecies electron transfer between Geobacter metallireducens and Methanosarcina barkeri | Applied and Environmental Microbiology | 80(15) 4599–605 |
| 2014 | 10.1038/ismej.2014.76 | Rodriguez-R., L. M. and K. T. Konstantinidis | Estimating coverage in metagenomic data sets and why it matters | The ISME Journal | 8(11) 2349–51 |
| 2014 | 10.1093/bioinformatics/btt584 | Rodriguez, R. L. and K. T. Konstantinidis | Nonpareil: a redundancy-based approach to assess the level of coverage in metagenomic datasets | Bioinformatics | 30(5) 629–35 |
| 2014 | 10.1073/pnas.1401871111 | Rockwell, N. C., D. Duanmu, S. S. Martin, C. Bachy, D. C. Price, D. Bhattacharya, A. Z. Worden and J. C. Lagarias | Eukaryotic algal phytochromes span the visible spectrum | Proceedings of the National Academy of Sciences of the United States of America | 111(10) 3871–6 |
| 2014 | 10.1073/pnas.1400592111 | Riley, R., A. A. Salamov, D. W. Brown, L. G. Nagy, D. Floudas, et al. | Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi | Proceedings of the National Academy of Sciences of the United States of America | 111(27) 9923–8 |
| 2014 | 10.1111/nph.12462 | Riley, R., P. Charron, A. Idnurm, L. Farinelli, Y. Dalpe, F. Martin and N. Corradi | Extreme diversification of the mating type-high-mobility group (MATA-HMG) gene family in a plant-associated arbuscular mycorrhizal fungus | New Phytologist | 201(1) 254–68 |
| 2014 | 10.1016/j.tig.2014.09.004 | Raman, S., N. Taylor, N. Genuth, S. Fields and G. M. Church | Engineering allostery | Trends in Genetics | 30(12) 521–8 |
| 2014 | 10.1021/ja5024783 | Rajeshwar, T. R., J. C. Smith and M. Krishnan | Hidden regularity and universal classification of fast side chain motions in proteins | Journal of the American Chemical Society | 136(24) 8590–605 |
| 2014 | 10.1038/nature13867 | Rahimi, A., A. Ulbrich, J. J. Coon and S. S. Stahl | Formic-acid-induced depolymerization of oxidized lignin to aromatics | Nature | 515(7526) 249-252 |
| 2014 | 10.1186/1753-6561-8-S6-S5 | Qi, Q., J. Li and J. Cheng | Reconstruction of metabolic pathways by combining probabilistic graphical model-based and knowledge-based methods | BMC Proceedings | 8 |
| 2014 | 10.3389/fmicb.2014.00634 | Purwantini, E., T. Torto-Alalibo, J. Lomax, J. C. Setubal, B. M. Tyler and B. Mukhopadhyay | Genetic resources for methane production from biomass described with the Gene Ontology | Frontiers in Microbiology | 5 634 |
| 2014 | 10.1371/journal.pone.0087499 | Priest, H. D., S. E. Fox, E. R. Rowley, J. R. Murray, T. P. Michael and T. C. Mockler | Analysis of global gene expression in Brachypodium distachyon reveals extensive network plasticity in response to abiotic stress | PLoS ONE | 9(1) |
| 2014 | 10.1093/nar/gku702 | Prestat, E., M. M. David, J. Hultman, N. Tas, R. Lamendella, J. Dvornik, R. Mackelprang, D. D. Myrold, A. Jumpponen, S. G. Tringe, E. Holman, K. Mavromatis and J. K. Jansson | FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus | Nucleic Acids Research | 42(19) e145 |
| 2014 | 10.1371/journal.pone.0093827 | Poretsky, R., L. M. Rodriguez-R., C. Luo, D. Tsementzi and K. T. Konstantinidis | Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics | PLoS One | 9(4) e93827 |
| 2014 | 10.1111/jipb.12198 | Poire, R., V. Chochois, X. R. Sirault, J. P. Vogel, M. Watt and R. T. Furbank | Digital imaging approaches for phenotyping whole plant nitrogen and phosphorus response in Brachypodium distachyon | Journal of Integrative Plant Biology | 56(8) 781–96 |
| 2014 | 10.1111/nph.12655 | Plett, J. M., A. Khachane, M. Ouassou, B. Sundberg, A. Kohler and F. Martin | Ethylene and jasmonic acid act as negative modulators during mutualistic symbiosis between Laccaria bicolor and Populus roots | New Phytologist | 202(1) 270–86 |
| 2014 | 10.1073/pnas.1322671111 | Plett, J. M., Y. Daguerre, S. Wittulsky, A. Vayssieres, A. Deveau, S. J. Melton, A. Kohler, J. L. Morrell-Falvey, A. Brun, C. Veneault-Fourrey and F. Martin | Effector MiSSP7 of the mutualistic fungus Laccaria bicolor stabilizes the Populus JAZ6 protein and represses jasmonic acid (JA) responsive genes | Proceedings of the National Academy of Sciences of the United States of America | 111(22) 8299–304 |
| 2014 | 10.1186/s12918-014-0122-2 | Plaisier, C. L., F. Y. Lo, J. Ashworth, A. N. Brooks, K. D. Beer, A. Kaur, M. Pan, D. J. Reiss, M. T. Facciotti and N. S. Baliga | Evolution of context dependent regulation by expansion of feast/famine regulatory proteins | BMC Systems Biology | 8 122 |
| 2014 | 10.3389/fmicb.2014.00090 | Piotrowski, J. S., Y. Zhang, D. M. Bates, D. H. Keating, T. K. Sato, I. M. Ong and R. Landick | Death by a thousand cuts: The challenges and diverse landscape of lignocellulosic hydrolysate inhibitors | Frontiers in Microbiology | 5(MAR) |
| 2014 | 10.1007/s10570-013-0162-6 | Pingali, S. V., H. M. O’Neill, Y. Nishiyama, L. He, Y. B. Melnichenko, V. Urban, L. Petridis, B. Davison and P. Langan | Morphological changes in the cellulose and lignin components of biomass occur at different stages during steam pretreatment | Cellulose | 21(2) 873–8 |
| 2014 | 10.1021/bm5011849 | Petridis, L., H. M. O'Neill, M. Johnsen, B. Fan, R. Schulz, E. Mamontov, J. Maranas, P. Langan and J. C. Smith | Hydration control of the mechanical and dynamical properties of cellulose | Biomacromolecules | 15(11) 4152–9 |
| 2014 | 10.3389/fpls.2014.00615 | Peng, D., X. Gu, L. J. Xue, J. H. Leebens-Mack and C. J. Tsai | Bayesian phylogeny of sucrose transporters: ancient origins, differential expansion and convergent evolution in monocots and dicots | Frontiers in Plant Science | 5 615 |
| 2014 | 10.3389/fpls.2014.00299 | Pendleton, A. L., K. E. Smith, N. Feau, F. M. Martin, I. V. Grigoriev, R. Hamelin, C. D. Nelson, J. G. Burleigh and J. M. Davis | Duplications and losses in gene families of rust pathogens highlight putative effectors | Frontiers in Plant Science | 5 299 |
| 2014 | 10.1016/j.tibtech.2014.09.007 | Peers, G. | Increasing algal photosynthetic productivity by integrating ecophysiology with systems biology | Trends in Biotechnology | 32(11) 551–5 |
| 2014 | 10.1111/mec.12786 | Paula, F. S., J. L. Rodrigues, J. Zhou, L. Wu, R. C. Mueller, B. S. Mirza, B. J. Bohannan, K. Nusslein, Y. Deng, J. M. Tiedje and V. H. Pellizari | Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities | Molecular Ecology | 23(12) 2988–99 |
| 2014 | 10.4161/psb.27723 | Park, S., J. Keereetaweep, C. N. James, S. K. Gidda, K. D. Chapman, R. T. Mullen and J. M. Dyer | CGI-58, a key regulator of lipid homeostasis and signaling in plants, also regulates polyamine metabolism | Plant Signaling & Behavior | 9(2) e27723 |
| 2014 | 10.1039/c4sm00066h | Pan, J., X. Cheng, L. Monticelli, F. A. Heberle, N. Kucerka, D. P. Tieleman and J. Katsaras | The molecular structure of a phosphatidylserine bilayer determined by scattering and molecular dynamics simulations | Soft Matter | 10(21) 3716–25 |
| 2014 | 10.1016/j.biombioe.2014.01.021 | Palmer, M. M., J. A. Forrester, D. E. Rothstein and D. J. Mladenoff | Establishment phase greenhouse gas emissions in short rotation woody biomass plantations in the Northern Lake States, USA | Biomass and Bioenergy | 62 26-36 |
| 2014 | 10.2134/jeq2014.02.0077 | Osterholz, W. R., C. J. Kucharik, J. L. Hedtcke and J. L. Posner | Seasonal nitrous oxide and methane fluxes from grain- and forage-based production systems in Wisconsin, USA | Journal of Environmental Quality | 43(6) 1833-1843 |
| 2014 | 10.1038/ncomms5113 | Opgenorth, P. H., T. P. Korman and J. U. Bowie | A synthetic biochemistry molecular purge valve module that maintains redox balance | Nature Communications | 5 |
| 2014 | 10.1371/journal.pcbi.1003447 | O'Connor, D. L., A. Runions, A. Sluis, J. Bragg, J. P. Vogel, P. Prusinkiewicz and S. Hake | A division in PIN-mediated auxin patterning during organ initiation in grasses | PLoS Computational Biology | 10(1) e1003447 |
| 2014 | 10.1111/1462-2920.12273 | Novichkov, P. S., X. Li, J. V. Kuehl, A. M. Deutschbauer, A. P. Arkin, M. N. Price and D. A. Rodionov | Control of methionine metabolism by the SahR transcriptional regulator in Proteobacteria | Environmental Microbiology | 16(1) 45665 |
| 2014 | 10.1007/s10529-013-1378-0 | Noor-Mohammadi, S., A. Pourmir and T. W. Johannes | Method for assembling and expressing multiple genes in the nucleus of microalgae | Biotechnology Letters | 36(3) 561–6 |
| 2014 | 10.1111/pce.12322 | Niinemets, U., S. Fares, P. Harley and K. J. Jardine | Bidirectional exchange of biogenic volatiles with vegetation: emission sources, reactions, breakdown and deposition | Plant Cell & Environment | 37(8) 1790–809 |
| 2014 | 10.1016/j.plantsci.2014.04.004 | Newhouse, A. E., L. D. Polin-McGuigan, K. A. Baier, K. E. Valletta, W. H. Rottmann, T. J. Tschaplinski, C. A. Maynard and W. A. Powell | Transgenic American chestnuts show enhanced blight resistance and transmit the trait to T1 progeny | Plant Science | 228 88–97 |
| 2014 | 10.1371/journal.pcbi.1003837 | Nam, H., M. Campodonico, A. Bordbar, D. R. Hyduke, S. Kim, D. C. Zielinski and B. O. Palsson | A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks | PLoS Computational Biology | 10(9) e1003837 |
| 2014 | 10.1038/ncomms5471 | Nagy, L. G., R. A. Ohm, G. M. Kovacs, D. Floudas, R. Riley, et al. | Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts | Nature Communications | 5 4471 |
| 2014 | 10.2136/sssaj2013.07.0287dgs | Myrold, D. D., L. H. Zeglin and J. K. Jansson | The Potential of Metagenomic Approaches for Understanding Soil Microbial Processes | Soil Science Society of America Journal | 78(1) 3–10 |
| 2014 | 10.3835/plantgenome2013.11.0040 | Murphy, R. L., D. T. Morishige, J. A. Brady, W. L. Rooney, S. Yang, P. E. Klein and J. E. Mullet | Ghd7 (Ma6) represses sorghum flowering in long days: Ghd7 alleles enhance biomass accumulation and grain production | Plant Genome | 7(2) |
| 2014 | 10.1016/j.soilbio.2014.05.011 | Mouginot, C., R. Kawamura, K. L. Matulich, R. Berlemont, S. D. Allison, A. S. Amend and A. C. Martiny | Elemental stoichiometry of Fungi and Bacteria strains from grassland leaf litter | Soil Biology and Biochemistry | 76 278–85 |
| 2014 | 10.1021/jp502889c | Mostofian, B., X. Cheng and J. C. Smith | Replica-exchange molecular dynamics simulations of cellulose solvated in water and in the ionic liquid 1-butyl-3-methylimidazolium chloride | Journal of Physical Chemistry B | 118(38) 11037–49 |
| 2014 | 10.1021/jp503956m | Moritsugu, K., A. Kidera and J. C. Smith | Solvent friction effects propagate over the entire protein molecule through low-frequency collective modes | Journal of Physical Chemistry B | 118(29) 8559–65 |
| 2014 | 10.1038/ncomms4212 | Mondav, R., B. J. Woodcroft, E. H. Kim, C. K. McCalley, S. B. Hodgkins, P. M. Crill, J. Chanton, G. B. Hurst, N. C. VerBerkmoes, S. R. Saleska, P. Hugenholtz, V. I. Rich and G. W. Tyson | Discovery of a novel methanogen prevalent in thawing permafrost | Nature Communications | 5 3212 |
| 2014 | 10.1016/j.fuel.2013.07.046 | Min, D. Y., C. Yang, V. Chiang, H. Jameel and H. M. Chang | The influence of lignin-carbohydrate complexes on the cellulase-mediated saccharification II: Transgenic hybrid poplars (Populus nigra L. and Populus maximowiczii A.) | Fuel | 116 56-62 |
| 2014 | 10.1016/j.fuel.2013.11.047 | Min, D. Y., Q. Z. Li, V. Chiang, H. Jameel, H. M. Chang and L. Lucia | The influence of lignin-carbohydrate complexes on the cellulase-mediated saccharification I: Transgenic black cottonwood (western balsam poplar, California poplar) P. trichocarpa including the xylan down-regulated and the lignin down-regulated lines | Fuel | 119 207–13 |
| 2014 | 10.1109/JSTQE.2014.2341568 | Michalet, X., A. Ingargiola, R. A. Colyer, G. Scalia, S. Weiss, P. Maccagnani, A. Gulinatti, I. Rech and M. Ghioni | Silicon photon-counting avalanche diodes for single-molecule fluorescence spectroscopy | IEEE Journal on Selected Topics in Quantum Electronics | 20(6) |
| 2014 | 10.1073/pnas.1405641111 | Mee, M. T., J. J. Collins, G. M. Church and H. H. Wang | Syntrophic exchange in synthetic microbial communities | Proceedings of the National Academy of Sciences of the United States of America | 111(20) E2149–56 |
| 2014 | 10.1038/ismej.2014.146 | McRose, D., J. Guo, A. Monier, S. Sudek, S. Wilken, S. Yan, T. Mock, J. M. Archibald, T. P. Begley, A. Reyes-Prieto and A. Z. Worden | Alternatives to vitamin B1 uptake revealed with discovery of riboswitches in multiple marine eukaryotic lineages | The ISME Journal | 8(12) 2517–29 |
| 2014 | 10.1074/jbc.M113.527515 | McKinlay, J. B., Y. Oda, M. Ruhl, A. L. Posto, U. Sauer and C. S. Harwood | Non-growing Rhodopseudomonas palustris increases the hydrogen gas yield from acetate by shifting from the glyoxylate shunt to the tricarboxylic acid cycle | Journal of Biological Chemistry | 289(4) 1960–70 |
| 2014 | 10.1038/nature13798 | McCalley, C. K., B. J. Woodcroft, S. B. Hodgkins, R. A. Wehr, E. H. Kim, R. Mondav, P. M. Crill, J. P. Chanton, V. I. Rich, G. W. Tyson and S. R. Saleska | Methane dynamics regulated by microbial community response to permafrost thaw | Nature | 514(7523) 478–81 |
| 2014 | 10.1371/journal.pone.0095842 | Mayali, X., P. K. Weber, S. Mabery and J. Pett-Ridge | Phylogenetic patterns in the microbial response to resource availability: amino acid incorporation in San Francisco Bay | PLoS One | 9(4) e95842 |
| 2014 | 10.1371/journal.pone.0100072 | Matos, D. A., B. J. Cole, I. P. Whitney, K. J. MacKinnon, S. A. Kay and S. P. Hazen | Daily changes in temperature, not the circadian clock, regulate growth rate in Brachypodium distachyon | PLoS One | 9(6) e100072 |
| 2014 | 10.1039/c4an00435c | Masyuko, R. N., E. J. Lanni, C. M. Driscoll, J. D. Shrout, J. V. Sweedler and P. W. Bohn | Spatial organization of Pseudomonas aeruginosa biofilms probed by combined matrix-assisted laser desorption ionization mass spectrometry and confocal Raman microscopy | Analyst | 139(22) 5700–8 |
| 2014 | 10.1016/j.ijhydene.2014.09.090 | Masukawa, H., H. Sakurai, R. P. Hausinger and K. Inoue | Sustained photobiological hydrogen production in the presence of N2 by nitrogenase mutants of the heterocyst-forming cyanobacterium Anabaena | International Journal of Hydrogen Energy | 39(34) 19444-19451 |
| 2014 | 10.1038/srep04519 | Martin, J. A., N. V. Johnson, S. M. Gross, J. Schnable, X. Meng, M. Wang, D. Coleman-Derr, E. Lindquist, C. L. Wei, S. Kaeppler, F. Chen and Z. Wang | A near complete snapshot of the Zea mays seedling transcriptome revealed from ultra-deep sequencing | Scientific Reports | 4 |
| 2014 | 10.1073/pnas.1408048111 | Mack, D. G., M. T. Falta, A. S. McKee, A. K. Martin, P. L. Simonian, F. Crawford, T. Gordon, R. R. Mercer, M. D. Hoover, P. Marrack, J. W. Kappler, R. M. Tuder and A. P. Fontenot | Regulatory T cells modulate granulomatous inflammation in an HLA-DP2 transgenic murine model of beryllium-induced disease | Proceedings of the National Academy of Sciences of the United States of America | 111(23) 8553–8 |
| 2014 | 10.1111/1758-2229.12160 | Ma, Y., L. Z. Allen and B. Palenik | Diversity and genome dynamics of marine cyanophages using metagenomic analyses | Environmental Microbiology Reports | 6(6) 583–94 |
| 2014 | 10.1038/nprot.2014.081 | Ma, N. J., D. W. Moonan and F. J. Isaacs | Precise manipulation of bacterial chromosomes by conjugative assembly genome engineering | Nature Protocols | 9(10) 2285–300 |
| 2014 | 10.1039/c4gc01160k | Luterbacher, J. S., D. Martin Alonso and J. A. Dumesic | Targeted chemical upgrading of lignocellulosic biomass to platform molecules | Green Chemistry | 16(12) 4816-4838 |
| 2014 | 10.1093/nar/gku169 | Luo, C., L. M. Rodriguez-R. and K. T. Konstantinidis | MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences | Nucleic Acids Research | 42(8) e73 |
| 2014 | 10.1128/AEM.03712-13 | Luo, C., R. L. Rodriguez, E. R. Johnston, L. Wu, L. Cheng, et al. | Soil microbial community responses to a decade of warming as revealed by comparative metagenomics | Applied and Environmental Microbiology | 80(5) 1777–86 |
| 2014 | 10.1016/j.niox.2014.03.140 | Lopez-Garriga, J., T. Wymore, R. Pietri, E. M. Roman-Morales, B. Rios-Gonzalez and H. Arbelo | P90 Hydrogen sulfide activation by hemeproteins: Implications of the sulfheme scenario | Nitric Oxide | 39 |
| 2014 | 10.1016/j.jmb.2014.06.007 | Lomax, J. E., C. M. Bianchetti, A. Chang, G. N. Phillips Jr, B. G. Fox and R. T. Raines | Functional evolution of ribonuclease inhibitor: Insights from birds and reptiles | Journal of Molecular Biology | 426(17) 3041-3056 |
| 2014 | 10.1146/annurev-phyto-102313-045926 | Liu, W., J. Liu, L. Triplett, J. E. Leach and G. L. Wang | Novel insights into rice innate immunity against bacterial and fungal pathogens | Annual Review of Phytopathology | 52 213–41 |
| 2014 | 10.1186/1754-6834-7-48 | Liu, T., D. L. Williams, S. Pattathil, M. Li, M. G. Hahn and D. B. Hodge | Coupling alkaline pre-extraction with alkaline-oxidative post-treatment of corn stover to enhance enzymatic hydrolysis and fermentability | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1186/s12918-014-0110-6 | Liu, J. K., E. J. O'Brien, J. A. Lerman, K. Zengler, B. O. Palsson and A. M. Feist | Reconstruction and modeling protein translocation and compartmentalization in Escherichia coli at the genome-scale | BMC Systems Biology | 8(1) |
| 2014 | 10.1371/journal.pone.0112227 | Lipka, A. E., F. Lu, J. H. Cherney, E. S. Buckler, M. D. Casler and D. E. Costich | Accelerating the switchgrass (Panicum virgatum L.) breeding cycle using genomic selection approaches | PLoS One | 9(11) e112227 |
| 2014 | 10.1093/nar/gkt842 | Ling, J., R. Daoud, M. J. Lajoie, G. M. Church, D. Soll and B. F. Lang | Natural reassignment of CUU and CUA sense codons to alanine in Ashbya mitochondria | Nucleic Acids Research | 42(1) 499–508 |
| 2014 | 10.1021/ez500107r | Lin, H., R. A. Hurt, A. Johs, J. M. Parks, J. L. Morrell-Falvey, L. Liang, D. A. Elias and B. Gu | Unexpected Effects of Gene Deletion on Interactions of Mercury with the Methylation-Deficient Mutant ΔhgcAB | Environmental Science & Technology Letters | 1(5) 271–6 |
| 2014 | 10.1016/j.pep.2014.02.013 | Lim, S., S. P. S. Chundawat and B. G. Fox | Expression, purification and characterization of a functional carbohydrate-binding module from Streptomyces sp. SirexAA-E | Protein Expression and Purification | 98 45666 |
| 2014 | 10.1021/bi500608u | Lian, P., H. B. Guo, D. Riccardi, A. Dong, J. M. Parks, Q. Xu, E. F. Pai, S. M. Miller, D. Q. Wei, J. C. Smith and H. Guo | X-ray structure of a Hg2+ complex of mercuric reductase (MerA) and quantum mechanical/molecular mechanical study of Hg2+ transfer between the C-terminal and buried catalytic site cysteine pairs | Biochemistry | 53(46) 7211–22 |
| 2014 | 10.1021/pr400925t | Li, Z., O. Czarnecki, K. Chourey, J. Yang, G. A. Tuskan, G. B. Hurst, C. Pan and J. G. Chen | Strigolactone-regulated proteins revealed by iTRAQ-based quantitative proteomics in Arabidopsis | Journal of Proteome Research | 13(3) 1359–72 |
| 2014 | 10.1039/c4ra00824c | Li, M., S. Pattathil, M. G. Hahn and D. B. Hodge | Identification of features associated with plant cell wall recalcitrance to pretreatment by alkaline hydrogen peroxide in diverse bioenergy feedstocks using glycome profiling | RSC Advances | 4(33) 17282-17292 |
| 2014 | 10.1371/journal.pone.0106232 | Li, J., L. Gu, J. Aach and G. M. Church | Improved cell-free RNA and protein synthesis system | PLoS One | 9(9) e106232 |
| 2014 | 10.1128/mBio.02034-14 | Levar, C. E., C. H. Chan, M. G. Mehta-Kolte and D. R. Bond | An inner membrane cytochrome required only for reduction of high redox potential extracellular electron acceptors | mBio | 5(6) e02034 |
| 2014 | 10.1128/mBio.01105-14 | Lennon, C. W., K. C. Lemmer, J. L. Irons, M. I. Sellman, T. J. Donohue, R. L. Gourse and W. Ross | A Rhodobacter sphaeroides protein mechanistically similar to Escherichia coli DksA regulates photosynthetic growth | mBio | 5(3) |
| 2014 | 10.1186/1472-6807-14-17 | Leettola, C. N., M. J. Knight, D. Cascio, S. Hoffman and J. U. Bowie | Characterization of the SAM domain of the PKD-related protein ANKS6 and its interaction with ANKS3 | BMC Structural Biology | 14(1) |
| 2014 | 10.1016/j.soilbio.2013.11.012 | Lee, Z. M. and T. M. Schmidt | Bacterial growth efficiency varies in soils under different land management practices | Soil Biology and Biochemistry | 69 282-290 |
| 2014 | 10.1016/j.ymben.2014.06.006 | Lee, Y., J. G. Lafontaine Rivera and J. C. Liao | Ensemble Modeling for Robustness Analysis in engineering non-native metabolic pathways | Metabolic Engineering | 25 63–71 |
| 2014 | 10.3389/fmicb.2014.00061 | Lee, J. Z., L. C. Burow, D. Woebken, R. C. Everroad, M. D. Kubo, A. M. Spormann, P. K. Weber, J. Pett-Ridge, B. M. Bebout and T. M. Hoehler | Fermentation couples Chloroflexi and sulfate-reducing bacteria to Cyanobacteria in hypersaline microbial mats | Frontiers in Microbiology | 5 61 |
| 2014 | 10.1016/j.abb.2014.04.005 | Le, R. K., B. J. Harris, I. J. Iwuchukwu, B. D. Bruce, X. Cheng, S. Qian, W. T. Heller, H. O'Neill and P. D. Frymier | Analysis of the solution structure of Thermosynechococcus elongatus photosystem I in n-dodecyl-β-D-maltoside using small-angle neutron scattering and molecular dynamics simulation | Archives of Biochemistry and Biophysics | 550–1 50–7 |
| 2014 | 10.1093/bioinformatics/btu150 | Latendresse, M., M. Krummenacker and P. D. Karp | Optimal metabolic route search based on atom mappings | Bioinformatics | 30(14) 2043–50 |
| 2014 | 10.1021/ac5030914 | Lanni, E. J., R. N. Masyuko, C. M. Driscoll, S. J. Dunham, J. D. Shrout, P. W. Bohn and J. V. Sweedler | Correlated imaging with C60-SIMS and confocal Raman microscopy: Visualization of cell-scale molecular distributions in bacterial biofilms | Analytical Chemistry | 86(21) 10885–91 |
| 2014 | 10.1021/ac5020222 | Lanni, E. J., R. N. Masyuko, C. M. Driscoll, J. T. Aerts, J. D. Shrout, P. W. Bohn and J. V. Sweedler | MALDI-guided SIMS: multiscale imaging of metabolites in bacterial biofilms | Analytical Chemistry | 86(18) 9139–45 |
| 2014 | 10.1007/s13361-014-0978-9 | Lanni, E. J., S. J. Dunham, P. Nemes, S. S. Rubakhin and J. V. Sweedler | Biomolecular imaging with a C60-SIMS/MALDI dual ion source hybrid mass spectrometer: instrumentation, matrix enhancement, and single cell analysis | Journal of the American Society for Mass Spectrometry | 25(11) 1897–907 |
| 2014 | 10.1016/j.str.2014.07.002 | Langan, P., A. K. Sangha, T. Wymore, J. M. Parks, Z. K. Yang, et al. | L-Arabinose binding, isomerization, and epimerization by D-xylose isomerase: X-ray/neutron crystallographic and molecular simulation study | Structure | 22(9) 1287–300 |
| 2014 | 10.1039/c3gc41962b | Langan, P., L. Petridis, H. M. O'Neill, S. V. Pingali, M. Foston, et al. | Common processes drive the thermochemical pretreatment of lignocellulosic biomass | Green Chemistry | 16(1) 63–8 |
| 2014 | 10.1186/1944-3277-9-20 | Land, M. L., D. Hyatt, S. R. Jun, G. H. Kora, L. J. Hauser, O. Lukjancenko and D. W. Ussery | Quality scores for 32,000 genomes | Standards in Genomic Sciences | 9 20 |
| 2014 | 10.1093/nar/gkt1094 | Lan, Y., J. C. Morrison, R. Hershberg and G. L. Rosen | POGO-DB—a database of pairwise-comparisons of genomes and conserved orthologous genes | Nucleic Acids Research | 42(Database issue) D625–32 |
| 2014 | 10.1126/science.1257859 | Lam, F. H., A. Ghaderi, G. R. Fink and G. Stephanopoulos | Engineering alcohol tolerance in yeast | Science | 346(6205) 71–5 |
| 2014 | 10.3389/fpls.2014.00579 | Labbe, J. L., D. J. Weston, N. Dunkirk, D. A. Pelletier and G. A. Tuskan | Newly identified helper bacteria stimulate ectomycorrhizal formation in Populus | Frontiers in Plant Science | 5 579 |
| 2014 | 10.1111/nph.12891 | Labbe, J., J. Uehling, T. Payen and J. Plett | Fungal biology: compiling genomes and exploiting them | New Phytologist | 203(2) 359–61 |
| 2014 | 10.3389/fmicb.2014.00582 | Kuo, A., A. Kohler, F. M. Martin and I. V. Grigoriev | Expanding genomics of mycorrhizal symbiosis | Frontiers in Microbiology | 5 582 |
| 2014 | 10.1093/pcp/pct197 | Kim, S. J. and F. Brandizzi | The plant secretory pathway: An essential factory for building the plant cell wall | Plant and Cell Physiology | 55(4) 687-693 |
| 2014 | 10.1007/s12155-013-9399-z | Kim, S., B. E. Dale and P. Keck | Energy Requirements and Greenhouse Gas Emissions of Maize Production in the USA | Bioenergy Research | 7(2) 753-764 |
| 2014 | 10.1016/j.biombioe.2014.09.015 | Kim, S., B. E. Dale, R. Heijungs, A. Azapagic, T. Darlington and D. Kahlbaum | Indirect land use change and biofuels: Mathematical analysis reveals a fundamental flaw in the regulatory approach | Biomass and Bioenergy | 71 408-412 |
| 2014 | 10.1016/j.copbio.2014.02.009 | Kim, J. and J. L. Reed | Refining metabolic models and accounting for regulatory effects | Current Opinion in Biotechnology | 29(1) 34-38 |
| 2014 | 10.1016/j.ejbt.2013.12.003 | Kightlinger, W., K. Chen, A. Pourmir, D. W. Crunkleton, G. L. Price and T. W. Johannes | Production and characterization of algae extract from Chlamydomonas reinhardtii | Electronic Journal of Biotechnology | 17(1) |
| 2014 | 10.1016/j.biombioe.2014.03.032 | Kelkar, S., Z. Li, J. Bovee, K. D. Thelen, R. M. Kriegel and C. M. Saffron | Pyrolysis of North-American grass species: Effect of feedstock composition and taxonomy on pyrolysis products | Biomass and Bioenergy | 64 152-161 |
| 2014 | 10.1094/MPMI-12-13-0368-R | Karpinets, T. V., B. H. Park, M. H. Syed, M. G. Klotz and E. C. Uberbacher | Metabolic environments and genomic features associated with pathogenic and mutualistic interactions between bacteria and plants | Molecular Plant-Microbe Interactions | 27(7) 664–77 |
| 2014 | 10.1111/fwb.12433 | Kapuscinski, K. L., J. M. Farrell, S. V. Stehman, G. L. Boyer, D. D. Fernando, M. A. Teece and T. J. Tschaplinski | Selective herbivory by an invasive cyprinid, the rudd Scardinius erythrophthalmus | Freshwater Biology | 59(11) 2315–27 |
| 2014 | 10.1186/1471-2164-15-1107 | Justice, N. B., A. Norman, C. T. Brown, A. Singh, B. C. Thomas and J. F. Banfield | Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms | BMC Genomics | 15 1107 |
| 2014 | 10.1111/1462-2920.12488 | Justice, N. B., Z. Li, Y. Wang, S. E. Spaudling, A. C. Mosier, R. L. Hettich, C. Pan and J. F. Banfield | 15N- and 2H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity | Environmental Microbiology | 16(10) 3224–37 |
| 2014 | 10.1093/nar/gkt905 | Joshi, T., M. R. Fitzpatrick, S. Chen, Y. Liu, H. Zhang, R. Z. Endacott, E. C. Gaudiello, G. Stacey, H. T. Nguyen and D. Xu | Soybean knowledge base (SoyKB): a web resource for integration of soybean translational genomics and molecular breeding | Nucleic Acids Research | 42(D1) D1245–52 |
| 2014 | 10.1021/jp410788r | Johnson, Q. R., R. J. Lindsay, S. R. Raval, J. S. Dobbs, R. B. Nellas and T. Shen | Effects of branched O-glycosylation on a semiflexible peptide linker | Journal of Physical Chemistry B | 118(8) 2050–7 |
| 2014 | 10.1111/pce.12164 | Jardine, K., F. Wegener, L. Abrell, J. van Haren and C. Werner | Phytogenic biosynthesis and emission of methyl acetate | Plant Cell & Environment | 37(2) 414–24 |
| 2014 | 10.1104/pp.114.247494 | Jardine, K., J. Chambers, E. G. Alves, A. Teixeira, S. Garcia, J. Holm, N. Higuchi, A. Manzi, L. Abrell, J. D. Fuentes, L. K. Nielsen, M. S. Torn and C. E. Vickers | Dynamic balancing of isoprene carbon sources reflects photosynthetic and photorespiratory responses to temperature stress | Plant Physiology | 166(4) 2051–64 |
| 2014 | 10.1128/AEM.01285-14 | Jagtap, S. S., J. H. Hehemann, M. F. Polz, J. K. Lee and H. Zhao | Comparative biochemical characterization of three exolytic oligoalginate lyases from Vibrio splendidus reveals complementary substrate scope, temperature, and pH adaptations | Applied and Environmental Microbiology | 80(14) 4207–14 |
| 2014 | 10.1186/1754-6834-7-52 | Jabbour, D., E. R. Angelos, A. Mukhopadhyay, A. Womboldt, M. S. Borrusch and J. D. Walton | Factors contributing to the recalcitrance of herbaceous dicotyledons (forbs) to enzymatic deconstruction | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1111/mec.12907 | Huang, P., M. Feldman, S. Schroder, B. A. Bahri, X. Diao, H. Zhi, M. Estep, I. Baxter, K. M. Devos and E. A. Kellogg | Population genetics of Setaria viridis, a new model system | Molecular Ecology | 23(20) 4912-4925 |
| 2014 | 10.1038/nchembio.1662 | Hong-Hermesdorf, A., M. Miethke, S. D. Gallaher, J. Kropat, S. C. Dodani, et al. | Subcellular metal imaging identifies dynamic sites of Cu accumulation in Chlamydomonas | Nature Chemical Biology | 10(12) 1034–42 |
| 2014 | 10.1103/PhysRevLett.112.158102 | Hong, L., N. Smolin and J. C. Smith | de Gennes narrowing describes the relative motion of protein domains | Physical Review Letters | 112(15) 158102 |
| 2014 | 10.1016/j.bpj.2014.06.013 | Hong, L., M. A. Sharp, S. Poblete, R. Biehl, M. Zamponi, et al. | Structure and dynamics of a compact state of a multidomain protein, the mercuric ion reductase | Biophysical Journal | 107(2) 393–400 |
| 2014 | 10.1002/ijch.201300137 | Hong, L., L. Petridis and J. C. Smith | Biomolecular Structure and Dynamics with Neutrons: The View from Simulation | Israel Journal of Chemistry | 54(45878) 1264–73 |
| 2014 | 10.1073/pnas.1314641111 | Hodgkins, S. B., M. M. Tfaily, C. K. McCalley, T. A. Logan, P. M. Crill, S. R. Saleska, V. I. Rich and J. P. Chanton | Changes in peat chemistry associated with permafrost thaw increase greenhouse gas production | Proceedings of the National Academy of Sciences of the United States of America | 111(16) 5819–24 |
| 2014 | 10.1371/journal.pone.0115775 | Herzberger, A. J., D. S. Duncan and R. D. Jackson | Bouncing back: Plant-associated soil microbes respond rapidly to prairie establishment | PLoS ONE | 9(12) |
| 2014 | 10.1038/ismej.2013.177 | He, Z., J. Xiong, A. D. Kent, Y. Deng, K. Xue, G. Wang, L. Wu, J. D. Van Nostrand and J. Zhou | Distinct responses of soil microbial communities to elevated CO2 and O3 in a soybean agro-ecosystem | The ISME Journal | 8(3) 714–26 |
| 2014 | 10.1007/s10570-013-0067-4 | He, J., S. V. Pingali, S. P. S. Chundawat, A. Pack, A. D. Jones, P. Langan, B. H. Davison, V. Urban, B. Evans and H. O'Neill | Controlled incorporation of deuterium into bacterial cellulose | Cellulose | 21(2) 927-936 |
| 2014 | 10.1002/etc.2595 | Harris, J. B., M. L. Eldridge, G. Sayler, F. M. Menn, A. C. Layton and J. Baudry | A computational approach predicting CYP450 metabolism and estrogenic activity of an endocrine disrupting compound (PCB-30) | Environmental Toxicolology and Chemistry | 33(7) 1615–23 |
| 2014 | 10.1021/jp507157e | Harris, B. J., X. Cheng and P. Frymier | All-Atom Molecular Dynamics Simulation of a Photosystem I/Detergent Complex | Journal of Physical Chemistry B | 118(40) 11633–45 |
| 2014 | 10.1016/j.celrep.2014.03.070 | Harcombe, W. R., W. J. Riehl, I. Dukovski, B. R. Granger, A. Betts, A. H. Lang, G. Bonilla, A. Kar, N. Leiby, P. Mehta, C. J. Marx and D. Segre | Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics | Cell Reports | 7(4) 1104–15 |
| 2014 | 10.1016/j.compchemeng.2015.04.007 | Han, J., S. Murat Sen, J. S. Luterbacher, D. M. Alonso, J. A. Dumesic and C. T. Maravelias | Process systems engineering studies for the synthesis of catalytic biomass-to-fuels strategies | Computers and Chemical Engineering | 81 57-69 |
| 2014 | 10.1038/nature13761 | Gu, L., C. Li, J. Aach, D. E. Hill, M. Vidal and G. M. Church | Multiplex single-molecule interaction profiling of DNA-barcoded proteins | Nature | 515(7528) 554–7 |
| 2014 | 10.1093/nar/gkt1374 | Gregg, C. J., M. J. Lajoie, M. G. Napolitano, J. A. Mosberg, D. B. Goodman, J. Aach, F. J. Isaacs and G. M. Church | Rational optimization of tolC as a powerful dual selectable marker for genome engineering | Nucleic Acids Research | 42(7) 4779–90 |
| 2014 | 10.1038/ismej.2013.147 | Green-Saxena, A., A. E. Dekas, N. F. Dalleska and V. J. Orphan | Nitrate-based niche differentiation by distinct sulfate-reducing bacteria involved in the anaerobic oxidation of methane | The ISME Journal | 8(1) 150–63 |
| 2014 | 10.1128/JB.01299-13 | Gordon, G. C. and J. B. McKinlay | Calvin cycle mutants of photoheterotrophic purple nonsulfur bacteria fail to grow due to an electron imbalance rather than toxic metabolite accumulation | Journal of Bacteriology | 196(6) 1231–7 |
| 2014 | 10.1128/EC.00013-14 | Goodenough, U., I. Blaby, D. Casero, S. D. Gallaher, C. Goodson, et al. | The path to triacylglyceride obesity in the sta6 strain of Chlamydomonas reinhardtii | Eukaryotic Cell | 13(5) 591–613 |
| 2014 | 10.1111/1462-2920.12314 | Glass, J. B., H. Yu, J. A. Steele, K. S. Dawson, S. Sun, K. Chourey, C. Pan, R. L. Hettich and V. J. Orphan | Geochemical, metagenomic and metaproteomic insights into trace metal utilization by methane-oxidizing microbial consortia in sulphidic marine sediments | Environmental Microbiology | 16(6) 1592–611 |
| 2014 | 10.1186/1471-2164-15-179 | Gelli, M., Y. Duo, A. R. Konda, C. Zhang, D. Holding and I. Dweikat | Identification of differentially expressed genes between sorghum genotypes with contrasting nitrogen stress tolerance by genome-wide transcriptional profiling | BMC Genomics | 15 179 |
| 2014 | 10.1016/j.gdata.2014.06.003 | Gao, Y., S. Wang, D. Xu, H. Yu, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, Y. Deng, J. Zhou and Y. Yang | GeoChip as a metagenomics tool to analyze the microbial gene diversity along an elevation gradient | Genomics Data | 2 132–4 |
| 2014 | 10.1186/1754-6834-7-71 | Gao, X., R. Kumar, S. Singh, B. A. Simmons, V. Balan, B. E. Dale and C. E. Wyman | Comparison of enzymatic reactivity of corn stover solids prepared by dilute acid, AFEX™, and ionic liquid pretreatments | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1186/s13068-014-0175-x | Gao, D., C. Haarmeyer, V. Balan, T. A. Whitehead, B. E. Dale and S. P. S. Chundawat | Lignin triggers irreversible cellulase loss during pretreated lignocellulosic biomass saccharification | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1038/nprot.2014.082 | Gallagher, R. R., Z. Li, A. O. Lewis and F. J. Isaacs | Rapid editing and evolution of bacterial genomes using libraries of synthetic DNA | Nature Protocols | 9(10) 2301–16 |
| 2014 | 10.1177/0959683614538078 | Frolking, S., J. Talbot and Z. M. Subin | Exploring the relationship between peatland net carbon balance and apparent carbon accumulation rate at century to millennial time scales | Holocene | 24(9) 1167–73 |
| 2014 | 10.1088/0031-8949/89/10/108004 | Field, M. J. and T. W. Wymore | Multiscale modeling of nerve agent hydrolysis mechanisms: a tale of two Nobel Prizes | Physica Scripta | 89(10) |
| 2014 | 10.1186/1754-6834-7-2 | Fernández-Fueyo, E., F. J. Ruiz-Dueñas, M. J. Martínez, A. Romero, K. E. Hammel, F. J. Medrano and A. T. Martínez | Ligninolytic peroxidase genes in the oyster mushroom genome: Heterologous expression, molecular structure, catalytic and stability properties, and lignin-degrading ability | Biotechnology for Biofuels | 7(1) |
| 2014 | 10.1371/journal.pcbi.1003575 | Feist, A. M., H. Nagarajan, A. E. Rotaru, P. L. Tremblay, T. Zhang, K. P. Nevin, D. R. Lovley and K. Zengler | Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens | PLoS Computational Biology | 10(4) e1003575 |
| 2014 | 10.1111/tpj.12601 | Evans, J., J. Kim, K. L. Childs, B. Vaillancourt, E. Crisovan, A. Nandety, D. J. Gerhardt, T. A. Richmond, J. A. Jeddeloh, S. M. Kaeppler, M. D. Casler and C. R. Buell | Nucleotide polymorphism and copy number variant detection using exome capture and next-generation sequencing in the polyploid grass Panicum virgatum | Plant Journal | 79(6) 993-1008 |
| 2014 | 10.1021/tx400350b | Esposito, E. X., T. R. Stouch, T. Wymore and J. D. Madura | Exploring the physicochemical properties of oxime-reactivation therapeutics for cyclosarin, sarin, tabun, and VX inactivated acetylcholinesterase | Chemical Research in Toxicology | 27(1) 99–110 |
| 2014 | 10.1016/j.bpj.2014.10.065 | Erler, J., R. Zhang, L. Petridis, X. Cheng, J. C. Smith and J. Langowski | The role of histone tails in the nucleosome: a computational study | Biophysical Journal | 107(12) 2911–22 |
| 2014 | 10.1128/AEM.03916-13 | Embree, M., Y. Qiu, W. Shieu, H. Nagarajan, R. O'Neil, D. Lovley and K. Zengler | The iron stimulon and fur regulon of Geobacter sulfurreducens and their role in energy metabolism | Applied and Environmental Microbiology | 80(9) 2918–27 |
| 2014 | 10.1038/ismej.2013.187 | Embree, M., H. Nagarajan, N. Movahedi, H. Chitsaz and K. Zengler | Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community | The ISME Journal | 8(4) 757–67 |
| 2014 | 10.1080/08927022.2014.899699 | Ellingson, S. R., J. C. Smith and J. Baudry | Polypharmacology and Supercomputer-Based Docking: Opportunities and Challenges | Molecular Simulation | 40(10–11) 848–54 |
| 2014 | 10.1002/cpe.3070 | Ellingson, S. R., S. Dakshanamurthy, M. Brown, J. C. Smith and J. Baudry | Accelerating Virtual High-Throughput Ligand Docking: current technology and case study on a petascale supercomputer | Concurrency and Computation: Practice and Experience | 26(6) 1268–77 |
| 2014 | 10.1002/cpe.2926 | Ellingson, S. R. and J. Baudry | High-throughput virtual molecular docking with AutoDockCloud | Concurrency and Computation: Practice and Experience | 26(4) 907–16 |
| 2014 | 10.1073/pnas.1308940110 | Doust, A. N., L. Lukens, K. M. Olsen, M. Mauro-Herrera, A. Meyer and K. Rogers | Beyond the single gene: How epistasis and gene-by-environment effects influence crop domestication | Proceedings of the National Academy of Sciences of the United States of America | 111(17) 6178–83 |
| 2014 | 10.1007/s10570-014-0181-y | Diehl, B. G., H. D. Watts, J. D. Kubicki, M. R. Regner, J. Ralph and N. R. Brown | Towards lignin-protein crosslinking: Amino acid adducts of a lignin model quinone methide | Cellulose | 21(3) 1395-1407 |
| 2014 | 10.1093/jxb/eru038 | DePaoli, H. C., A. M. Borland, G. A. Tuskan, J. C. Cushman and X. Yang | Synthetic biology as it relates to CAM photosynthesis: challenges and opportunities | Journal of Experimental Botany | 65(13) 3381–93 |
| 2014 | 10.5194/bg-11-4753-2014 | Deng, J., C. Li, S. Frolking, Y. Zhang, K. Backstrand and P. Crill | Assessing effects of permafrost thaw on C fluxes based on multiyear modeling across a permafrost thaw gradient at Stordalen, Sweden | Biogeosciences | 11(17) 4753–70 |
| 2014 | 10.1111/1462-2920.12247 | Dekas, A. E., G. L. Chadwick, M. W. Bowles, S. B. Joye and V. J. Orphan | Spatial distribution of nitrogen fixation in methane seep sediment and the role of the ANME archaea | Environmental Microbiology | 16(10) 3012–29 |
| 2014 | 10.1186/s13068-014-0144-4 | Dash, S., T. J. Mueller, K. P. Venkataramanan, E. T. Papoutsakis and C. D. Maranas | Capturing the response of Clostridium acetobutylicum to chemical stressors using a regulated genome-scale metabolic model | Biotechnology for Biofuels | 7(1) 144 |
| 2014 | 10.1093/aob/mcu054 | da Costa, R. M., S. J. Lee, G. G. Allison, S. P. Hazen, A. Winters and M. Bosch | Genotype, development and tissue-derived variation of cell-wall properties in the lignocellulosic energy crop Miscanthus | Annals of Botany | 114(6) 1265–77 |
| 2014 | 10.1093/nar/gkt1244 | Cole, J. R., Q. Wang, J. A. Fish, B. Chai, D. M. McGarrell, Y. Sun, C. T. Brown, A. Porras-Alfaro, C. R. Kuske and J. M. Tiedje | Ribosomal Database Project: data and tools for high throughput rRNA analysis | Nucleic Acids Research | 42(D1) D633–42 |
| 2014 | 10.4161/rna.28306 | Cole, J. R. and J. M. Tiedje | History and impact of RDP: a legacy from Carl Woese to microbiology | RNA Biology | 11(3) 239–43 |
| 2014 | 10.1002/mbo3.190 | Chu, H., S. Wang, H. Yue, Q. Lin, Y. Hu, X. Li, J. Zhou and Y. Yang | Contrasting soil microbial community functional structures in two major landscapes of the Tibetan alpine meadow | MicrobiologyOpen | 3(5) 585–94 |
| 2014 | 10.1186/1471-2164-15-1066 | Christopherson, M. R., J. A. Dawson, D. M. Stevenson, A. C. Cunningham, S. Bramhacharya, P. J. Weimer, C. Kendziorski and G. Suen | Unique aspects of fiber degradation by the ruminal ethanologen Ruminococcus albus 7 revealed by physiological and transcriptomic analysis | BMC Genomics | 15(1) 1066 |
| 2014 | 10.1186/1471-2164-15-753 | Chen, Y., N. Qin, J. Guo, G. Qian, D. Fang, D. Shi, M. Xu, F. Yang, Z. He, J. D. Van Nostrand, T. Yuan, Y. Deng, J. Zhou and L. Li | Functional gene arrays-based analysis of fecal microbiomes in patients with liver cirrhosis | BMC Genomics | 15(1) 753 |
| 2014 | 10.1128/genomeA.01217-14 | Chauhan, A., A. C. Layton, T. A. Vishnivetskaya, D. Williams, S. M. Pfiffner, B. Rekepalli, B. Stackhouse, M. C. Lau, T. J. Phelps, N. Mykytczuk, J. Ronholm, L. Whyte, T. C. Onstott and G. S. Sayler | Metagenomes from thawing low-soil-organic-carbon mineral cryosols and permafrost of the Canadian high arctic | Genome Announcements | 2(6) |
| 2014 | 10.1002/cbic.201402104 | Chatterjee, A., M. J. Lajoie, H. Xiao, G. M. Church and P. G. Schultz | A bacterial strain with a unique quadruplet codon specifying non-native amino acids | ChemBioChem | 15(12) 1782–6 |
| 2014 | 10.1038/ismej.2013.134 | Ceja-Navarro, J. A., N. H. Nguyen, U. Karaoz, S. R. Gross, D. J. Herman, G. L. Andersen, T. D. Bruns, J. Pett-Ridge, M. Blackwell and E. L. Brodie | Compartmentalized microbial composition, oxygen gradients and nitrogen fixation in the gut of Odontotaenius disjunctus | The ISME Journal | 8(1) 6–18 |
| 2014 | 10.1093/nar/gkt1103 | Caspi, R., T. Altman, R. Billington, K. Dreher, H. Foerster, et al. | The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases | Nucleic Acids Research | 42(D1) D459-D471 |
| 2014 | 10.1002/jmr.2384 | Cashman, D. J., T. Zhu, R. F. Simmerman, C. Scott, B. D. Bruce and J. Baudry | Molecular interactions between photosystem I and ferredoxin: an integrated energy frustration and experimental model | Journal of Molecular Recognition | 27(10) 597–608 |
| 2014 | 10.1103/PhysRevA.89.052305 | Caravan, B., B. A. Friedman and G. C. Levine | Scaling of entanglement entropy in point-contact, free-fermion systems | Physical Review A | 89(5) |
| 2014 | 10.1111/gbi.12080 | Burow, L. C., D. Woebken, I. P. Marshall, S. W. Singer, J. Pett-Ridge, L. Prufert-Bebout, A. M. Spormann, B. M. Bebout, P. K. Weber and T. M. Hoehler | Identification of Desulfobacterales as primary hydrogenotrophs in a complex microbial mat community | Geobiology | 12(3) 221–30 |
| 2014 | 10.3389/fpls.2014.00732 | Brunner, A. M., L. M. Evans, C. Y. Hsu and X. Sheng | Vernalization and the chilling requirement to exit bud dormancy: shared or separate regulation? | Frontiers in Plant Science | 5 732 |
| 2014 | 10.15252/msb.20145160 | Brooks, A. N., D. J. Reiss, A. Allard, W. J. Wu, D. M. Salvanha, C. L. Plaisier, S. Chandrasekaran, M. Pan, A. Kaur and N. S. Baliga | A system-level model for the microbial regulatory genome | Molecular Systems Biology | 10(7) 740 |
| 2014 | 10.1093/jxb/ert416 | Braun, D. M., L. Wang and Y. L. Ruan | Understanding and manipulating sucrose phloem loading, unloading, metabolism, and signalling to enhance crop yield and food security | Journal of Experimental Botany | 65(7) 1713–35 |
| 2014 | 10.1016/j.tplants.2014.01.006 | Borland, A. M., J. Hartwell, D. J. Weston, K. A. Schlauch, T. J. Tschaplinski, G. A. Tuskan, X. Yang and J. C. Cushman | Engineering crassulacean acid metabolism to improve water-use efficiency | Trends in Plant Science | 19(5) 327–38 |
| 2014 | 10.1111/mec.12821 | Bonito, G., H. Reynolds, M. S. Robeson, 2nd, J. Nelson, B. P. Hodkinson, G. Tuskan, C. W. Schadt and R. Vilgalys | Plant host and soil origin influence fungal and bacterial assemblages in the roots of woody plants | Molecular Ecology | 23(13) 3356–70 |
| 2014 | 10.1038/nature13084 | Bonawitz, N. D., J. I. Kim, Y. Tobimatsu, P. N. Ciesielski, N. A. Anderson, E. Ximenes, J. Maeda, J. Ralph, B. S. Donohoe, M. Ladisch and C. Chapple | Disruption of Mediator rescues the stunted growth of a lignin-deficient Arabidopsis mutant | Nature | 509(7500) 376–80 |
| 2014 | 10.1016/j.biortech.2014.03.112 | Bhalla, A., K. M. Bischoff, N. Uppugundla, V. Balan and R. K. Sani | Novel thermostable endo-xylanase cloned and expressed from bacterium Geobacillus sp. WSUCF1 | Bioresource Technology | 165(C) 314-318 |
| 2014 | 10.1111/tpj.12642 | Berim, A., J. J. Park and D. R. Gang | Unexpected roles for ancient proteins: flavone 8-hydroxylase in sweet basil trichomes is a Rieske-type, PAO-family oxygenase | The Plant Journal | 80(3) 385–95 |
| 2014 | 10.1016/j.agee.2014.04.016 | Bennett, A. B. and R. Isaacs | Landscape composition influences pollinators and pollination services in perennial biofuel plantings | Agriculture, Ecosystems and Environment | 193 45665 |
| 2014 | 10.1371/journal.pone.0102458 | Beck, D. A., T. L. McTaggart, U. Setboonsarng, A. Vorobev, M. G. Kalyuzhnaya, N. Ivanova, L. Goodwin, T. Woyke, M. E. Lidstrom and L. Chistoserdova | The expanded diversity of Methylophilaceae from Lake Washington through cultivation and genomic sequencing of novel ecotypes | PLoS One | 9(7) e102458 |
| 2014 | 10.1093/jxb/eru022 | Barrera Zambrano, V. A., T. Lawson, E. Olmos, N. Fernandez-Garcia and A. M. Borland | Leaf anatomical traits which accommodate the facultative engagement of crassulacean acid metabolism in tropical trees of the genus Clusia | Journal of Experimental Botany | 65(13) 3513–23 |
| 2014 | 10.1093/bib/bbs074 | Bare, J. C. and N. S. Baliga | Architecture for interoperable software in biology | Briefings in Bioinformatics | 15(4) 626–36 |
| 2014 | 10.1007/s12155-013-9348-x | Azarpira, A., J. Ralph and F. Lu | Catalytic alkaline oxidation of lignin and its model compounds: A pathway to aromatic biochemicals | Bioenergy Research | 7(1) 78-86 |
| 2014 | 10.1016/j.ymben.2014.08.002 | Au, J., J. Choi, S. W. Jones, K. P. Venkataramanan and M. R. Antoniewicz | Parallel labeling experiments validate Clostridium acetobutylicum metabolic network model for 13C metabolic flux analysis | Metabolic Engineering | 26 23–33 |
| 2014 | 10.1038/nature13560 | Anthony, K. M., S. A. Zimov, G. Grosse, M. C. Jones, P. M. Anthony, F. S. Chapin, 3rd, J. C. Finlay, M. C. Mack, S. Davydov, P. Frenzel and S. Frolking | A shift of thermokarst lakes from carbon sources to sinks during the Holocene epoch | Nature | 511(7510) 452–6 |
| 2014 | 10.17660/ActaHortic.2014.1042.1 | Amasino, R. | Florigen: A universal trigger for flowering? | Acta Horticulturae | 1042 21-26 |
| 2014 | 10.1038/ncomms5044 | Almeida, P., C. Gonçalves, S. Teixeira, D. Libkind, M. Bontrager, I. Masneuf-Pomarède, W. Albertin, P. Durrens, D. J. Sherman, P. Marullo, C. Todd Hittinger, P. Gonçalves and J. P. Sampaio | A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum | Nature Communications | 5 |
| 2014 | 10.1007/s10658-013-0317-1 | Alexander, H. M., K. E. Mauck, A. E. Whitfield, K. A. Garrett and C. M. Malmstrom | Plant-virus interactions and the agro-ecological interface | European Journal of Plant Pathology | 138(3) 529-547 |
| 2015 | 10.1128/mBio.02288-14 | Zhou, J., Z. He, Y. Yang, Y. Deng, S. G. Tringe and L. Alvarez-Cohen | High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats | mBio | 6(1) |
| 2015 | 10.1007/s10750-014-2039-6 | Zhang, Z. J., H. Wang, J. Z. Zhou, H. Y. Li, Z. L. He, J. D. Van Nostrand, Z. D. Wang and X. H. Xu | Redox potential and microbial functional gene diversity in wetland sediments under simulated warming conditions: implications for phosphorus mobilization | Hydrobiologia | 743(1) 221–35 |
| 2015 | 10.1016/j.envsoft.2014.10.005 | Zhang, X., R. C. Izaurralde, D. H. Manowitz, R. Sahajpal, T. O. West, A. M. Thomson, M. Xu, K. Zhao, S. D. LeDuc and J. R. Williams | Regional scale cropland carbon budgets: Evaluating a geospatial agricultural modeling system using inventory data | Environmental Modelling and Software | 63 199-216 |
| 2015 | 10.1073/pnas.1506781112 | Zhang, H., B. Pereira, Z. Li and G. Stephanopoulos | Engineering Escherichia coli coculture systems for the production of biochemical products | Proceedings of the National Academy of Sciences of the United States of America | 112(27) 8266–71 |
| 2015 | 10.1186/s12934-015-0319-0 | Zhang, H., Z. Li, B. Pereira and G. Stephanopoulos | Engineering E. coli-E. coli cocultures for production of muconic acid from glycerol | Microbial Cell Factories | 14 134 |
| 2015 | 10.1128/AEM.00111-15 | Zhang, B., C. R. Penton, C. Xue, Q. Wang, T. Zheng and J. M. Tiedje | Evaluation of the Ion Torrent Personal Genome Machine for Gene-Targeted Studies Using Amplicons of the Nitrogenase Gene nifH | Applied and Environmental Microbiology | 81(13) 4536–45 |
| 2015 | 10.4208/cicp.210711.111111s | Zhang, B., B. Lu, X. Cheng, J. Huang, N. P. Pitsianis, X. Sun and J. A. McCammon | Mathematical and Numerical Aspects of the Adaptive Fast Multipole Poisson-Boltzmann Solver | Communications in Computational Physics | 13(1) 107–28 |
| 2015 | 10.1038/nbt.3177 | Zeitoun, R. I., A. D. Garst, G. D. Degen, G. Pines, T. J. Mansell, T. Y. Glebes, N. R. Boyle and R. T. Gill | Multiplexed tracking of combinatorial genomic mutations in engineered cell populations | Nature Biotechnology | 33(6) 631–7 |
| 2015 | 10.3390/molecules200610032 | Yue, Y., Y. Chu and H. Guo | Computational Study of Symmetric Methylation on Histone Arginine Catalyzed by Protein Arginine Methyltransferase PRMT5 through QM/MM MD and Free Energy Simulations | Molecules | 20(6) 10032–46 |
| 2015 | 10.1038/ismej.2015.19 | Yue, H., M. Wang, S. Wang, J. A. Gilbert, X. Sun, L. Wu, Q. Lin, Y. Hu, X. Li, Z. He, J. Zhou and Y. Yang | The microbe-mediated mechanisms affecting topsoil carbon stock in Tibetan grasslands | The ISME Journal | 9(9) 2012–20 |
| 2015 | 10.1038/ismej.2015.31 | Youngblut, N. D., J. S. Wirth, J. R. Henriksen, M. Smith, H. Simon, W. W. Metcalf and R. J. Whitaker | Genomic and phenotypic differentiation among Methanosarcina mazei populations from Columbia River sediment | The ISME Journal | 9(10) 2191–205 |
| 2015 | 10.1038/ismej.2014.201 | Yoon, S., C. Cruz-García, R. Sanford, K. M. Ritalahti and F. E. Löffler | Denitrification versus respiratory ammonification: Environmental controls of two competing dissimilatory NO 3-/NO 2-reduction pathways in Shewanella loihica strain PV-4 | ISME Journal | 9(5) 1093-1104 |
| 2015 | 10.15252/msb.20145866 | Yaung, S. J., L. Deng, N. Li, J. L. Braff, G. M. Church, L. Bry, H. H. Wang and G. K. Gerber | Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics | Molecular Systems Biology | 11(3) 788 |
| 2015 | 10.1155/2015/608042 | Yao, J., H. Guo and X. Yang | PPCM: Combing Multiple Classifiers to Improve Protein-Protein Interaction Prediction | International Journal of Genomics | 2015 608042 |
| 2015 | 10.1021/acs.biochem.5b00638 | Yao, J., H. Guo, M. Chaiprasongsuk, N. Zhao, F. Chen, X. Yang and H. Guo | Substrate-Assisted Catalysis in the Reaction Catalyzed by Salicylic Acid Binding Protein 2 (SABP2), a Potential Mechanism of Substrate Discrimination for Some Promiscuous Enzymes | Biochemistry | 54(34) 5366–75 |
| 2015 | 10.1155/2015/924369 | Yang, X., J. Leebens-Mack, F. Chen and Y. Yin | Plant Comparative and Functional Genomics | International Journal of Genomics | 2015 924369 |
| 2015 | 10.3389/fpls.2015.00275 | Yadav, U. P., B. G. Ayre and D. R. Bush | Transgenic approaches to altering carbon and nitrogen partitioning in whole plants: assessing the potential to improve crop yields and nutritional quality | Frontiers in Plant Science | 6 275 |
| 2015 | 10.1186/s13068-015-0378-9 | Xue, S., N. Uppugundla, M. J. Bowman, D. Cavalier, L. Da Costa Sousa, B. E. Dale and V. Balan | Sugar loss and enzyme inhibition due to oligosaccharide accumulation during high solids-loading enzymatic hydrolysis | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1007/s11295-015-0907-5 | Xue, L.-J., M. S. Alabady, M. Mohebbi and C.-J. Tsai | Exploiting genome variation to improve next-generation sequencing data analysis and genome editing efficiency in Populus tremula × alba 717-1B4 | Tree Genetics & Genomes | 11(4) 82 |
| 2015 | 10.1021/ac504118y | Xu, Y. F., W. Lu and J. D. Rabinowitz | Avoiding misannotation of in-source fragmentation products as cellular metabolites in liquid chromatography-mass spectrometry-based metabolomics | Analytical Chemistry | 87(4) 2273–81 |
| 2015 | 10.1038/nplants.2015.53 | Xiong, W., J. A. Morgan, J. Ungerer, B. Wang, P.-C. Maness and J. Yu | The plasticity of cyanobacterial metabolism supports direct CO2 conversion to ethylene | Nature Plants | 1(5) |
| 2015 | 10.1105/tpc.15.00641 | Xing, D., Y. Wang, M. Hamilton, A. Ben-Hur and A. S. Reddy | Transcriptome-Wide Identification of RNA Targets of Arabidopsis Serine/Arginine-Rich45 Uncovers the Unexpected Roles of This RNA Binding Protein in RNA Processing | The Plant Cell | 27(12) 3294–308 |
| 2015 | 10.1186/s12866-015-0450-4 | Wu, L., C. Wen, Y. Qin, H. Yin, Q. Tu, J. D. Van Nostrand, T. Yuan, M. Yuan, Y. Deng and J. Zhou | Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis | BMC Microbiology | 15 125 |
| 2015 | 10.1016/j.ijms.2015.07.008 | Wongkongkathep, P., H. Li, X. Zhang, R. R. Ogorzalek Loo, R. R. Julian and J. A. Loo | Enhancing protein disulfide bond cleavage by UV excitation and electron capture dissociation for top-down mass spectrometry | International Journal of Mass Spectrometry | 390 137-145 |
| 2015 | 10.1021/jp505818r | Wolter, T., M. Elstner, S. Fischer, J. C. Smith and A. N. Bondar | Mechanism by which untwisting of retinal leads to productive bacteriorhodopsin photocycle states | Journal of Physical Chemistry B | 119(6) 2229–40 |
| 2015 | 10.1128/microbiolspec.MBP-0014-2014 | Wolfe, A. J. | Glycolysis for Microbiome Generation | Microbiology Spectrum | 3(3) |
| 2015 | 10.1021/jacs.5b04520 | Winter, J. M., D. Cascio, D. Dietrich, M. Sato, K. Watanabe, M. R. Sawaya, J. C. Vederas and Y. Tang | Biochemical and Structural Basis for Controlling Chemical Modularity in Fungal Polyketide Biosynthesis | Journal of the American Chemical Society | 137(31) 9885-9893 |
| 2015 | 10.1016/j.tplants.2015.06.009 | Widhalm, J. R., R. Jaini, J. A. Morgan and N. Dudareva | Rethinking how volatiles are released from plant cells | Trends in Plant Science | 20(9) 545–50 |
| 2015 | 10.1038/ncomms9142 | Widhalm, J. R., M. Gutensohn, H. Yoo, F. Adebesin, Y. Qian, L. Guo, R. Jaini, J. H. Lynch, R. M. McCoy, J. T. Shreve, J. Thimmapuram, D. Rhodes, J. A. Morgan and N. Dudareva | Identification of a plastidial phenylalanine exporter that influences flux distribution through the phenylalanine biosynthetic network | Nature Communications | 6 8142 |
| 2015 | 10.1016/j.molp.2014.12.001 | Widhalm, J. R. and N. Dudareva | A familiar ring to it: biosynthesis of plant benzoic acids | Molecular Plant | 8(1) 83–97 |
| 2015 | 10.1111/pbi.12254 | Weyman, P. D., K. Beeri, S. C. Lefebvre, J. Rivera, J. K. McCarthy, A. L. Heuberger, G. Peers, A. E. Allen and C. L. Dupont | Inactivation of Phaeodactylum tricornutum urease gene using transcription activator-like effector nuclease-based targeted mutagenesis | Plant Biotechnology Journal | 13(4) 460–70 |
| 2015 | 10.1021/ja511297d | Welsher, K., S. A. McManus, C. H. Hsia, S. Yin and H. Yang | Discovery of protein- and DNA-imperceptible nanoparticle hard coating using gel-based reaction tuning | Journal of the American Chemical Society | 137(2) 580–3 |
| 2015 | 10.1371/journal.pcbi.1004079 | Weighill, D. A. and D. A. Jacobson | 3-way networks: application of hypergraphs for modelling increased complexity in comparative genomics | PLoS Computational Biology | 11(3) e1004079 |
| 2015 | 10.1007/s00300-014-1598-3 | Wei, S. T. S., M. A. Fernandez-Martinez, Y. K. Chan, J. D. Van Nostrand, A. de los Rios-Murillo, J. M. Y. Chiu, A. M. Ganeshram, S. C. Cary, J. Z. Zhou and S. B. Pointing | Diverse metabolic and stress-tolerance pathways in chasmoendolithic and soil communities of Miers Valley, McMurdo Dry Valleys, Antarctica | Polar Biology | 38(4) 433–43 |
| 2015 | 10.1016/j.ymben.2015.02.007 | Wasylenko, T. M., W. S. Ahn and G. Stephanopoulos | The oxidative pentose phosphate pathway is the primary source of NADPH for lipid overproduction from glucose in Yarrowia lipolytica | Metabolic Engineering | 30 27–39 |
| 2015 | 10.3389/fpls.2015.01064 | Wang, X., S. Liu, H. Tian, S. Wang and J. G. Chen | The Small Ethylene Response Factor ERF96 is Involved in the Regulation of the Abscisic Acid Response in Arabidopsis | Frontiers in Plant Science | 6 1064 |
| 2015 | 10.1186/s40168-015-0093-6 | Wang, Q., J. A. Fish, M. Gilman, Y. Sun, C. T. Brown, J. M. Tiedje and J. R. Cole | Xander: employing a novel method for efficient gene-targeted metagenomic assembly | Microbiome | 3 32 |
| 2015 | 10.1016/j.cbpa.2015.08.006 | Wang, P., N. Dudareva, J. A. Morgan and C. Chapple | Genetic manipulation of lignocellulosic biomass for bioenergy | Current Opinion in Chemical Biology | 29 32–9 |
| 2015 | 10.1002/mbo3.302 | Wang, M., S. Liu, F. Wang, B. Sun, J. Zhou and Y. Yang | Microbial responses to southward and northward Cambisol soil transplant | MicrobiologyOpen | 4(6) 931–40 |
| 2015 | 10.1016/j.biombioe.2015.10.029 | Wang, B. X., J. R. Seiler and C. S. Mei | Burkholderia phytofirmans strain PsJN advanced development and altered leaf level physiology of switchgrass | Biomass & Bioenergy | 83 493–500 |
| 2015 | 10.1016/j.plaphy.2014.11.008 | Wang, B., C. Mei and J. R. Seiler | Early growth promotion and leaf level physiology changes in Burkholderia phytofirmans strain PsJN inoculated switchgrass | Plant Physiology and Biochemistry | 86 16–23 |
| 2015 | 10.1073/pnas.1504986112 | Wan, Q., J. M. Parks, B. L. Hanson, S. Z. Fisher, A. Ostermann, T. E. Schrader, D. E. Graham, L. Coates, P. Langan and A. Kovalevsky | Direct determination of protonation states and visualization of hydrogen bonding in a glycoside hydrolase with neutron crystallography | Proceedings of the National Academy of Sciences of the United States of America | 112(40) 12384–9 |
| 2015 | 10.3390/molecules20057657 | Wall, J. S., E. B. Martin, T. Richey, A. C. Stuckey, S. Macy, C. Wooliver, A. Williams, J. S. Foster, P. McWilliams-Koeppen, E. Uberbacher, X. Cheng and S. J. Kennel | Preclinical Validation of the Heparin-Reactive Peptide p5+14 as a Molecular Imaging Agent for Visceral Amyloidosis | Molecules | 20(5) 7657–82 |
| 2015 | 10.1186/s13068-015-0402-0 | Walker, J. A., T. E. Takasuka, K. Deng, C. M. Bianchetti, H. S. Udell, B. M. Prom, H. Kim, P. D. Adams, T. R. Northen and B. G. Fox | Multifunctional cellulase catalysis targeted by fusion to different carbohydrate-binding modules | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1103/PhysRevE.91.052705 | Vural, D., L. Hong, J. C. Smith and H. R. Glyde | Motional displacements in proteins: The origin of wave-vector-dependent values | Physical Review E | 91(5) 052705 |
| 2015 | 10.1186/s13068-015-0379-8 | Vermaas, J. V., L. Petridis, X. Qi, R. Schulz, B. Lindner and J. C. Smith | Mechanism of lignin inhibition of enzymatic biomass deconstruction | Biotechnology for Biofuels | 8 217 |
| 2015 | 10.1186/s13068-015-0260-9 | Venkataramanan, K. P., L. Min, S. Hou, S. W. Jones, M. T. Ralston, K. H. Lee and E. T. Papoutsakis | Complex and extensive post-transcriptional regulation revealed by integrative proteomic and transcriptomic analysis of metabolite stress response in Clostridium acetobutylicum | Biotechnology for Biofuels | 8 81 |
| 2015 | 10.1104/pp.114.255620 | Vayssieres, A., A. Pencik, J. Felten, A. Kohler, K. Ljung, F. Martin and V. Legue | Development of the Poplar-Laccaria bicolor Ectomycorrhiza Modifies Root Auxin Metabolism, Signaling, and Response | Plant Physiology | 169(1) 890–902 |
| 2015 | 10.1016/j.ymben.2014.09.007 | Vasdekis, A. E. and G. Stephanopoulos | Review of methods to probe single cell metabolism and bioenergetics | Metabolic Engineering | 27 115–35 |
| 2015 | 10.1038/nature15714 | VanBuren, R., D. Bryant, P. P. Edger, H. Tang, D. Burgess, et al. | Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum | Nature | 527(7579) 508–11 |
| 2015 | 10.1111/nph.13288 | van der Heijden, M. G. A., F. M. Martin, M. A. Selosse and I. R. Sanders | Mycorrhizal ecology and evolution: the past, the present, and the future | New Phytologist | 205(4) 1406–23 |
| 2015 | 10.1038/sdata.2015.14 | Utturkar, S. M., D. M. Klingeman, J. M. Bruno-Barcena, M. S. Chinn, A. M. Grunden, M. Kopke and S. D. Brown | Sequence data for Clostridium autoethanogenum using three generations of sequencing technologies | Scientific Data | 2 150014 |
| 2015 | 10.1128/AEM.04040-14 | Tu, Q., M. Yuan, Z. He, Y. Deng, K. Xue, L. Wu, S. E. Hobbie, P. B. Reich and J. Zhou | Fungal communities respond to long-term CO2 elevation by community reassembly | Applied and Environmental Microbiology | 81(7) 2445–54 |
| 2015 | 10.1080/21645698.2015.1091553 | Tsai, C. J. and L. J. Xue | CRISPRing into the woods | GM Crops & Food | 6(4) 206–15 |
| 2015 | 10.1534/genetics.115.178608 | Truong, S. K., R. F. McCormick, W. L. Rooney and J. E. Mullet | Harnessing Genetic Variation in Leaf Angle to Increase Productivity of Sorghum bicolor | Genetics | 201(3) 1229–38 |
| 2015 | 10.1016/j.compbiolchem.2014.11.007 | Topham, C. M. and J. C. Smith | Tri-peptide reference structures for the calculation of relative solvent accessible surface area in protein amino acid residues | Computational Biology and Chemistry | 54 33–43 |
| 2015 | 10.1007/s11103-014-0275-9 | Tonnessen, B. W., P. Manosalva, J. M. Lang, M. Baraoidan, A. Bordeos, R. Mauleon, J. Oard, S. Hulbert, H. Leung and J. E. Leach | Rice phenylalanine ammonia-lyase gene OsPAL4 is associated with broad spectrum disease resistance | Plant Molecular Biology | 87(3) 273–86 |
| 2015 | 10.1093/jxb/eru500 | Tjellström, H., M. Strawsine and J. B. Ohlrogge | Tracking synthesis and turnover of triacylglycerol in leaves | Journal of Experimental Botany | 66(5) 1453-1461 |
| 2015 | 10.1063/1.4935938 | Timm, C. M., R. R. Hansen, M. J. Doktycz, S. T. Retterer and D. A. Pelletier | Microstencils to generate defined, multi-species patterns of bacteria | Biomicrofluidics | 9(6) 064103 |
| 2015 | 10.3389/fmicb.2015.01118 | Timm, C. M., A. G. Campbell, S. M. Utturkar, S. R. Jun, R. E. Parales, et al. | Metabolic functions of Pseudomonas fluorescens strains from Populus deltoides depend on rhizosphere or endosphere isolation compartment | Frontiers in Microbiology | 6 1118 |
| 2015 | 10.1111/gcbb.12126 | Tiemann, L. K. and A. S. Grandy | Mechanisms of soil carbon accrual and storage in bioenergy cropping systems | GCB Bioenergy | 7(2) 161-174 |
| 2015 | 10.1111/php.12448 | Tfaily, M. M., J. E. Corbett, R. Wilson, J. P. Chanton, P. H. Glaser, K. M. Cawley, R. Jaffe and W. T. Cooper | Utilization of PARAFAC-Modeled Excitation-Emission Matrix (EEM) Fluorescence Spectroscopy to Identify Biogeochemical Processing of Dissolved Organic Matter in a Northern Peatland | Photochemistry and Photobiology | 91(3) 684–95 |
| 2015 | 10.1007/s12155-014-9573-y | Tanger, P., M. E. Vega-Sánchez, M. Fleming, K. Tran, S. Singh, et al. | Cell Wall Composition and Bioenergy Potential of Rice Straw Tissues Are Influenced by Environment, Tissue Type, and Genotype | Bioenergy Research | 8(3) 1165-1182 |
| 2015 | 10.1186/s13068-014-0179-6 | Tang, X., L. D. C. Sousa, M. Jin, S. P. S. Chundawat, C. K. Chambliss, M. W. Lau, Z. Xiao, B. E. Dale and V. Balan | Designer synthetic media for studying microbialcatalyzed biofuel production | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1093/femsyr/fov002 | Sylvester, K., Q. M. Wang, B. James, R. Mendez, A. B. Hulfachor and C. T. Hittinger | Temperature and host preferences drive the diversification of Saccharomyces and other yeasts: A survey and the discovery of eight new yeast species | FEMS Yeast Research | 15(3) 45673 |
| 2015 | 10.1016/j.soilbio.2014.10.007 | Swenson, T. L., S. Jenkins, B. P. Bowen and T. R. Northen | Untargeted soil metabolomics methods for analysis of extractable organic matter | Soil Biology and Biochemistry | 80 189–98 |
| 2015 | 10.1016/j.soilbio.2015.07.022 | Swenson, T. L., B. P. Bowen, P. S. Nico and T. R. Northen | Competitive sorption of microbial metabolites on an iron oxide mineral | Soil Biology and Biochemistry | 90 34–41 |
| 2015 | 10.1093/jxb/erv383 | Swamy, P. S., H. Hu, S. Pattathil, V. J. Maloney, H. Xiao, L. J. Xue, J. D. Chung, V. E. Johnson, Y. Zhu, G. F. Peter, M. G. Hahn, S. D. Mansfield, S. A. Harding and C. J. Tsai | Tubulin perturbation leads to unexpected cell wall modifications and affects stomatal behaviour in Populus | Journal of Experimental Botany | 66(20) 6507–18 |
| 2015 | 10.1101/gr.182477.114 | Suzuki, Y., N. Assad-Garcia, M. Kostylev, V. N. Noskov, K. S. Wise, et al. | Bacterial genome reduction using the progressive clustering of deletions via yeast sexual cycling | Genome Research | 25(3) 435–44 |
| 2015 | 10.1186/s13104-015-1314-6 | Stuecker, T. N., S. Bramhacharya, K. M. Hodge-Hanson, G. Suen and J. C. Escalante-Semerena | Phylogenetic and amino acid conservation analyses of bacterial L-aspartate-α-decarboxylase and of its zymogen-maturation protein reveal a putative interaction domain | BMC Research Notes | 8 354 |
| 2015 | 10.1002/2015jg003004 | Stackhouse, B. T., T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. Pfiffner, N. C. Mykytczuk, R. Sanders, L. G. Whyte, L. Hedin, N. Saad, S. Myneni and T. C. Onstott | Effects of simulated spring thaw of permafrost from mineral cryosol on CO2 emissions and atmospheric CH4 uptake | Journal of Geophysical Research: Biogeosciences | 120(9) 1764–84 |
| 2015 | 10.1128/AEM.00217-15 | Smith, S. D., R. Bridou, A. Johs, J. M. Parks, D. A. Elias, R. A. Hurt, Jr., S. D. Brown, M. Podar and J. D. Wall | Site-directed mutagenesis of HgcA and HgcB reveals amino acid residues important for mercury methylation | Applied and Environmental Microbiology | 81(9) 3205–17 |
| 2015 | 10.1186/s13068-015-0239-6 | Slininger, P. J., M. A. Shea-Andersh, S. R. Thompson, B. S. Dien, C. P. Kurtzman, V. Balan, L. Da Costa Sousa, N. Uppugundla, B. E. Dale and M. A. Cotta | Evolved strains of Scheffersomyces stipitis achieving high ethanol productivity on acid- and base-pretreated biomass hydrolyzate at high solids loading | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1007/s12155-015-9660-8 | Slater, S. C., B. A. Simmons, T. S. Rogers, M. F. Phillips, K. Nordahl and B. H. Davison | The DOE Bioenergy Research Centers: History, Operations, and Scientific Output | Bioenergy Research | 8(3) 881-896 |
| 2015 | 10.1007/s12155-015-9611-4 | Sinistore, J. C., D. J. Reinemann, R. C. Izaurralde, K. R. Cronin, P. J. Meier, T. M. Runge and X. Zhang | Life cycle assessment of switchgrass cellulosic ethanol production in the Wisconsin and michigan agricultural contexts | Bioenergy Research | 8(3) 897-909 |
| 2015 | 10.3389/fenrg.2014.00062 | Singh, S., G. Cheng, N. Sathitsuksanoh, D. Wu, P. Varanasi, A. George, V. Balan, X. Gao, R. Kumar, B. E. Dale, C. E. Wyman and B. A. Simmons | Comparison of different biomass pretreatment techniques and their impact on chemistry and structure | Frontiers in Energy Research | 3(FEB) |
| 2015 | 10.1093/molbev/msv122 | Simmons, M. P., C. Bachy, S. Sudek, M. J. van Baren, L. Sudek, M. Ares, Jr. and A. Z. Worden | Intron Invasions Trace Algal Speciation and Reveal Nearly Identical Arctic and Antarctic Micromonas Populations | Molecular Biology and Evolution | 32(9) 2219–35 |
| 2015 | 10.1016/j.biotechadv.2014.11.007 | Si, T., H. Xiao and H. Zhao | Rapid prototyping of microbial cell factories via genome-scale engineering | Biotechnology Advances | 33(7) 1420–32 |
| 2015 | 10.1128/mBio.00746-15 | Shi, S., E. Nuccio, D. J. Herman, R. Rijkers, K. Estera, J. Li, U. N. da Rocha, Z. He, J. Pett-Ridge, E. L. Brodie, J. Zhou and M. Firestone | Successional Trajectories of Rhizosphere Bacterial Communities over Consecutive Seasons | mBio | 6(4) e00746 |
| 2015 | 10.1007/978-1-4939-2285-7_5 | Shen, T. and C. F. Wong | Brownian dynamics simulation of peptides with the University of Houston Brownian Dynamics (UHBD) program | Methods in Molecular Biology | 1268 75–87 |
| 2015 | 10.1101/gr.183012.114 | Sharon, I., M. Kertesz, L. A. Hug, D. Pushkarev, T. A. Blauwkamp, C. J. Castelle, M. Amirebrahimi, B. C. Thomas, D. Burstein, S. G. Tringe, K. H. Williams and J. F. Banfield | Accurate, multi-kb reads resolve complex populations and detect rare microorganisms | Genome Research | 25(4) 534–43 |
| 2015 | 10.3389/fpls.2015.00407 | Shahbaz, M., K. Ravet, G. Peers and M. Pilon | Prioritization of copper for the use in photosynthetic electron transport in developing leaves of hybrid poplar | Frontiers in Plant Science | 6 407 |
| 2015 | 10.1038/srep10134 | Ševcíková, T., A. Horák, V. Klimeš, V. Zbránková, E. Demir-Hilton, et al. | Updating algal evolutionary relationships through plastid genome sequencing: Did alveolate plastids emerge through endosymbiosis of an ochrophyte? | Scientific Reports | 5 |
| 2015 | 10.1186/s13068-015-0356-2 | Serate, J., D. Xie, E. Pohlmann, C. Donald, M. Shabani, et al. | Controlling microbial contamination during hydrolysis of AFEX-pretreated corn stover and switchgrass: Effects on hydrolysate composition, microbial response and fermentation | Biotechnology for Biofuels | 8(1) |
| 2015 | 10.1111/mmi.13161 | Schilling, B., D. Christensen, R. Davis, A. K. Sahu, L. I. Hu, A. Walker-Peddakotla, D. J. Sorensen, B. Zemaitaitis, B. W. Gibson and A. J. Wolfe | Protein acetylation dynamics in response to carbon overflow in Escherichia coli | Molecular Microbiology | 98(5) 847–63 |
| 2015 | 10.3198/jpr2014.08.0050crc | Sandhu, H. S., J. C. Comstock, R. A. Gilbert, V. S. Gordon, P. Korndorfer, N. El-Hout and R. A. Arundale | Registration of 'UFCP 78-1013' Sugarcane Cultivar | Journal of Plant Registrations | 9(3) 318–24 |
| 2015 | 10.1016/j.pbi.2015.05.016 | Ruberti, C., S. J. Kim, G. Stefano and F. Brandizzi | Unfolded protein response in plants: One master, many questions | Current Opinion in Plant Biology | 27 59-66 |
| 2015 | 10.1371/journal.pone.0128989 | Rotsch, D., T. Brossard, S. Bihmidine, W. Ying, V. Gaddam, M. Harmata, J. D. Robertson, M. Swyers, S. S. Jurisson and D. M. Braun | Radiosynthesis of 6'-Deoxy-6’[18F]Fluorosucrose via Automated Synthesis and Its Utility to Study In Vivo Sucrose Transport in Maize (Zea mays) Leaves | PLoS One | 10(5) e0128989 |
| 2015 | 10.1016/B978-0-12-800776-1.00022-4 | Rosenberg, J. N., V. H. Oh, G. Yu, B. J. Guzman, G. A. Oyler and M. J. Betenbaugh | Chapter 22 - Exploiting the Molecular Genetics of Microalgae: From Strain Development Pipelines to the Uncharted Waters of Mass Production | Handbook of Marine Microalgae: Biotechnology Advances | 331-352 |
| 2015 | 10.1093/nar/gkv616 | Rogers, J. K., C. D. Guzman, N. D. Taylor, S. Raman, K. Anderson and G. M. Church | Synthetic biosensors for precise gene control and real-time monitoring of metabolites | Nucleic Acids Research | 43(15) 7648–60 |
| 2015 | 10.1038/nature15368 | Rodriguez, J. A., M. I. Ivanova, M. R. Sawaya, D. Cascio, F. E. Reyes, et al. | Structure of the toxic core of α-synuclein from invisible crystals | Nature | 525(7570) 486-490 |
| 2015 | 10.1021/ci500359e | Riccardi, D., J. M. Parks, A. Johs and J. C. Smith | HackaMol: An Object-Oriented Modern Perl Library for Molecular Hacking on Multiple Scales | Journal of Chemical Information and Modeling | 55(4) 721–6 |
| 2015 | 10.1371/journal.pone.0123925 | Rempe, C. S., K. P. Burris, H. L. Woo, B. Goodrich, D. K. Gosnell, T. J. Tschaplinski and C. N. Stewart, Jr. | Computational Ranking of Yerba Mate Small Molecules Based on Their Predicted Contribution to Antibacterial Activity against Methicillin-Resistant Staphylococcus aureus | PLoS One | 10(5) e0123925 |
| 2015 | 10.7554/eLife.07597 | Rellan-Alvarez, R., G. Lobet, H. Lindner, P. L. Pradier, J. Sebastian, et al. | GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown root systems | eLife | 4 |
| 2015 | 10.1093/gbe/evv063 | Reichenberger, E. R., G. Rosen, U. Hershberg and R. Hershberg | Prokaryotic nucleotide composition is shaped by both phylogeny and the environment | Genome Biology and Evolution | 7(5) 1380–9 |
| 2015 | 10.7554/eLife.05477 | Raveh-Sadka, T., B. C. Thomas, A. Singh, B. Firek, B. Brooks, C. J. Castelle, I. Sharon, R. Baker, M. Good, M. J. Morowitz and J. F. Banfield | Gut bacteria are rarely shared by co-hospitalized premature infants, regardless of necrotizing enterocolitis development | eLife | 4 |
| 2015 | 10.1111/1462-2920.12840 | Quandt, C. A., A. Kohler, C. N. Hesse, T. J. Sharpton, F. Martin and J. W. Spatafora | Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome | Environmental Microbiology | 17(8) 2952–68 |
| 2015 | 10.1007/s12010-014-1326-z | Qiu, H., A. Geng, D. Zhu, Y. Le, J. Wu, N. Chow, J. H. Wu and J. Sun | Purification and characterization of a hemocyanin (Hemo1) with potential lignin-modification activities from the wood-feeding termite, Coptotermes formosanus Shiraki | Applied Biochemistry and Biotechnology | 175(2) 687–97 |
| 2015 | 10.7503/cjcu20150674 | Qian, P., Z. Nan, C. Feng and G. Hong | Understanding Substrate Specificity of Related Plant Methylesterases(MESs) from Computational Investigations | Chemical Journal of Chinese Universities | 36(11) 2283 |
| 2015 | 10.1128/genomeA.01211-15 | Pomraning, K. R. and S. E. Baker | Draft Genome Sequence of the Dimorphic Yeast Yarrowia lipolytica Strain W29 | Genome Announcements | 3(6) |
| 2015 | 10.1016/j.phytochem.2015.07.022 | Pollard, M., T. M. Martin and Y. Shachar-Hill | Lipid analysis of developing Camelina sativa seeds and cultured embryos | Phytochemistry | 118 23-32 |
| 2015 | 10.1016/j.phytochem.2015.07.021 | Pollard, M., D. Delamarter, T. M. Martin and Y. Shachar-Hill | Lipid labeling from acetate or glycerol in cultured embryos of Camelina sativa seeds: A tale of two substrates | Phytochemistry | 118 192-203 |
| 2015 | 10.1016/j.pbi.2015.06.001 | Plett, J. M. and F. Martin | Reconsidering mutualistic plant-fungal interactions through the lens of effector biology | Current Opinion in Plant Biology | 26 45–50 |
| 2015 | 10.1210/me.2015-1161 | Pi, M., K. Kapoor, Y. Wu, R. Ye, S. E. Senogles, S. K. Nishimoto, D. J. Hwang, D. D. Miller, R. Narayanan, J. C. Smith, J. Baudry and L. D. Quarles | Structural and Functional Evidence for Testosterone Activation of GPRC6A in Peripheral Tissues | Molecular Endocrinology | 29(12) 1759–73 |
| 2015 | 10.1016/j.ymben.2015.01.009 | Pfleger, B. F., M. Gossing and J. Nielsen | Metabolic engineering strategies for microbial synthesis of oleochemicals | Metabolic Engineering | 29 1–11 |
| 2015 | 10.1109/BIBM.2015.7359686 | Petereit, J., F. C. Harris and K. Schlauch | petal: A Novel Co-Expression Network Modeling System | Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine | 234–41 |
| 2015 | 10.3389/fmicb.2015.00746 | Penton, C. R., D. St Louis, A. Pham, J. R. Cole, L. Wu, Y. Luo, E. A. Schuur, J. Zhou and J. M. Tiedje | Denitrifying and diazotrophic community responses to artificial warming in permafrost and tallgrass prairie soils | Frontiers in Microbiology | 6 746 |
| 2015 | 10.3389/fmicb.2015.01278 | Pellegrin, C., E. Morin, F. M. Martin and C. Veneault-Fourrey | Comparative Analysis of Secretomes from Ectomycorrhizal Fungi with an Emphasis on Small-Secreted Proteins | Frontiers in Microbiology | 6 1278 |
| 2015 | 10.1104/pp.15.01155 | Park, H. J., D. S. Floss, V. Levesque-Tremblay, A. Bravo and M. J. Harrison | Hyphal Branching during Arbuscule Development Requires Reduced Arbuscular Mycorrhiza1 | Plant Physiology | 169(4) 2774–88 |
| 2015 | 10.7554/eLife.13232 | Papanikou, E., K. J. Day, J. Austin, II and B. S. Glick | COPI selectively drives maturation of the early Golgi | eLife | 4 e13232 |
| 2015 | 10.1039/c4sm02227k | Pan, J., X. Cheng, M. Sharp, C. S. Ho, N. Khadka and J. Katsaras | Structural and mechanical properties of cardiolipin lipid bilayers determined using neutron spin echo, small angle neutron and X-ray scattering, and molecular dynamics simulations | Soft Matter | 11(1) 130–8 |
| 2015 | 10.1111/1462-2920.12673 | Otwell, A. E., R. W. Sherwood, S. Zhang, O. D. Nelson, Z. Li, H. Lin, S. J. Callister and R. E. Richardson | Identification of proteins capable of metal reduction from the proteome of the Gram-positive bacterium Desulfotomaculum reducens MI-1 using an NADH-based activity assay | Environmental Microbiology | 17(6) 1977–90 |
| 2015 | 10.1038/ismej.2014.203 | Oshkin, I. Y., D. A. Beck, A. E. Lamb, V. Tchesnokova, G. Benuska, T. L. McTaggart, M. G. Kalyuzhnaya, S. N. Dedysh, M. E. Lidstrom and L. Chistoserdova | Methane-fed microbial microcosms show differential community dynamics and pinpoint taxa involved in communal response | The ISME Journal | 9(5) 1119–29 |
| 2015 | 10.1016/j.funeco.2015.03.003 | Oliver, A. K., S. P. Brown, M. A. Callaham and A. Jumpponen | Polymerase matters: non-proofreading enzymes inflate fungal community richness estimates by up to 15% | Fungal Ecology | 15 86–9 |
| 2015 | 10.3389/fmicb.2015.00277 | Nunes da Rocha, U., H. Cadillo-Quiroz, U. Karaoz, L. Rajeev, N. Klitgord, S. Dunn, V. Truong, M. Buenrostro, B. P. Bowen, F. Garcia-Pichel, A. Mukhopadhyay, T. R. Northen and E. L. Brodie | Isolation of a significant fraction of non-phototroph diversity from a desert Biological Soil Crust | Frontiers in Microbiology | 6 277 |
| 2015 | 10.1016/j.chemphyslip.2015.07.012 | Nickels, J. D., J. C. Smith and X. Cheng | Lateral organization, bilayer asymmetry, and inter-leaflet coupling of biological membranes | Chemistry and Physics of Lipids | 192 87–99 |
| 2015 | 10.1021/jacs.5b08894 | Nickels, J. D., X. Cheng, B. Mostofian, C. Stanley, B. Lindner, F. A. Heberle, S. Perticaroli, M. Feygenson, T. Egami, R. F. Standaert, J. C. Smith, D. A. Myles, M. Ohl and J. Katsaras | Mechanical Properties of Nanoscopic Lipid Domains | Journal of the American Chemical Society | 137(50) 15772–80 |
| 2015 | 10.1016/j.ymeth.2015.05.022 | Myers, K. S., D. M. Park, N. A. Beauchene and P. J. Kiley | Defining bacterial regulons using ChIP-seq | Methods | 86 80-88 |
| 2015 | 10.1038/ismej.2014.113 | Mosier, A. C., Z. Li, B. C. Thomas, R. L. Hettich, C. Pan and J. F. Banfield | Elevated temperature alters proteomic responses of individual organisms within a biofilm community | The ISME Journal | 9(1) 180–94 |
| 2015 | 10.1016/j.cub.2014.12.004 | Morrissey, J., R. Sutak, J. Paz-Yepes, A. Tanaka, A. Moustafa, A. Veluchamy, Y. Thomas, H. Botebol, F. Y. Bouget, J. B. McQuaid, L. Tirichine, A. E. Allen, E. Lesuisse and C. Bowler | A novel protein, ubiquitous in marine phytoplankton, concentrates iron at the cell surface and facilitates uptake | Current Biology | 25(3) 364–71 |
| 2015 | 10.1021/bi501547k | Mitchell, J. M., J. R. Clasman, C. M. June, K. C. Kaitany, J. R. LaFleur, M. A. Taracila, N. V. Klinger, R. A. Bonomo, T. Wymore, A. Szarecka, R. A. Powers and D. A. Leonard | Structural basis of activity against aztreonam and extended spectrum cephalosporins for two carbapenem-hydrolyzing class D β-lactamases from Acinetobacter baumannii | Biochemistry | 54(10) 1976–87 |
| 2015 | 10.1038/ng.3435 | Ming, R., R. VanBuren, C. M. Wai, H. Tang, M. C. Schatz, et al. | The pineapple genome and the evolution of CAM photosynthesis | Nature Genetics | 47(12) 1435–42 |
| 2015 | 10.1007/s11273-015-9421-7 | Meirelles, M. L., R. Bracho and E. A. B. Ferreira | Carbon dioxide exchange in a tropical wet grassland | Wetlands Ecology and Management | 23(5) 817–26 |
| 2015 | 10.1111/1758-2229.12259 | Meinhardt, K. A., A. Bertagnolli, M. W. Pannu, S. E. Strand, S. L. Brown and D. A. Stahl | Evaluation of revised polymerase chain reaction primers for more inclusive quantification of ammonia-oxidizing archaea and bacteria | Environmental Microbiology Reports | 7(2) 354–63 |
| 2015 | 10.3390/microorganisms3010094 | McTaggart, T. L., D. A. Beck, U. Setboonsarng, N. Shapiro, T. Woyke, M. E. Lidstrom, M. G. Kalyuzhnaya and L. Chistoserdova | Genomics of Methylotrophy in Gram-Positive Methylamine-Utilizing Bacteria | Microorganisms | 3(1) 94–112 |
| 2015 | 10.1007/978-3-662-46011-5_9 | McLaughlin, D. J., T. K. A. Kumar, M. Blackwell, P. M. Letcher and R. W. Roberson | 9 Subcellular Structure and Biochemical Characters in Fungal Phylogeny | Systematics and Evolution: Part B | 7B 229–58 |
| 2015 | 10.1038/nature15512 | McGlynn, S. E., G. L. Chadwick, C. P. Kempes and V. J. Orphan | Single cell activity reveals direct electron transfer in methanotrophic consortia | Nature | 526(7574) 531–5 |
| 2015 | 10.1007/s00299-014-1710-8 | McGlew, K., V. Shaw, M. Zhang, R. J. Kim, W. Yang, B. Shorrosh, M. C. Suh and J. Ohlrogge | An annotated database of Arabidopsis mutants of acyl lipid metabolism | Plant Cell Reports | 34(4) 519-532 |
| 2015 | 10.1016/j.copbio.2015.08.004 | McAtee, A. G., L. J. Jazmin and J. D. Young | Application of isotope labeling experiments and 13C flux analysis to enable rational pathway engineering | Current Opinion in Biotechnology | 36 50–6 |
| 2015 | 10.1007/s00248-015-0615-6 | Mason, O. U., D. H. Case, T. H. Naehr, R. W. Lee, R. B. Thomas, J. V. Bailey and V. J. Orphan | Comparison of Archaeal and Bacterial Diversity in Methane Seep Carbonate Nodules and Host Sediments, Eel River Basin and Hydrate Ridge, USA | Microbial Ecology | 70(3) 766–84 |
| 2015 | 10.1128/JB.02595-14 | Martinez-Gomez, N. C., N. M. Good and M. E. Lidstrom | Methenyl-Dephosphotetrahydromethanopterin Is a Regulatory Signal for Acclimation to Changes in Substrate Availability in Methylobacterium extorquens AM1 | Journal of Bacteriology | 197(12) 2020–6 |
| 2015 | 10.1038/nature14121 | Mandell, D. J., M. J. Lajoie, M. T. Mee, R. Takeuchi, G. Kuznetsov, J. E. Norville, C. J. Gregg, B. L. Stoddard and G. M. Church | Biocontainment of genetically modified organisms by synthetic protein design | Nature | 518(7537) 55–60 |
| 2015 | 10.1007/s10858-015-9965-0 | Macdonald, R., D. Sarkar, B. R. Amer and R. T. Clubb | Solution structure of the PhoP DNA-binding domain from Mycobacterium tuberculosis | Journal of Biomolecular NMR | 63(1) 111-117 |
| 2015 | 10.1007/s12155-015-9583-4 | Lu, F., S. D. Karlen, M. Regner, H. Kim, S. A. Ralph, et al. | Naturally p-Hydroxybenzoylated Lignins in Palms | Bioenergy Research | 8(3) 934-952 |
| 2015 | 10.1016/j.pbi.2015.05.018 | Loqué, D., H. V. Scheller and M. Pauly | Engineering of plant cell walls for enhanced biofuel production | Current Opinion in Plant Biology | 25 151-161 |
| 2015 | 10.1016/j.copbio.2014.12.019 | Long, M. R., W. K. Ong and J. L. Reed | Computational methods in metabolic engineering for strain design | Current Opinion in Biotechnology | 34 135–41 |
| 2015 | 10.1128/jb.02450-14 | Lo, J., T. Zheng, S. Hon, D. G. Olson and L. R. Lynd | The Bifunctional Alcohol and Aldehyde Dehydrogenase Gene, adhE, Is Necessary for Ethanol Production in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum | Journal of Bacteriology | 197(8) 1386–93 |
| 2015 | 10.1111/1462-2920.12398 | Liu, S., F. Wang, K. Xue, B. Sun, Y. Zhang, Z. He, J. D. Van Nostrand, J. Zhou and Y. Yang | The interactive effects of soil transplant into colder regions and cropping on soil microbiology and biogeochemistry | Environmental Microbiology | 17(3) 566–76 |
| 2015 | 10.1111/nph.13151 | Liu, L., M. Zinkgraf, H. E. Petzold, E. P. Beers, V. Filkov and A. Groover | The Populus ARBORKNOX1 homeodomain transcription factor regulates woody growth through binding to evolutionarily conserved target genes of diverse function | New Phytologist | 205(2) 682–94 |
| 2015 | 10.1016/j.indcrop.2014.11.019 | Liu, J., H. Tjellström, K. McGlew, V. Shaw, A. Rice, J. Simpson, D. Kosma, W. Ma, W. Yang, M. Strawsine, E. Cahoon, T. P. Durrett and J. Ohlrogge | Field production, purification and analysis of high-oleic acetyl-triacylglycerols from transgenic Camelina sativa | Industrial Crops and Products | 65 259-268 |
| 2015 | 10.1111/1462-2920.12485 | Liu, F., A. E. Rotaru, P. M. Shrestha, N. S. Malvankar, K. P. Nevin and D. R. Lovley | Magnetite compensates for the lack of a pilin-associated c-type cytochrome in extracellular electron exchange | Environmental Microbiology | 17(3) 648–55 |
| 2015 | 10.1002/bip.22555 | Lindner, B., L. Petridis, P. Langan and J. C. Smith | Determination of cellulose crystallinity from powder diffraction diagrams | Biopolymers | 103(2) 67–73 |
| 2015 | 10.1007/s10533-015-0132-1 | Lin, Y., J. Y. King, S. D. Karlen and J. Ralph | Using 2D NMR spectroscopy to assess effects of UV radiation on cell wall chemistry during litter decomposition | Biogeochemistry | 125(3) 427-436 |
| 2015 | 10.1016/j.soilbio.2014.10.005 | Liang, J. Y., D. J. Li, Z. Shi, J. M. Tiedje, J. Z. Zhou, E. A. G. Schuur, K. T. Konstantinidis and Y. Q. Luo | Methods for estimating temperature sensitivity of soil organic matter based on incubation data: A comparative evaluation | Soil Biology and Biochemistry | 80 127–35 |
| 2015 | 10.1016/j.bbrc.2015.10.016 | Li, Z., D. D. Kim, O. D. Nelson, A. E. Otwell, R. E. Richardson, S. J. Callister and H. Lin | Molecular dissection of a putative iron reductase from Desulfotomaculum reducens MI-1 | Biochemical and Biophysical Research Communications | 467(3) 503–8 |
| 2015 | 10.1016/j.copbio.2015.08.001 | Levering, J., J. Broddrick and K. Zengler | Engineering of oleaginous organisms for lipid production | Current Opinion in Biotechnology | 36 32–9 |
| 2015 | 10.3389/fmicb.2015.00149 | Leon, D. R., A. J. Ytterberg, P. Boontheung, U. Kim, J. A. Loo, R. P. Gunsalus and R. R. Ogorzalek Loo | Mining proteomic data to expose protein modifications in Methanosarcina mazei strain Gö1 | Frontiers in Microbiology | 6 149 |
| 2015 | 10.1016/j.str.2015.07.008 | Leibly, D. J., M. A. Arbing, I. Pashkov, N. Devore, G. S. Waldo, T. C. Terwilliger and T. O. Yeates | A suite of engineered GFP molecules for oligomeric scaffolding | Structure | 23(9) 1754-1768 |
| 2015 | 10.1021/sb500366v | Lee, M. E., W. C. DeLoache, B. Cervantes and J. E. Dueber | A Highly Characterized Yeast Toolkit for Modular, Multipart Assembly | ACS Synthetic Biology | 4(9) 975–86 |
| 2015 | 10.1128/EC.00106-15 | Lee, J. H., J. E. Heuser, R. Roth and U. Goodenough | Eisosome Ultrastructure and Evolution in Fungi, Microalgae, and Lichens | Eukaryotic Cell | 14(10) 1017–42 |
| 2015 | 10.1038/ismej.2015.13 | Lau, M. C., B. T. Stackhouse, A. C. Layton, A. Chauhan, T. A. Vishnivetskaya, et al. | An active atmospheric methane sink in high Arctic mineral cryosols | The ISME Journal | 9(8) 1880–91 |
| 2015 | 10.1128/AEM.01365-15 | Latif, H., M. Sahin, J. Tarasova, Y. Tarasova, V. A. Portnoy, J. Nogales and K. Zengler | Adaptive evolution of Thermotoga maritima reveals plasticity of the ABC transporter network | Applied and Environmental Microbiology | 81(16) 5477-5485 |
| 2015 | 10.1093/jxb/erv096 | Lara-Chavez, A., S. Lowman, S. Kim, Y. Tang, J. Zhang, M. Udvardi, J. Nowak, B. Flinn and C. Mei | Global gene expression profiling of two switchgrass cultivars following inoculation with Burkholderia phytofirmans strain PsJN | Journal of Experimental Botany | 66(14) 4337–50 |
| 2015 | 10.1007/s10142-015-0433-4 | Land, M., L. Hauser, S. R. Jun, I. Nookaew, M. R. Leuze, T. H. Ahn, T. Karpinets, O. Lund, G. Kora, T. Wassenaar, S. Poudel and D. W. Ussery | Insights from 20 years of bacterial genome sequencing | Functional & Integrative Genomics | 15(2) 141–61 |
| 2015 | 10.1039/c4ib00257a | Lafontaine Rivera, J. G., Y. Lee and J. C. Liao | An entropy-like index of bifurcational robustness for metabolic systems | Integrative Biology | 7(8) 895–903 |
| 2015 | 10.1016/j.envsoft.2015.06.006 | Kyle, P., A. Thomson, M. Wise and X. Zhang | Assessment of the importance of spatial scale in long-term land use modeling of the Midwestern United States | Environmental Modelling and Software | 72 261-271 |
| 2015 | 10.1016/j.funeco.2014.12.005 | Kuske, C. R., C. N. Hesse, J. F. Challacombe, D. Cullen, J. R. Herr, R. C. Mueller, A. Tsang and R. Vilgalys | Prospects and challenges for fungal metatranscriptomics of complex communities | Fungal Ecology | 14 133–7 |
| 2015 | 10.1073/pnas.1420663112 | Kremer, T. A., B. LaSarre, A. L. Posto and J. B. McKinlay | N2 gas is an effective fertilizer for bioethanol production by Zymomonas mobilis | Proceedings of the National Academy of Sciences of the United States of America | 112(7) 2222–6 |
| 2015 | 10.1371/journal.pone.0137466 | Kostylev, M., A. E. Otwell, R. E. Richardson and Y. Suzuki | Cloning Should Be Simple: Escherichia coli DH5α-Mediated Assembly of Multiple DNA Fragments with Short End Homologies | PLoS One | 10(9) e0137466 |
| 2015 | 10.1128/AEM.02064-15 | Korripally, P., C. G. Hunt, C. J. Houtman, D. C. Jones, P. J. Kitin, D. Cullen and K. E. Hammel | Regulation of Gene Expression during the Onset of Ligninolytic Oxidation by Phanerochaete chrysosporium on Spruce Wood | Applied and Environmental Microbiology | 81(22) 7802–12 |
| 2015 | 10.1038/ng.3223 | Kohler, A., A. Kuo, L. G. Nagy, E. Morin, K. W. Barry, et al. | Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists | Nature Genetics | 47(4) 410–5 |
| 2015 | 10.1002/bit.25359 | Ko, J. K., E. Ximenes, Y. Kim and M. R. Ladisch | Adsorption of enzyme onto lignins of liquid hot water pretreated hardwoods | Biotechnology and Bioengineering | 112(3) 447–56 |
| 2015 | 10.1002/bit.25349 | Ko, J. K., Y. Kim, E. Ximenes and M. R. Ladisch | Effect of liquid hot water pretreatment severity on properties of hardwood lignin and enzymatic hydrolysis of cellulose | Biotechnology and Bioengineering | 112(2) 252–62 |
| 2015 | 10.1128/genomeA.01344-15 | Klingeman, D. M., S. Utturkar, T. Y. Lu, C. W. Schadt, D. A. Pelletier and S. D. Brown | Draft Genome Sequences of Four Streptomyces Isolates from the Populus trichocarpa Root Endosphere and Rhizosphere | Genome Announcements | 3(6) |
| 2015 | 10.1371/journal.pcbi.1004321 | King, Z. A., A. Drager, A. Ebrahim, N. Sonnenschein, N. E. Lewis and B. O. Palsson | Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways | PLoS Computational Biology | 11(8) e1004321 |
| 2015 | 10.1002/bit.25465 | Kim, Y., T. Kreke, J. K. Ko and M. R. Ladisch | Hydrolysis-determining substrate characteristics in liquid hot water pretreated hardwood | Biotechnology and Bioengineering | 112(4) 677–87 |
| 2015 | 10.1016/j.biombioe.2015.01.018 | Kim, S. and B. E. Dale | Comparing alternative cellulosic biomass biorefining systems: Centralized versus distributed processing systems | Biomass and Bioenergy | 74 135-147 |
| 2015 | 10.1186/s12870-015-0586-2 | Kilaru, A., X. Cao, P. B. Dabbs, H. J. Sung, M. M. Rahman, N. Thrower, G. Zynda, R. Podicheti, E. Ibarra-Laclette, L. Herrera-Estrella, K. Mockaitis and J. B. Ohlrogge | Oil biosynthesis in a basal angiosperm: Transcriptome analysis of Persea americana mesocarp | BMC Plant Biology | 15(1) |
| 2015 | 10.1038/nmeth.3580 | Kiani, S., A. Chavez, M. Tuttle, R. N. Hall, R. Chari, et al. | Cas9 gRNA engineering for genome editing, activation and repression | Nature Methods | 12(11) 1051–4 |
| 2015 | 10.1016/j.bpj.2015.04.010 | Khadka, N. K., X. Cheng, C. S. Ho, J. Katsaras and J. Pan | Interactions of the anticancer drug tamoxifen with lipid membranes | Biophysical Journal | 108(10) 2492–501 |
| 2015 | 10.1111/1567-1364.12199 | Kerkhoven, E. J., P. J. Lahtvee and J. Nielsen | Applications of computational modeling in metabolic engineering of yeast | FEMS Yeast Research | 15(1) |
| 2015 | 10.1111/pce.12500 | Kebrom, T. H. and J. E. Mullet | Photosynthetic leaf area modulates tiller bud outgrowth in sorghum | Plant Cell & Environment | 38(8) 1471–8 |
| 2015 | 10.1007/s10577-014-9455-3 | Karas, B. J., Y. Suzuki and P. D. Weyman | Strategies for cloning and manipulating natural and synthetic chromosomes | Chromosome Research | 23(1) 57–68 |
| 2015 | 10.1038/ncomms7925 | Karas, B. J., R. E. Diner, S. C. Lefebvre, J. McQuaid, A. P. Phillips, et al. | Designer diatom episomes delivered by bacterial conjugation | Nature Communications | 6 6925 |
| 2015 | 10.1038/srep18165 | Kao-Kniffin, J., B. J. Woodcroft, S. M. Carver, J. G. Bockheim, J. Handelsman, G. W. Tyson, K. M. Hinkel and C. W. Mueller | Archaeal and bacterial communities across a chronosequence of drained lake basins in Arctic Alaska | Scientific Reports | 5 18165 |
| 2015 | 10.1128/genomeA.00103-15 | Kalyuzhnaya, M. G., A. E. Lamb, T. L. McTaggart, I. Y. Oshkin, N. Shapiro, T. Woyke and L. Chistoserdova | Draft genome sequences of gammaproteobacterial methanotrophs isolated from Lake Washington sediment | Genome Announcements | 3(2) |
| 2015 | 10.1016/j.soilbio.2015.09.005 | Kallenbach, C. M., A. S. Grandy, S. D. Frey and A. F. Diefendorf | Microbial physiology and necromass regulate agricultural soil carbon accumulation | Soil Biology and Biochemistry | 91 279-290 |
| 2015 | 10.1186/s13104-015-1462-8 | Jun, S. R., M. S. Robeson, L. J. Hauser, C. W. Schadt and A. A. Gorin | PanFP: pangenome-based functional profiles for microbial communities | BMC Research Notes | 8 479 |
| 2015 | 10.3390/molecules20057700 | Johnson, Q. R., R. J. Lindsay, L. Petridis and T. Shen | Investigation of Carbohydrate Recognition via Computer Simulation | Molecules | 20(5) 7700–18 |
| 2015 | 10.1111/nph.13378 | Johnsen, H. R., B. Striberny, S. Olsen, S. Vidal-Melgosa, J. U. Fangel, W. G. Willats, J. K. Rose and K. Krause | Cell wall composition profiling of parasitic giant dodder (Cuscuta reflexa) and its hosts: a priori differences and induced changes | New Phytologist | 207(3) 805–16 |
| 2015 | 10.1016/j.plaphy.2015.07.010 | Jiang, Y., H. Chen, X. Chen, T. G. Kollner, Q. Jia, T. W. Wymore, F. Wang and F. Chen | Volatile squalene from a nonseed plant Selaginella moellendorffii: Emission and biosynthesis | Plant Physiology and Biochemistry | 96 1–8 |
| 2015 | 10.1016/j.plantsci.2015.05.015 | Jia, X., B. Chanda, M. Zhao, A. M. Brunner and E. P. Beers | Instability of the Arabidopsis mutant csn5a-2 caused by epigenetic modification of intronic T-DNA | Plant Science | 238 53–63 |
| 2015 | 10.1016/j.phytochem.2015.02.013 | Jervis, J., S. B. Hildreth, X. Sheng, E. P. Beers, A. M. Brunner and R. F. Helm | A metabolomic assessment of NAC154 transcription factor overexpression in field grown poplar stem wood | Phytochemistry | 115 112–20 |
| 2015 | 10.1002/2014gl062573 | Jardine, A. B., K. J. Jardine, J. D. Fuentes, S. T. Martin, G. Martins, F. Durgante, V. Carneiro, N. Higuchi, A. O. Manzi and J. Q. Chambers | Highly reactive light-dependent monoterpenes in the Amazon | Geophysical Research Letters | 42(5) 1576–83 |
| 2015 | 10.1016/j.agee.2015.02.006 | Jach-Smith, L. C. and R. D. Jackson | Nitrogen conservation decreases with fertilizer addition in two perennial grass cropping systems for bioenergy | Agriculture, Ecosystems and Environment | 204 17-20 |
| 2015 | 10.1371/journal.pone.0139672 | Inagaki, S., I. M. Henry, M. C. Lieberman and L. Comai | High-Throughput Analysis of T-DNA Location and Structure Using Sequence Capture | PLoS One | 10(10) e0139672 |
| 2015 | 10.1371/journal.pcbi.1004103 | Imam, S., D. R. Noguera and T. J. Donohue | An Integrated Approach to Reconstructing Genome-Scale Transcriptional Regulatory Networks | PLoS Computational Biology | 11(2) |
| 2015 | 10.1007/s11120-014-0061-1 | Imam, S., C. M. Fitzgerald, E. M. Cook, T. J. Donohue and D. R. Noguera | Quantifying the effects of light intensity on bioproduction and maintenance energy during photosynthetic growth of Rhodobacter sphaeroides | Photosynthesis Research | 123(2) 167-182 |
| 2015 | 10.1038/ismej.2015.2 | Hug, L. A., B. C. Thomas, C. T. Brown, K. R. Frischkorn, K. H. Williams, S. G. Tringe and J. F. Banfield | Aquifer environment selects for microbial species cohorts in sediment and groundwater | The ISME Journal | 9(8) 1846–56 |
| 2015 | 10.1038/nphys3553 | Hu, X., L. Hong, M. Dean Smith, T. Neusius, X. Cheng and Jeremy C. Smith | The Dynamics of Single Protein Molecules is Non-Equilibrium and Self-Similar over Thirteen Decades in Time | Nature Physics | 12(2) 171–4 |
| 2015 | 10.1016/j.copbio.2015.08.007 | Hoynes-O'Connor, A. and T. S. Moon | Programmable genetic circuits for pathway engineering | Current Opinion in Biotechnology | 36 115–21 |
| 2015 | 10.1186/s13637-015-0026-5 | Hou, J., G. Stacey and J. Cheng | Exploring soybean metabolic pathways based on probabilistic graphical model and knowledge-based methods | EURASIP Journal on Bioinformatics and Systems Biology | 2015 5 |
| 2015 | 10.1016/j.soilbio.2015.04.005 | Holden, S. R., A. A. Berhe and K. K. Treseder | Decreases in soil moisture and organic matter quality suppress microbial decomposition following a boreal forest fire | Soil Biology and Biochemistry | 87 1–9 |
| 2015 | 10.1007/s10533-015-0142-z | Hodgkins, S. B., J. P. Chanton, L. C. Langford, C. K. McCalley, S. R. Saleska, V. I. Rich, P. M. Crill and W. T. Cooper | Soil incubations reproduce field methane dynamics in a subarctic wetland | Biogeochemistry | 126(1–2) 241–9 |
| 2015 | 10.1016/j.gde.2015.10.008 | Hittinger, C. T., A. Rokas, F. Y. Bai, T. Boekhout, P. Gonçalves, T. W. Jeffries, J. Kominek, M. A. Lachance, D. Libkind, C. A. Rosa, J. P. Sampaio and C. P. Kurtzman | Genomics and the making of yeast biodiversity | Current Opinion in Genetics and Development | 35 100-109 |
| 2015 | 10.1105/tpc.15.00349 | Henry, I. M., M. S. Zinkgraf, A. T. Groover and L. Comai | A System for Dosage-Based Functional Genomics in Poplar | The Plant Cell | 27(9) 2370–83 |
| 2015 | 10.1186/s13007-015-0070-x | Heckwolf, S., M. Heckwolf, S. M. Kaeppler, N. de Leon and E. P. Spalding | Image analysis of anatomical traits in stalk transections of maize and other grasses | Plant Methods | 11(1) |
| 2015 | 10.1016/j.copbio.2015.08.008 | Hays, S. G., W. G. Patrick, M. Ziesack, N. Oxman and P. A. Silver | Better together: engineering and application of microbial symbioses | Current Opinion in Biotechnology | 36 40–9 |
| 2015 | 10.1007/s00248-014-0469-3 | Hanshew, A. S., B. R. McDonald, C. Díaz Díaz, C. Djiéto-Lordon, R. Blatrix and C. R. Currie | Characterization of Actinobacteria Associated with Three Ant–Plant Mutualisms | Microbial Ecology | 69(1) 192-203 |
| 2015 | 10.1016/j.biortech.2015.01.135 | Han, J., J. S. Luterbacher, D. M. Alonso, J. A. Dumesic and C. T. Maravelias | A lignocellulosic ethanol strategy via nonenzymatic sugar production: Process synthesis and analysis | Bioresource Technology | 182 258-266 |
| 2015 | 10.1007/s11306-014-0747-6 | Hamerly, T., B. P. Tripet, M. Tigges, R. J. Giannone, L. Wurch, R. L. Hettich, M. Podar, V. Copie and B. Bothner | Untargeted metabolomics studies employing NMR and LC-MS reveal metabolic coupling between Nanoarcheum equitans and its archaeal host Ignicoccus hospitalis | Metabolomics | 11(4) 895–907 |
| 2015 | 10.1155/2015/472726 | Hamerly, T., B. Tripet, L. Wurch, R. L. Hettich, M. Podar, B. Bothner and V. Copie | Characterization of Fatty Acids in Crenarchaeota by GC-MS and NMR | Archaea | 2015 472726 |
| 2015 | 10.1111/gcb.12908 | Hall, S. J., W. L. Silver, V. I. Timokhin and K. E. Hammel | Lignin decomposition is sustained under fluctuating redox conditions in humid tropical forest soils | Global Change Biology | 21(7) 2818–28 |
| 2015 | 10.1111/nph.13133 | Hacquard, S. and C. W. Schadt | Towards a holistic understanding of the beneficial interactions across the Populus microbiome | New Phytologist | 205(4) 1424–30 |
| 2015 | 10.2134/agronj15.0066 | Gratton, C., M. Casler, R. Groves and T. N. Kim | Insecticide applications have minor effects on switchgrass biomass yield | Agronomy Journal | 107(6) 2031-2037 |
| 2015 | 10.1007/s12155-015-9605-2 | Grabber, J. H., N. Santoro, C. E. Foster, S. Elumalai, J. Ralph and X. Pan | Incorporation of Flavonoid Derivatives or Pentagalloyl Glucose into Lignin Enhances Cell Wall Saccharification Following Mild Alkaline or Acidic Pretreatments | Bioenergy Research | 8(3) 1391-1400 |
| 2015 | 10.1128/JB.02478-14 | Good, N. M., N. C. Martinez-Gomez, D. A. Beck and M. E. Lidstrom | Ethylmalonyl coenzyme A mutase operates as a metabolic control point in Methylobacterium extorquens AM1 | Journal of Bacteriology | 197(4) 727–35 |
| 2015 | 10.1080/21655979.2015.1060379 | Gilmore, S. P., J. K. Henske and M. A. O'Malley | Driving biomass breakdown through engineered cellulosomes | Bioengineered | 6(4) 204–8 |
| 2015 | 10.1073/pnas.1506289112 | Gibney, P. A., A. Schieler, J. C. Chen, J. D. Rabinowitz and D. Botstein | Characterizing the in vivo role of trehalose in Saccharomyces cerevisiae using the AGT1 transporter | Proceedings of the National Academy of Sciences of the United States of America | 112(19) 6116–21 |
| 2015 | 10.1021/acs.analchem.5b01187 | Giannone, R. J., L. L. Wurch, M. Podar and R. L. Hettich | Rescuing Those Left Behind: Recovering and Characterizing Underdigested Membrane and Hydrophobic Proteins To Enhance Proteome Measurement Depth | Analytical Chemistry | 87(15) 7720–8 |
| 2015 | 10.1038/ismej.2014.112 | Giannone, R. J., L. L. Wurch, T. Heimerl, S. Martin, Z. Yang, H. Huber, R. Rachel, R. L. Hettich and M. Podar | Life on the edge: functional genomic response of Ignicoccus hospitalis to the presence of Nanoarchaeum equitans | The ISME Journal | 9(1) 101–14 |
| 2015 | 10.1007/s10533-014-0061-4 | Gelfand, I. and G. Philip Robertson | A reassessment of the contribution of soybean biological nitrogen fixation to reactive N in the environment | Biogeochemistry | 123(45659) 175-184 |
| 2015 | 10.1016/j.agee.2015.07.005 | Gelfand, I., M. Cui, J. Tang and G. P. Robertson | Short-term drought response of N2O and CO2 emissions from mesic agricultural soils in the US Midwest | Agriculture, Ecosystems and Environment | 212 127-133 |
| 2015 | 10.1016/j.pbi.2015.01.004 | Gehan, M. A., K. Greenham, T. C. Mockler and C. R. McClung | Transcriptional networks-crops, clocks, and abiotic stress | Current Opinion in Plant Biology | 24 39–46 |
| 2015 | 10.1371/journal.pone.0121658 | Fristedt, R., N. F. Martins, D. Strenkert, C. A. Clarke, M. Suchoszek, W. Thiele, M. A. Schöttler and S. S. Merchant | The thylakoid membrane protein CGL160 supports CF1CF0 ATP synthase accumulation in Arabidopsis thaliana | PLoS ONE | 10(4) |
| 2015 | 10.1007/s00122-014-2451-3 | Foerster, J. M., T. Beissinger, N. de Leon and S. Kaeppler | Large effect QTL explain natural phenotypic variation for the developmental timing of vegetative phase change in maize (Zea mays L.) | Theoretical and Applied Genetics | 128(3) 529-538 |
| 2015 | 10.1016/j.molp.2014.10.011 | Filichkin, S. A., J. S. Cumbie, P. Dharmawardhana, P. Jaiswal, J. H. Chang, S. G. Palusa, A. S. Reddy, M. Megraw and T. C. Mockler | Environmental stresses modulate abundance and timing of alternatively spliced circadian transcripts in Arabidopsis | Molecular Plant | 8(2) 207–27 |
| 2015 | 10.7554/eLife.10606 | Feng, J., B. W. Jester, C. E. Tinberg, D. J. Mandell, M. S. Antunes, R. Chari, K. J. Morey, X. Rios, J. I. Medford, G. M. Church, S. Fields and D. Baker | A general strategy to construct small molecule biosensors in eukaryotes | eLife | 4 |
| 2015 | 10.1039/c5cp03277f | Fales, A. M., S. J. Norton, B. M. Crawford, B. G. DeLacy and T. Vo-Dinh | Fano resonance in a gold nanosphere with a J-aggregate coating | Phys Chem Chem Phys | 17(38) 24931-6 |
| 2015 | 10.1016/j.molp.2015.06.005 | Fahlgren, N., M. Feldman, M. A. Gehan, M. S. Wilson, C. Shyu, et al. | A Versatile Phenotyping System and Analytics Platform Reveals Diverse Temporal Responses to Water Availability in Setaria | Molecular Plant | 8(10) 1520–35 |
| 2015 | 10.1126/science.aac7745 | Evans, P. N., D. H. Parks, G. L. Chadwick, S. J. Robbins, V. J. Orphan, S. D. Golding and G. W. Tyson | Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics | Science | 350(6259) 434–8 |
| 2015 | 10.1371/journal.pone.0109277 | Essinger, S. D., E. Reichenberger, C. Morrison, C. B. Blackwood and G. L. Rosen | A toolkit for ARB to integrate custom databases and externally built phylogenies | PLoS One | 10(1) e0109277 |
| 2015 | 10.1073/pnas.1506034112 | Embree, M., J. K. Liu, M. M. Al-Bassam and K. Zengler | Networks of energetic and metabolic interactions define dynamics in microbial communities | Proceedings of the National Academy of Sciences of the United States of America | 112(50) 15450–5 |
| 2015 | 10.1038/ismej.2014.198 | Dupont, C. L., J. P. McCrow, R. Valas, A. Moustafa, N. Walworth, et al. | Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities | The ISME Journal | 9(5) 1076–92 |
| 2015 | 10.1186/s12870-015-0557-7 | Drost, D. R., S. Puranik, E. Novaes, C. R. Novaes, C. Dervinis, O. Gailing and M. Kirst | Genetical genomics of Populus leaf shape variation | BMC Plant Biology | 15 166 |
| 2015 | 10.1111/nph.13546 | Dore, J., M. Perraud, C. Dieryckx, A. Kohler, E. Morin, B. Henrissat, E. Lindquist, S. D. Zimmermann, V. Girard, A. Kuo, I. V. Grigoriev, F. Martin, R. Marmeisse and G. Gay | Comparative genomics, proteomics and transcriptomics give new insight into the exoproteome of the basidiomycete Hebeloma cylindrosporum and its involvement in ectomycorrhizal symbiosis | New Phytologist | 208(4) 1169–87 |
| 2015 | 10.1111/nph.13290 | Dickie, I. A., I. Alexander, S. Lennon, M. Opik, M. A. Selosse, M. G. A. van der Heijden and F. M. Martin | Evolving insights to understanding mycorrhizas | New Phytologist | 205(4) 1369–74 |
| 2015 | 10.1038/nbt.3412 | DiCarlo, J. E., A. Chavez, S. L. Dietz, K. M. Esvelt and G. M. Church | Safeguarding CRISPR-Cas9 gene drives in yeast | Nature Biotechnology | 33(12) 1250–5 |
| 2015 | 10.1104/pp.114.251827 | Dever, L. V., S. F. Boxall, J. Knerova and J. Hartwell | Transgenic perturbation of the decarboxylation phase of Crassulacean acid metabolism alters physiology and metabolism but has only a small effect on growth | Plant Physiology | 167(1) 44–59 |
| 2015 | 10.1007/7397_2015_13 | Des Marais, D. L. and T. E. Juenger | Brachypodium and the abiotic environment | Genetics and Genomics of Brachypodium | 18 291–311 |
| 2015 | 10.3389/fbioe.2015.00165 | Deng, K., T. E. Takasuka, C. M. Bianchetti, L. F. Bergeman, P. D. Adams, T. R. Northen and B. G. Fox | Use of nanostructure-initiator mass spectrometry to deduce selectivity of reaction in glycoside hydrolases | Frontiers in Bioengineering and Biotechnology | 3(OCT) |
| 2015 | 10.3389/fbioe.2015.00153 | Deng, K., J. M. Guenther, J. Gao, B. P. Bowen, H. Tran, et al. | Development of a high throughput platform for screening glycoside hydrolases based on Oxime-NIMS | Frontiers in Bioengineering and Biotechnology | 3(OCT) |
| 2015 | 10.1002/2014jg002880 | Deng, J., C. S. Li and S. Frolking | Modeling impacts of changes in temperature and water table on C gas fluxes in an Alaskan peatland | Journal of Geophysical Research: Biogeosciences | 120(7) 1279–95 |
| 2015 | 10.1038/nchembio.1816 | DeLoache, W. C., Z. N. Russ, L. Narcross, A. M. Gonzales, V. J. Martin and J. E. Dueber | An enzyme-coupled biosensor enables (S)-reticuline production in yeast from glucose | Nature Chemical Biology | 11(7) 465–71 |
| 2015 | 10.1016/j.biombioe.2015.07.006 | del Río, J. C., A. G. Lino, J. L. Colodette, C. F. Lima, A. Gutiérrez, Á. T. Martínez, F. Lu, J. Ralph and J. Rencoret | Differences in the chemical structure of the lignins from sugarcane bagasse and straw | Biomass and Bioenergy | 81 322-338 |
| 2015 | 10.1111/tpj.13002 | Dash, M., Y. S. Yordanov, T. Georgieva, S. Kumari, H. Wei and V. Busov | A systems biology approach identifies new regulators of poplar root development under low nitrogen | The Plant Journal | 84(2) 335–46 |
| 2015 | 10.1016/j.str.2015.10.005 | Das, A., O. Gerlits, J. M. Parks, P. Langan, A. Kovalevsky and W. T. Heller | Protein Kinase A Catalytic Subunit Primed for Action: Time-Lapse Crystallography of Michaelis Complex Formation | Structure | 23(12) 2331–40 |
| 2015 | 10.1021/acs.jpcb.5b01477 | Daidone, I., L. Thukral, J. C. Smith and A. Amadei | Monitoring the folding kinetics of a β-hairpin by time-resolved IR spectroscopy in silico | Journal of Physical Chemistry B | 119(14) 4849–56 |
| 2015 | 10.1093/jxb/erv087 | Cushman, J. C., S. C. Davis, X. Yang and A. M. Borland | Development and use of bioenergy feedstocks for semi-arid and arid lands | Journal of Experimental Botany | 66(14) 4177–93 |
| 2015 | 10.1007/s00232-015-9802-0 | Cournia, Z., T. W. Allen, I. Andricioaei, B. Antonny, D. Baum, et al. | Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory | Journal of Membrane Biology | 248(4) 611–40 |
| 2015 | 10.1128/genomeA.00444-15 | Coelho, M. A., J. M. G. C. F. Almeida, C. T. Hittinger and P. Gonçalves | Draft genome sequence of Sporidiobolus salmonicolor CBS 6832, a red-pigmented basidiomycetous yeast | Genome Announcements | 3(3) |
| 2015 | 10.1093/molbev/msv112 | Clowers, K. J., J. Heilberger, J. S. Piotrowski, J. L. Will and A. P. Gasch | Ecological and genetic barriers differentiate natural populations of saccharomyces cerevisiae | Molecular Biology and Evolution | 32(9) 2317-2327 |
| 2015 | 10.1007/s12539-014-0228-7 | Chu, Y. and H. Guo | QM/MM MD and free energy simulation study of methyl transfer processes catalyzed by PKMTs and PRMTs | Interdisciplinary Sciences: Computational Life Sciences | |
| 2015 | 10.1016/j.copbio.2015.08.011 | Chowdhury, A., A. Khodayari and C. D. Maranas | Improving prediction fidelity of cellular metabolism with kinetic descriptions | Current Opinion in Biotechnology | 36 57–64 |
| 2015 | 10.1042/BJ20141391 | Cho, S. H., J. Du, I. Sines, V. G. Poosarla, V. Vepachedu, K. Kafle, Y. B. Park, S. H. Kim, M. Kumar and B. T. Nixon | In vitro synthesis of cellulose microfibrils by a membrane protein from protoplasts of the non-vascular plant Physcomitrella patens | Biochemical Journal | 470(2) 195–205 |
| 2015 | 10.1039/c5gc02286j | Chen, W., D. J. McClelland, A. Azarpira, J. Ralph, Z. Luo and G. W. Huber | Low temperature hydrogenation of pyrolytic lignin over Ru/TiO2: 2D HSQC and 13C NMR study of reactants and products | Green Chemistry | 18(1) 271-281 |
| 2015 | 10.1016/j.jmgm.2015.10.015 | Chen, Q., Z. J. Luan, H. L. Yu, X. Cheng and J. H. Xu | Rational design of a carboxylic esterase RhEst1 based on computational analysis of substrate binding | Journal of Molecular Graphics and Modeling | 62 319–24 |
| 2015 | 10.1021/bi5015612 | Chen, Q., Z. J. Luan, X. Cheng and J. H. Xu | Molecular dynamics investigation of the substrate binding mechanism in carboxylesterase | Biochemistry | 54(9) 1841–8 |
| 2015 | 10.1007/s12539-014-0235-8 | Chen, Q., X. Cheng, D. Wei and Q. Xu | Molecular dynamics simulation studies of the wild type and E92Q/N155H mutant of Elvitegravir-resistance HIV-1 integrase | Interdisciplinary Sciences: Computational Life Sciences | 7(1) 36–42 |
| 2015 | 10.1080/15592324.2015.1022013 | Chen, J. G. | Phosphorylation of RACK1 in plants | Plant Signaling & Behavior | 10(8) e1022013 |
| 2015 | 10.1038/nmeth.3312 | Chavez, A., J. Scheiman, S. Vora, B. W. Pruitt, M. Tuttle, et al. | Highly efficient Cas9-mediated transcriptional programming | Nature Methods | 12(4) 326–8 |
| 2015 | 10.1128/AEM.01967-15 | Chan, C. H., C. E. Levar, L. Zacharoff, J. P. Badalamenti and D. R. Bond | Scarless Genome Editing and Stable Inducible Expression Vectors for Geobacter sulfurreducens | Applied and Environmental Microbiology | 81(20) 7178–86 |
| 2015 | 10.1094/MPMI-06-14-0187-R | Cecchini, N. M., H. W. Jung, N. L. Engle, T. J. Tschaplinski and J. T. Greenberg | ALD1 Regulates Basal Immune Components and Early Inducible Defense Responses in Arabidopsis | Molecular Plant-Microbe Interactions | 28(4) 455–66 |
| 2015 | 10.1016/j.cub.2015.01.014 | Castelle, C. J., K. C. Wrighton, B. C. Thomas, L. A. Hug, C. T. Brown, M. J. Wilkins, K. R. Frischkorn, S. G. Tringe, A. Singh, L. M. Markillie, R. C. Taylor, K. H. Williams and J. F. Banfield | Genomic expansion of domain archaea highlights roles for organisms from new phyla in anaerobic carbon cycling | Current Biology | 25(6) 690–701 |
| 2015 | 10.1039/c4cp05004e | Carmona, C., P. Langan, J. C. Smith and L. Petridis | Why genetic modification of lignin leads to low-recalcitrance biomass | Physical Chemistry Chemical Physics | 17(1) 358–64 |
| 2015 | 10.1186/s12864-015-2065-4 | Cárdenas-Conejo, Y., V. Carballo-Uicab, M. Lieberman, M. Aguilar-Espinosa, L. Comai and R. Rivera-Madrid | De novo transcriptome sequencing in Bixa orellana to identify genes involved in methylerythritol phosphate, carotenoid and bixin biosynthesis | BMC Genomics | 16(1) |
| 2015 | 10.1111/tpj.12835 | Carbonell, A., N. Fahlgren, S. Mitchell, K. L. Cox, Jr., K. C. Reilly, T. C. Mockler and J. C. Carrington | Highly specific gene silencing in a monocot species by artificial microRNAs derived from chimeric miRNA precursors | The Plant Journal | 82(6) 1061–75 |
| 2015 | 10.1038/ngeo2553 | Campioli, M., S. Vicca, S. Luyssaert, J. Bilcke, E. Ceschia, et al. | Biomass production efficiency controlled by management in temperate and boreal ecosystems | Nature Geoscience | 8(11) 843-846 |
| 2015 | 10.1007/s11120-015-0076-2 | Cameron, J. C., G. C. Gordon and B. F. Pfleger | Genetic and genomic analysis of RNases in model cyanobacteria | Photosynthesis Research | 126(1) 171-183 |
| 2015 | 10.1105/tpc.15.00588 | Cai, Y., J. M. Goodman, M. Pyc, R. T. Mullen, J. M. Dyer and K. D. Chapman | Arabidopsis SEIPIN Proteins Modulate Triacylglycerol Accumulation and Influence Lipid Droplet Proliferation | The Plant Cell | 27(9) 2616–36 |
| 2015 | 10.1371/journal.pone.0143809 | Burnet, M. C., A. C. Dohnalkova, A. P. Neumann, M. S. Lipton, R. D. Smith, G. Suen and S. J. Callister | Evaluating Models of Cellulose Degradation by Fibrobacter succinogenes S85 | PLoS One | 10(12) e0143809 |
| 2015 | 10.1007/s12155-015-9584-3 | Bukhman, Y. V., N. W. DiPiazza, J. Piotrowski, J. Shao, A. G. W. Halstead, M. D. Bui, E. Xie and T. K. Sato | Modeling Microbial Growth Curves with GCAT | Bioenergy Research | 8(3) 1022-1030 |
| 2015 | 10.1146/annurev-arplant-042811-105528 | Brutnell, T. P., J. L. Bennetzen and J. P. Vogel | Brachypodium distachyon and Setaria viridis: Model Genetic Systems for the Grasses | Annual Review of Plant Biology | 66 465–85 |
| 2015 | 10.1186/s40793-015-0031-z | Brumm, P. J., M. L. Land and D. A. Mead | Complete genome sequence of Geobacillus thermoglucosidasius C56-YS93, a novel biomass degrader isolated from obsidian hot spring in Yellowstone National Park | Standards in Genomic Sciences | 10(1) |
| 2015 | 10.1007/s12155-015-9585-2 | Brumm, P., M. L. Land, L. J. Hauser, C. D. Jeffries, Y. J. Chang and D. A. Mead | Complete Genome Sequence of Geobacillus strain Y4.1MC1, a Novel CO-Utilizing Geobacillus thermoglucosidasius Strain Isolated from Bath Hot Spring in Yellowstone National Park | Bioenergy Research | 8(3) 1039-1045 |
| 2015 | 10.1186/s40793-015-0075-0 | Brumm, P., M. L. Land, L. J. Hauser, C. D. Jeffries, Y. J. Chang and D. A. Mead | Complete genome sequences of Geobacillus sp. Y412MC52, a xylan-degrading strain isolated from obsidian hot spring in Yellowstone National Park | Standards in Genomic Sciences | 10(1) |
| 2015 | 10.1016/j.funeco.2014.08.006 | Brown, S. P., A. M. Veach, A. R. Rigdon-Huss, K. Grond, S. K. Lickteig, K. Lothamer, A. K. Oliver and A. Jumpponen | Scraping the bottom of the barrel: are rare high throughput sequences artifacts? | Fungal Ecology | 13 221–5 |
| 2015 | 10.1038/nature14486 | Brown, C. T., L. A. Hug, B. C. Thomas, I. Sharon, C. J. Castelle, A. Singh, M. J. Wilkins, K. C. Wrighton, K. H. Williams and J. F. Banfield | Unusual biology across a group comprising more than 15% of domain Bacteria | Nature | 523(7559) 208–11 |
| 2015 | 10.1038/ncomms10149 | Brady, S. K., S. Sreelatha, Y. Feng, S. P. S. Chundawat and M. J. Lang | Cellobiohydrolase 1 from Trichoderma reesei degrades cellulose in single cellobiose steps | Nature Communications | 6 |
| 2015 | 10.1371/journal.pone.0120757 | Bradley, D. T., T. W. Bourke, D. J. Fairley, R. Borrow, M. D. Shields, P. F. Zipfel and A. E. Hughes | Susceptibility to invasive meningococcal disease: polymorphism of complement system genes and Neisseria meningitidis factor H binding protein | PLoS One | 10(3) e0120757 |
| 2015 | 10.1016/j.tetlet.2015.01.191 | Bracken, J. D., A. D. Carlson, J. H. Frederich, M. Nguyen, G. C. Shore and P. G. Harran | Tailored fragments of roseophilin selectively antagonize Mcl-1 in vitro | Tetrahedron Letters | 56(23) 3612-3616 |
| 2015 | 10.1111/pce.12479 | Borland, A. M., S. D. Wullschleger, D. J. Weston, J. Hartwell, G. A. Tuskan, X. Yang and J. C. Cushman | Climate-resilient agroforestry: physiological responses to climate change and engineering of crassulacean acid metabolism (CAM) as a mitigation strategy | Plant Cell & Environment | 38(9) 1833–49 |
| 2015 | 10.1016/j.copbio.2015.08.013 | Boock, J. T., A. Gupta and K. Prather | Screening and modular design for metabolic pathway optimization | Current Opinion in Biotechnology | 36 189–98 |
| 2015 | 10.1186/s12870-015-0572-8 | Bihmidine, S., R. F. Baker, C. Hoffner and D. M. Braun | Sucrose accumulation in sweet sorghum stems occurs by apoplasmic phloem unloading and does not involve differential Sucrose transporter expression | BMC Plant Biology | 15 186 |
| 2015 | 10.1074/jbc.M114.623579 | Bianchetti, C. M., T. E. Takasuka, S. Deutsch, H. S. Udell, E. J. Yik, L. F. Bergeman and B. G. Fox | Active site and laminarin binding in glycoside hydrolase family 55 | Journal of Biological Chemistry | 290(19) 11819-11832 |
| 2015 | 10.1371/journal.pone.0126256 | Berthelier, V., J. B. Harris, K. N. Estenson and J. Baudry | Discovery of an inhibitor of Z-alpha1 antitrypsin polymerization | PLoS One | 10(5) e0126256 |
| 2015 | 10.1111/1758-2229.12250 | Bertagnolli, A. D., K. A. Meinhardt, M. Pannu, S. Brown, S. Strand, S. C. Fransen and D. A. Stahl | Influence of edaphic and management factors on the diversity and abundance of ammonia-oxidizing thaumarchaeota and bacteria in soils of bioenergy crop cultivars | Environmental Microbiology Reports | 7(2) 312–20 |
| 2015 | 10.1093/pcp/pcu152 | Berim, A., M. J. Kim and D. R. Gang | Identification of a unique 2-oxoglutarate-dependent flavone 7-O-demethylase completes the elucidation of the lipophilic flavone network in basil | Plant and Cell Physiology | 56(1) 126–36 |
| 2015 | 10.1186/s12711-015-0105-9 | Beissinger, T. M., G. J. Rosa, S. M. Kaeppler, D. Gianola and N. De Leon | Defining window-boundaries for genomic analyses using smoothing spline techniques | Genetics Selection Evolution | 47(1) |
| 2015 | 10.1038/ncomms9289 | Baran, R., E. L. Brodie, J. Mayberry-Lewis, E. Hummel, U. N. Da Rocha, R. Chakraborty, B. P. Bowen, U. Karaoz, H. Cadillo-Quiroz, F. Garcia-Pichel and T. R. Northen | Exometabolite niche partitioning among sympatric soil bacteria | Nature Communications | 6 8289 |
| 2015 | 10.1371/journal.pone.0134752 | Aylward, F. O., L. Khadempour, D. M. Tremmel, B. R. McDonald, C. D. Nicora, et al. | Enrichment and broad representation of plant biomass-degrading enzymes in the specialized hyphal swellings of leucoagaricus gongylophorus, the fungal symbiont of leaf-cutter ants | PLoS ONE | 10(8) |
| 2015 | 10.1128/AEM.03199-14 | Aristilde, L., I. A. Lewis, J. O. Park and J. D. Rabinowitz | Hierarchy in pentose sugar metabolism in Clostridium acetobutylicum | Applied and Environmental Microbiology | 81(4) 1452–62 |
| 2015 | 10.1105/tpc.15.00373 | Anderson, N. A., Y. Tobimatsu, P. N. Ciesielski, E. Ximenes, J. Ralph, B. S. Donohoe, M. Ladisch and C. Chapple | Manipulation of Guaiacyl and Syringyl Monomer Biosynthesis in an Arabidopsis Cinnamyl Alcohol Dehydrogenase Mutant Results in Atypical Lignin Biosynthesis and Modified Cell Wall Structure | The Plant Cell | 27(8) 2195–209 |
| 2015 | 10.1038/nbt.3372 | Amiram, M., A. D. Haimovich, C. Fan, Y. S. Wang, H. R. Aerni, et al. | Evolution of translation machinery in recoded bacteria enables multi-site incorporation of nonstandard amino acids | Nature Biotechnology | 33(12) 1272–9 |
| 2015 | 10.1128/MMBR.00025-14 | Al-Hinai, M. A., S. W. Jones and E. T. Papoutsakis | The Clostridium sporulation programs: diversity and preservation of endospore differentiation | Microbiology and Molecular Biology Reviews | 79(1) 19–37 |
| 2015 | 10.1016/j.softx.2015.06.001 | Abraham, M. J., T. Murtola, R. Schulz, S. Páll, J. C. Smith, B. Hess and E. Lindahl | GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers | SoftwareX | 1–2 19–25 |
| 2015 | 10.1039/c5mb00289c | Abil, Z. and H. Zhao | Engineering reprogrammable RNA-binding proteins for study and manipulation of the transcriptome | Molecular BioSystems | 11(10) 2658–65 |
| 2015 | 10.1021/mp500392q | Abil, Z., X. Xiong and H. Zhao | Synthetic biology for therapeutic applications | Molecular Pharmaceutics | 12(2) 322–31 |
| 2016 | 10.1104/pp.16.00593 | Zuniga, C., C. T. Li, T. Huelsman, J. Levering, D. C. Zielinski, B. O. McConnell, C. P. Long, E. P. Knoshaug, M. T. Guarnieri, M. R. Antoniewicz, M. J. Betenbaugh and K. Zengler | Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic Growth Conditions | Plant Physiology | 172(1) 589–602 |
| 2016 | 10.1016/j.jmb.2015.10.019 | Zomorrodi, A. R. and D. Segrè | Synthetic ecology of microbes: Mathematical models and applications | Journal of Molecular Biology | 428(5) 837-861 |
| 2016 | 10.1016/j.bbalip.2016.02.008 | Zienkiewicz, K., Z. Y. Du, W. Ma, K. Vollheyde and C. Benning | Stress-induced neutral lipid biosynthesis in microalgae — Molecular, cellular and physiological insights | Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids | 1861(9) 1269-1281 |
| 2016 | 10.1534/g3.116.034249 | Zhou, X., D. Peris, J. Kominek, C. P. Kurtzman, C. T. Hittinger and A. Rokas | In silico Whole Genome Sequencer And Analyzer (iWGS): A computational pipeline to guide the design and analysis of de novo genome sequencing studies | G3: Genes, Genomes, Genetics | 6(11) 3655-3662 |
| 2016 | 10.1016/j.molp.2016.09.014 | Zheng, Y., C. Jiao, H. Sun, H. G. Rosli, M. A. Pombo, P. Zhang, M. Banf, X. Dai, G. B. Martin, J. J. Giovannoni, P. X. Zhao, S. Y. Rhee and Z. Fei | iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases | Molecular Plant | 9(12) 1667-1670 |
| 2016 | 10.1038/srep21593 | Zheng, K., X. Wang, D. A. Weighill, H. B. Guo, M. Xie, Y. Yang, J. Yang, S. Wang, D. A. Jacobson, H. Guo, W. Muchero, G. A. Tuskan and J. G. Chen | Characterization of DWARF14 Genes in Populus | Scientific Reports | 6 21593 |
| 2016 | 10.1186/s13059-016-0968-2 | Zhao, Q., A. I. Stettner, E. Reznik, I. C. Paschalidis and D. Segrè | Mapping the landscape of metabolic goals of a cell | Genome biology | 17(1) 109 |
| 2016 | 10.1016/j.ymben.2016.01.007 | Zhang, X., C. J. Tervo and J. L. Reed | Metabolic assessment of E. coli as a Biofactory for commercial products | Metabolic Engineering | 35 64–74 |
| 2016 | 10.1111/tpj.13233 | Zhang, M., X. Cao, Q. Jia and J. Ohlrogge | FUSCA3 activates triacylglycerol accumulation in Arabidopsis seedlings and tobacco BY2 cells | Plant Journal | 88(1) 95-107 |
| 2016 | 10.1186/s12864-016-2817-9 | Zhang, J., A. Sharma, Q. Yu, J. Wang, L. Li, L. Zhu, X. Zhang, Y. Chen and R. Ming | Comparative structural analysis of Bru1 region homeologs in Saccharum spontaneum and S. officinarum | BMC Genomics | 17 446 |
| 2016 | 10.1073/pnas.1608454113 | Zhang, J., G. N. Presley, K. E. Hammel, J. S. Ryu, J. R. Menke, M. Figueroa, D. Hu, G. Orr and J. S. Schilling | Localizing gene regulation reveals a staggered wood decay mechanism for the brown rot fungus Postia placenta | Proceedings of the National Academy of Sciences of the United States of America | 113(39) 10968–73 |
| 2016 | 10.1002/biot.201600013 | Zhang, H. and G. Stephanopoulos | Co-culture engineering for microbial biosynthesis of 3-amino-benzoic acid in Escherichia coli | Biotechnology Journal | 11(7) 981–7 |
| 2016 | 10.1016/j.bioelechem.2015.08.003 | Zacharoff, L., C. H. Chan and D. R. Bond | Reduction of low potential electron acceptors requires the CbcL inner membrane cytochrome of Geobacter sulfurreducens | Bioelectrochemistry | 107 7–13 |
| 2016 | 10.1038/srep32467 | Yuan, Z., I. S. Druzhinina, J. Labbe, R. Redman, Y. Qin, R. Rodriguez, C. Zhang, G. A. Tuskan and F. Lin | Specialized Microbiome of a Halophyte and its Role in Helping Non-Host Plants to Withstand Salinity | Scientific Reports | 6 32467 |
| 2016 | 10.1007/s00253-016-7955-0 | Yu, C., B. A. Simmons, S. W. Singer, M. P. Thelen and J. S. VanderGheynst | Ionic liquid-tolerant microorganisms and microbial communities for lignocellulose conversion to bioproducts | Applied Microbiology and Biotechnology | 100(24) 10237–49 |
| 2016 | 10.1128/AEM.00409-16 | Yoon, S., S. Nissen, D. Park, R. A. Sanford and F. E. Löffler | Nitrous oxide reduction kinetics distinguish bacteria harboring clade I NosZ from those harboring clade II NosZ | Applied and Environmental Microbiology | 82(13) 3793-3800 |
| 2016 | 10.1007/s12155-015-9662-6 | Yoo, C. G., H. Kim, F. Lu, A. Azarpira, X. Pan, K. K. Oh, J. S. Kim, J. Ralph and T. H. Kim | Understanding the physicochemical characteristics and the improved enzymatic saccharification of corn stover pretreated with aqueous and gaseous ammonia | Bioenergy Research | 9(1) 67-76 |
| 2016 | 10.1007/s11120-016-0279-1 | Yoneda, A., B. J. Wittmann, J. D. King, R. E. Blankenship and G. Dantas | Transcriptomic analysis illuminates genes involved in chlorophyll synthesis after nitrogen starvation in Acaryochloris sp. CCMEE 5410 | Photosynthesis Research | 129(2) 171–82 |
| 2016 | 10.1093/nar/gkw055 | Yoneda, A., W. R. Henson, N. K. Goldner, K. J. Park, K. J. Forsberg, S. J. Kim, M. W. Pesesky, M. Foston, G. Dantas and T. S. Moon | Comparative transcriptomics elucidates adaptive phenol tolerance and utilization in lipid-accumulating Rhodococcus opacus PD630 | Nucleic Acids Research | 44(5) 2240–54 |
| 2016 | 10.1016/j.ijadhadh.2016.05.002 | Yelle, D. J. and J. Ralph | Characterizing phenol-formaldehyde adhesive cure chemistry within the wood cell wall | International Journal of Adhesion and Adhesives | 70 26-36 |
| 2016 | 10.1186/s12864-016-3026-2 | Yang, Y., J. Labbe, W. Muchero, X. Yang, S. S. Jawdy, M. Kennedy, J. Johnson, A. Sreedasyam, J. Schmutz, G. A. Tuskan and J. G. Chen | Genome-wide analysis of lectin receptor-like kinases in Populus | BMC Genomics | 17(1) 699 |
| 2016 | 10.1016/j.scitotenv.2016.02.164 | Yang, Q., X. Zhang, X. Xu, G. R. Asrar, R. A. Smith, J. S. Shih and S. Duan | Spatial patterns and environmental controls of particulate organic carbon in surface waters in the conterminous United States | Science of the Total Environment | 554-555 266-275 |
| 2016 | 10.1016/j.scitotenv.2016.06.238 | Yang, Q. and X. Zhang | Improving SWAT for simulating water and carbon fluxes of forest ecosystems | Science of the Total Environment | 569-570 1478-1488 |
| 2016 | 10.1038/srep36734 | Yang, L., J. T. Yurkovich, C. J. Lloyd, A. Ebrahim, M. A. Saunders and B. O. Palsson | Principles of proteome allocation are revealed using proteomic data and genome-scale models | Scientific Reports | 6 36734 |
| 2016 | 10.1038/srep33655 | Xue, L. J., C. J. Frost, C. J. Tsai and S. A. Harding | Drought response transcriptomes are altered in poplar with reduced tonoplast sucrose transporter expression | Scientific Reports | 6 33655 |
| 2016 | 10.1128/mBio.00976-16 | Xue, K., M. M. Yuan, J. Xie, D. Li, Y. Qin, L. E. Hale, L. Wu, Y. Deng, Z. He, J. D. Van Nostrand, Y. Luo, J. M. Tiedje and J. Zhou | Annual Removal of Aboveground Plant Biomass Alters Soil Microbial Responses to Warming | mBio | 7(5) |
| 2016 | 10.1038/Nclimate2940 | Xue, K., M. M. Yuan, Z. J. Shi, Y. J. Qin, Y. Deng, et al. | Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming | Nature Climate Change | 6(6) 595–600 |
| 2016 | 10.3389/fmicb.2016.00668 | Xue, K., J. Xie, A. Zhou, F. Liu, D. Li, L. Wu, Y. Deng, Z. He, J. D. Van Nostrand, Y. Luo and J. Zhou | Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning | Frontiers in Microbiology | 7 668 |
| 2016 | 10.1111/gcbb.12303 | Xue, C., C. R. Penton, B. Zhang, M. Zhao, D. E. Rothstein, D. J. Mladenoff, J. A. Forrester, Q. Shen and J. M. Tiedje | Soil fungal and bacterial responses to conversion of open land to short-rotation woody biomass crops | GCB Bioenergy | 8(4) 723-736 |
| 2016 | 10.1016/j.geoderma.2015.08.038 | Xu, X., Z. Shi, D. J. Li, A. Rey, H. H. Ruan, J. M. Craine, J. Y. Liang, J. Z. Zhou and Y. Q. Luo | Soil properties control decomposition of soil organic carbon: Results from data-assimilation analysis | Geoderma | 262 235–42 |
| 2016 | 10.1111/gcb.13192 | Xu, X., Z. Shi, X. Chen, Y. Lin, S. Niu, L. Jiang, R. Luo and Y. Luo | Unchanged carbon balance driven by equivalent responses of production and respiration to climate change in a mixed-grass prairie | Global Change Biology | 22(5) 1857–66 |
| 2016 | 10.1073/pnas.1607295113 | Xu, P., K. Qiao, W. S. Ahn and G. Stephanopoulos | Engineering Yarrowia lipolytica as a platform for synthesis of drop-in transportation fuels and oleochemicals | Proceedings of the National Academy of Sciences of the United States of America | 113(39) 10848–53 |
| 2016 | 10.1126/scisignal.aaf5034 | Xiao, Z., D. Riccardi, H. A. Velazquez, A. L. Chin, C. R. Yates, J. D. Carrick, J. C. Smith, J. Baudry and L. D. Quarles | A computationally identified compound antagonizes excess FGF-23 signaling in renal tubules and a mouse model of hypophosphatemia | Science Signaling | 9(455) ra113 |
| 2016 | 10.1016/j.foodhyd.2015.07.018 | Xiang, Z. and T. Runge | Emulsifying properties of succinylated arabinoxylan-protein gum produced from corn ethanol residuals | Food Hydrocolloids | 52 423-430 |
| 2016 | 10.1007/s10570-015-0828-3 | Xiang, Z., R. Anthony, W. Lan and T. Runge | Glutaraldehyde crosslinking of arabinoxylan produced from corn ethanol residuals | Cellulose | 23(1) 307-321 |
| 2016 | 10.1038/ncomms12115 | Wurch, L., R. J. Giannone, B. S. Belisle, C. Swift, S. Utturkar, R. L. Hettich, A. L. Reysenbach and M. Podar | Genomics-informed isolation and characterization of a symbiotic Nanoarchaeota system from a terrestrial geothermal environment | Nature Communications | 7 12115 |
| 2016 | 10.1128/mSystems.00120-16 | Wu, Y. W., B. Higgins, C. Yu, A. P. Reddy, S. Ceballos, L. D. Joh, B. A. Simmons, S. W. Singer and J. S. VanderGheynst | Ionic Liquids Impact the Bioenergy Feedstock-Degrading Microbiome and Transcription of Enzymes Relevant to Polysaccharide Hydrolysis | mSystems | 1(6) |
| 2016 | 10.1002/aic.15300 | Wu, W., C. A. Henao and C. T. Maravelias | A superstructure representation, generation, and modeling framework for chemical process synthesis | AIChE Journal | 62(9) 3199-3214 |
| 2016 | 10.1038/ismej.2016.53 | Wrighton, K. C., C. J. Castelle, V. A. Varaljay, S. Satagopan, C. T. Brown, M. J. Wilkins, B. C. Thomas, I. Sharon, K. H. Williams, F. R. Tabita and J. F. Banfield | RubisCO of a nucleoside pathway known from Archaea is found in diverse uncultivated phyla in bacteria | The ISME Journal | 10(11) 2702–14 |
| 2016 | 10.1093/bioinformatics/btw241 | Woodcroft, B. J., J. A. Boyd and G. W. Tyson | OrfM: a fast open reading frame predictor for metagenomic data | Bioinformatics | 32(17) 2702–3 |
| 2016 | 10.1093/molbev/msw073 | Wisecaver, J. H., W. G. Alexander, S. B. King, C. Todd Hittinger and A. Rokas | Dynamic Evolution of Nitric Oxide Detoxifying Flavohemoglobins, a Family of Single-Protein Metabolic Modules in Bacteria and Eukaryotes | Molecular Biology and Evolution | 33(8) 1979-1987 |
| 2016 | 10.1016/j.jmb.2016.07.015 | Wheatley, N. M., K. D. Eden, J. Ngo, J. S. Rosinski, M. R. Sawaya, D. Cascio, M. Collazo, H. Hoveida, W. L. Hubbell and T. O. Yeates | A PII-Like protein regulated by bicarbonate: Structural and biochemical studies of the carboxysome-associated CPII protein | Journal of Molecular Biology | 428(20) 4013-4030 |
| 2016 | 10.7717/peerj.2507 | Wei, T., T. C. Chen, Y. T. Ho and P. C. Ronald | Mutation of the rice XA21 predicted nuclear localization sequence does not affect resistance to Xanthomonas oryzae pv. oryzae | PeerJ | 4 e2507 |
| 2016 | 10.1007/s11104-016-2897-y | Wang, M. M., S. P. Wang, L. W. Wu, D. P. Xu, Q. Y. Lin, Y. G. Hu, X. Z. Li, J. Z. Zhou and Y. F. Yang | Evaluating the lingering effect of livestock grazing on functional potentials of microbial communities in Tibetan grassland soils | Plant and Soil | 407(1–2) 385–99 |
| 2016 | 10.1016/j.talanta.2016.01.062 | Wang, M., P. Z. Ellsworth, J. Zhou, A. B. Cousins and S. Sankaran | Evaluation of water-use efficiency in foxtail millet (Setaria italica) using visible-near infrared and thermal spectral sensing techniques | Talanta | 152 531–9 |
| 2016 | 10.1021/acs.jpcc.6b03299 | Wang, H. N., B. M. Crawford, A. M. Fales, M. L. Bowie, V. L. Seewaldt and T. Vo-Dinh | Multiplexed Detection of MicroRNA Biomarkers Using SERS-Based Inverse Molecular Sentinel (iMS) Nanoprobes | J Phys Chem C Nanomater Interfaces | 120(37) 21047-21050 |
| 2016 | 10.1371/journal.pone.0155839 | Waltman, P. H., J. Guo, E. N. Reistetter, S. Purvine, C. K. Ansong, M. J. van Baren, C. H. Wong, C. L. Wei, R. D. Smith, S. J. Callister, J. M. Stuart and A. Z. Worden | Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla | PLoS One | 11(7) e0155839 |
| 2016 | 10.1186/s12918-016-0369-x | Walsh, J. R., M. L. Schaeffer, P. Zhang, S. Y. Rhee, J. A. Dickerson and T. Z. Sen | The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize | BMC Systems Biology | 10(1) 129 |
| 2016 | 10.1104/pp.16.00845 | Walker, A. M., S. A. Sattler, M. Regner, J. P. Jones, J. Ralph, W. Vermerris, S. E. Sattler and C. Kang | The structure and catalytic mechanism of Sorghum bicolor Caffeoyl-CoA O-methyltransferase | Plant Physiology | 172(1) 78-92 |
| 2016 | 10.1021/acs.accounts.6b00204 | Walden, D. M., O. M. Ogba, R. C. Johnston and P. H. Cheong | Computational Insights into the Central Role of Nonbonding Interactions in Modern Covalent Organocatalysis | Accounts of Chemical Research | 49(6) 1279–91 |
| 2016 | 10.1186/s12900-016-0056-6 | Wagner, J. M., S. Chan, T. J. Evans, S. Kahng, J. Kim, M. A. Arbing, D. Eisenberg and K. V. Korotkov | Structures of EccB1 and EccD1 from the core complex of the mycobacterial ESX-1 type VII secretion system | BMC Structural Biology | 16(1) |
| 2016 | 10.1007/s10295-016-1797-8 | Vinay-Lara, E., S. Wang, L. Bai, E. Phrommao, J. R. Broadbent and J. L. Steele | Lactobacillus casei as a biocatalyst for biofuel production | Journal of Industrial Microbiology and Biotechnology | 43(9) 1205-1213 |
| 2016 | 10.1021/acschembio.6b00324 | Villareal, V. A., D. Fu, D. A. Costello, X. S. Xie and P. L. Yang | Hepatitis C Virus Selectively Alters the Intracellular Localization of Desmosterol | ACS Chemical Biology | 11(7) 1827–33 |
| 2016 | 10.1038/nmicrobiol.2016.170 | Vanwonterghem, I., P. N. Evans, D. H. Parks, P. D. Jensen, B. J. Woodcroft, P. Hugenholtz and G. W. Tyson | Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota | Nature Microbiology | 1 16170 |
| 2016 | 10.1104/pp.15.01356 | Vandavasi, V. G., D. K. Putnam, Q. Zhang, L. Petridis, W. T. Heller, B. T. Nixon, C. H. Haigler, U. Kalluri, L. Coates, P. Langan, J. C. Smith, J. Meiler and H. O'Neill | A Structural Study of CESA1 Catalytic Domain of Arabidopsis Cellulose Synthesis Complex: Evidence for CESA Trimers | Plant Physiology | 170(1) 123–35 |
| 2016 | 10.1007/978-1-4939-3369-3_11 | Van Nostrand, J. D., H. Yin, L. Wu, T. Yuan and J. Zhou | Hybridization of Environmental Microbial Community Nucleic Acids by GeoChip | Microbial Environmental Genomics (MEG) | 1399 183–96 |
| 2016 | 10.1186/s12864-016-2585-6 | van Baren, M. J., C. Bachy, E. N. Reistetter, S. O. Purvine, J. Grimwood, et al. | Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants | BMC Genomics | 17 267 |
| 2016 | 10.3389/fpls.2016.00517 | Valdes-Lopez, O., J. Batek, N. Gomez-Hernandez, C. T. Nguyen, M. C. Isidra-Arellano, N. Zhang, T. Joshi, D. Xu, K. K. Hixson, K. K. Weitz, J. T. Aldrich, L. Pasa-Tolic and G. Stacey | Soybean Roots Grown under Heat Stress Show Global Changes in Their Transcriptional and Proteomic Profiles | Frontiers in Plant Science | 7 517 |
| 2016 | 10.1128/AEM.01285-16 | Utturkar, S. M., W. N. Cude, M. S. Robeson, Jr., Z. K. Yang, D. M. Klingeman, M. L. Land, S. L. Allman, T. Y. Lu, S. D. Brown, C. W. Schadt, M. Podar, M. J. Doktycz and D. A. Pelletier | Enrichment of Root Endophytic Bacteria from Populus deltoides and Single-Cell-Genomics Analysis | Applied and Environmental Microbiology | 82(18) 5698–708 |
| 2016 | 10.3835/plantgenome2015.08.0074 | Tyler, L., S. J. Lee, N. D. Young, G. A. Deiulio, E. Benavente, M. Reagon, J. Sysopha, R. M. Baldini, A. Troìa, S. P. Hazen and A. L. Caicedo | Population structure in the model grass Brachypodium distachyon is highly correlated with flowering differences across broad geographic areas | Plant Genome | 9(2) |
| 2016 | 10.1016/j.biombioe.2015.12.004 | Tumbalam, P., K. D. Thelen, A. Adkins, B. Dale, V. Balan, C. Gunawan and J. Gao | Corn stover ethanol yield as affected by grain yield, Bt trait, and environment | Biomass and Bioenergy | 85 119-125 |
| 2016 | 10.1007/s00248-015-0659-7 | Tu, Q., X. Zhou, Z. He, K. Xue, L. Wu, P. Reich, S. Hobbie and J. Zhou | The Diversity and Co-occurrence Patterns of N2-Fixing Communities in a CO2-Enriched Grassland Ecosystem | Microbial Ecology | 71(3) 604–15 |
| 2016 | 10.1016/j.biocon.2016.10.001 | Tscharntke, T., D. S. Karp, R. Chaplin-Kramer, P. Batáry, F. DeClerck, et al. | When natural habitat fails to enhance biological pest control – Five hypotheses | Biological Conservation | 204 449-458 |
| 2016 | 10.1209/0295-5075/116/18007 | Trizac, E. and T. Shen | Bending stiff charged polymers: The electrostatic persistence length | Europhysics Letters | 116(1) |
| 2016 | 10.7717/peerj.1913 | Trembath-Reichert, E., D. H. Case and V. J. Orphan | Characterization of microbial associations with methanotrophic archaea and sulfate-reducing bacteria through statistical comparison of nested Magneto-FISH enrichments | PeerJ | 2016(4) |
| 2016 | 10.1186/s13068-016-0670-3 | Traller, J. C., S. J. Cokus, D. A. Lopez, O. Gaidarenko, S. R. Smith, et al. | Genome and methylome of the oleaginous diatom Cyclotella cryptica reveal genetic flexibility toward a high lipid phenotype | Biotechnology for Biofuels | 9 258 |
| 2016 | 10.3389/fpls.2016.00497 | Timm, C. M., D. A. Pelletier, S. S. Jawdy, L. E. Gunter, J. A. Henning, et al. | Two Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System | Frontiers in Plant Science | 7 497 |
| 2016 | 10.1371/journal.pcbi.1004800 | Theisen, M. K., J. G. Lafontaine Rivera and J. C. Liao | Stability of Ensemble Models Predicts Productivity of Enzymatic Systems | PloS Computational Biology | 12(3) e1004800 |
| 2016 | 10.1038/nmeth.3696 | Taylor, N. D., A. S. Garruss, R. Moretti, S. Chan, M. A. Arbing, D. Cascio, J. K. Rogers, F. J. Isaacs, S. Kosuri, D. Baker, S. Fields, G. M. Church and S. Raman | Engineering an allosteric transcription factor to respond to new ligands | Nature Methods | 13(2) 177–83 |
| 2016 | 10.15376/biores.11.1.Tang | Tang, Y. T., J. N. Rosenberg, P. Bohutskyi, G. Yu, M. J. Betenbaugh and F. Wang | Microalgae as a Feedstock for Biofuel Precursors and Value-Added Products: Green Fuels and Golden Opportunities | BioResources | 11(1) 2850–85 |
| 2016 | 10.1039/C5RA23519G | Tang, Y., Y. Zhang, J. N. Rosenberg, N. Sharif, M. J. Betenbaugh and F. Wang | Efficient lipid extraction and quantification of fatty acids from algal biomass using accelerated solvent extraction (ASE) | RSC Advances | 6(35) 29127-29134 |
| 2016 | 10.3390/app6110343 | Tang, Y., Y. Zhang, J. N. Rosenberg, M. J. Betenbaugh and F. Wang | Optimization of One-Step In Situ Transesterification Method for Accurate Quantification of EPA in Nannochloropsis gaditana | Applied Sciences | 6(11) |
| 2016 | 10.15376/BIORES.11.1.2850-2885 | Tang, Y., J. N. Rosenberg, P. Bohutskyi, G. Yu, M. J. Betenbaugh and F. Wang | Microalgae as a Feedstock for Biofuel Precursors and Value-Added Products: Green Fuels and Golden Opportunities | BioResources | 11(1) 2850-2885. |
| 2016 | 10.1128/AEM.00611-16 | Tai, V., K. J. Carpenter, P. K. Weber, C. A. Nalepa, S. J. Perlman and P. J. Keeling | Genome Evolution and Nitrogen Fixation in Bacterial Ectosymbionts of a Protist Inhabiting Wood-Feeding Cockroaches | Applied and Environmental Microbiology | 82(15) 4682–95 |
| 2016 | 10.1039/c6gc02258h | Sun, J., T. Dutta, R. Parthasarathi, K. H. Kim, N. Tolic, R. K. Chu, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Rapid room temperature solubilization and depolymerization of polymeric lignin at high loadings | Green Chemistry | 18(22) 6012–20 |
| 2016 | 10.1038/ismej.2015.180 | Stuart, R. K., X. Mayali, J. Z. Lee, R. Craig Everroad, M. Hwang, B. M. Bebout, P. K. Weber, J. Pett-Ridge and M. P. Thelen | Cyanobacterial reuse of extracellular organic carbon in microbial mats | The ISME Journal | 10(5) 1240–51 |
| 2016 | 10.1128/mBio.00650-16 | Stuart, R. K., X. Mayali, A. A. Boaro, A. Zemla, R. C. Everroad, D. Nilson, P. K. Weber, M. Lipton, B. M. Bebout, J. Pett-Ridge and M. P. Thelen | Light Regimes Shape Utilization of Extracellular Organic C and N in a Cyanobacterial Biofilm | mBio | 7(3) |
| 2016 | 10.1021/acssuschemeng.6b00245 | Springer, S. D., J. He, M. Chui, R. D. Little, M. Foston and A. Butler | Peroxidative Oxidation of Lignin and a Lignin Model Compound by a Manganese SALEN Derivative | ACS Sustainable Chemistry & Engineering | 4(6) 3212–9 |
| 2016 | 10.1128/JB.01025-15 | Spero, M. A., J. R. Brickner, J. T. Mollet, T. Pisithkul, D. Amador-Noguez and T. J. Donohue | Different functions of phylogenetically distinct bacterial complex I isozymes | Journal of Bacteriology | 198(8) 1268-1280 |
| 2016 | 10.1016/j.anaerobe.2015.11.008 | Solomon, K. V., J. K. Henske, M. K. Theodorou and M. A. O'Malley | Robust and effective methodologies for cryopreservation and DNA extraction from anaerobic gut fungi | Anaerobe | 38 39–46 |
| 2016 | 10.1126/science.aad1431 | Solomon, K. V., C. H. Haitjema, J. K. Henske, S. P. Gilmore, D. Borges-Rivera, A. Lipzen, H. M. Brewer, S. O. Purvine, A. T. Wright, M. K. Theodorou, I. V. Grigoriev, A. Regev, D. A. Thompson and M. A. O'Malley | Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes | Science | 351(6278) 1192–5 |
| 2016 | 10.1111/nph.13843 | Smith, S. R., C. Gle, R. M. Abbriano, J. C. Traller, A. Davis, E. Trentacoste, M. Vernet, A. E. Allen and M. Hildebrand | Transcript level coordination of carbon pathways during silicon starvation-induced lipid accumulation in the diatom Thalassiosira pseudonana | New Phytologist | 210(3) 890–904 |
| 2016 | 10.1371/journal.pgen.1006490 | Smith, S. R., J. T. Gillard, A. B. Kustka, J. P. McCrow, J. H. Badger, H. Zheng, A. M. New, C. L. Dupont, T. Obata, A. R. Fernie and A. E. Allen | Transcriptional Orchestration of the Global Cellular Response of a Model Pennate Diatom to Diel Light Cycling under Iron Limitation | PLoS Genetics | 12(12) e1006490 |
| 2016 | 10.1039/c5cp07088k | Smith, M. D., L. Petridis, X. Cheng, B. Mostofian and J. C. Smith | Enhanced sampling simulation analysis of the structure of lignin in the THF-water miscibility gap | Physical Chemistry Chemical Physics | 18(9) 6394–8 |
| 2016 | 10.1021/acs.jpcb.5b09770 | Smith, M. D., B. Mostofian, L. Petridis, X. Cheng and J. C. Smith | Molecular Driving Forces behind the Tetrahydrofuran-Water Miscibility Gap | Journal of Physical Chemistry B | 120(4) 740–7 |
| 2016 | 10.1039/c5gc01952d | Smith, M. D., B. Mostofian, X. Cheng, L. Petridis, C. M. Cai, C. E. Wyman and J. C. Smith | Cosolvent pretreatment in cellulosic biofuel production: effect of tetrahydrofuran-water on lignin structure and dynamics | Green Chemistry | 18(5) 1268–77 |
| 2016 | 10.1016/j.landusepol.2015.09.027 | Skevas, T., N. J. Hayden, S. M. Swinton and F. Lupi | Landowner willingness to supply marginal land for bioenergy production | Land Use Policy | 50 507-517 |
| 2016 | 10.1038/ismej.2016.55 | Skennerton, C. T., M. F. Haroon, A. Briegel, J. Shi, G. J. Jensen, G. W. Tyson and V. J. Orphan | Phylogenomic analysis of Candidatus 'Izimaplasma' species: free-living representatives from a Tenericutes clade found in methane seeps | The ISME Journal | 10(11) 2679–92 |
| 2016 | 10.1016/j.bbalip.2016.01.022 | Simpson, J. P., N. Thrower and J. B. Ohlrogge | How did nature engineer the highest surface lipid accumulation among plants? Exceptional expression of acyl-lipid-associated genes for the assembly of extracellular triacylglycerol by Bayberry (Myrica pensylvanica) fruits | Biochimica et Biophysica Acta - Molecular and Cell Biology of Lipids | 1861(9) 1243-1252 |
| 2016 | 10.1128/AEM.02730-15 | Simmons, M. P., S. Sudek, A. Monier, A. J. Limardo, V. Jimenez, C. R. Perle, V. A. Elrod, J. T. Pennington and A. Z. Worden | Abundance and Biogeography of Picoprasinophyte Ecotypes and Other Phytoplankton in the Eastern North Pacific Ocean | Applied and Environmental Microbiology | 82(6) 1693–705 |
| 2016 | 10.1007/s00253-016-7376-0 | Silverman, A. M., K. Qiao, P. Xu and G. Stephanopoulos | Functional overexpression and characterization of lipogenesis-related genes in the oleaginous yeast Yarrowia lipolytica | Applied Microbiology and Biotechnology | 100(8) 3781–98 |
| 2016 | 10.1007/s00425-016-2507-5 | Sillo, F., J. U. Fangel, B. Henrissat, A. Faccio, P. Bonfante, F. Martin, W. G. Willats and R. Balestrini | Understanding plant cell-wall remodelling during the symbiotic interaction between Tuber melanosporum and Corylus avellana using a carbohydrate microarray | Planta | 244(2) 347–59 |
| 2016 | 10.1126/science.aaf7810 | Shuai, L., M. T. Amiri, Y. M. Questell-Santiago, F. Héroguel, Y. Li, H. Kim, R. Meilan, C. Chapple, J. Ralph and J. S. Luterbacher | Formaldehyde stabilization facilitates lignin monomer production during biomass depolymerization | Science | 354(6310) 329-333 |
| 2016 | 10.1111/ele.12630 | Shi, S., E. E. Nuccio, Z. J. Shi, Z. He, J. Zhou and M. K. Firestone | The interconnected rhizosphere: High network complexity dominates rhizosphere assemblages | Ecology Letters | 19(8) 926–36 |
| 2016 | 10.1038/srep24239 | Sherkhanov, S., T. P. Korman, S. G. Clarke and J. U. Bowie | Production of FAME biodiesel in E. coli by direct methylation with an insect enzyme | Scientific Reports | 6 |
| 2016 | 10.1534/g3.116.034744 | Shen, X. X., X. Zhou, J. Kominek, C. P. Kurtzman, C. T. Hittinger and A. Rokas | Reconstructing the backbone of the saccharomycotina yeast phylogeny using genome-scale data | G3: Genes, Genomes, Genetics | 6(12) 3927-3939 |
| 2016 | 10.1126/science.aaf6159 | Shaw, A. J., F. H. Lam, M. Hamilton, A. Consiglio, K. MacEwen, E. E. Brevnova, E. Greenhagen, W. G. LaTouf, C. R. South, H. van Dijken and G. Stephanopoulos | Metabolic engineering of microbial competitive advantage for industrial fermentation processes | Science | 353(6299) 583–6 |
| 2016 | 10.1186/s12934-016-0611-7 | Seppala, S., K. V. Solomon, S. P. Gilmore, J. K. Henske and M. A. O'Malley | Mapping the membrane proteome of anaerobic gut fungi identifies a wealth of carbohydrate binding proteins and transporters | Microbial Cell Factories | 15(1) 212 |
| 2016 | 10.1111/jipb.12375 | Scully, E. D., T. Gries, D. L. Funnell-Harris, Z. Xin, F. A. Kovacs, W. Vermerris and S. E. Sattler | Characterization of novel Brown midrib 6 mutations affecting lignin biosynthesis in sorghum | Journal of Integrative Plant Biology | 58(2) 136–49 |
| 2016 | 10.1071/FP15244 | Schneebeli, K., U. Mathesius, A. B. Zwart, J. N. Bragg, J. P. Vogel and M. Watt | Brachypodium distachyon genotypes vary in resistance to Rhizoctonia solani AG8 | Functional Plant Biology | 43(2) 189–98 |
| 2016 | 10.1126/science.aad7154 | Scheller, S., H. Yu, G. L. Chadwick, S. E. McGlynn and V. J. Orphan | Artificial electron acceptors decouple archaeal methane oxidation from sulfate reduction | Science | 351(6274) 703–7 |
| 2016 | 10.1128/mBio.01101-16 | Schaefer, A. L., Y. Oda, B. G. Coutinho, D. A. Pelletier, J. Weiburg, V. Venturi, E. P. Greenberg and C. S. Harwood | A LuxR Homolog in a Cottonwood Tree Endophyte That Activates Gene Expression in Response to a Plant Signal or Specific Peptides | mBio | 7(4) |
| 2016 | 10.1073/pnas.1606287113 | Sawaya, M. R., J. Rodriguez, D. Cascio, M. J. Collazo, D. Shi, F. E. Reyes, J. Hattne, T. Gonen and D. S. Eisenberg | Ab initio structure determination from prion nanocrystals at atomic resolution by MicroED | Proceedings of the National Academy of Sciences of the United States of America | 113(40) 11232-11236 |
| 2016 | 10.1016/j.biortech.2016.01.008 | Sarks, C., A. Higbee, J. Piotrowski, S. Xue, J. J. Coon, T. K. Sato, M. Jin, V. Balan and B. E. Dale | Quantifying pretreatment degradation compounds in solution and accumulated by cells during solids and yeast recycling in the Rapid Bioconversion with Integrated recycling Technology process using AFEX™ corn stover | Bioresource Technology | 205 24-33 |
| 2016 | 10.1080/17597269.2015.1132368 | Sarks, C., B. D. Bals, J. Wynn, F. Teymouri, S. Schwegmann, K. Sanders, M. Jin, V. Balan and B. E. Dale | Scaling up and benchmarking of ethanol production from pelletized pilot scale AFEX treated corn stover using Zymomonas mobilis 8b | Biofuels | 7(3) 253-262 |
| 2016 | 10.1128/AEM.01603-16 | Sardi, M., N. Rovinskiy, Y. Zhang and A. P. Gasch | Leveraging genetic-background effects in Saccharomyces cerevisiae to improve lignocellulosic hydrolysate tolerance | Applied and Environmental Microbiology | 82(19) 5838-5849 |
| 2016 | 10.1021/acs.jpcb.6b00789 | Sangha, A. K., L. Petridis, X. Cheng and J. C. Smith | Relative Binding Affinities of Monolignols to Horseradish Peroxidase | Journal of Physical Chemistry B | 120(31) 7635–40 |
| 2016 | 10.1016/j.agee.2015.10.018 | Sanford, G. R., L. G. Oates, P. Jasrotia, K. D. Thelen, G. Robertson and R. D. Jackson | Comparative productivity of alternative cellulosic bioenergy cropping systems in the North Central USA | Agriculture, Ecosystems and Environment | 216 344-355 |
| 2016 | 10.7287/peerj.preprints.1900v1 | Rodriguez-R, L. M. and K. T. Konstantinidis | The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes | PeerJ Preprints | 4 e1900v1 |
| 2016 | 10.1016/j.jcat.2016.08.011 | Ro, I., C. Sener, T. M. Stadelman, M. R. Ball, J. M. Venegas, S. P. Burt, I. Hermans, J. A. Dumesic and G. W. Huber | Measurement of intrinsic catalytic activity of Pt monometallic and Pt-MoOx interfacial sites over visible light enhanced PtMoOx/SiO2 catalyst in reverse water gas shift reaction | Journal of Catalysis | 344 784-794 |
| 2016 | 10.7717/peerj.2486 | Rinke, C., S. Low, B. J. Woodcroft, J. B. Raina, A. Skarshewski, X. H. Le, M. K. Butler, R. Stocker, J. Seymour, G. W. Tyson and P. Hugenholtz | Validation of picogram- and femtogram-input DNA libraries for microscale metagenomics | PeerJ | 4 e2486 |
| 2016 | 10.1002/anie.201510351 | Rinaldi, R., R. Jastrzebski, M. T. Clough, J. Ralph, M. Kennema, P. C. A. Bruijnincx and B. M. Weckhuysen | Paving the way for lignin valorisation: Recent advances in bioengineering, biorefining and catalysis | Angewandte Chemie - International Edition | 55(29) 8164-8215 |
| 2016 | 10.1073/pnas.1603941113 | Riley, R., S. Haridas, K. H. Wolfe, M. R. Lopes, C. T. Hittinger, et al. | Comparative genomics of biotechnologically important yeasts | Proceedings of the National Academy of Sciences of the United States of America | 113(35) 9882-9887 |
| 2016 | 10.4067/s0718-09342016000400010 | Riffo, B. | Mental representations in discourse comprehension: From lineal signifier to situation model | Revista Signos | 49 205-223 |
| 2016 | 10.1186/s12870-016-0753-0 | Ribeiro, C. L., C. M. Silva, D. R. Drost, E. Novaes, C. R. Novaes, C. Dervinis and M. Kirst | Integration of genetic, genomic and transcriptomic information identifies putative regulators of adventitious root formation in Populus | BMC Plant Biology | 16 66 |
| 2016 | 10.1016/j.jaap.2016.07.016 | Rencoret, J., J. C. Del Río, K. G. J. Nierop, A. Gutiérrez and J. Ralph | Rapid Py-GC/MS assessment of the structural alterations of lignins in genetically modified plants | Journal of Analytical and Applied Pyrolysis | 121 155-164 |
| 2016 | 10.1038/ismej.2016.83 | Raveh-Sadka, T., B. Firek, I. Sharon, R. Baker, C. T. Brown, B. C. Thomas, M. J. Morowitz and J. F. Banfield | Evidence for persistent and shared bacterial strains against a background of largely unique gut colonization in hospitalized premature infants | The ISME Journal | 10(12) 2817–30 |
| 2016 | 10.1007/s00285-016-0990-8 | Rasmussen, M., A. Hastings, M. J. Smith, F. B. Agusto, B. M. Chen-Charpentier, F. M. Hoffman, J. Jiang, K. E. Todd-Brown, Y. Wang, Y. P. Wang and Y. Luo | Transit times and mean ages for nonautonomous and autonomous compartmental systems | Journal of Mathematical Biology | 73(6–7) 1379–98 |
| 2016 | 10.1038/nmicrobiol.2016.130 | Preheim, S. P., S. W. Olesen, S. J. Spencer, A. Materna, C. Varadharajan, M. Blackburn, J. Friedman, J. Rodríguez, H. Hemond and E. J. Alm | Surveys, simulation and single-cell assays relate function and phylogeny in a lake ecosystem | Nature Microbiology | 1 |
| 2016 | 10.1186/s13068-016-0559-1 | Poovaiah, C. R., W. P. Bewg, W. Lan, J. Ralph and H. D. Coleman | Sugarcane transgenics expressing MYB transcription factors show improved glucose release | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1186/s12864-016-2471-2 | Pomraning, K. R., Y. M. Kim, C. D. Nicora, R. K. Chu, E. L. Bredeweg, S. O. Purvine, D. Hu, T. O. Metz and S. E. Baker | Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica | BMC Genomics | 17 138 |
| 2016 | 10.1101/cshperspect.a024018 | Polka, J. K., S. G. Hays and P. A. Silver | Building Spatial Synthetic Biology with Compartments, Scaffolds, and Communities | Cold Spring Harbor Perspectives in Biology | 8(8) |
| 2016 | 10.1210/en.2015-2010 | Pi, M., K. Kapoor, R. Ye, S. K. Nishimoto, J. C. Smith, J. Baudry and L. D. Quarles | Evidence for Osteocalcin Binding and Activation of GPRC6A in β-Cells | Endocrinology | 157(5) 1866–80 |
| 2016 | 10.1073/pnas.1601926113 | Pfleger, B. F. | Microbes paired for biological gas-to-liquids (Bio-GTL) process | Proceedings of the National Academy of Sciences of the United States of America | 113(14) 3717–9 |
| 2016 | 10.1186/s12864-016-3219-8 | Peterson, J. R., S. Thor, L. Kohler, P. R. Kohler, W. W. Metcalf and Z. Luthey-Schulten | Genome-wide gene expression and RNA half-life measurements allow predictions of regulation and metabolic behavior in Methanosarcina acetivorans | BMC Genomics | 17(1) 924 |
| 2016 | 10.1186/s12918-016-0298-8 | Petereit, J., S. Smith, F. C. Harris, Jr. and K. A. Schlauch | petal: Co-expression network modelling in R | BMC Systems Biology | 10 Supplement 2(Supplement 2) 51 |
| 2016 | 10.1038/ncomms12662 | Peter, M., A. Kohler, R. A. Ohm, A. Kuo, J. Krutzmann, et al. | Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum | Nature Communications | 7 12662 |
| 2016 | 10.1002/bit.25717 | Pereira, B., H. Zhang, M. De Mey, C. G. Lim, Z. J. Li and G. Stephanopoulos | Engineering a novel biosynthetic pathway in Escherichia coli for production of renewable ethylene glycol | Biotechnology and Bioengineering | 113(2) 376–83 |
| 2016 | 10.1038/ismej.2015.106 | Pepe-Ranney, C., C. Koechli, R. Potrafka, C. Andam, E. Eggleston, F. Garcia-Pichel and D. H. Buckley | Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation | The ISME Journal | 10(2) 287–98 |
| 2016 | 10.3389/fmicb.2016.00703 | Pepe-Ranney, C., A. N. Campbell, C. N. Koechli, S. Berthrong and D. H. Buckley | Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil | Frontiers in Microbiology | 7 703 |
| 2016 | 10.3389/fmicb.2016.01894 | Penton, C. R., C. Yang, L. Wu, Q. Wang, J. Zhang, F. Liu, Y. Qin, Y. Deng, C. L. Hemme, T. Zheng, E. A. Schuur, J. Tiedje and J. Zhou | NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient | Frontiers in Microbiology | 7 1894 |
| 2016 | 10.3389/fmicb.2016.00824 | Penton, C. R., V. V. Gupta, J. Yu and J. M. Tiedje | Size Matters: Assessing Optimum Soil Sample Size for Fungal and Bacterial Community Structure Analyses Using High Throughput Sequencing of rRNA Gene Amplicons | Frontiers in Microbiology | 7 824 |
| 2016 | 10.1016/j.coche.2016.09.003 | Peng, X. F., S. P. Gilmore and M. A. O'Malley | Microbial communities for bioprocessing: lessons learned from nature | Current Opinion in Chemical Engineering | 14 103–9 |
| 2016 | 10.1146/annurev-ecolsys-121415-032100 | Peay, K. G. | The Mutualistic Niche: Mycorrhizal Symbiosis and Community Dynamics | Annual Review of Ecology, Evolution, and Systematics | 47 143–64 |
| 2016 | 10.1038/nchembio.2077 | Park, J. O., S. A. Rubin, Y. F. Xu, D. Amador-Noguez, J. Fan, T. Shlomi and J. D. Rabinowitz | Metabolite concentrations, fluxes and free energies imply efficient enzyme usage | Nature Chemical Biology | 12(7) 482–9 |
| 2016 | 10.3389/fmicb.2016.00191 | Otwell, A. E., S. J. Callister, E. M. Zink, R. D. Smith and R. E. Richardson | Comparative Proteomic Analysis of Desulfotomaculum reducens MI-1: Insights into the Metabolic Versatility of a Gram-Positive Sulfate- and Metal-Reducing Bacterium | Frontiers in Microbiology | 7 191 |
| 2016 | 10.1126/science.aaf3639 | Ostrov, N., M. Landon, M. Guell, G. Kuznetsov, J. Teramoto, et al. | Design, synthesis, and testing toward a 57-codon genome | Science | 353(6301) 819–22 |
| 2016 | 10.1016/j.funeco.2016.09.001 | Öpik, M. and K. G. Peay | Mycorrhizal diversity: Diversity of host plants, symbiotic fungi and relationships | Fungal Ecology | 24 103-105 |
| 2016 | 10.1038/nchembio.2062 | Opgenorth, P. H., T. P. Korman and J. U. Bowie | A synthetic biochemistry module for production of bio-based chemicals from glucose | Nature Chemical Biology | 12(6) 393-395 |
| 2016 | 10.1186/s13068-016-0657-0 | Ong, R. G., A. Higbee, S. Bottoms, Q. Dickinson, D. Xie, et al. | Inhibition of microbial biofuel production in drought-stressed switchgrass hydrolysate | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1016/j.agee.2016.09.008 | Oates, L. G., D. S. Duncan, G. R. Sanford, C. Liang and R. D. Jackson | Bioenergy cropping systems that incorporate native grasses stimulate growth of plant-associated soil microbes in the absence of nitrogen fertilization | Agriculture, Ecosystems and Environment | 233 396-403 |
| 2016 | 10.1890/15-0882.1 | Nuccio, E. E., J. Anderson-Furgeson, K. Y. Estera, J. Pett-Ridge, P. De Valpine, E. L. Brodie and M. K. Firestone | Climate and edaphic controllers influence rhizosphere community assembly for a wild annual grass | Ecology | 97(5) 1307–18 |
| 2016 | 10.1155/2016/4182071 | Nourbakhsh-Rey, M. and M. Libault | Decipher the Molecular Response of Plant Single Cell Types to Environmental Stresses | Biomed Research International | 2016 4182071 |
| 2016 | 10.1007/s00216-015-9121-4 | Ngo, H. T., H. N. Wang, A. M. Fales and T. Vo-Dinh | Plasmonic SERS biosensing nanochips for DNA detection | Anal Bioanal Chem | 408(7) 1773-81 |
| 2016 | 10.1021/acs.iecr.5b03677 | Ng, R. T. L. and C. T. Maravelias | Design of Cellulosic Ethanol Supply Chains with Regional Depots | Industrial and Engineering Chemistry Research | 55(12) 3420-3432 |
| 2016 | 10.1016/j.mimet.2016.09.013 | Nelson, C. E., N. R. Beri and J. G. Gardner | Custom fabrication of biomass containment devices using 3-D printing enables bacterial growth analyses with complex insoluble substrates | Journal of Microbiological Methods | 130 136–43 |
| 2016 | 10.1073/pnas.1605856113 | Napolitano, M. G., M. Landon, C. J. Gregg, M. J. Lajoie, L. Govindarajan, J. A. Mosberg, G. Kuznetsov, D. B. Goodman, O. Vargas-Rodriguez, F. J. Isaacs, D. Soll and G. M. Church | Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 113(38) E5588–97 |
| 2016 | 10.1016/j.copbio.2016.06.007 | Musat, N., F. Musat, P. K. Weber and J. Pett-Ridge | Tracking microbial interactions with NanoSIMS | Current Opinion in Biotechnology | 41 114–21 |
| 2016 | 10.1016/j.copbio.2015.10.009 | Mottiar, Y., R. Vanholme, W. Boerjan, J. Ralph and S. D. Mansfield | Designer lignins: Harnessing the plasticity of lignification | Current Opinion in Biotechnology | 37 190-200 |
| 2016 | 10.1039/c6gc02297a | Motagamwala, A. H., W. Won, C. T. Maravelias and J. A. Dumesic | An engineered solvent system for sugar production from lignocellulosic biomass using biomass derived γ-valerolactone | Green Chemistry | 18(21) 5756-5763 |
| 2016 | 10.1021/jacs.6b03285 | Mostofian, B., C. M. Cai, M. D. Smith, L. Petridis, X. Cheng, C. E. Wyman and J. C. Smith | Local Phase Separation of Co-solvents Enhances Pretreatment of Biomass for Bioenergy Applications | Journal of the American Chemical Society | 138(34) 10869–78 |
| 2016 | 10.3389/fmicb.2016.00238 | Mosier, A. C., C. S. Miller, K. R. Frischkorn, R. A. Ohm, Z. Li, et al. | Fungi Contribute Critical but Spatially Varying Roles in Nitrogen and Carbon Cycling in Acid Mine Drainage | Frontiers in Microbiology | 7 238 |
| 2016 | 10.1186/s13568-016-0189-9 | Montella, S., V. Balan, L. da Costa Sousa, C. Gunawan, S. Giacobbe, O. Pepe and V. Faraco | Saccharification of newspaper waste after ammonia fiber expansion or extractive ammonia | AMB Express | 6(1) |
| 2016 | 10.1080/14789450.2016.1209415 | Mohr, B. P., S. T. Retterer and M. J. Doktycz | While-you-wait proteins? Producing biomolecules at the point of need | Expert Review of Proteomics | 13(8) 707–9 |
| 2016 | 10.1534/g3.116.032763 | Milano, E. R., D. B. Lowry and T. E. Juenger | The Genetic Basis of Upland/Lowland Ecotype Divergence in Switchgrass (Panicum virgatum) | G3 Genes|Genomes|Genetics | 6(11) 3561–70 |
| 2016 | 10.1002/prot.24996 | Miao, Y., J. Baudry, J. C. Smith and J. A. McCammon | General trends of dihedral conformational transitions in a globular protein | Proteins | 84(4) 501–14 |
| 2016 | 10.1007/s13361-016-1476-z | Meyer, J. G., A. K. D'Souza, D. J. Sorensen, M. J. Rardin, A. J. Wolfe, B. W. Gibson and B. Schilling | Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH) | Journal of the American Society for Mass Spectrometry | 27(11) 1758–71 |
| 2016 | 10.1371/journal.pone.0166724 | Meehan, T. D. and C. Gratton | A landscape view of agricultural insecticide use across the conterminous US from 1997 through 2012 | PLoS ONE | 11(11) |
| 2016 | 10.1016/j.ijhydene.2016.01.003 | McCully, A. L. and J. B. McKinlay | Disrupting Calvin cycle phosphoribulokinase activity in Rhodopseudomonas palustris increases the H2 yield and specific production rate proportionately | International Journal of Hydrogen Energy | 41(7) 4143–9 |
| 2016 | 10.1021/acs.analchem.5b04914 | McCloskey, D., J. D. Young, S. Xu, B. O. Palsson and A. M. Feist | Modeling Method for Increased Precision and Scope of Directly Measurable Fluxes at a Genome-Scale | Analytical Chemistry | 88(7) 3844–52 |
| 2016 | 10.1021/acs.analchem.5b03887 | McCloskey, D., J. D. Young, S. Xu, B. O. Palsson and A. M. Feist | MID Max: LC-MS/MS Method for Measuring the Precursor and Product Mass Isotopomer Distributions of Metabolic Intermediates and Cofactors for Metabolic Flux Analysis Applications | Analytical Chemistry | 88(2) 1362–70 |
| 2016 | 10.1073/pnas.1608917113 | McAndrew, R. P., N. Sathitsuksanoh, M. M. Mbughuni, R. A. Heins, J. H. Pereira, A. George, K. L. Sale, B. G. Fox, B. A. Simmons and P. D. Adams | Structure and mechanism of NOV1, a resveratrol-cleaving dioxygenase | Proceedings of the National Academy of Sciences of the United States of America | 113(50) 14324–9 |
| 2016 | 10.1111/1758-2229.12352 | Mayali, X., B. Stewart, S. Mabery and P. K. Weber | Temporal succession in carbon incorporation from macromolecules by particle-attached bacteria in marine microcosms | Environmental Microbiology Reports | 8(1) 68–75 |
| 2016 | 10.1038/nrmicro.2016.149 | Martin, F., A. Kohler, C. Murat, C. Veneault-Fourrey and D. S. Hibbett | Unearthing the roots of ectomycorrhizal symbioses | Nature Reviews Microbiology | 14(12) 760–73 |
| 2016 | 10.3389/fmicb.2016.00563 | Marlow, J. J., C. T. Skennerton, Z. Li, K. Chourey, R. L. Hettich, C. Pan and V. J. Orphan | Proteomic Stable Isotope Probing Reveals Biosynthesis Dynamics of Slow Growing Methane Based Microbial Communities | Frontiers in Microbiology | 7 563 |
| 2016 | 10.1016/j.coviro.2016.06.008 | Malmstrom, C. M. and H. M. Alexander | Effects of crop viruses on wild plants | Current Opinion in Virology | 19 30-36 |
| 2016 | 10.1146/annurev-earth-060614-105126 | Mackelprang, R., S. R. Saleska, C. S. Jacobsen, J. K. Jansson and N. Tas | Permafrost Meta-Omics and Climate Change | Annual Review of Earth and Planetary Sciences | 44 439–62 |
| 2016 | 10.1016/j.cels.2016.06.009 | Ma, N. J. and F. J. Isaacs | Genomic Recoding Broadly Obstructs the Propagation of Horizontally Transferred Genetic Elements | Cell Systems | 3(2) 199–207 |
| 2016 | 10.1002/jcc.23982 | Lv, C., E. W. Aitchison, D. Wu, L. Zheng, X. Cheng and W. Yang | Comparative exploration of hydrogen sulfide and water transmembrane free energy surfaces via orthogonal space tempering free energy sampling | Journal of Computational Chemistry | 37(6) 567–74 |
| 2016 | 10.1002/2015gb005239 | Luo, Y. Q., A. Ahlstrom, S. D. Allison, N. H. Batjes, V. Brovkin, et al. | Toward more realistic projections of soil carbon dynamics by Earth system models | Global Biogeochemical Cycles | 30(1) 40–56 |
| 2016 | 10.1073/pnas.1607504113 | Luo, D., R. Callari, B. Hamberger, S. G. Wubshet, M. T. Nielsen, J. Andersen-Ranberg, B. M. Hallström, F. Cozzi, H. Heider, B. L. Møller, D. Staerk and B. Hamberger | Oxidation and cyclization of casbene in the biosynthesis of Euphorbia factors from mature seeds of Euphorbia lathyris L | Proceedings of the National Academy of Sciences of the United States of America | 113(34) E5082-E5089 |
| 2016 | 10.1007/978-3-319-46326-1_5 | Lubbe, A. and T. Northen | Exometabolomics for Linking Soil Carbon Dynamics to Microbial Communities | Microbial Metabolomics: Applications in Clinical, Environmental, and Industrial Microbiology | 119–45 |
| 2016 | 10.1007/s11104-015-2640-0 | Lowman, S., S. Kim-Dura, C. S. Mei and J. Nowak | Strategies for enhancement of switchgrass (Panicum virgatum L.) performance under limited nitrogen supply based on utilization of N-fixing bacterial endophytes | Plant and Soil | 405(1–2) 47–63 |
| 2016 | 10.1104/pp.16.00545 | Lovell, J. T., E. V. Shakirov, S. Schwartz, D. B. Lowry, M. J. Aspinwall, S. H. Taylor, J. Bonnette, J. D. Palacio-Mejia, C. V. Hawkes, P. A. Fay and T. E. Juenger | Promises and Challenges of Eco-Physiological Genomics in the Field: Tests of Drought Responses in Switchgrass | Plant Physiology | 172(2) 734–48 |
| 2016 | 10.1101/gr.198135.115 | Lovell, J. T., S. Schwartz, D. B. Lowry, E. V. Shakirov, J. E. Bonnette, X. Weng, M. Wang, J. Johnson, A. Sreedasyam, C. Plott, J. Jenkins, J. Schmutz and T. E. Juenger | Drought responsive gene expression regulatory divergence between upland and lowland ecotypes of a perennial C4 grass | Genome Research | 26(4) 510–8 |
| 2016 | 10.1016/j.tim.2016.04.006 | Long, P. E., K. H. Williams, S. S. Hubbard and J. F. Banfield | Microbial Metagenomics Reveals Climate-Relevant Subsurface Biogeochemical Processes | Trends in Microbiology | 24(8) 600–10 |
| 2016 | 10.1016/j.ymeth.2016.01.013 | Lohnes, K., N. R. Quebbemann, K. Liu, F. Kobzeff, J. A. Loo and R. R. Ogorzalek Loo | Combining high-throughput MALDI-TOF mass spectrometry and isoelectric focusing gel electrophoresis for virtual 2D gel-based proteomics | Methods | 104 163-169 |
| 2016 | 10.3389/fmolb.2016.00070 | Liu, Y., J. Miao, S. Traore, D. Kong, Y. Liu, X. Zhang, Z. L. Nimchuk, Z. Liu and B. Zhao | SacB-SacR Gene Cassette As the Negative Selection Marker to Suppress Agrobacterium Overgrowth in Agrobacterium-Mediated Plant Transformation | Frontiers in Molecular Biosciences | 3 70 |
| 2016 | 10.1016/j.cub.2015.11.054 | Liu, X., K. Mao, A. Y. H. Yu, A. Omairi-Nasser, J. Austin, 2nd, B. S. Glick, C. K. Yip and D. J. Klionsky | The Atg17-Atg31-Atg29 Complex Coordinates with Atg11 to Recruit the Vam7 SNARE and Mediate Autophagosome-Vacuole Fusion | Curr Biol | 26(2) 150-160 |
| 2016 | 10.1111/gcbb.12275 | Liu, S. Y., L. V. Clark, K. Swaminathan, J. M. Gifford, J. A. Juvik and E. J. Sacks | High-density genetic map of Miscanthus sinensis reveals inheritance of zebra stripe | GCB Bioenergy | 8(3) 616–30 |
| 2016 | 10.1016/j.ymben.2016.06.006 | Liu, N., K. Qiao and G. Stephanopoulos | 13C Metabolic Flux Analysis of acetate conversion to lipids by Yarrowia lipolytica | Metabolic Engineering | 38 86–97 |
| 2016 | 10.1111/pbi.12453 | Liu, F., Q. Zhao, N. Mano, Z. Ahmed, F. Nitschke, Y. Cai, K. D. Chapman, M. Steup, I. J. Tetlow and M. J. Emes | Modification of starch metabolism in transgenic Arabidopsis thaliana increases plant biomass and triples oilseed production | Plant Biotechnology Journal | 14(3) 976–85 |
| 2016 | 10.1016/j.pbi.2016.01.007 | Liu, D., R. Hu, K. J. Palla, G. A. Tuskan and X. Yang | Advances and perspectives on the use of CRISPR/Cas9 systems in plant genomics research | Current Opinion in Plant Biology | 30 70–7 |
| 2016 | 10.1002/bip.22924 | Lindsay, R. J., Q. R. Johnson, W. Evangelista, R. B. Nellas and T. Shen | DMSO enhanced conformational switch of an interfacial enzyme | Biopolymers | 105(12) 864–72 |
| 2016 | 10.1111/pbi.12566 | Lin, J., M. Mazarei, N. Zhao, C. N. Hatcher, W. A. Wuddineh, M. Rudis, T. J. Tschaplinski, V. R. Pantalone, P. R. Arelli, T. Hewezi, F. Chen and C. N. Stewart, Jr. | Transgenic soybean overexpressing GmSAMT1 exhibits resistance to multiple-HG types of soybean cyst nematode Heterodera glycines | Plant Biotechnology Journal | 14(11) 2100–9 |
| 2016 | 10.1038/nrmicro.2016.32 | Liao, J. C., L. Mi, S. Pontrelli and S. Luo | Fuelling the future: microbial engineering for the production of sustainable biofuels | Nature Reviews Microbiology | 14(5) 288–304 |
| 2016 | 10.5194/bg-13-2689-2016 | Liang, J. Y., X. Qi, L. Souza and Y. Q. Luo | Processes regulating progressive nitrogen limitation under elevated carbon dioxide: a meta-analysis | Biogeosciences | 13(9) 2689–99 |
| 2016 | 10.1016/j.soilbio.2016.08.002 | Liang, C., J. Kao-Kniffin, G. R. Sanford, K. Wickings, T. C. Balser and R. D. Jackson | Microorganisms and their residues under restored perennial grassland communities of varying diversity | Soil Biology and Biochemistry | 103 192-200 |
| 2016 | 10.1016/j.soilbio.2015.11.020 | Liang, C., E. D. C. Jesus, D. S. Duncan, J. F. Quensen, R. D. Jackson, T. C. Balser and J. M. Tiedje | Switchgrass rhizospheres stimulate microbial biomass but deplete microbial necromass in agricultural soils of the upper Midwest, USA | Soil Biology and Biochemistry | 94 173-180 |
| 2016 | 10.1016/j.ymben.2016.01.004 | Li, Z. J., K. Qiao, W. Shi, B. Pereira, H. Zhang, B. D. Olsen and G. Stephanopoulos | Biosynthesis of poly(glycolate-co-lactate-co-3-hydroxybutyrate) from glucose by metabolically engineered Escherichia coli | Metabolic Engineering | 35 45665 |
| 2016 | 10.1371/journal.pone.0155038 | Levering, J., J. Broddrick, C. L. Dupont, G. Peers, K. Beeri, J. Mayers, A. A. Gallina, A. E. Allen, B. O. Palsson and K. Zengler | Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom | PLoS One | 11(5) e0155038 |
| 2016 | 10.1186/s12859-016-0887-y | Leung, E., A. Huang, E. Cadag, A. Montana, J. L. Soliman and C. L. Zhou | Protein Sequence Annotation Tool (PSAT): a centralized web-based meta-server for high-throughput sequence annotations | BMC Bioinformatics | 17 43 |
| 2016 | 10.1093/nar/gkw436 | Lee, D. F., J. Lu, S. Chang, J. J. Loparo and X. S. Xie | Mapping DNA polymerase errors by single-molecule sequencing | Nucleic Acids Research | 44(13) e118 |
| 2016 | 10.1186/s40168-016-0162-5 | Lan, Y., G. Rosen and R. Hershberg | Marker genes that are less conserved in their sequences are useful for predicting genome-wide similarity levels between closely related prokaryotic strains | Microbiome | 4(1) 18 |
| 2016 | 10.1111/tpj.13315 | Lan, W., J. Rencoret, F. Lu, S. D. Karlen, B. G. Smith, P. J. Harris, J. C. Del Rio and J. Ralph | Tricin-lignins: occurrence and quantitation of tricin in relation to phylogeny | The Plant Journal | 88(6) 1046–57 |
| 2016 | 10.1016/j.jmb.2015.09.003 | Lajoie, M. J., D. Soll and G. M. Church | Overcoming Challenges in Engineering the Genetic Code | Journal of Molecular Biology | 428(5 Part B) 1004–21 |
| 2016 | 10.1126/sciadv.1501855 | Lai, Y. T., G. L. Hura, K. N. Dyer, H. Y. H. Tang, J. A. Tainer and T. O. Yeates | Designing and defining dynamic protein cage nanoassemblies in solution | Science Advances | 2(12) |
| 2016 | 10.1128/AEM.03538-15 | Lacroix, C., K. Renner, E. Cole, E. W. Seabloom, E. T. Borer and C. M. Malmstrom | Methodological guidelines for accurate detection of viruses in wild plant species | Applied and Environmental Microbiology | 82(6) 1966-1975 |
| 2016 | 10.1099/mgen.0.000099 | La Reau, A. J., J. P. Meier-Kolthoff and G. Suen | Sequence-based analysis of the genus Ruminococcus resolves its phylogeny and reveals strong host association | Microbial Genomics | 2(12) e000099 |
| 2016 | 10.1093/femsyr/fow041 | Kurtzman, C. P., C. J. Robnett and M. Blackwell | Description of Teunomyces gen. nov. for the Candida kruisii clade, Suhomyces gen. nov. for the Candida tanzawaensis clade and Suhomyces kilbournensis sp. nov | FEMS Yeast Research | 16(5) |
| 2016 | 10.7554/eLife.19027 | Kuang, M. C., P. D. Hutchins, J. D. Russell, J. J. Coon and C. T. Hittinger | Ongoing resolution of duplicate gene functions shapes the diversification of a metabolic network | eLife | 5(September2016) |
| 2016 | 10.1111/nph.13993 | Kostka, J. E., D. J. Weston, J. B. Glass, E. A. Lilleskov, A. J. Shaw and M. R. Turetsky | The Sphagnum microbiome: new insights from an ancient plant lineage | New Phytologist | 211(1) 57–64 |
| 2016 | 10.1016/j.compchemeng.2016.02.013 | Kong, L., S. M. Sen, C. A. Henao, J. A. Dumesic and C. T. Maravelias | A superstructure-based framework for simultaneous process synthesis, heat integration, and utility plant design | Computers and Chemical Engineering | 91 68-84 |
| 2016 | 10.1016/j.ymben.2016.10.017 | Kirby, J., K. L. Dietzel, G. Wichmann, R. Chan, E. Antipov, et al. | Engineering a functional 1-deoxy-D-xylulose 5-phosphate (DXP) pathway in Saccharomyces cerevisiae | Metabolic Engineering | 38 494–503 |
| 2016 | 10.1093/nar/gkv1049 | King, Z. A., J. Lu, A. Drager, P. Miller, S. Federowicz, J. A. Lerman, A. Ebrahim, B. O. Palsson and N. E. Lewis | BiGG Models: A platform for integrating, standardizing and sharing genome-scale models | Nucleic Acids Research | 44(D1) D515–22 |
| 2016 | 10.1016/j.plaphy.2016.04.020 | Kim, J., Y. Liu, X. Zhang, B. Zhao and K. L. Childs | Analysis of salt-induced physiological and proline changes in 46 switchgrass (Panicum virgatum) lines indicates multiple response modes | Plant Physiology and Biochemistry | 105 203–12 |
| 2016 | 10.1038/ncomms13806 | Khodayari, A. and C. D. Maranas | A genome-scale Escherichia coli kinetic metabolic model k-ecoli457 satisfying flux data for multiple mutant strains | Nature Communications | 7 13806 |
| 2016 | 10.1016/j.jmbbm.2016.01.017 | Khandaker, M. S. K., D. M. Dudek, E. P. Beers, D. A. Dillard and D. R. Bevan | Molecular modeling of the elastomeric properties of repeating units and building blocks of resilin, a disordered elastic protein | Journal of the Mechanical Behavior of Biomedical Materials | 61 110–21 |
| 2016 | 10.1111/mec.13872 | Khadempour, L., K. E. Burnum-Johnson, E. S. Baker, C. D. Nicora, B. J. M. Webb-Robertson, R. A. White, M. E. Monroe, E. L. Huang, R. D. Smith and C. R. Currie | The fungal cultivar of leaf-cutter ants produces specific enzymes in response to different plant substrates | Molecular Ecology | 25(22) 5795-5805 |
| 2016 | 10.1038/npjsba.2016.5 | Kerkhoven, E. J., K. R. Pomraning, S. E. Baker and J. Nielsen | Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica | npj Systems Biology and Applications | 2 16005 |
| 2016 | 10.1038/ismej.2015.265 | Kent, A. G., C. L. Dupont, S. Yooseph and A. C. Martiny | Global biogeography of Prochlorococcus genome diversity in the surface ocean | The ISME Journal | 10(8) 1856–65 |
| 2016 | 10.1104/pp.16.00014 | Kebrom, T. H. and J. E. Mullet | Transcriptome Profiling of Tiller Buds Provides New Insights into PhyB Regulation of Tillering and Indeterminate Growth in Sorghum | Plant Physiology | 170(4) 2232–50 |
| 2016 | 10.1371/journal.pone.0167763 | Kattke, M. D., A. H. Chan, A. Duong, D. L. Sexton, M. R. Sawaya, D. Cascio, M. A. Elliot and R. T. Clubb | Crystal structure of the Streptomyces coelicolor sortase E1 transpeptidase provides insight into the binding mode of the novel class e sorting signal | PLoS ONE | 11(12) |
| 2016 | 10.1126/sciadv.1600393 | Karlen, S. D., C. Zhang, M. L. Peck, R. A. Smith, D. Padmakshan, et al. | Monolignol ferulate conjugates are naturally incorporated into plant lignins | Science Advances | 2(10) e1600393 |
| 2016 | 10.1021/acs.jcim.5b00596 | Kapoor, K., N. McGill, C. B. Peterson, H. V. Meyers, M. N. Blackburn and J. Baudry | Discovery of Novel Nonactive Site Inhibitors of the Prothrombinase Enzyme Complex | Journal of Chemical Information and Modeling | 56(3) 535–47 |
| 2016 | 10.1093/jxb/erw292 | Kang, J. H., M. L. Campos, S. Zemelis-Durfee, J. M. Al-Haddad, A. D. Jones, F. W. Telewski, F. Brandizzi and G. A. Howe | Molecular cloning of the tomato Hairless gene implicates actin dynamics in trichome-mediated defense and mechanical properties of stem tissue | Journal of Experimental Botany | 67(18) 5313-5324 |
| 2016 | 10.3389/fpls.2016.01455 | Kalluri, U. C., R. S. Payyavula, J. L. Labbe, N. Engle, G. Bali, S. S. Jawdy, R. W. Sykes, M. Davis, A. Ragauskas, G. A. Tuskan and T. J. Tschaplinski | Down-Regulation of KORRIGAN-Like Endo-β-1,4-Glucanase Genes Impacts Carbon Partitioning, Mycorrhizal Colonization and Biomass Production in Populus | Frontiers in Plant Science | 7 1455 |
| 2016 | 10.1128/AEM.02612-15 | Jun, S. R., T. M. Wassenaar, I. Nookaew, L. Hauser, V. Wanchai, M. Land, C. M. Timm, T. Y. Lu, C. W. Schadt, M. J. Doktycz, D. A. Pelletier and D. W. Ussery | Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis | Applied and Environmental Microbiology | 82(1) 375–83 |
| 2016 | 10.1093/femsle/fnw063 | Jones, A. J., K. P. Venkataramanan and T. Papoutsakis | Overexpression of two stress-responsive, small, non-coding RNAs, 6S and tmRNA, imparts butanol tolerance in Clostridium acetobutylicum | FEMS Microbiology Letters | 363(8) |
| 2016 | 10.3389/fmicb.2016.00579 | Johnston, E. R., R. L. Rodriguez, C. Luo, M. M. Yuan, L. Wu, Z. He, E. A. Schuur, Y. Luo, J. M. Tiedje, J. Zhou and K. T. Konstantinidis | Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem | Frontiers in Microbiology | 7 579 |
| 2016 | 10.1128/mBio.02214-15 | Johnson, T. A., R. D. Stedtfeld, Q. Wang, J. R. Cole, S. A. Hashsham, T. Looft, Y. G. Zhu and J. M. Tiedje | Clusters of Antibiotic Resistance Genes Enriched Together Stay Together in Swine Agriculture | mBio | 7(2) e02214–5 |
| 2016 | 10.1002/prot.25031 | Johnson, Q. R., R. J. Lindsay, R. B. Nellas and T. Shen | Pressure-induced conformational switch of an interfacial protein | Proteins | 84(6) 820–7 |
| 2016 | 10.1039/c5gc02433a | Jin, M., L. Da Costa Sousa, C. Schwartz, Y. He, C. Sarks, C. Gunawan, V. Balan and B. E. Dale | Toward lower cost cellulosic biofuel production using ammonia based pretreatment technologies | Green Chemistry | 18(4) 957-966 |
| 2016 | 10.1016/j.molp.2015.12.020 | Jia, Q. and F. Chen | Catalytic Functions of the Isoprenyl Diphosphate Synthase Superfamily in Plants: A Growing Repertoire | Molecular Plant | 9(2) 189–91 |
| 2016 | 10.1128/mBio.01208-16 | James, K. L., L. A. Rios-Hernandez, N. Q. Wofford, H. Mouttaki, J. R. Sieber, et al. | Pyrophosphate-Dependent ATP Formation from Acetyl Coenzyme A in Syntrophus aciditrophicus, a New Twist on ATP Formation | mBio | 7(4) |
| 2016 | 10.1016/j.algal.2016.05.014 | Jallet, D., M. A. Caballero, A. A. Gallina, M. Youngblood and G. Peers | Photosynthetic physiology and biomass partitioning in the model diatom Phaeodactylum tricornutum grown in a sinusoidal light regime | Algal Research | 18 51–60 |
| 2016 | 10.1021/acs.jpcb.6b01930 | Jacobitz, A. W., E. B. Naziga, S. W. Yi, S. A. McConnell, R. Peterson, M. E. Jung, R. T. Clubb and J. Wereszczynski | The "lid" in the Streptococcus pneumoniae SrtC1 Sortase Adopts a Rigid Structure that Regulates Substrate Access to the Active Site | Journal of Physical Chemistry B | 120(33) 8302-8312 |
| 2016 | 10.1002/bit.25863 | Irani, Z. A., E. J. Kerkhoven, S. A. Shojaosadati and J. Nielsen | Genome-scale metabolic model of Pichia pastoris with native and humanized glycosylation of recombinant proteins | Biotechnology and Bioengineering | 113(5) 961–9 |
| 2016 | 10.1117/12.2212085 | Ingargiola, A., T. Laurence, R. Boutelle, S. Weiss and X. Michalet | Photon-HDF5: Open data format and computational tools for timestamp-based single-molecule experiments | Progress in Biomedical Optics and Imaging - Proceedings of SPIE | 9714 |
| 2016 | 10.1016/j.bpj.2015.11.013 | Ingargiola, A., T. Laurence, R. Boutelle, S. Weiss and X. Michalet | Photon-HDF5: An open file format for timestamp-based single-molecule fluorescence experiments | Biophysical Journal | 110(1) 26-33 |
| 2016 | 10.1016/B978-0-444-63475-7.00001-7 | Immethun, C. M., W. R. Henson, X. Wang, D. R. Nielsen and T. S. Moon | Engineering Central Metabolism for Production of Higher Alcohol-based Biofuels | Biotechnology for Biofuel Production and Optimization | 1–34 |
| 2016 | 10.1890/15-0883/suppinfo | Ibáñez, I., D. R. Zak, A. J. Burton and K. S. Pregitzer | Chronic nitrogen deposition alters tree allometric relationships: Implications for biomass production and carbon storage | Ecological Applications | 26(3) 913-925 |
| 2016 | 10.1038/ncomms13388 | Hunter, M. S., C. H. Yoon, H. DeMirci, R. G. Sierra, E. H. Dao, et al. | Selenium single-wavelength anomalous diffraction de novo phasing using an X-ray-free electron laser | Nature Communications | 7(1) 13388 |
| 2016 | 10.1016/j.ecolmodel.2015.10.029 | Hunt, N. D., S. T. Gower, K. Nadelhoffer, K. Lajtha, K. Townsend and K. R. Brye | Validation of an agroecosystem process model (AGRO-BGC) on annual and perennial bioenergy feedstocks | Ecological Modelling | 321 23-34 |
| 2016 | 10.1016/j.pbi.2016.03.014 | Huang, P. and T. P. Brutnell | A synthesis of transcriptomic surveys to dissect the genetic basis of C4 photosynthesis | Current Opinion in Plant Biology | 31 91–9 |
| 2016 | 10.1128/mBio.01669-15 | Hu, P., L. Tom, A. Singh, B. C. Thomas, B. J. Baker, Y. M. Piceno, G. L. Andersen and J. F. Banfield | Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs | mBio | 7(1) e01669-15 |
| 2016 | 10.1073/pnas.1516867113 | Hu, P., S. Chakraborty, A. Kumar, B. Woolston, H. Liu, D. Emerson and G. Stephanopoulos | Integrated bioprocess for conversion of gaseous substrates to liquids | Proceedings of the National Academy of Sciences of the United States of America | 113(14) 3773–8 |
| 2016 | 10.3389/fpls.2016.01493 | Hu, H., X. Gu, L. J. Xue, P. S. Swamy, S. A. Harding and C. J. Tsai | Tubulin C-terminal Post-translational Modifications Do Not Occur in Wood Forming Tissue of Populus | Frontiers in Plant Science | 7 1493 |
| 2016 | 10.1007/7397_2015_16 | Hsia, M. M. and J. P. Vogel | Transformation and T-DNA Mutagenesis | Genetics and Genomics of Brachypodium | 147–53 |
| 2016 | 10.1371/journal.pone.0159715 | Houtman, C. J., P. Kitin, J. C. Houtman, K. E. Hammel and C. G. Hunt | Acridine Orange Indicates Early Oxidation of Wood Cell Walls by Fungi | PLoS One | 11(7) e0159715 |
| 2016 | 10.1126/science.aaf6206 | Horn, P. J. and C. Benning | The plant lipidome in human and environmental health | Science | 353(6305) 1228-11232 |
| 2016 | 10.1016/j.pbi.2016.03.013 | Hopkinson, B. M., C. L. Dupont and Y. Matsuda | The physiology and genetics of CO2 concentrating mechanisms in model diatoms | Current Opinion in Plant Biology | 31 51–7 |
| 2016 | 10.1126/sciadv.1600886 | Hong, L., N. Jain, X. Cheng, A. Bernal, M. Tyagi and J. C. Smith | Determination of functional collective motions in a protein at atomic resolution using coherent neutron scattering | Science Advances | 2(10) e1600886 |
| 2016 | 10.1186/s13068-016-0630-y | Hollinshead, W. D., S. Rodriguez, H. G. Martin, G. Wang, E. E. Baidoo, K. L. Sale, J. D. Keasling, A. Mukhopadhyay and Y. J. Tang | Examining Escherichia coli glycolytic pathways, catabolite repression, and metabolite channeling using Δpfk mutants | Biotechnology for Biofuels | 9 212 |
| 2016 | 10.1002/bit.25702 | Hollinshead, W. D., W. R. Henson, M. Abernathy, T. S. Moon and Y. J. Tang | Rapid metabolic analysis of Rhodococcus opacus PD630 via parallel 13C-metabolite fingerprinting | Biotechnology and Bioengineering | 113(1) 91–100 |
| 2016 | 10.1016/j.gca.2016.05.015 | Hodgkins, S. B., M. M. Tfaily, D. C. Podgorski, C. K. McCalley, S. R. Saleska, P. M. Crill, V. I. Rich, J. P. Chanton and W. T. Cooper | Elemental composition and optical properties reveal changes in dissolved organic matter along a permafrost thaw chronosequence in a subarctic peatland | Geochimica et Cosmochimica Acta | 187 123–40 |
| 2016 | 10.1105/tpc.16.00353 | Hirsch, C. N., C. D. Hirsch, A. B. Brohammer, M. J. Bowman, I. Soifer, et al. | Draft assembly of elite inbred line PH207 provides insights into genomic and transcriptome diversity in maize | Plant Cell | 28(11) 2700-2714 |
| 2016 | 10.1128/AEM.00243-16 | Higgins, S. A., A. Welsh, L. H. Orellana, K. T. Konstantinidis, J. C. Chee-Sanford, R. A. Sanford, C. W. Schadt and F. E. Löffler | Detection and diversity of fungal nitric oxide reductase genes (p450nor) in agricultural soils | Applied and Environmental Microbiology | 82(10) 2919-2928 |
| 2016 | 10.7717/peerj.2606 | Henning, J. A., D. J. Weston, D. A. Pelletier, C. M. Timm, S. S. Jawdy and A. T. Classen | Root bacterial endophytes alter plant phenotype, but not physiology | PeerJ | 4 e2606 |
| 2016 | 10.1074/jbc.M115.694307 | Helmich, K. E., J. H. Pereira, D. L. Gall, R. A. Heins, R. P. McAndrew, et al. | Structural basis of stereospecificity in the bacterial enzymatic cleavage of β-aryl ether bonds in lignin | Journal of Biological Chemistry | 291(10) 5234-5246 |
| 2016 | 10.1038/ncomms12860 | Hehemann, J. H., P. Arevalo, M. S. Datta, X. Yu, C. H. Corzett, A. Henschel, S. P. Preheim, S. Timberlake, E. J. Alm and M. F. Polz | Adaptive radiation by waves of gene transfer leads to fine-scale resource partitioning in marine microbes | Nature Communications | 7 12860 |
| 2016 | 10.1016/j.pbi.2016.03.019 | Hartwell, J., L. V. Dever and S. F. Boxall | Emerging model systems for functional genomics analysis of Crassulacean acid metabolism | Current Opinion in Plant Biology | 31 100–8 |
| 2016 | 10.1002/biot.201600266 | Harman-Ware, A. E., C. Foster, R. M. Happs, C. Doeppke, K. Meunier, J. Gehan, F. Yue, F. Lu and M. F. Davis | A thioacidolysis method tailored for higher-throughput quantitative analysis of lignin monomers | Biotechnology Journal | 11(10) 1268-1273 |
| 2016 | 10.1111/evo.12973 | Harcombe, W. R., A. Betts, J. W. Shapiro and C. J. Marx | Adding biotic complexity alters the metabolic benefits of mutualism | Evolution | 70(8) 1871–81 |
| 2016 | 10.1016/B978-0-444-63475-7.00009-1 | Halweg-Edwards, A., M. Bassalo, J. Winkler and R. Gill | Biotechnological strategies for advanced biofuel production: enhancing tolerance phenotypes through genome-scale modifications | Biotechnology for Biofuel Production and Optimization | 227–63 |
| 2016 | 10.1016/j.soilbio.2016.04.010 | Hall, S. J., W. L. Silver, V. I. Timokhin and K. E. Hammel | Iron addition to soil specifically stabilized lignin | Soil Biology and Biochemistry | 98 95–8 |
| 2016 | 10.1126/science.aaf2786 | Hackett, S. R., V. R. Zanotelli, W. Xu, J. Goya, J. O. Park, D. H. Perlman, P. A. Gibney, D. Botstein, J. D. Storey and J. D. Rabinowitz | Systems-level analysis of mechanisms regulating yeast metabolic flux | Science | 354(6311) |
| 2016 | 10.1128/AEM.02772-15 | Guo, J., J. R. Cole, Q. Zhang, C. T. Brown and J. M. Tiedje | Microbial Community Analysis with Ribosomal Gene Fragments from Shotgun Metagenomes | Applied and Environmental Microbiology | 82(1) 157–66 |
| 2016 | 10.1186/s40793-015-0124-8 | Gunsalus, R. P., L. E. Cook, B. Crable, L. Rohlin, E. McDonald, et al. | Complete genome sequence of Methanospirillum hungatei type strain JF1 | Standards in Genomic Sciences | 11(1) |
| 2016 | 10.1186/s12864-016-3286-x | Gregory, A. C., S. A. Solonenko, J. C. Ignacio-Espinoza, K. LaButti, A. Copeland, S. Sudek, A. Maitland, L. Chittick, F. Dos Santos, J. S. Weitz, A. Z. Worden, T. Woyke and M. B. Sullivan | Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer | BMC Genomics | 17(1) 930 |
| 2016 | 10.1016/j.ymben.2016.07.007 | Gordon, G. C., T. C. Korosh, J. C. Cameron, A. L. Markley, M. B. Begemann and B. F. Pfleger | CRISPR interference as a titratable, trans-acting regulatory tool for metabolic engineering in the cyanobacterium Synechococcus sp. strain PCC 7002 | Metabolic Engineering | 38 170-179 |
| 2016 | 10.1104/pp.15.01977 | Gidda, S. K., S. Park, M. Pyc, O. Yurchenko, Y. Cai, P. Wu, D. W. Andrews, K. D. Chapman, J. M. Dyer and R. T. Mullen | Lipid Droplet-Associated Proteins (LDAPs) Are Required for the Dynamic Regulation of Neutral Lipid Compartmentation in Plant Cells | Plant Physiology | 170(4) 2052–71 |
| 2016 | 10.1002/anie.201509989 | Gerlits, O., T. Wymore, A. Das, C. H. Shen, J. M. Parks, J. C. Smith, K. L. Weiss, D. A. Keen, M. P. Blakeley, J. M. Louis, P. Langan, I. T. Weber and A. Kovalevsky | Long-Range Electrostatics-Induced Two-Proton Transfer Captured by Neutron Crystallography in an Enzyme Catalytic Site | Angewandte Chemie International Edition | 55(16) 4924–7 |
| 2016 | 10.3389/fmicb.2016.01155 | Geng, H., M. B. Tran-Gyamfi, T. W. Lane, K. L. Sale and E. T. Yu | Changes in the Structure of the Microbial Community Associated with Nannochloropsis salina following Treatments with Antibiotics and Bioactive Compounds | Frontiers in Microbiology | 7 1155 |
| 2016 | 10.1007/s00248-016-0746-4 | Geng, H., K. L. Sale, M. B. Tran-Gyamfi, T. W. Lane and E. T. Yu | Longitudinal Analysis of Microbiota in Microalga Nannochloropsis salina Cultures | Microbial Ecology | 72(1) 14–24 |
| 2016 | 10.1186/s12870-015-0696-x | Gelli, M., S. E. Mitchell, K. Liu, T. E. Clemente, D. P. Weeks, C. Zhang, D. R. Holding and I. M. Dweikat | Mapping QTLs and association of differentially expressed gene transcripts for multiple agronomic traits under different nitrogen levels in sorghum | BMC Plant Biology | 16 16 |
| 2016 | 10.1111/gcb.13426 | Gelfand, I., I. Shcherbak, N. Millar, A. N. Kravchenko and G. P. Robertson | Long-term nitrous oxide fluxes in annual and perennial agricultural and unmanaged ecosystems in the upper Midwest USA | Global Change Biology | 22(11) 3594-3607 |
| 2016 | 10.1016/j.mimet.2016.10.018 | Garoutte, A., E. Cardenas, J. Tiedje and A. Howe | Methodologies for probing the metatranscriptome of grassland soil | Journal of Microbiological Methods | 131 122-129 |
| 2016 | 10.1007/s11274-016-2068-6 | Gardner, J. G. | Polysaccharide degradation systems of the saprophytic bacterium Cellvibrio japonicus | World Journal of Microbiology & Biotechnology | 32(7) 121 |
| 2016 | 10.1021/acs.jafc.6b04273 | Gao, R., F. Lu, Y. Zhu, M. G. Hahn and J. Ralph | Flexible Method for Conjugation of Phenolic Lignin Model Compounds to Carrier Proteins | Journal of Agricultural and Food Chemistry | 64(41) 7782–8 |
| 2016 | 10.1016/j.algal.2016.06.020 | Gallina, A. A., M. Layer, Z. A. King, J. Levering, B. O. Palsson, K. Zengler and G. Peers | A Phaeodactylum tricornutum literature database for interactive annotation of content | Algal Research | 18 241–3 |
| 2016 | 10.1007/7397_2015_9 | Franke, K. R. and P. J. Green | The microRNAs of Brachypodium | Genetics and Genomics of Brachypodium | 18 129–45 |
| 2016 | 10.1016/j.agee.2016.07.003 | Fox, A. F., T. N. Kim, C. A. Bahlai, J. M. Woltz, C. Gratton and D. A. Landis | Cover crops have neutral effects on predator communities and biological control services in annual cellulosic bioenergy cropping systems | Agriculture, Ecosystems and Environment | 232 101-109 |
| 2016 | 10.1002/pro.3050 | Filippova, E. V., Z. Wawrzak, J. Ruan, S. Pshenychnyi, R. M. Schultz, A. J. Wolfe and W. F. Anderson | Crystal structure of nonphosphorylated receiver domain of the stress response regulator RcsB from Escherichia coli | Protein Science | 25(12) 2216–24 |
| 2016 | 10.1016/j.apenergy.2016.05.100 | Field, J. L., P. Tanger, S. J. Shackley and S. M. Haefele | Agricultural residue gasification for low-cost, low-carbon decentralized power: An empirical case study in Cambodia | Applied Energy | 177 612–24 |
| 2016 | 10.1016/j.fuel.2016.05.099 | Ferris, A. M. and D. A. Rothamer | Methodology for the experimental measurement of vapor-liquid equilibrium distillation curves using a modified ASTM D86 setup | Fuel | 182 467-479 |
| 2016 | 10.1016/j.soilbio.2016.06.003 | Feng, W. T., Z. Shi, J. Jiang, J. Y. Xia, J. Y. Liang, J. Z. Zhou and Y. Q. Luo | Methodological uncertainty in estimating carbon turnover times of soil fractions | Soil Biology and Biochemistry | 100 118–24 |
| 2016 | 10.1105/tpc.16.00182 | Feng, W., H. Lindner, N. E. Robbins, 2nd and J. R. Dinneny | Growing Out of Stress: The Role of Cell- and Organ-Scale Growth Control in Plant Water-Stress Responses | The Plant Cell | 28(8) 1769–82 |
| 2016 | 10.1534/g3.116.030510 | Felderhoff, T. J., L. M. McIntyre, A. Saballos and W. Vermerris | Using Genotyping by Sequencing to Map Two Novel Anthracnose Resistance Loci in Sorghum bicolor | G3 Genes|Genomes|Genetics | 6(7) 1935–46 |
| 2016 | 10.1186/s13059-016-0968-2 | Feist, A. M. and B. O. Palsson | What do cells actually want? | Genome Biology | 17(1) |
| 2016 | 10.1105/tpc.16.00186 | Fang, L., T. Ishikawa, E. A. Rennie, G. M. Murawska, J. Lao, J. Yan, A. Y. Tsai, E. E. Baidoo, J. Xu, J. D. Keasling, T. Demura, M. Kawai-Yamada, H. V. Scheller and J. C. Mortimer | Loss of Inositol Phosphorylceramide Sphingolipid Mannosylation Induces Plant Immune Responses and Reduces Cellulose Content in Arabidopsis | The Plant Cell | 28(12) 2991–3004 |
| 2016 | 10.1186/s40793-016-0174-6 | Everroad, R. C., R. K. Stuart, B. M. Bebout, A. M. Detweiler, J. Z. Lee, D. Woebken, L. Prufert-Bebout and J. Pett-Ridge | Permanent draft genome of strain ESFC-1: ecological genomics of a newly discovered lineage of filamentous diazotrophic cyanobacteria | Standards in Genomic Sciences | 11(1) 53 |
| 2016 | 10.1016/j.bmc.2016.07.064 | Evangelista, W., R. L. Weir, S. R. Ellingson, J. B. Harris, K. Kapoor, J. C. Smith and J. Baudry | Ensemble-based docking: From hit discovery to metabolism and toxicity predictions | Bioorganic & Medicinal Chemistry | 24(20) 4928–35 |
| 2016 | 10.1016/j.pbi.2016.04.006 | Ellsworth, P. Z. and A. B. Cousins | Carbon isotopes and water use efficiency in C4 plants | Current Opinion in Plant Biology | 31 155–61 |
| 2016 | 10.1016/j.soilbio.2016.02.002 | Duncan, D. S., K. A. Jewell, G. Suen and R. D. Jackson | Detection of short-term cropping system-induced changes to soil bacterial communities differs among four molecular characterization methods | Soil Biology and Biochemistry | 96 160-168 |
| 2016 | 10.1007/978-3-319-25979-6_8 | Du, Z. Y. and C. Benning | Triacylglycerol accumulation in photosynthetic cells in plants and algae | Subcellular Biochemistry | 86 179-205 |
| 2016 | 10.1371/journal.pone.0161837 | Douglas, S. M., L. M. Chubiz, W. R. Harcombe, F. M. Ytreberg and C. J. Marx | Parallel Mutations Result in a Wide Range of Cooperation and Community Consequences in a Two-Species Bacterial Consortium | PLoS One | 11(9) e0161837 |
| 2016 | 10.3589/fmicb.2016.00880 | Diner, R. E., S. M. Schwenck, J. P. McCrow, H. Zheng and A. E. Allen | Genetic Manipulation of Competition for Nitrate between Heterotrophic Bacteria and Diatoms | Frontiers in Microbiology | 7 |
| 2016 | 10.3389/fbioe.2016.00065 | Diner, R. E., V. A. Bielinski, C. L. Dupont, A. E. Allen and P. D. Weyman | Refinement of the Diatom Episome Maintenance Sequence and Improvement of Conjugation-Based DNA Delivery Methods | Frontiers in Bioengineering and Biotechnology | 4 65 |
| 2016 | 10.1186/s12934-016-0417-7 | Dickinson, Q., S. Bottoms, L. Hinchman, S. McIlwain, S. Li, C. L. Myers, C. Boone, J. J. Coon, A. Hebert, T. K. Sato, R. Landick and J. S. Piotrowski | Mechanism of imidazolium ionic liquids toxicity in Saccharomyces cerevisiae and rational engineering of a tolerant, xylose-fermenting strain | Microbial Cell Factories | 15(1) |
| 2016 | 10.1093/femsec/fiw107 | Deveau, A., H. Gross, B. Palin, S. Mehnaz, M. Schnepf, P. Leblond, P. C. Dorrestein and B. Aigle | Role of secondary metabolites in the interaction between Pseudomonas fluorescens and soil microorganisms under iron-limited conditions | FEMS Microbiology Ecology | 92(8) |
| 2016 | 10.3852/14-293 | Deshpande, V., Q. Wang, P. Greenfield, M. Charleston, A. Porras-Alfaro, C. R. Kuske, J. R. Cole, D. J. Midgley and N. Tran-Dinh | Fungal identification using a Bayesian classifier and the Warcup training set of internal transcribed spacer sequences | Mycologia | 108(1) 1–5 |
| 2016 | 10.1111/gcb.13098 | Deng, Y., Z. He, J. Xiong, H. Yu, M. Xu, S. E. Hobbie, P. B. Reich, C. W. Schadt, A. Kent, E. Pendall, M. Wallenstein and J. Zhou | Elevated carbon dioxide accelerates the spatial turnover of soil microbial communities | Global Change Biology | 22(2) 957–64 |
| 2016 | 10.1038/ncomms11152 | DeLoache, W. C., Z. N. Russ and J. E. Dueber | Towards repurposing the yeast peroxisome for compartmentalizing heterologous metabolic pathways | Nature Communications | 7 11152 |
| 2016 | 10.1038/ismej.2015.145 | Dekas, A. E., S. A. Connon, G. L. Chadwick, E. Trembath-Reichert and V. J. Orphan | Activity and interactions of methane seep microorganisms assessed by parallel transcription and FISH-NanoSIMS analyses | The ISME Journal | 10(3) 678–92 |
| 2016 | 10.1016/j.algal.2016.02.019 | De-Bashan, L. E., X. Mayali, B. M. Bebout, P. K. Weber, A. M. Detweiler, J. P. Hernandez, L. Prufert-Bebout and Y. Bashan | Establishment of stable synthetic mutualism without co-evolution between microalgae and bacteria demonstrated by mutual transfer of metabolites (NanoSIMS isotopic imaging) and persistent physical association (Fluorescent in situ hybridization) | Algal Research | 15 179–86 |
| 2016 | 10.1002/ecy.1513 | de Carvalho, T. S., E. D. Jesus, J. Barlow, T. A. Gardner, I. C. Soares, J. M. Tiedje and F. M. Moreira | Land use intensification in the humid tropics increased both alpha and beta diversity of soil bacteria | Ecology | 97(10) 2760–71 |
| 2016 | 10.1093/femsle/fnw004 | Dash, S., C. Y. Ng and C. D. Maranas | Metabolic modeling of clostridia: current developments and applications | FEMS Microbiology Letters | 363(4) |
| 2016 | 10.1039/c6gc00298f | Da Costa Sousa, L., M. Foston, V. Bokade, A. Azarpira, F. Lu, A. J. Ragauskas, J. Ralph, B. Dale and V. Balan | Isolation and characterization of new lignin streams derived from extractive-ammonia (EA) pretreatment | Green Chemistry | 18(15) 4205-4215 |
| 2016 | 10.1186/s13007-016-0116-8 | Czarnecki, O., A. C. Bryan, S. S. Jawdy, X. Yang, Z. M. Cheng, J. G. Chen and G. A. Tuskan | Simultaneous knockdown of six non-family genes using a single synthetic RNAi fragment in Arabidopsis thaliana | Plant Methods | 12 16 |
| 2016 | 10.1016/j.geoderma.2016.07.020 | Cui, L., C. Liang, D. S. Duncan, X. Bao, H. Xie, H. He, K. Wickings, X. Zhang and F. Chen | Impacts of vegetation type and climatic zone on neutral sugar distribution in natural forest soils | Geoderma | 282 139-146 |
| 2016 | 10.1371/journal.pone.0154043 | Cui, J., N. M. Good, B. Hu, J. Yang, Q. Wang, M. Sadilek and S. Yang | Metabolomics Revealed an Association of Metabolite Changes and Defective Growth in Methylobacterium extorquens AM1 Overexpressing ecm during Growth on Methanol | PLoS One | 11(4) e0154043 |
| 2016 | 10.1007/7397_2016_33 | Cronk, Q. C. and A. T. Groover | Introduction: Comparative Genomics of Angiosperm Trees: A New Era of Tree Biology | Plant Genetics and Genomics: Crops and Models | 1–11 |
| 2016 | 10.1038/ncomms10373 | Couradeau, E., U. Karaoz, H. C. Lim, U. Nunes da Rocha, T. Northen, E. Brodie and F. Garcia-Pichel | Bacteria increase arid-land soil surface temperature through the production of sunscreens | Nature Communications | 7 10373 |
| 2016 | 10.1016/B978-0-444-63475-7.00008-X | Cotten, C. and J. L. Reed | Applications of Constraint-Based Models for Biochemical Production | Biotechnology for Biofuel Production and Optimization | 201-226 |
| 2016 | 10.1109/ICIP.2016.7532499 | Cossairt, O., K. He, R. Shang, N. Matsuda, M. Sharma, X. Huang, A. Katsaggelos, L. Spinoulas and S. Yoo | Compressive reconstruction for 3D incoherent holographic microscopy | 2016 IEEE International Conference on Image Processing (ICIP) | 958-962 |
| 2016 | 10.3389/fpls.2016.00716 | Collier, R., J. Bragg, B. T. Hernandez, J. P. Vogel and R. Thilmony | Use of Agrobacterium rhizogenes Strain 18r12v and Paromomycin Selection for Transformation of Brachypodium distachyon and Brachypodium sylvaticum | Frontiers in Plant Science | 7 716 |
| 2016 | 10.1038/nature19825 | Colletier, J. P., M. R. Sawaya, M. Gingery, J. A. Rodriguez, D. Cascio, et al. | De novo phasing with X-ray laser reveals mosquito larvicide BinAB structure | Nature | 539(7627) 43-47 |
| 2016 | 10.1186/s13029-016-0057-7 | Clark, L. V. and E. J. Sacks | TagDigger: user-friendly extraction of read counts from GBS and RAD-seq data | Source Code for Biology and Medicine | 11 11 |
| 2016 | 10.1093/aob/mcw137 | Clark, L. V., E. Dzyubenko, N. Dzyubenko, L. Bagmet, A. Sabitov, et al. | Ecological characteristics and in situ genetic associations for yield-component traits of wild Miscanthus from eastern Russia | Annals of Botany | 118(5) 941–55 |
| 2016 | 10.1021/acs.jpcb.6b02057 | Clark, A. K., J. H. Wilder, A. W. Grayson, Q. R. Johnson, R. J. Lindsay, R. B. Nellas, E. J. Fernandez and T. Shen | The Promiscuity of Allosteric Regulation of Nuclear Receptors by Retinoid X Receptor | Journal of Physical Chemistry B | 120(33) 8338–45 |
| 2016 | 10.1039/c6re00172f | Chundawat, S. P. S., C. D. Paavola, B. Raman, M. Nouailler, S. L. Chan, J. R. Mielenz, V. Receveur-Brechot, J. D. Trent and B. E. Dale | Saccharification of thermochemically pretreated cellulosic biomass using native and engineered cellulosomal enzyme systems | Reaction Chemistry and Engineering | 1(6) 616-628 |
| 2016 | 10.3389/fpls.2016.01143 | Chiang, C. P., W. C. Yim, Y. H. Sun, M. Ohnishi, T. Mimura, J. C. Cushman and H. E. Yen | Identification of Ice Plant (Mesembryanthemum crystallinum L.) MicroRNAs Using RNA-Seq and Their Putative Roles in High Salinity Responses in Seedlings | Frontiers in Plant Science | 7 1143 |
| 2016 | 10.1021/acs.estlett.6b00460 | Chen, H., R. C. Johnston, B. F. Mann, R. K. Chu, N. Tolic, J. M. Parks and B. Gu | Identification of Mercury and Dissolved Organic Matter Complexes Using Ultrahigh Resolution Mass Spectrometry | Environmental Science & Technology Letters | 4(2) 59–65 |
| 2016 | 10.1093/femsle/fnw020 | Chen, C. T. and J. C. Liao | Frontiers in microbial 1-butanol and isobutanol production | FEMS Microbiology Letters | 363(5) fnw020 |
| 2016 | 10.1038/srep21471 | Chen, C. L., A. Mahjoubfar, L. C. Tai, I. K. Blaby, A. Huang, K. R. Niazi and B. Jalali | Deep Learning in Label-free Cell Classification | Scientific Reports | 6 |
| 2016 | 10.3389/fmicb.2016.01874 | Chase, A. B., P. Arevalo, M. F. Polz, R. Berlemont and J. B. Martiny | Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium | Frontiers in Microbiology | 7 1874 |
| 2016 | 10.1039/c6mb00237d | Chaiboonchoe, A., L. Ghamsari, B. Dohai, P. Ng, B. Khraiwesh, et al. | Systems level analysis of the Chlamydomonas reinhardtii metabolic network reveals variability in evolutionary co-conservation | Molecular BioSystems | 12(8) 2394–407 |
| 2016 | 10.3732/apps.1600031 | Carlson, C. H. and L. B. Smart | Electrical capacitance as a predictor of root dry weight in shrub willow (Salix; Salicaceae) parents and progeny | Applications in Plant Sciences | 4(8) |
| 2016 | 10.1016/j.biortech.2015.10.104 | Calvey, C. H., Y. K. Su, L. B. Willis, M. McGee and T. W. Jeffries | Nitrogen limitation, oxygen limitation, and lipid accumulation in Lipomyces starkeyi | Bioresource Technology | 200 780-788 |
| 2016 | 10.1038/ncomms11989 | Cai, Y., K. Zhang, H. Kim, G. Hou, X. Zhang, H. Yang, H. Feng, L. Miller, J. Ralph and C. J. Liu | Enhancing digestibility and ethanol yield of Populus wood via expression of an engineered monolignol 4-O-methyltransferase | Nature Communications | 7 |
| 2016 | 10.1016/j.algal.2016.10.008 | Caballero, M. A., D. Jallet, L. B. Shi, C. Rithner, Y. Zhang and G. Peers | Quantification of chrysolaminarin from the model diatom Phaeodactylum tricornutum | Algal Research | 20 180–8 |
| 2016 | 10.1038/ncomms10613 | Burstein, D., C. L. Sun, C. T. Brown, I. Sharon, K. Anantharaman, A. J. Probst, B. C. Thomas and J. F. Banfield | Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems | Nature Communications | 7 10613 |
| 2016 | 10.1186/s40793-016-0153-y | Brumm, P. J., M. L. Land and D. A. Mead | Complete genome sequences of Geobacillus sp. WCH70, a thermophilic strain isolated from wood compost | Standards in Genomic Sciences | 11(1) |
| 2016 | 10.3389/fmicb.2016.01979 | Brumm, P. J., K. Gowda, F. T. Robb and D. A. Mead | The complete genome sequence of hyperthermophile Dictyoglomus turgidum DSM 6724™ reveals a specialized carbohydrate fermentor | Frontiers in Microbiology | 7(DEC) |
| 2016 | 10.1021/acssynbio.6b00115 | Brown, M. E., A. Mukhopadhyay and J. D. Keasling | Engineering Bacteria to Catabolize the Carbonaceous Component of Sarin: Teaching E. coli to Eat Isopropanol | ACS Synthetic Biology | 5(12) 1485–96 |
| 2016 | 10.1038/nbt.3704 | Brown, C. T., M. R. Olm, B. C. Thomas and J. F. Banfield | Measurement of bacterial replication rates in microbial communities | Nature Biotechnology | 34(12) 1256–63 |
| 2016 | 10.1021/acs.analchem.6b02479 | Broeckling, C. D., A. Ganna, M. Layer, K. Brown, B. Sutton, E. Ingelsson, G. Peers and J. E. Prenni | Enabling Efficient and Confident Annotation of LC-MS Metabolomics Data through MS1 Spectrum and Time Prediction | Analytical Chemistry | 88(18) 9226–34 |
| 2016 | 10.1073/pnas.1613446113 | Broddrick, J. T., B. E. Rubin, D. G. Welkie, N. Du, N. Mih, S. Diamond, J. J. Lee, S. S. Golden and B. O. Palsson | Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis | Proceedings of the National Academy of Sciences of the United States of America | 113(51) E8344–53 |
| 2016 | 10.1101/pdb.prot090183 | Braff, J. L., S. J. Yaung, K. M. Esvelt and G. M. Church | Characterizing Cas9 protospacer-adjacent motifs with high-throughput sequencing of library depletion experiments | Cold Spring Harbor Protocols | 2016(5) 474-477 |
| 2016 | 10.1101/pdb.top086793 | Braff, J. L., S. J. Yaung, K. M. Esvelt and G. M. Church | Characterization of Cas9–guide RNA orthologs | Cold Spring Harbor Protocols | 2016(5) 422-425 |
| 2016 | 10.1016/j.soilbio.2016.02.008 | Bracho, R., S. Natali, E. Pegoraro, K. G. Crummer, C. Schadel, G. Celis, L. Hale, L. Y. Wu, H. Q. Yin, J. M. Tiedje, K. T. Konstantinidis, Y. Q. Luo, J. Z. Zhou and E. A. G. Schuur | Temperature sensitivity of organic matter decomposition of permafrost-region soils during laboratory incubations | Soil Biology and Biochemistry | 97 1–14 |
| 2016 | 10.1080/08940886.2016.1124681 | Boutet, S., A. Cohen and S. Wakatsuki | The New Macromolecular Femtosecond Crystallography (MFX) Instrument at LCLS | Synchrotron Radiat News | 29(1) 23-28 |
| 2016 | 10.1016/j.pbi.2016.04.001 | Borland, A. M., H. B. Guo, X. Yang and J. C. Cushman | Orchestration of carbohydrate processing for crassulacean acid metabolism | Current Opinion in Plant Biology | 31 118–24 |
| 2016 | 10.1016/j.funeco.2016.04.007 | Bonito, G., K. Hameed, R. Ventura, J. Krishnan, C. W. Schadt and R. Vilgalys | Isolating a functionally relevant guild of fungi from the root microbiome of Populus | Fungal Ecology | 22 35–42 |
| 2016 | 10.1128/mBio.00714-16 | Blaser, M. J., Z. G. Cardon, M. K. Cho, J. L. Dangl, T. J. Donohue, J. L. Green, R. Knight, M. E. Maxon, T. R. Northen, K. S. Pollard and E. L. Brodie | Toward a predictive understanding of earth’s microbiomes to address 21st century challenges | mBio | 7(3) |
| 2016 | 10.1039/c6mt00063k | Blaby-Haas, C. E., M. Castruita, S. T. Fitz-Gibbon, J. Kropat and S. S. Merchant | Ni induces the CRR1-dependent regulon revealing overlap and distinction between hypoxia and Cu deficiency responses in Chlamydomonas reinhardtii | Metallomics | 8(7) 679–91 |
| 2016 | 10.3389/fmicb.2016.01221 | Bird, J. T., B. J. Baker, A. J. Probst, M. Podar and K. G. Lloyd | Culture Independent Genomic Comparisons Reveal Environmental Adaptations for Altiarchaeales | Frontiers in Microbiology | 7 1221 |
| 2016 | 10.1080/15592324.2015.1117721 | Bihmidine, S., B. T. Julius, I. Dweikat and D. M. Braun | Tonoplast Sugar Transporters (SbTSTs) putatively control sucrose accumulation in sweet sorghum stems | Plant Signaling & Behavior | 11(1) e1117721 |
| 2016 | 10.3389/fmicb.2016.00491 | Bible, A. N., S. J. Fletcher, D. A. Pelletier, C. W. Schadt, S. S. Jawdy, D. J. Weston, N. L. Engle, T. Tschaplinski, R. Masyuko, S. Polisetti, P. W. Bohn, T. A. Coutinho, M. J. Doktycz and J. L. Morrell-Falvey | A Carotenoid-Deficient Mutant in Pantoea sp. YR343, a Bacteria Isolated from the Rhizosphere of Populus deltoides, Is Defective in Root Colonization | Frontiers in Microbiology | 7 491 |
| 2016 | 10.1186/s13068-016-0442-0 | Bhalla, A., N. Bansal, R. J. Stoklosa, M. Fountain, J. Ralph, D. B. Hodge and E. L. Hegg | Effective alkaline metal-catalyzed oxidative delignification of hybrid poplar | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1186/s13068-016-0660-5 | Bhagia, S., H. Li, X. Gao, R. Kumar and C. E. Wyman | Flowthrough pretreatment with very dilute acid provides insights into high lignin contribution to biomass recalcitrance | Biotechnology for Biofuels | 9 245 |
| 2016 | 10.1186/s13068-016-0683-y | Bewg, W. P., C. Poovaiah, W. Lan, J. Ralph and H. D. Coleman | RNAi downregulation of three key lignin genes in sugarcane improves glucose release without reduction in sugar production | Biotechnology for Biofuels | 9(1) |
| 2016 | 10.1007/s11101-015-9426-0 | Berim, A. and D. R. Gang | Methoxylated flavones: occurrence, importance, biosynthesis | Phytochemistry Reviews | 15(3) 363–90 |
| 2016 | 10.1186/s12864-016-3244-7 | Bellora, N., M. Moliné, M. David-Palma, M. A. Coelho, C. T. Hittinger, J. P. Sampaio, P. Gonçalves and D. Libkind | Comparative genomics provides new insights into the diversity, physiology, and sexuality of the only industrially exploited tremellomycete: Phaffia rhodozyma | BMC Genomics | 17(1) |
| 2016 | 10.1016/j.copbio.2016.03.016 | Bassalo, M. C., R. Liu and R. T. Gill | Directed evolution and synthetic biology applications to microbial systems | Current Opinion in Biotechnology | 39 126–33 |
| 2016 | 10.1080/21592799.2016.1204848 | Barrero, J. J., E. Papanikou, J. C. Casler, K. J. Day and B. S. Glick | An improved reversibly dimerizing mutant of the FK506-binding protein FKBP | Cellular Logistics | 6(3) e1204848 |
| 2016 | 10.1042/BSR20160277 | Bansal, S. and T. P. Durrett | Defining the extreme substrate specificity of Euonymus alatus diacylglycerol acetyltransferase, an unusual membrane-bound O-Acyltransferase | Bioscience Reports | 36(6) |
| 2016 | 10.1016/j.biochi.2015.06.009 | Bansal, S. and T. P. Durrett | Camelina sativa: An ideal platform for the metabolic engineering and field production of industrial lipids | Biochimie | 120 9–16 |
| 2016 | 10.1039/c5gc01748c | Bansal, N., A. Bhalla, S. Pattathil, S. L. Adelman, M. G. Hahn, D. B. Hodge and E. L. Hegg | Cell wall-associated transition metals improve alkaline-oxidative pretreatment in diverse hardwoods | Green Chemistry | 18(5) 1405-1415 |
| 2016 | 10.1017/s143192761600012x | Banerjee, S., L. R. Garcia and W. K. Versaw | Quantitative Imaging of FRET-Based Biosensors for Cell- and Organelle-Specific Analyses in Plants | Microsc Microanal | 22(2) 300-10 |
| 2016 | 10.1126/science.aaf8818 | Bale, J. B., S. Gonen, Y. Liu, W. Sheffler, D. Ellis, C. Thomas, D. Cascio, T. O. Yeates, T. Gonen, N. P. King and D. Baker | Accurate design of megadalton-scale two-component icosahedral protein complexes | Science | 353(6297) 389-394 |
| 2016 | 10.1089/3dp.2016.0027 | Bader, C., W. G. Patrick, D. Kolb, S. G. Hays, S. Keating, S. Sharma, D. Dikovsky, B. Belocon, J. C. Weaver, P. A. Silver and N. Oxman | Grown, Printed, and Biologically Augmented: An Additively Manufactured Microfluidic Wearable, Functionally Templated for Synthetic Microbes | 3D Printing and Additive Manufacturing | 3(2) 79–89 |
| 2016 | 10.1007/s10681-016-1672-8 | Arro, J., J. W. Park, C. M. Wai, R. VanBuren, Y. B. Pan, C. Nagai, J. da Silva and R. Ming | Balancing selection contributed to domestication of autopolyploid sugarcane (Saccharum officinarum L.) | Euphytica | 209(2) 477–93 |
| 2016 | 10.1021/acs.jpcb.6b02839 | Arbelo-Lopez, H. D., N. A. Simakov, J. C. Smith, J. Lopez-Garriga and T. Wymore | Homolytic Cleavage of Both Heme-Bound Hydrogen Peroxide and Hydrogen Sulfide Leads to the Formation of Sulfheme | Journal of Physical Chemistry B | 120(30) 7319–31 |
| 2016 | 10.1007/s10858-016-0019-z | Amer, B. R., R. MacDonald, A. W. Jacobitz, B. Liauw and R. T. Clubb | Rapid addition of unlabeled silent solubility tags to proteins using a new substrate-fused sortase reagent | Journal of Biomolecular NMR | 64(3) 197-205 |
| 2016 | 10.1073/pnas.1517242113 | Alexander, W. G., J. H. Wisecaver, A. Rokas and C. T. Hittinger | Horizontally acquired genes in early-diverging pathogenic fungi enable the use of host nucleosides and nucleotides | Proceedings of the National Academy of Sciences of the United States of America | 113(15) 4116-4121 |
| 2016 | 10.1016/j.fgb.2015.11.002 | Alexander, W. G., D. Peris, B. T. Pfannenstiel, D. A. Opulente, M. Kuang and C. T. Hittinger | Efficient engineering of marker-free synthetic allotetraploids of Saccharomyces | Fungal Genetics and Biology | 89 45947 |
| 2016 | 10.3389/fenrg.2016.00036 | Al Abdallah, Q., B. T. Nixon and J. R. Fortwendel | The Enzymatic Conversion of Major Algal and Cyanobacterial Carbohydrates to Bioethanol | Frontiers in Energy Research | 4 36 |
| 2016 | 10.1051/matecconf/20168002007 | Akpama, H. K., M. B. Bettaieb and F. Abed-Meraim | Ductility prediction of substrate-supported metal layers based on rate-independent crystal plasticity theory | MATEC Web of Conferences | 80 |
| 2016 | 10.1107/S2052252516010514 | Aggarwal, M., A. Y. Kovalevsky, H. Velazquez, S. Z. Fisher, J. C. Smith and R. McKenna | Neutron structure of human carbonic anhydrase II in complex with methazolamide: mapping the solvent and hydrogen-bonding patterns of an effective clinical drug | IUCrJ | 3(Part 5) 319–25 |
| 2016 | 10.1038/nplants.2016.178 | Abraham, P. E., H. Yin, A. M. Borland, D. Weighill, S. D. Lim, et al. | Transcript, protein and metabolite temporal dynamics in the CAM plant Agave | Nature Plants | 2 16178 |
| 2016 | 10.1007/s10021-016-9981-2 | Abraha, M., I. Gelfand, S. K. Hamilton, C. Shao, Y. J. Su, G. P. Robertson and J. Chen | Ecosystem Water-Use Efficiency of Annual Corn and Perennial Grasslands: Contributions from Land-Use History and Species Composition | Ecosystems | 19(6) 1001-1012 |
| 2016 | 10.1038/ncomms11706 | Abdel-Ghany, S. E., M. Hamilton, J. L. Jacobi, P. Ngam, N. Devitt, F. Schilkey, A. Ben-Hur and A. S. Reddy | A survey of the sorghum transcriptome using single-molecule long reads | Nature Communications | 7 11706 |
| 2017 | 10.1128/AEM.00969-17 | Zurawski, J. V., P. A. Khatibi, H. O. Akinosho, C. T. Straub, S. H. Compton, J. M. Conway, L. L. Lee, A. J. Ragauskas, B. H. Davison, M. W. W. Adams and R. M. Kelly | Bioavailability of Carbohydrate Content in Natural and Transgenic Switchgrasses for the Extreme Thermophile Caldicellulosiruptor bescii | Applied and Environmental Microbiology | 83(17) |
| 2017 | 10.1111/1751-7915.12855 | Zuniga, C., L. Zaramela and K. Zengler | Elucidation of complexity and prediction of interactions in microbial communities | Microbial Biotechnology | 10(6) 1500–22 |
| 2017 | 10.1038/s41467-017-01407-5 | Zomorrodi, A. R. and D. Segrè | Genome-driven evolutionary game theory helps understand the rise of metabolic interdependencies in microbial communities | Nature Communications | 8(1) |
| 2017 | 10.1016/j.plantsci.2017.07.008 | Zogli, P. and M. Libault | Plant response to biotic stress: Is there a common epigenetic response during plant-pathogenic and symbiotic interactions? | Plant Science | 263 89–93 |
| 2017 | 10.1186/s13068-016-0686-8 | Zienkiewicz, K., A. Zienkiewicz, E. Poliner, Z. Y. Du, K. Vollheyde, C. Herrfurth, S. Marmon, E. M. Farré, I. Feussner and C. Benning | Nannochloropsis, a rich source of diacylglycerol acyltransferases for engineering of triacylglycerol content in different hosts | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.3389/fpls.2017.01562 | Zhu, C., J. Yang and C. Shyu | Setaria Comes of Age: Meeting Report on the Second International Setaria Genetics Conference | Frontiers in Plant Science | 8 1562 |
| 2017 | 10.1002/cssc.201701317 | Zhou, S., T. Runge, S. D. Karlen, J. Ralph, E. Gonzales-Vigil and S. D. Mansfield | Chemical Pulping Advantages of Zip-lignin Hybrid Poplar | ChemSusChem | 10(18) 3565-3573 |
| 2017 | 10.1021/acs.est.7b02204 | Zhou, J., M. D. Smith, C. J. Cooper, X. Cheng, J. C. Smith and J. M. Parks | Modeling of the Passive Permeation of Mercury and Methylmercury Complexes Through a Bacterial Cytoplasmic Membrane | Environmental Science & Technology | 51(18) 10595–604 |
| 2017 | 10.1007/s10295-016-1896-6 | Zhou, J., X. Shao, D. G. Olson, S. J. Murphy, L. Tian and L. R. Lynd | Determining the roles of the three alcohol dehydrogenases (AdhA, AdhB and AdhE) in Thermoanaerobacter ethanolicus during ethanol formation | Journal of Industrial Microbiology and Biotechnology | 44(45752) 745–57 |
| 2017 | 10.1128/MMBR.00002-17 | Zhou, J. and D. Ning | Stochastic Community Assembly: Does It Matter in Microbial Ecology? | Microbiology and Molecular Biology Reviews | 81(4) |
| 2017 | 10.1128/mBio.01780-17 | Zhou, A., R. Lau, R. Baran, J. Ma, F. von Netzer, et al. | Key Metabolites and Mechanistic Changes for Salt Tolerance in an Experimentally Evolved Sulfate-Reducing Bacterium, Desulfovibrio vulgaris | mBio | 8(6) |
| 2017 | 10.1128/JB.00542-16 | Zheng, T., D. G. Olson, S. J. Murphy, X. Shao, L. Tian and L. R. Lynd | Both adhE and a Separate NADPH-Dependent Alcohol Dehydrogenase Gene, adhA, Are Necessary for High Ethanol Production in Thermoanaerobacterium saccharolyticum | Journal of Bacteriology | 199(3) |
| 2017 | 10.1186/s13068-017-0940-8 | Zheng, T., J. Cui, H. R. Bae, L. R. Lynd and D. G. Olson | Expression of adhA from different organisms in Clostridium thermocellum | Biotechnology for Biofuels | 10 251 |
| 2017 | 10.1530/REP-16-0343 | Zheng, R., Y. Li, H. Sun, X. Lu, B. F. Sun, R. Wang, L. Cui, C. Zhu, H. Y. Lin and H. Wang | Deep RNA sequencing analysis of syncytialization-related genes during BeWo cell fusion | Reproduction | 153(1) 35-48 |
| 2017 | 10.1039/c7gc00944e | Zhao, W. W., L. P. Xiao, G. Y. Song, R. C. Sun, L. L. He, S. Singh, B. A. Simmons and G. Cheng | From lignin subunits to aggregates: insights into lignin solubilization | Green Chemistry | 19(14) 3272–81 |
| 2017 | 10.1111/nph.14704 | Zhao, C., T. Lasses, L. Bako, D. Kong, B. Zhao, B. Chanda, A. Bombarely, A. Cruz-Ramirez, B. Scheres, A. M. Brunner and E. P. Beers | XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED | New Phytologist | 216(1) 76–89 |
| 2017 | 10.1016/j.jclepro.2016.09.147 | Zhang, Z., Y. Zhu, T. Yang, L. Li, H. Zhu and H. Wang | Conversion of local industrial wastes into greener cement through geopolymer technology: A case study of high-magnesium nickel slag | Journal of Cleaner Production | 141 463-471 |
| 2017 | 10.1021/jacs.7b08012 | Zhang, Z., L. Chen, L. Liu, X. Su and J. D. Rabinowitz | Chemical Basis for Deuterium Labeling of Fat and NADPH | Journal of the American Chemical Society | 139(41) 14368–71 |
| 2017 | 10.1007/s00122-017-2876-6 | Zhang, X., O. Valdes-Lopez, C. Arellano, G. Stacey and P. Balint-Kurti | Genetic dissection of the maize (Zea mays L.) MAMP response | Theoretical and Applied Genetics | 130(6) 1155–68 |
| 2017 | 10.1038/ismej.2016.180 | Zhang, X., E. R. Johnston, L. Li, K. T. Konstantinidis and X. Han | Experimental warming reveals positive feedbacks to climate change in the Eurasian Steppe | The ISME Journal | 11(4) 885–95 |
| 2017 | 10.1038/srep40712 | Zhang, Q., S. R. Jun, M. Leuze, D. Ussery and I. Nookaew | Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer | Scientific Reports | 7 40712 |
| 2017 | 10.1021/acs.est.6b02980 | Zhang, P., Z. He, J. D. Van Nostrand, Y. Qin, Y. Deng, L. Wu, Q. Tu, J. Wang, C. W. Schadt, W. F. M, T. C. Hazen, A. P. Arkin, D. A. Stahl and J. Zhou | Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer | Environmental Science & Technology | 51(7) 3609–20 |
| 2017 | 10.1016/j.fgb.2017.06.003 | Zhang, J. and J. S. Schilling | Role of carbon source in the shift from oxidative to hydrolytic wood decomposition by Postia placenta | Fungal Genetics and Biology | 106 1–8 |
| 2017 | 10.1021/acssynbio.6b00372 | Zhang, J., J. F. Barajas, M. Burdu, G. Wang, E. E. Baidoo and J. D. Keasling | Application of an Acyl-CoA Ligase from Streptomyces aizunensis for Lactam Biosynthesis | ACS Synthetic Biology | 6(5) 884–90 |
| 2017 | 10.1021/acssynbio.6b00136 | Zhang, J., J. F. Barajas, M. Burdu, T. L. Ruegg, B. Dias and J. D. Keasling | Development of a Transcription Factor-Based Lactam Biosensor | ACS Synthetic Biology | 6(3) 439–45 |
| 2017 | 10.1016/j.soilbio.2017.04.019 | Zhang, B., C. R. Penton, C. Xue, J. F. Quensen, S. S. Roley, J. Guo, A. Garoutte, T. Zheng and J. M. Tiedje | Soil depth and crop determinants of bacterial communities under ten biofuel cropping systems | Soil Biology and Biochemistry | 112 140-152 |
| 2017 | 10.1002/pro.3124 | Zerbs, S., P. J. Korajczyk, P. H. Noirot and F. R. Collart | Transport capabilities of environmental Pseudomonads for sulfur compounds | Protein Science | 26(4) 784-795 |
| 2017 | 10.1038/nchembio.2320 | Zentella, R., N. Sui, B. Barnhill, W. P. Hsieh, J. Hu, J. Shabanowitz, M. Boyce, N. E. Olszewski, P. Zhou, D. F. Hunt and T. P. Sun | The Arabidopsis O-fucosyltransferase SPINDLY activates nuclear growth repressor DELLA | Nat Chem Biol | 13(5) 479-485 |
| 2017 | 10.1186/s13068-017-0953-3 | Zeng, Y., M. E. Himmel and S. Y. Ding | Visualizing chemical functionality in plant cell walls | Biotechnology for Biofuels | 10 263 |
| 2017 | 10.1007/978-1-4939-6533-5_11 | Zeng, W., B. Ebert, H. T. Parsons, C. Rautengarten, A. Bacic and J. L. Heazlewood | Enrichment of Golgi Membranes from Triticum aestivum (Wheat) Seedlings | Isolation of Plant Organelles and Structures: Methods and Protocols | 1511 131–50 |
| 2017 | 10.1128/JB.00286-17 | Zeng, L., E. Wooton, D. A. Stahl and P. J. Walian | Identification and Characterization of the Major Porin of Desulfovibrio vulgaris Hildenborough | Journal of Bacteriology | 199(23) |
| 2017 | 10.1039/c6gc03379b | Zeng, J., M. J. L. Mills, B. A. Simmons, M. S. Kent and K. L. Sale | Understanding factors controlling depolymerization and polymerization in catalytic degradation of β-ether linked model lignin compounds by versatile peroxidase | Green Chemistry | 19(9) 2145–54 |
| 2017 | 10.1021/acssynbio.6b00376 | Zeitoun, R. I., G. Pines, W. C. Grau and R. T. Gill | Quantitative Tracking of Combinatorially Engineered Populations with Multiplexed Binary Assemblies | ACS Synthetic Biology | 6(4) 619–27 |
| 2017 | 10.1038/ja.2016.136 | Yuzawa, S., J. D. Keasling and L. Katz | Bio-based production of fuels and industrial chemicals by repurposing antibiotic-producing type I modular polyketide synthases: opportunities and challenges | The Journal of Antibiotics | 70(4) 378–85 |
| 2017 | 10.1021/acschembio.7b00714 | Yuzawa, S., C. B. Bailey, T. Fujii, R. Jocic, J. F. Barajas, V. T. Benites, E. E. K. Baidoo, Y. Chen, C. J. Petzold, L. Katz and J. D. Keasling | Heterologous Gene Expression of N-Terminally Truncated Variants of LipPks1 Suggests a Functionally Critical Structural Motif in the N-terminus of Modular Polyketide Synthase | ACS Chemical Biology | 12(11) 2725–9 |
| 2017 | 10.1074/jbc.M117.804914 | Yurkovich, J. T., D. C. Zielinski, L. Yang, G. Paglia, O. Rolfsson, O. E. Sigurjonsson, J. T. Broddrick, A. Bordbar, K. Wichuk, S. Brynjolfsson, S. Palsson, S. Gudmundsson and B. O. Palsson | Quantitative time-course metabolomics in human red blood cells reveal the temperature dependence of human metabolic networks | Journal of Biological Chemistry | 292(48) 19556–64 |
| 2017 | 10.1016/j.cels.2017.08.003 | Yurkovich, J. T., B. J. Yurkovich, A. Drager, B. O. Palsson and Z. A. King | A Padawan Programmer's Guide to Developing Software Libraries | Cell Systems | 5(5) 431–7 |
| 2017 | 10.1109/CCTA.2017.8062584 | Yurkovich, J. T., L. Yang and B. O. Palsson | Utilizing biomarkers to forecast quantitative metabolite concentration profiles in human red blood cells | 2017 IEEE Conference on Control Technology and Applications | 961–6 |
| 2017 | 10.1371/journal.pcbi.1005424 | Yurkovich, J. T., L. Yang and B. O. Palsson | Biomarkers are used to predict quantitative metabolite concentration profiles in human red blood cells | PLoS Computational Biology | 13(3) e1005424 |
| 2017 | 10.1002/cssc.201700101 | Yue, F., F. Lu, M. Regner, R. Sun and J. Ralph | Lignin-derived thioacidolysis dimers: Reevaluation, new products, authentication, and quantification | ChemSusChem | 10(5) 830-835 |
| 2017 | 10.1021/acssuschemeng.7b00480 | Yuan, X. M., S. Singh, B. A. Simmons and G. Cheng | Biomass Pretreatment Using Dilute Aqueous Ionic Liquid (IL) Solutions with Dynamically Varying IL Concentration and Its Impact on IL Recycling | ACS Sustainable Chemistry & Engineering | 5(5) 4408–13 |
| 2017 | 10.1021/acs.energyfuels.7b01567 | Yuan, X. M., L. L. He, S. Singh, B. A. Simmons and G. Cheng | Effect of Ionic Liquid Pretreatment on the Porosity of Pine: Insights from Small-Angle Neutron Scattering, Nitrogen Adsorption Analysis, and X-ray Diffraction | Energy & Fuels | 31(10) 10874–9 |
| 2017 | 10.1016/j.biortech.2017.02.014 | Yuan, X., Y. Duan, L. He, S. Singh, B. Simmons and G. Cheng | Characterization of white poplar and eucalyptus after ionic liquid pretreatment as a function of biomass loading using X-ray diffraction and small angle neutron scattering | Bioresource Technology | 232 113–8 |
| 2017 | 10.1016/j.procbio.2016.11.002 | Yu, C. W., D. R. Harrold, J. T. Claypool, B. A. Simmons, S. W. Singer, C. W. Simmons and J. S. VanderGheynst | Nitrogen amendment of green waste impacts microbial community, enzyme secretion and potential for lignocellulose decomposition | Process Biochemistry | 52 214–22 |
| 2017 | 10.1007/s10295-016-1846-3 | Youngquist, J. T., T. C. Korosh and B. F. Pfleger | Functional genomics analysis of free fatty acid production under continuous phosphate limiting conditions | Journal of Industrial Microbiology and Biotechnology | 44(45752) 759-772 |
| 2017 | 10.1039/9781782623946-00353 | York, W. S., M. Allahyari and J. D. Hogan | NMR Databases for Plant Cell Wall Biopolymers | NMR in Glycoscience and Glycotechnology | 353–68 |
| 2017 | 10.1371/journal.pone.0180527 | Yordanov, Y. S., C. Ma, E. Yordanova, R. Meilan, S. H. Strauss and V. B. Busov | BIG LEAF is a regulator of organ size and adventitious root formation in poplar | PLoS One | 12(7) e0180527 |
| 2017 | 10.1007/s12155-016-9795-2 | Yoon, S., S. Aucar, B. J. Hernlem, S. Edme, N. Palmer, G. Sarath, R. Mitchell, E. Blumwald and C. M. Tobias | Generation of Octaploid Switchgrass by Seedling Treatment with Mitotic Inhibitors | Bioenergy Research | 10(2) 344–52 |
| 2017 | 10.1038/sdata.2017.55 | Yoon, C. H., H. DeMirci, R. G. Sierra, E. H. Dao, R. Ahmadi, et al. | Se-SAD serial femtosecond crystallography datasets from selenobiotinyl-streptavidin | Sci Data | 4 170055 |
| 2017 | 10.1039/c7gc02219k | Yoo, C. G., Y. I. Yang, Y. Q. Pu, X. Z. Meng, W. Muchero, et al. | Insights of biomass recalcitrance in natural Populus trichocarpa variants for biomass conversion | Green Chemistry | 19(22) 5467–78 |
| 2017 | 10.1016/j.cogsc.2017.03.003 | Yoo, C. G., Y. Q. Pu and A. J. Ragauskas | Ionic liquids: Promising green solvents for lignocellulosic biomass utilization | Current Opinion in Green and Sustainable Chemistry | 5 5–11 |
| 2017 | 10.1039/c6gc03627a | Yoo, C. G., M. Li, X. Z. Meng, Y. Q. Pu and A. J. Ragauskas | Effects of organosolv and ammonia pretreatments on lignin properties and its inhibition for enzymatic hydrolysis | Green Chemistry | 19(8) 2006–16 |
| 2017 | 10.7717/peerj.3486 | Yim, W. C. and J. C. Cushman | Divide and Conquer (DC) BLAST: fast and easy BLAST execution within HPC environments | PeerJ | 5 e3486 |
| 2017 | 10.1126/sciadv.aao6741 | Yeung, L. Y., S. Li, I. E. Kohl, J. A. Haslun, N. E. Ostrom, H. Hu, T. P. Fischer, E. A. Schauble and E. D. Young | Extreme enrichment in atmospheric 15N15N | Science Advances | 3(11) |
| 2017 | 10.1093/jxb/erx264 | Yerramsetty, P., E. M. Agar, W. C. Yim, J. C. Cushman and J. O. Berry | An rbcL mRNA-binding protein is associated with C3 to C4 evolution and light-induced production of Rubisco in Flaveria | Journal of Experimental Botany | 68(16) 4635–49 |
| 2017 | 10.1128/AEM.03020-16 | Yeager, C. M., V. Gallegos-Graves, J. Dunbar, C. N. Hesse, H. Daligault and C. R. Kuske | Polysaccharide Degradation Capability of Actinomycetales Soil Isolates from a Semiarid Grassland of the Colorado Plateau | Applied and Environmental Microbiology | 83(6) |
| 2017 | 10.1186/s13068-017-0760-x | Yang, Y., C. G. Yoo, H. B. Guo, W. Rottmann, K. A. Winkeler, C. M. Collins, L. E. Gunter, S. S. Jawdy, X. Yang, H. Guo, Y. Pu, A. J. Ragauskas, G. A. Tuskan and J. G. Chen | Overexpression of a Domain of Unknown Function 266-containing protein results in high cellulose content, reduced recalcitrance, and enhanced plant growth in the bioenergy crop Populus | Biotechnology for Biofuels | 10 74 |
| 2017 | 10.1186/s12864-017-3980-3 | Yang, X., J. Song, Q. You, D. R. Paudel, J. Zhang and J. Wang | Mining sequence variations in representative polyploid sugarcane germplasm accessions | BMC Genomics | 18(1) 594 |
| 2017 | 10.1038/s41467-017-01491-7 | Yang, X., R. Hu, H. Yin, J. Jenkins, S. Shu, et al. | The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism | Nature Communications | 8(1) |
| 2017 | 10.1364/OL.42.000523 | Yang, W., A. Li, Y. Suo, F. K. Lu and X. Sunney Xie | Simultaneous two-color stimulated Raman scattering microscopy by adding a fiber amplifier to a 2 ps OPO-based SRS microscope | Optics Letters | 42(3) 523–6 |
| 2017 | 10.3390/w9060383 | Yang, Q., X. Zhang, X. Xu and G. R. Asrar | An analysis of terrestrial and aquatic environmental controls of riverine dissolved organic carbon in the conterminous United States | Water (Switzerland) | 9(6) |
| 2017 | 10.1002/ehs2.1259 | Yang, Q., X. Zhang, M. Abraha, S. Del grosso, G. P. Robertson and J. Chen | Enhancing the soil and water assessment tool model for simulating N2O emissions of three agricultural systems | Ecosystem Health and Sustainability | 3(2) |
| 2017 | 10.1105/tpc.17.00816 | Yang, J., S. Thames, N. B. Best, H. Jiang, P. Huang, B. P. Dilkes and A. L. Eveland | Brassinosteroids Modulate Meristem Fate and Differentiation of Unique Inflorescence Morphology in Setaria viridis | The Plant Cell | 30(1) 48-66 |
| 2017 | 10.1007/s10570-017-1549-6 | Yang, H., T. Wang, D. Oehme, L. Petridis, M. Hong and J. D. Kubicki | Structural factors affecting 13C NMR chemical shifts of cellulose: a computational study | Cellulose | 25(1) 23–36 |
| 2017 | 10.1186/s13068-017-0927-5 | Yaegashi, J., J. Kirby, M. Ito, J. Sun, T. Dutta, et al. | Rhodosporidium toruloides: a new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts | Biotechnology for Biofuels | 10 241 |
| 2017 | 10.1016/j.envsoft.2016.11.010 | Xu, X., X. Zhang, H. Fang, R. Lai, Y. Zhang, L. Huang and X. Liu | A real-time probabilistic channel flood-forecasting model based on the Bayesian particle filter approach | Environmental Modelling and Software | 88 151-167 |
| 2017 | 10.1002/bit.26285 | Xu, P., K. Qiao and G. Stephanopoulos | Engineering oxidative stress defense pathways to build a robust lipid production platform in Yarrowia lipolytica | Biotechnology and Bioengineering | 114(7) 1521–30 |
| 2017 | 10.1073/pnas.1703321114 | Xu, J., N. Liu, K. Qiao, S. Vogg and G. Stephanopoulos | Application of metabolic controls for the maximization of lipid production in semicontinuous fermentation | Proceedings of the National Academy of Sciences of the United States of America | 114(27) E5308–16 |
| 2017 | 10.1371/journal.pgen.1006737 | Xiong, Y., V. W. Wu, A. Lubbe, L. Qin, S. Deng, M. Kennedy, D. Bauer, V. R. Singan, K. Barry, T. R. Northen, I. V. Grigoriev and N. L. Glass | A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism | PLoS Genetics | 13(5) e1006737 |
| 2017 | 10.1016/j.soilbio.2017.04.011 | Xia, M., A. F. Talhelm and K. S. Pregitzer | Chronic nitrogen deposition influences the chemical dynamics of leaf litter and fine roots during decomposition | Soil Biology and Biochemistry | 112 24–34 |
| 2017 | 10.1007/978-3-319-56457-9_6 | Wyman, C. E. and B. Yang | Combined Severity Factor for Predicting Sugar Recovery in Acid-Catalyzed Pretreatment Followed by Enzymatic Hydrolysis | Hydrothermal Processing in Biorefineries: Production of Bioethanol and High Added-Value Compounds of Second and Third Generation Biomass | 161–80 |
| 2017 | 10.1007/978-1-4939-2493-6_521-3 | Wyman, C. E., R. Kumar and C. M. Cai | Bioethanol from Lignocellulosic Biomass | Encyclopedia of Sustainability Science and Technology | 1–27 |
| 2017 | 10.1021/acschembio.7b00388 | Wyche, T. P., R. F. R. Alvarenga, J. S. Piotrowski, M. N. Duster, S. R. Warrack, et al. | Chemical Genomics, Structure Elucidation, and in Vivo Studies of the Marine-Derived Anticlostridial Ecteinamycin | ACS Chemical Biology | 12(9) 2287-2295 |
| 2017 | 10.1128/genomeA.00582-17 | Wu, X., A. M. Deutschbauer, A. E. Kazakov, K. M. Wetmore, B. A. Cwick, R. M. Walker, P. S. Novichkov, A. P. Arkin and R. Chakraborty | Draft Genome Sequences of Two Janthinobacterium lividum Strains, Isolated from Pristine Groundwater Collected from the Oak Ridge Field Research Center | Genome Announcements | 5(26) |
| 2017 | 10.1016/j.compchemeng.2016.10.007 | Wu, W., K. Yenkie and C. T. Maravelias | A superstructure-based framework for bio-separation network synthesis | Computers and Chemical Engineering | 96 45674 |
| 2017 | 10.1038/ismej.2017.75 | Wu, L., Y. Yang, S. Wang, H. Yue, Q. Lin, Y. Hu, Z. He, J. D. Van Nostrand, L. Hale, X. Li, J. A. Gilbert and J. Zhou | Alpine soil carbon is vulnerable to rapid microbial decomposition under climate cooling | The ISME Journal | 11(9) 2102–11 |
| 2017 | 10.1038/s41598-017-02628-w | Wu, C. W., T. Spike, D. M. Klingeman, M. Rodriguez, V. R. Bremer and S. D. Brown | Generation and Characterization of Acid Tolerant Fibrobacter succinogenes S85 | Scientific Reports | 7(1) 2277 |
| 2017 | 10.1128/genomeA.00300-17 | Woo, H. L., K. M. DeAngelis, H. Teshima, K. Davenport, H. Daligault, et al. | High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp. | Genome Announcements | 5(18) |
| 2017 | 10.1007/978-3-319-31421-1_219-1 | Wong, J., L. Rios-Solis and J. D. Keasling | Microbial Production of Isoprenoids | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Production of Fuels and Chemicals | 1–24 |
| 2017 | 10.1039/c6re00227g | Won, W., A. H. Motagamwala, J. A. Dumesic and C. T. Maravelias | A co-solvent hydrolysis strategy for the production of biofuels: Process synthesis and technoeconomic analysis | Reaction Chemistry and Engineering | 2(3) 397-405 |
| 2017 | 10.1016/j.orggeochem.2017.06.011 | Wilson, R. M., M. M. Tfaily, V. I. Rich, J. K. Keller, S. D. Bridgham, et al. | Hydrogenation of organic matter as a terminal electron sink sustains high CO2:CH4 production ratios during anaerobic decomposition | Organic Geochemistry | 112 22–32 |
| 2017 | 10.1002/2016jg003600 | Wilson, R. M., L. Fitzhugh, G. J. Whiting, S. Frolking, M. D. Harrison, N. Dimova, W. C. Burnett and J. P. Chanton | Greenhouse gas balance over thaw-freeze cycles in discontinuous zone permafrost | Journal of Geophysical Research: Biogeosciences | 122(2) 387–404 |
| 2017 | 10.1128/AEM.02751-16 | Wilson, C. M., D. M. Klingeman, C. Schlachter, M. H. Syed, C. W. Wu, A. M. Guss and S. D. Brown | LacI Transcriptional Regulatory Networks in Clostridium thermocellum DSM1313 | Applied and Environmental Microbiology | 83(5) |
| 2017 | 10.1186/s13068-017-0918-6 | Willis, J. D., J. N. Grant, M. Mazarei, L. M. Kline, C. S. Rempe, A. G. Collins, G. B. Turner, S. R. Decker, R. W. Sykes, M. F. Davis, N. Labbe, J. L. Jurat-Fuentes and C. N. Stewart, Jr. | The TcEG1 beetle (Tribolium castaneum) cellulase produced in transgenic switchgrass is active at alkaline pH and auto-hydrolyzes biomass for increased cellobiose release | Biotechnology for Biofuels | 10 230 |
| 2017 | 10.1128/AEM.00444-17 | Williams-Rhaesa, A. M., F. L. Poole, 2nd, J. T. Dinsmore, G. L. Lipscomb, G. M. Rubinstein, I. M. Scott, J. M. Conway, L. L. Lee, P. A. Khatibi, R. M. Kelly and M. W. W. Adams | Genome Stability in Engineered Strains of the Extremely Thermophilic Lignocellulose-Degrading Bacterium Caldicellulosiruptor bescii | Applied and Environmental Microbiology | 83(14) |
| 2017 | 10.1016/j.biortech.2017.08.200 | Williams, D. L., J. D. Crowe, R. G. Ong and D. B. Hodge | Water sorption in pretreated grasses as a predictor of enzymatic hydrolysis yields | Bioresource Technology | 245 242-249 |
| 2017 | 10.1186/s13068-017-0952-4 | Wilbanks, B. and C. T. Trinh | Comprehensive characterization of toxicity of fermentative metabolites on microbial growth | Biotechnology for Biofuels | 10 262 |
| 2017 | 10.1038/nature24624 | Whiteley, M., S. P. Diggle and E. P. Greenberg | Progress in and promise of bacterial quorum sensing research | Nature | 551(7680) 313–20 |
| 2017 | 10.1371/journal.pone.0176716 | Wen, C., L. Wu, Y. Qin, J. D. Van Nostrand, D. Ning, B. Sun, K. Xue, F. Liu, Y. Deng, Y. Liang and J. Zhou | Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform | PLoS One | 12(4) e0176716 |
| 2017 | 10.1107/S2053230X17004587 | Welner, D. H., A. Y. Tsai, A. M. DeGiovanni, H. V. Scheller and P. D. Adams | X-ray diffraction analysis and in vitro characterization of the UAM2 protein from Oryza sativa | Acta Crystallographica Section F Structural Biology Communications | 73(Part 4) 241–5 |
| 2017 | 10.1371/journal.pone.0177591 | Welner, D. H., D. Shin, G. P. Tomaleri, A. M. DeGiovanni, A. Y. Tsai, H. M. Tran, S. F. Hansen, D. T. Green, H. V. Scheller and P. D. Adams | Plant cell wall glycosyltransferases: High-throughput recombinant expression screening and general requirements for these challenging enzymes | PLoS One | 12(6) e0177591 |
| 2017 | 10.1007/10_2016_46 | Weighill, D. A. and D. Jacobson | Network Metamodeling: Effect of Correlation Metric Choice on Phylogenomic and Transcriptomic Network Topology | Advances in Biochemical Engineering/Biotechnology | 160 143–83 |
| 2017 | 10.1016/j.tibtech.2016.12.010 | Warth, B., N. Levin, D. Rinehart, J. Teijaro, H. P. Benton and G. Siuzdak | Metabolizing Data in the Cloud | Trends in Biotechnology | 35(6) 481–3 |
| 2017 | 10.1105/tpc.17.00397 | Wang, K., J. E. Froehlich, A. Zienkiewicz, H. L. Hersh and C. Benning | A plastid phosphatidylglycerol lipase contributes to the export of acyl groups from plastids for seed oil biosynthesis | Plant Cell | 29(7) 1678-1696 |
| 2017 | 10.1016/j.copbio.2017.02.010 | Wang, C., B. F. Pfleger and S. W. Kim | Reassessing Escherichia coli as a cell factory for biofuel production | Current Opinion in Biotechnology | 45 92-103 |
| 2017 | 10.1038/nmeth.4343 | Wanamaker, S. A., R. M. Garza, A. MacWilliams, J. R. Nery, A. Bartlett, R. Castanon, A. Goubil, J. Feeney, R. O'Malley, S. C. Huang, Z. Z. Zhang, M. Galli and J. R. Ecker | CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping | Nature Methods | 14(8) 819–25 |
| 2017 | 10.1002/bit.26287 | Wan, N., D. M. DeLorenzo, L. He, L. You, C. M. Immethun, G. Wang, E. E. K. Baidoo, W. Hollinshead, J. D. Keasling, T. S. Moon and Y. J. Tang | Cyanobacterial carbon metabolism: Fluxome plasticity and oxygen dependence | Biotechnology and Bioengineering | 114(7) 1593–602 |
| 2017 | 10.1186/s13068-017-0703-6 | Walker, J. A., S. Pattathil, L. F. Bergeman, E. T. Beebe, K. Deng, M. Mirzai, T. R. Northen, M. G. Hahn and B. G. Fox | Determination of glycoside hydrolase specificities during hydrolysis of plant cell walls using glycome profiling | Biotechnology for Biofuels | 10 31 |
| 2017 | 10.1186/s12864-017-4158-8 | Wai, C. M., J. Zhang, T. C. Jones, C. Nagai and R. Ming | Cell wall metabolism and hexose allocation contribute to biomass accumulation in high yielding extreme segregants of a Saccharum interspecific F2 population | BMC Genomics | 18(1) 773 |
| 2017 | 10.1111/tpj.13630 | Wai, C. M., R. VanBuren, J. Zhang, L. Huang, W. Miao, P. P. Edger, W. C. Yim, H. D. Priest, B. C. Meyers, T. Mockler, J. A. C. Smith, J. C. Cushman and R. Ming | Temporal and spatial transcriptomic and microRNA dynamics of CAM photosynthesis in pineapple | The Plant Journal | 92(1) 19–30 |
| 2017 | 10.1016/j.bbagen.2016.06.015 | Vural, D., X. Hu, B. Lindner, N. Jain, Y. Miao, X. Cheng, Z. Liu, L. Hong and J. C. Smith | Quasielastic neutron scattering in biology: Theory and applications | Biochimica et Biophysica Acta - General Subjects | 1861(1 Part B) 3638–50 |
| 2017 | 10.1002/wsbm.1391 | Voit, E. O. | The best models of metabolism | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 9(6) |
| 2017 | 10.1016/j.pbi.2017.04.015 | Versaw, W. K. and L. R. Garcia | Intracellular transport and compartmentation of phosphate in plants | Curr Opin Plant Biol | 39 25-30 |
| 2017 | 10.3389/fpls.2017.01505 | Verhertbruggen, Y., J. L. Walker, F. Guillon and H. V. Scheller | A Comparative Study of Sample Preparation for Staining and Immunodetection of Plant Cell Walls by Light Microscopy | Frontiers in Plant Science | 8 1505 |
| 2017 | 10.1038/srep43355 | Verbeke, T. J., R. J. Giannone, D. M. Klingeman, N. L. Engle, T. Rydzak, A. M. Guss, T. J. Tschaplinski, S. D. Brown, R. L. Hettich and J. G. Elkins | Pentose sugars inhibit metabolism and increase expression of an AgrD-type cyclic pentapeptide in Clostridium thermocellum | Scientific Reports | 7 43355 |
| 2017 | 10.1186/s13068-017-0917-7 | Verbeke, T. J., G. M. Garcia and J. G. Elkins | The effect of switchgrass loadings on feedstock solubilization and biofuel production by Clostridium thermocellum | Biotechnology for Biofuels | 10 233 |
| 2017 | 10.1038/ncomms15128 | Venturelli, O. S., M. Tei, S. Bauer, L. J. G. Chan, C. J. Petzold and A. P. Arkin | Programming mRNA decay to modulate synthetic circuit resource allocation | Nature Communications | 8 15128 |
| 2017 | 10.1128/AAC.01636-16 | Vandavasi, V. G., P. S. Langan, K. L. Weiss, J. M. Parks, J. B. Cooper, S. L. Ginell and L. Coates | Active-Site Protonation States in an Acyl-Enzyme Intermediate of a Class A β-Lactamase with a Monobactam Substrate | Antimicrobial Agents and Chemotherapy | 61(1) |
| 2017 | 10.1104/pp.17.00834 | Van Acker, R., A. Déjardin, S. Desmet, L. Hoengenaert, R. Vanholme, et al. | Different routes for conifer- and sinapaldehyde and higher saccharification upon deficiency in the dehydrogenase CAD1 | Plant Physiology | 175(3) 1018-1039 |
| 2017 | 10.1111/nph.14571 | Valverde-Barrantes, O. J., G. T. Freschet, C. Roumet and C. B. Blackwood | A worldview of root traits: the influence of ancestry, growth form, climate and mycorrhizal association on the functional trait variation of fine-root tissues in seed plants | New Phytologist | 215(4) 1562–73 |
| 2017 | 10.3389/fmicb.2017.01272 | Utturkar, S. M., D. M. Klingeman, R. A. Hurt, Jr. and S. D. Brown | A Case Study into Microbial Genome Assembly Gap Sequences and Finishing Strategies | Frontiers in Microbiology | 8 1272 |
| 2017 | 10.1111/pbi.12682 | Unda, F., H. Kim, C. Hefer, J. Ralph and S. D. Mansfield | Altering carbon allocation in hybrid poplar (Populus alba × grandidentata) impacts cell wall growth and development | Plant Biotechnology Journal | 15(7) 865-878 |
| 2017 | 10.1111/1462-2920.13669 | Uehling, J., A. Gryganskyi, K. Hameed, T. Tschaplinski, P. K. Misztal, et al. | Comparative genomics of Mortierella elongata and its bacterial endosymbiont Mycoavidus cysteinexigens | Environmental Microbiology | 19(8) 2964–83 |
| 2017 | 10.1371/journal.ppat.1006578 | Uehling, J., A. Deveau and M. Paoletti | Do fungi have an innate immune response? An NLR-based comparison to plant and animal immune systems | PLoS Pathogens | 13(10) e1006578 |
| 2017 | 10.1016/j.aca.2017.09.023 | Tuomivaara, S. T., P. Schliekelman, A. V. Nairn, K. W. Moremen and W. S. York | RElative QUantitation Inferred by Evaluating Mixtures (REQUIEM) | Analytica Chimica Acta | 993 22–37 |
| 2017 | 10.1016/j.soilbio.2016.12.017 | Tu, Q. C., Z. L. He, L. Y. Wu, K. Xue, G. Xie, P. Chain, P. B. Reich, S. E. Hobbie and J. Z. Zhou | Metagenomic reconstruction of nitrogen cycling pathways in a CO2- enriched grassland ecosystem | Soil Biology and Biochemistry | 106 99–108 |
| 2017 | 10.3389/fpls.2017.00335 | Truong, S. K., R. F. McCormick and J. E. Mullet | Bioenergy Sorghum Crop Model Predicts VPD-Limited Transpiration Traits Enhance Biomass Yield in Water-Limited Environments | Frontiers in Plant Science | 8 335 |
| 2017 | 10.1186/s13068-017-0751-y | Tran, T. N. T., R. J. Breuer, R. Avanasi Narasimhan, L. S. Parreiras, Y. Zhang, T. K. Sato and T. P. Durrett | Metabolic engineering of Saccharomyces cerevisiae to produce a reduced viscosity oil from lignocellulose | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1124/mol.116.105031 | Toutounchian, J. J., J. Pagadala, D. D. Miller, J. Baudry, F. Park, E. Chaum, V. Morales-Tirado and C. R. Yates | Novel Small Molecule JP-153 Targets the Src-FAK-Paxillin Signaling Complex to Inhibit VEGF-Induced Retinal Angiogenesis | Molecular Pharmacology | 91(1) 1–13 |
| 2017 | 10.1007/s12155-017-9832-9 | Tornqvist, C. E., B. Vaillancourt, J. Kim, C. R. Buell, S. M. Kaeppler and M. D. Casler | Transcriptional Analysis of Flowering Time in Switchgrass | Bioenergy Research | 10(3) 700-713 |
| 2017 | 10.1021/acssuschemeng.6b01877 | Tolbert, A. K., J. M. Young, S. Jung, D. Chung, A. Passian, J. Westpheling and A. J. Ragauskus | Surface Characterization of Populus during Caldicellulosiruptor bescii Growth by TOF-SIMS Analysis | ACS Sustainable Chemistry & Engineering | 5(3) 2084–9 |
| 2017 | 10.1002/cplu.201700138 | Tolbert, A. K., C. G. Yoo and A. J. Ragauskas | Understanding the Changes to Biomass Surface Characteristics after Ammonia and Organosolv Pretreatments by Using Time-of-Flight Secondary-Ion Mass Spectrometry (TOF-SIMS) | ChemPlusChem | 82(5) 686–90 |
| 2017 | 10.1002/ese3.144 | Tolbert, A. and A. J. Ragauskas | Advances in understanding the surface chemistry of lignocellulosic biomass via time-of-flight secondary ion mass spectrometry | Energy Science & Engineering | 5(1) 5–20 |
| 2017 | 10.1111/1758-2229.12567 | Tolar, B. B., J. Herrmann, J. R. Bargar, H. van den Bedem, S. Wakatsuki and C. A. Francis | Integrated structural biology and molecular ecology of N-cycling enzymes from ammonia-oxidizing archaea | Environ Microbiol Rep | 9(5) 484-491 |
| 2017 | Todd, J., H. Sandhu, A. Hale, B. Glaz and J. P. Wang | Phenotypic evaluation of a diversity panel selected from the world collection of sugarcane (Saccharum spp) and related grasses | Maydica | 62(2) | |
| 2017 | 10.1016/j.fuel.2017.04.051 | To, T. Q., K. Shah, P. Tremain, B. A. Simmons, B. Moghtaderi and R. Atkin | Treatment of lignite and thermal coal with low cost amino acid based ionic liquid-water mixtures | Fuel | 202 296–306 |
| 2017 | 10.1007/978-3-319-31421-1_372-1 | Tian, T. and T. S. Lee | Advanced Biodiesel and Biojet Fuels from Lignocellulosic Biomass | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Production of Fuels and Chemicals | |
| 2017 | 10.1186/s13068-017-0961-3 | Tian, L., S. J. Perot, D. Stevenson, T. Jacobson, A. A. Lanahan, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Metabolome analysis reveals a role for glyceraldehyde 3-phosphate dehydrogenase in the inhibition of C. thermocellum by ethanol | Biotechnology for Biofuels | 10 276 |
| 2017 | 10.1186/s12934-017-0783-9 | Tian, L., S. J. Perot, S. Hon, J. Zhou, X. Liang, J. T. Bouvier, A. M. Guss, D. G. Olson and L. R. Lynd | Enhanced ethanol formation by Clostridium thermocellum via pyruvate decarboxylase | Microbial Cell Factories | 16(1) 171 |
| 2017 | 10.1128/AEM.03044-16 | Thorgersen, M. P., W. A. Lancaster, L. Rajeev, X. Ge, B. J. Vaccaro, F. L. Poole, A. P. Arkin, A. Mukhopadhyay and M. W. W. Adams | A Highly Expressed High-Molecular-Weight S-Layer Complex of Pelosinus sp. Strain UFO1 Binds Uranium | Applied and Environmental Microbiology | 83(4) |
| 2017 | 10.3389/fmicb.2017.01529 | Thorgersen, M. P., W. A. Lancaster, X. Ge, G. M. Zane, K. M. Wetmore, B. J. Vaccaro, F. L. Poole, 2nd, A. D. Younkin, A. M. Deutschbauer, A. P. Arkin, J. D. Wall and M. W. W. Adams | Mechanisms of Chromium and Uranium Toxicity in Pseudomonas stutzeri RCH2 Grown under Anaerobic Nitrate-Reducing Conditions | Frontiers in Microbiology | 8 1529 |
| 2017 | 10.1002/bit.26374 | Thompson, R. A. and C. T. Trinh | Overflow metabolism and growth cessation in Clostridium thermocellum DSM1313 during high cellulose loading fermentations | Biotechnology and Bioengineering | 114(11) 2592–604 |
| 2017 | 10.1186/s13068-017-0937-3 | Thomas, V. A., B. S. Donohoe, M. Li, Y. Pu, A. J. Ragauskas, R. Kumar, T. Y. Nguyen, C. M. Cai and C. E. Wyman | Adding tetrahydrofuran to dilute acid pretreatment provides new insights into substrate changes that greatly enhance biomass deconstruction by Clostridium thermocellum and fungal enzymes | Biotechnology for Biofuels | 10 252 |
| 2017 | 10.1128/microbiolspec.FUNK-0057-2016 | Taylor, J. W., S. Branco, C. Gao, C. Hann-Soden, L. Montoya, I. Sylvain and P. Gladieux | Sources of Fungal Genetic Variation and Associating It with Phenotypic Diversity | Microbiology Spectrum | 5(5) |
| 2017 | 10.1038/srep42839 | Tanger, P., S. Klassen, J. P. Mojica, J. T. Lovell, B. T. Moyers, M. Baraoidan, M. E. Naredo, K. L. McNally, J. Poland, D. R. Bush, H. Leung, J. E. Leach and J. K. McKay | Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice | Scientific Reports | 7 42839 |
| 2017 | 10.1111/1462-2920.13765 | Takemura, A. F., C. H. Corzett, F. Hussain, P. Arevalo, M. Datta, X. Yu, F. Le Roux and M. F. Polz | Natural resource landscapes of a marine bacterium reveal distinct fitness-determining genes across the genome | Environmental Microbiology | 19(6) 2422–33 |
| 2017 | 10.1186/s13068-017-0842-9 | Sun, J., J. Shi, N. Murthy Konda, D. Campos, D. Liu, S. Nemser, J. Shamshina, T. Dutta, P. Berton, G. Gurau, R. D. Rogers, B. A. Simmons and S. Singh | Efficient dehydration and recovery of ionic liquid after lignocellulosic processing using pervaporation | Biotechnology for Biofuels | 10 154 |
| 2017 | 10.1039/c7gc01179b | Sun, J., N. V. S. N. M. Konda, R. Parthasarathi, T. Dutta, M. Valiev, F. Xu, B. A. Simmons and S. Singh | One-pot integrated biofuel production using low-cost biocompatible protic ionic liquids | Green Chemistry | 19(13) 3152–63 |
| 2017 | 10.1021/acs.analchem.7b00396 | Su, X., W. Lu and J. D. Rabinowitz | Metabolite Spectral Accuracy on Orbitraps | Analytical Chemistry | 89(11) 5940–8 |
| 2017 | 10.21769/BioProtoc.2263 | Stuart, R. K., X. Mayali, M. P. Thelen, J. Pett-Ridge and P. K. Weber | Measuring Cyanobacterial Metabolism in Biofilms with NanoSIMS Isotope Imaging and Scanning Electron Microscopy (SEM) | Bio-Protocol | 7(9) e2263 |
| 2017 | 10.1093/gbe/evx276 | Stritt, C., S. P. Gordon, T. Wicker, J. P. Vogel and A. C. Roulin | Recent Activity in Expanding Populations and Purifying Selection Have Shaped Transposable Element Landscapes across Natural Accessions of the Mediterranean Grass Brachypodium distachyon | Genome Biology and Evolution | 10(1) 304-318 |
| 2017 | 10.1016/j.copbio.2017.02.016 | Straub, C. T., B. M. Zeldes, G. J. Schut, M. W. Adams and R. M. Kelly | Extremely thermophilic energy metabolisms: biotechnological prospects | Current Opinion in Biotechnology | 45 104–12 |
| 2017 | 10.1111/tpj.13569 | Stopka, S. A., B. J. Agtuca, D. W. Koppenaal, L. Paša-Tolić, G. Stacey, A. Vertes and C. R. Anderton | Laser-ablation electrospray ionization mass spectrometry with ion mobility separation reveals metabolites in the symbiotic interactions of soybean roots and rhizobia | The Plant Journal | 91(2) 340-354 |
| 2017 | 10.1128/AEM.00696-17 | Steven, B., C. Hesse, J. Soghigian, V. Gallegos-Graves and J. Dunbar | Simulated rRNA/DNA Ratios Show Potential To Misclassify Active Populations as Dormant | Applied and Environmental Microbiology | 83(11) |
| 2017 | 10.3791/54631 | Steffan, S. A., P. S. Dharampal, L. Diaz-Garcia, C. R. Currie, J. Zalapa and C. T. Hittinger | Empirical, metagenomic, and computational techniques illuminate the mechanisms by which fungicides compromise bee health | Journal of Visualized Experiments | 2017(128) |
| 2017 | 10.1128/genomeA.00617-17 | Starkenburg, S. R., J. E. W. Polle, B. Hovde, H. E. Daligault, K. W. Davenport, A. Huang, P. Neofotis and Z. McKie-Krisberg | Draft Nuclear Genome, Complete Chloroplast Genome, and Complete Mitochondrial Genome for the Biofuel/Bioproduct Feedstock Species Scenedesmus obliquus Strain DOE0152z | Genome Announcements | 5(32) |
| 2017 | 10.1111/gbi.12193 | Stackhouse, B., M. C. Lau, T. Vishnivetskaya, N. Burton, R. Wang, A. Southworth, L. Whyte and T. C. Onstott | Atmospheric CH4 oxidation by Arctic permafrost and mineral cryosols as a function of water saturation and temperature | Geobiology | 15(1) 94–111 |
| 2017 | 10.1128/microbiolspec.FUNK-0053-2016 | Spatafora, J. W., M. C. Aime, I. V. Grigoriev, F. Martin, J. E. Stajich and M. Blackwell | The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies | Microbiology Spectrum | 5(5) |
| 2017 | 10.1371/journal.pone.0182591 | Soto-Burgos, J. and D. C. Bassham | SnRK1 activates autophagy via the TOR signaling pathway in Arabidopsis thaliana | PLoS One | 12(8) e0182591 |
| 2017 | 10.1021/acssynbio.6b00240 | Soh, L. M. J., W. S. Mak, P. P. Lin, L. Mi, F. Y. Chen, R. Damoiseaux, J. B. Siegel and J. C. Liao | Engineering a Thermostable Keto Acid Decarboxylase Using Directed Evolution and Computationally Directed Protein Design | ACS Synthetic Biology | 6(4) 610–8 |
| 2017 | 10.1104/pp.17.00434 | Smith, R. A., M. Schuetz, S. D. Karlen, D. Bird, N. Tokunaga, Y. Sato, S. D. Mansfield, J. Ralph and A. L. Samuels | Defining the diverse cell populations contributing to lignification in arabidopsis stems | Plant Physiology | 174(2) 1028-1036 |
| 2017 | 10.1186/s13068-017-0793-1 | Smith, R. A., C. L. Cass, M. Mazaheri, R. S. Sekhon, M. Heckwolf, H. Kaeppler, N. De Leon, S. D. Mansfield, S. M. Kaeppler, J. C. Sedbrook, S. D. Karlen and J. Ralph | Suppression of CINNAMOYL-CoA REDUCTASE increases the level of monolignol ferulates incorporated into maize lignins | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1038/s41598-017-15048-7 | Smith, M. D., X. Cheng, L. Petridis, B. Mostofian and J. C. Smith | Organosolv-Water Cosolvent Phase Separation on Cellulose and its Influence on the Physical Deconstruction of Cellulose: A Molecular Dynamics Analysis | Scientific Reports | 7(1) 14494 |
| 2017 | 10.1016/j.bpj.2017.01.008 | Smith, J. C. | Pickin' Up Good Vibrations | Biophysical Journal | 112(5) 829–30 |
| 2017 | 10.1128/mBio.00530-17 | Skennerton, C. T., K. Chourey, R. Iyer, R. L. Hettich, G. W. Tyson and V. J. Orphan | Methane-Fueled Syntrophy through Extracellular Electron Transfer: Uncovering the Genomic Traits Conserved within Diverse Bacterial Partners of Anaerobic Methanotrophic Archaea | mBio | 8(4) |
| 2017 | 10.1007/s00253-017-8506-z | Sitepu, I. R., L. A. Garay, L. Enriquez, R. Fry, J. H. Butler, J. M. Lopez, A. Kanti, S. A. Faulina, A. J. Nugroho, B. A. Simmons, S. W. Singer, C. W. Simmons and K. Boundy-Mills | 1-Ethyl-3-methylimidazolium tolerance and intracellular lipid accumulation of 38 oleaginous yeast species | Applied Microbiology and Biotechnology | 101(23-24) 8621–31 |
| 2017 | 10.1038/srep42121 | Singh, R., J. Hu, M. R. Regner, J. W. Round, J. Ralph, J. N. Saddler and L. D. Eltis | Enhanced delignification of steam-pretreated poplar by a bacterial laccase | Scientific Reports | 7 |
| 2017 | 10.1021/acs.jpcb.6b07884 | Simakov, N., D. A. Leonard, J. C. Smith, T. Wymore and A. Szarecka | A Distal Disulfide Bridge in OXA-1 β-Lactamase Stabilizes the Catalytic Center and Alters the Dynamics of the Specificity Determining Ω Loop | Journal of Physical Chemistry B | 121(15) 3285–96 |
| 2017 | 10.1073/pnas.1710798114 | Shih, P. M., L. M. Ward and W. W. Fischer | Evolution of the 3-hydroxypropionate bicycle and recent transfer of anoxygenic photosynthesis into the Chloroflexi | Proceedings of the National Academy of Sciences of the United States of America | 114(40) 10749–54 |
| 2017 | 10.3389/fmicb.2017.02185 | Shi, S. and H. Zhao | Metabolic Engineering of Oleaginous Yeasts for Production of Fuels and Chemicals | Frontiers in Microbiology | 8 2185 |
| 2017 | 10.1002/bit.26180 | Shi, J., D. Wu, L. Zhang, B. A. Simmons, S. Singh, B. Yang and C. E. Wyman | Dynamic changes of substrate reactivity and enzyme adsorption on partially hydrolyzed cellulose | Biotechnology and Bioengineering | 114(3) 503–15 |
| 2017 | 10.1038/s41559-017-0126 | Shen, X. X., C. T. Hittinger and A. Rokas | Contentious relationships in phylogenomic studies can be driven by a handful of genes | Nature Ecology and Evolution | 1(5) |
| 2017 | 10.1016/j.biocel.2017.06.016 | Shaul, O. | How introns enhance gene expression | The International Journal of Biochemistry & Cell Biology | 91(Part B) 145–55 |
| 2017 | 10.1016/j.pbi.2017.05.006 | Shakoor, N., S. Lee and T. C. Mockler | High throughput phenotyping to accelerate crop breeding and monitoring of diseases in the field | Current Opinion in Plant Biology | 38 184–92 |
| 2017 | 10.1038/ismej.2016.118 | Shade, A. | Diversity is the question, not the answer | ISME Journal | 11(1) 45663 |
| 2017 | 10.1016/j.ymben.2017.09.008 | Seppala, S., S. E. Wilken, D. Knop, K. V. Solomon and M. A. O'Malley | The importance of sourcing enzymes from non-conventional fungi for metabolic engineering and biomass breakdown | Metabolic Engineering | 44 45–59 |
| 2017 | 10.1007/978-3-319-45105-3_11 | Sebastian, J. and J. R. Dinneny | Setaria viridis: A Model for Understanding Panicoid Grass Root Systems | Genetics and Genomics of Setaria | 19 177–93 |
| 2017 | 10.1186/s13068-017-0965-z | Schuerg, T., J. P. Prahl, R. Gabriel, S. Harth, F. Tachea, et al. | Xylose induces cellulase production in Thermoascus aurantiacus | Biotechnology for Biofuels | 10 271 |
| 2017 | 10.1104/pp.16.01942 | Schläpfer, P., P. Zhang, C. Wang, T. Kim, M. Banf, L. Chae, K. Dreher, A. K. Chavali, R. Nilo-Poyanco, T. Bernard, D. Kahn and S. Y. Rhee | Genome-wide prediction of metabolic enzymes, pathways, and gene clusters in plants | Plant Physiology | 173(4) 2041-2059 |
| 2017 | 10.1038/nplants.2017.24 | Scheller, H. V. | Plant cell wall: Never too much acetate | Nature Plants | 3 17024 |
| 2017 | 10.1093/bioinformatics/btx207 | Sastry, A., J. Monk, H. Tegel, M. Uhlen, B. O. Palsson, J. Rockberg and E. Brunk | Machine learning in computational biology to accelerate high-throughput protein expression | Bioinformatics | 33(16) 2487–95 |
| 2017 | 10.1007/s10295-017-1949-5 | Sarks, C., M. Jin, V. Balan and B. E. Dale | Fed-batch hydrolysate addition and cell separation by settling in high cell density lignocellulosic ethanol fermentations on AFEX™ corn stover in the Rapid Bioconversion with Integrated recycling Technology process | Journal of Industrial Microbiology and Biotechnology | 44(9) 1261-1272 |
| 2017 | 10.2134/agronj2016.08.0454 | Sanford, G. R., L. G. Oates, S. S. Roley, D. S. Duncan, R. D. Jackson, G. P. Robertson and K. D. Thelen | Biomass production a stronger driver of cellulosic ethanol yield than biomass quality | Agronomy Journal | 109(5) 1911-1922 |
| 2017 | 10.1186/s13068-017-0960-4 | Sander, K., K. G. Asano, D. Bhandari, G. J. Van Berkel, S. D. Brown, B. Davison and T. J. Tschaplinski | Targeted redox and energy cofactor metabolomics in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum | Biotechnology for Biofuels | 10 270 |
| 2017 | 10.15252/msb.20167411 | Sanchez, B. J., C. Zhang, A. Nilsson, P. J. Lahtvee, E. J. Kerkhoven and J. Nielsen | Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints | Molecular Systems Biology | 13(8) 935 |
| 2017 | 10.1104/pp.17.00920 | Saleme, M. L. S., I. Cesarino, L. Vargas, H. Kim, R. Vanholme, et al. | Silencing CAFFEOYL SHIKIMATE ESTERASE affects lignification and improves saccharification in poplar | Plant Physiology | 175(3) 1040-1057 |
| 2017 | 10.1371/journal.pone.0178258 | Sagawa, S., M. N. Price, A. M. Deutschbauer and A. P. Arkin | Validating regulatory predictions from diverse bacteria with mutant fitness data | PLoS One | 12(5) e0178258 |
| 2017 | 10.1016/j.ymben.2017.04.002 | Rydzak, T., D. Garcia, D. M. Stevenson, M. Sladek, D. M. Klingeman, E. K. Holwerda, D. Amador-Noguez, S. D. Brown and A. M. Guss | Deletion of Type I glutamine synthetase deregulates nitrogen metabolism and increases ethanol production in Clostridium thermocellum | Metabolic Engineering | 41 182–91 |
| 2017 | 10.1201/9781315119496 | Ruytinx, J. and F. Martin | Comparative and Functional Genomics of Ectomycorrhizal Symbiosis | The Fungal Community: Its Organization and Role in the Ecosystem | 27–36 |
| 2017 | 10.7717/peerj.3817 | Roux, S., J. B. Emerson, E. A. Eloe-Fadrosh and M. B. Sullivan | Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity | PeerJ | 5 e3817 |
| 2017 | 10.1016/j.coisb.2017.07.008 | Rouached, H. and S. Y. Rhee | System-level understanding of plant mineral nutrition in the big data era | Current Opinion in Systems Biology | 4 71–7 |
| 2017 | 10.1126/science.aal2324 | Robertson, G. P., S. K. Hamilton, B. L. Barham, B. E. Dale, R. C. Izaurralde, R. D. Jackson, D. A. Landis, S. M. Swinton, K. D. Thelen and J. M. Tiedje | Cellulosic biofuel contributions to a sustainable energy future: Choices and outcomes | Science | 356(6345) |
| 2017 | 10.1007/s00572-016-0758-4 | Rineau, F., H. Lmalem, D. Ahren, F. Shah, T. Johansson, et al. | Comparative genomics and expression levels of hydrophobins from eight mycorrhizal genomes | Mycorrhiza | 27(4) 383–96 |
| 2017 | 10.1016/j.celrep.2017.08.066 | Reznik, E., D. Christodoulou, J. E. Goldford, E. Briars, U. Sauer, D. Segrè and E. Noor | Genome-Scale Architecture of Small Molecule Regulatory Networks and the Fundamental Trade-Off between Regulation and Enzymatic Activity | Cell Reports | 20(11) 2666-2677 |
| 2017 | 10.17226/24751 | Reed, J. L. | Genome-Scale Metabolic Modeling and Its Application to Microbial Communities | The Chemistry of Microbiomes: Proceedings of a Seminar Series | 85–92 |
| 2017 | 10.3389/fpls.2017.02236 | Ray, P., Y. Guo, J. Kolape and K. D. Craven | Non-targeted Colonization by the Endomycorrhizal Fungus, Serendipita vermifera, in Three Weeds Typically Co-occurring with Switchgrass | Frontiers in Plant Science | 8 2236 |
| 2017 | 10.1016/j.bbagen.2017.06.001 | Rawle, R. A., T. Hamerly, B. P. Tripet, R. J. Giannone, L. Wurch, R. L. Hettich, M. Podar, V. Copie and B. Bothner | Multi-omics analysis provides insight to the Ignicoccus hospitalis-Nanoarchaeum equitans association | Biochimica et Biophysica Acta - General Subjects | 1861(9) 2218–27 |
| 2017 | 10.1073/pnas.1701894114 | Rautengarten, C., D. Birdseye, S. Pattathil, H. E. McFarlane, S. Saez-Aguayo, A. Orellana, S. Persson, M. G. Hahn, H. V. Scheller, J. L. Heazlewood and B. Ebert | The elaborate route for UDP-arabinose delivery into the Golgi of plants | Proceedings of the National Academy of Sciences of the United States of America | 114(16) 4261–6 |
| 2017 | 10.1186/s13068-017-0954-2 | Rao, X., H. Shen, S. Pattathil, M. G. Hahn, I. Gelineo-Albersheim, D. Mohnen, Y. Pu, A. J. Ragauskas, X. Chen, F. Chen and R. A. Dixon | Dynamic changes in transcriptome and cell wall composition underlying brassinosteroid-mediated lignification of switchgrass suspension cells | Biotechnology for Biofuels | 10 266 |
| 2017 | 10.3389/fpls.2017.00806 | Rao, X. and R. A. Dixon | Brassinosteroid Mediated Cell Wall Remodeling in Grasses under Abiotic Stress | Frontiers in Plant Science | 8 806 |
| 2017 | 10.1371/journal.pone.0181943 | Rahman, M. K. and M. S. Rahman | CRISPRpred: A flexible and efficient tool for sgRNAs on-target activity prediction in CRISPR/Cas9 systems | PLoS One | 12(8) e0181943 |
| 2017 | 10.19080/rapsci.2017.01.555551 | Ragauskas, A. J. | Pseudo-Lignin Formation during Dilute acid Pretreatment for Cellulosic Ethanol | Recent Advances in Petrochemical Science | 1(1) 1–5 |
| 2017 | 10.1021/acssuschemeng.7b02212 | Qureshi, A. S., J. Zhang, L. Da Costa Sousa and J. Bao | Antibacterial Peptide Secreted by Pediococcus acidilactici Enables Efficient Cellulosic Open l -Lactic Acid Fermentation | ACS Sustainable Chemistry and Engineering | 5(10) 9254-9262 |
| 2017 | 10.3389/fmicb.2017.00158 | Qin, Y., X. Pan, C. Kubicek, I. Druzhinina, K. Chenthamara, J. Labbe and Z. Yuan | Diverse Plant-Associated Pleosporalean Fungi from Saline Areas: Ecological Tolerance and Nitrogen-Status Dependent Effects on Plant Growth | Frontiers in Microbiology | 8 158 |
| 2017 | 10.1038/nbt.3763 | Qiao, K., T. M. Wasylenko, K. Zhou, P. Xu and G. Stephanopoulos | Lipid production in Yarrowia lipolytica is maximized by engineering cytosolic redox metabolism | Nature Biotechnology | 35(2) 173–7 |
| 2017 | 10.1016/j.coisb.2017.01.008 | Purdy, H. M. and J. L. Reed | Evaluating the capabilities of microbial chemical production using genome-scale metabolic models | Current Opinion in Systems Biology | 2 91–7 |
| 2017 | 10.1080/15592324.2017.1395128 | Pu, Y., J. Soto-Burgos and D. C. Bassham | Regulation of autophagy through SnRK1 and TOR signaling pathways | Plant Signal Behav | 12(12) e1395128 |
| 2017 | 10.1111/nph.14609 | Pruitt, R. N., A. Joe, W. Zhang, W. Feng, V. Stewart, B. Schwessinger, J. R. Dinneny and P. C. Ronald | A microbially derived tyrosine-sulfated peptide mimics a plant peptide hormone | New Phytologist | 215(2) 725–36 |
| 2017 | 10.1128/mSystems.00039-17 | Price, M. N. and A. P. Arkin | PaperBLAST: Text Mining Papers for Information about Homologs | mSystems | 2(4) |
| 2017 | 10.1128/AEM.02987-16 | Presley, G. N. and J. S. Schilling | Distinct Growth and Secretome Strategies for Two Taxonomically Divergent Brown Rot Fungi | Applied and Environmental Microbiology | 83(7) |
| 2017 | 10.1186/s13068-016-0697-5 | Poudel, S., R. J. Giannone, M. Rodriguez, Jr., B. Raman, M. Z. Martin, N. L. Engle, J. R. Mielenz, I. Nookaew, S. D. Brown, T. J. Tschaplinski, D. Ussery and R. L. Hettich | Integrated omics analyses reveal the details of metabolic adaptation of Clostridium thermocellum to lignocellulose-derived growth inhibitors released during the deconstruction of switchgrass | Biotechnology for Biofuels | 10 14 |
| 2017 | 10.1128/mSphere.00038-17 | Pomraning, K. R., E. L. Bredeweg and S. E. Baker | Regulation of Nitrogen Metabolism by GATA Zinc Finger Transcription Factors in Yarrowia lipolytica | mSphere | 2(1) |
| 2017 | 10.1128/genomeA.01620-16 | Pfaller, S., V. Tokarev, C. Kessler, C. McLimans, V. Gomez-Alvarez, J. Wright, D. King and R. Lamendella | Draft Genome Sequence of Mycobacterium chimaera Type Strain Fl-0169 | Genome Announcements | 5(8) |
| 2017 | 10.1016/j.rhisph.2017.04.016 | Pett-Ridge, J. and M. K. Firestone | Using stable isotopes to explore root-microbe-mineral interactions in soil | Rhizosphere | 3 244–53 |
| 2017 | 10.1039/c7cp04013j | Perticaroli, S., B. Mostofian, G. Ehlers, J. C. Neuefeind, S. O. Diallo, C. B. Stanley, L. Daemen, T. Egami, J. Katsaras, X. Cheng and J. D. Nickels | Structural relaxation, viscosity, and network connectivity in a hydrogen bonding liquid | Physical Chemistry Chemical Physics | 19(38) 25859–69 |
| 2017 | 10.1021/jacs.6b08845 | Perticaroli, S., G. Ehlers, C. B. Stanley, E. Mamontov, H. O'Neill, Q. Zhang, X. Cheng, D. A. Myles, J. Katsaras and J. D. Nickels | Description of Hydration Water in Protein (Green Fluorescent Protein) Solution | Journal of the American Chemical Society | 139(3) 1098–105 |
| 2017 | 10.1186/s13068-017-0763-7 | Peris, D., R. V. Moriarty, W. G. Alexander, E. Baker, K. Sylvester, et al. | Hybridization and adaptive evolution of diverse Saccharomyces species for cellulosic biofuel production | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1186/s13068-017-0935-5 | Peralta, A. G., S. Venkatachalam, S. C. Stone and S. Pattathil | Xylan epitope profiling: an enhanced approach to study organ development-dependent changes in xylan structure, biosynthesis, and deposition in plant cell walls | Biotechnology for Biofuels | 10 245 |
| 2017 | 10.1111/pbi.12733 | Peng, A., S. Chen, T. Lei, L. Xu, Y. He, L. Wu, L. Yao and X. Zou | Engineering canker-resistant plants through CRISPR/Cas9-targeted editing of the susceptibility gene CsLOB1 promoter in citrus | Plant Biotechnology Journal | 15(12) 1509–19 |
| 2017 | 10.1111/cbdd.13004 | Pavlova, A., J. M. Parks, A. K. Oyelere and J. C. Gumbart | Toward the rational design of macrolide antibiotics to combat resistance | Chemical Biology & Drug Design | 90(5) 641–52 |
| 2017 | 10.1038/nmicrobiol.2017.45 | Paul, B. G., D. Burstein, C. J. Castelle, S. Handa, D. Arambula, E. Czornyj, B. C. Thomas, P. Ghosh, J. F. Miller, J. F. Banfield and D. L. Valentine | Retroelement-guided protein diversification abounds in vast lineages of Bacteria and Archaea | Nature Microbiology | 2 17045 |
| 2017 | 10.1038/s41564-017-0012-7 | Parks, D. H., C. Rinke, M. Chuvochina, P. A. Chaumeil, B. J. Woodcroft, P. N. Evans, P. Hugenholtz and G. W. Tyson | Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life | Nature Microbiology | 2(11) 1533–42 |
| 2017 | 10.1186/s13068-017-0972-0 | Park, J. J., C. G. Yoo, A. Flanagan, Y. Pu, S. Debnath, Y. Ge, A. J. Ragauskas and Z. Y. Wang | Defined tetra-allelic gene disruption of the 4-coumarate:coenzyme A ligase 1 (Pv4CL1) gene by CRISPR/Cas9 in switchgrass results in lignin reduction and improved sugar release | Biotechnology for Biofuels | 10 284 |
| 2017 | 10.1371/journal.pone.0179410 | Park, J. J., E. Dempewolf, W. Zhang and Z. Y. Wang | RNA-guided transcriptional activation via CRISPR/dCas9 mimics overexpression phenotypes in Arabidopsis | PLoS One | 12(6) e0179410 |
| 2017 | 10.1186/s12284-017-0166-1 | Park, C. J., T. Wei, R. Sharma and P. C. Ronald | Overexpression of Rice Auxilin-Like Protein, XB21, Induces Necrotic Lesions, up-Regulates Endocytosis-Related Genes, and Confers Enhanced Resistance to Xanthomonas oryzae pv. oryzae | Rice | 10(1) 27 |
| 2017 | 10.1016/j.biortech.2017.05.001 | Parisutham, V., S. P. Chandran, A. Mukhopadhyay, S. K. Lee and J. D. Keasling | Intracellular cellobiose metabolism and its applications in lignocellulose-based biorefineries | Bioresource Technology | 239 496–506 |
| 2017 | Pareja Hernández, L. | Nursing and sleep disorders | Revista de Patologia Respiratoria | 20 S131-S132 | |
| 2017 | 10.1039/c6gc02637k | Papa, G., J. Kirby, N. V. S. N. Murthy Konda, K. Tran, S. Singh, J. D. Keasling, G. F. Peter and B. A. Simmons | Development of an integrated approach for α-pinene recovery and sugar production from loblolly pine using ionic liquids | Green Chemistry | 19(4) 1117–27 |
| 2017 | 10.1016/j.biortech.2017.05.167 | Papa, G., T. Feldman, K. L. Sale, F. Adani, S. Singh and B. A. Simmons | Parametric study for the optimization of ionic liquid pretreatment of corn stover | Bioresource Technology | 241 627–37 |
| 2017 | 10.1007/s10533-017-0301-5 | Ostrom, N. E. and P. H. Ostrom | Mining the isotopic complexity of nitrous oxide: a review of challenges and opportunities | Biogeochemistry | 132(3) 359-372 |
| 2017 | 10.1038/nchembio.2453 | Oslund, R. C., X. Su, M. Haugbro, J. M. Kee, M. Esposito, Y. David, B. Wang, E. Ge, D. H. Perlman, Y. Kang, T. W. Muir and J. D. Rabinowitz | Bisphosphoglycerate mutase controls serine pathway flux via 3-phosphoglycerate | Nature Chemical Biology | 13(10) 1081–7 |
| 2017 | 10.1093/nar/gkw900 | Orellana, L. H., L. M. Rodriguez-R and K. T. Konstantinidis | ROCker: accurate detection and quantification of target genes in short-read metagenomic data sets by modeling sliding-window bitscores | Nucleic Acids Research | 45(3) e14 |
| 2017 | 10.1016/j.pbi.2017.07.004 | Okumoto, S. and W. Versaw | Genetically encoded sensors for monitoring the transport and concentration of nitrogen-containing and phosphorus-containing molecules in plants | Curr Opin Plant Biol | 39 129-135 |
| 2017 | 10.2134/agronj2016.05.0256 | Obour, A. K., E. Obeng, Y. A. Mohammed, I. A. Ciampitti, T. P. Durrett, J. A. Aznar‐Moreno and C. Chen | Camelina Seed Yield and Fatty Acids as Influenced by Genotype and Environment | Agronomy Journal | 109(3) 947–56 |
| 2017 | 10.3791/55310 | Oates, L. G., H. W. Read, J. L. M. Gutknecht, D. S. Duncan, T. B. Balser and R. D. Jackson | A lipid extraction and analysis method for characterizing soil microbes in experiments with many samples | Journal of Visualized Experiments | 2017(125) |
| 2017 | 10.7554/eLife.31804 | O'Connor, D. L., S. Elton, F. Ticchiarelli, M. M. Hsia, J. P. Vogel and O. Leyser | Cross-species functional diversity within the PIN auxin efflux protein family | eLife | 6 |
| 2017 | 10.1016/j.chemphys.2017.08.011 | Novikova, I. V., C. R. Smallwood, Y. Gong, D. Hu, L. Hendricks, J. E. Evans, A. Bhattarai, W. P. Hess and P. Z. El-Khoury | Multimodal hyperspectral optical microscopy | Chemical Physics | 498-499 25-32 |
| 2017 | 10.1371/journal.pbio.2002214 | Nickels, J. D., S. Chatterjee, C. B. Stanley, S. Qian, X. Cheng, D. A. A. Myles, R. F. Standaert, J. G. Elkins and J. Katsaras | The in vivo structure of biological membranes and evidence for lipid domains | PLoS Biology | 15(5) e2002214 |
| 2017 | 10.1016/j.bpj.2016.11.1234 | Nickels, J. D., S. Chatterjee, C. Stanley, S. Qian, X. Cheng, D. A. A. Myles, R. Standaert, J. Elkins and J. Katsaras | Neutron Scattering to Study Membrane Systems: From Model Membranes to Living Cells | Biophysical Journal | 112(3) |
| 2017 | 10.1021/acs.jpclett.7b01877 | Nickels, J. D., S. Chatterjee, B. Mostofian, C. B. Stanley, M. Ohl, P. Zolnierczuk, R. Schulz, D. A. A. Myles, R. F. Standaert, J. G. Elkins, X. Cheng and J. Katsaras | Bacillus subtilis Lipid Extract, A Branched-Chain Fatty Acid Model Membrane | Journal of Physical Chemistry Letters | 8(17) 4214–7 |
| 2017 | 10.1002/jqs.2952 | Nichols, J. E., D. M. Peteet, S. Frolking and J. Karavias | A probabilistic method of assessing carbon accumulation rate at Imnavait Creek Peatland, Arctic Long Term Ecological Research Station, Alaska | Journal of Quaternary Science | 32(5) 579–86 |
| 2017 | 10.1128/genomeA.00610-17 | Nicholls, C., A. Kump, S. Ford, R. Gonser and K. H. Cho | Draft Genome Sequence of Streptococcus pyogenes Strain M3KCL | Genome Announcements | 5(26) |
| 2017 | 10.1073/pnas.1704652114 | Nguyen, T. Y., C. M. Cai, R. Kumar and C. E. Wyman | Overcoming factors limiting high-solids fermentation of lignocellulosic biomass to ethanol | Proceedings of the National Academy of Sciences of the United States of America | 114(44) 11673–8 |
| 2017 | 10.1016/j.renene.2016.05.009 | Ng, R. T. L. and C. T. Maravelias | Design of biofuel supply chains with variable regional depot and biorefinery locations | Renewable Energy | 100 90-102 |
| 2017 | 10.1016/j.apenergy.2017.08.161 | Ng, R. T. L. and C. T. Maravelias | Economic and energetic analysis of biofuel supply chains | Applied Energy | 205 1571-1582 |
| 2017 | 10.1016/j.rser.2016.11.253 | Neupane, B. and J. Rubin | Implications of U.S. biofuels policy for sustainable transportation energy in Maine and the Northeast | Renewable and Sustainable Energy Reviews | 70 729–35 |
| 2017 | 10.1021/acssuschemeng.7b02116 | Neupane, B., N. V. S. N. M. Konda, S. Singh, B. A. Simmons and C. D. Scown | Life-Cycle Greenhouse Gas and Water Intensity of Cellulosic Biofuel Production Using Cholinium Lysinate Ionic Liquid Pretreatment | ACS Sustainable Chemistry & Engineering | 5(11) 10176–85 |
| 2017 | 10.1111/1462-2920.13878 | Neumann, A. P., C. A. McCormick and G. Suen | Fibrobacter communities in the gastrointestinal tracts of diverse hindgut-fermenting herbivores are distinct from those of the rumen | Environmental Microbiology | 19(9) 3768–83 |
| 2017 | 10.1111/mmi.13625 | Nelson, C. E., A. Rogowski, C. Morland, J. A. Wilhide, H. J. Gilbert and J. G. Gardner | Systems analysis in Cellvibrio japonicus resolves predicted redundancy of β-glucosidases and determines essential physiological functions | Molecular Microbiology | 104(2) 294–305 |
| 2017 | 10.1111/1462-2920.13959 | Nelson, C. E., M. A. Attia, A. Rogowski, C. Morland, H. Brumer and J. G. Gardner | Comprehensive functional characterization of the glycoside hydrolase family 3 enzymes from Cellvibrio japonicus reveals unique metabolic roles in biomass saccharification | Environmental Microbiology | 19(12) 5025–39 |
| 2017 | 10.1128/mBio.01894-17 | Nakayasu, E. S., M. C. Burnet, H. E. Walukiewicz, C. S. Wilkins, A. K. Shukla, et al. | Ancient Regulatory Role of Lysine Acetylation in Central Metabolism | mBio | 8(6) |
| 2017 | 10.1093/molbev/msw238 | Nagy, L. G., R. Riley, P. J. Bergmann, K. Krizsan, F. M. Martin, I. V. Grigoriev, D. Cullen and D. S. Hibbett | Genetic Bases of Fungal White Rot Wood Decay Predicted by Phylogenomic Analysis of Correlated Gene-Phenotype Evolution | Molecular Biology and Evolution | 34(1) 35–44 |
| 2017 | 10.1038/srep41569 | Mueller, T. J., J. L. Ungerer, H. B. Pakrasi and C. D. Maranas | Identifying the Metabolic Differences of a Fast-Growth Phenotype in Synechococcus UTEX 2973 | Scientific Reports | 7 41569 |
| 2017 | 10.1007/978-1-4939-6722-3_16 | Mortimer, J. C. | Structural Analysis of Cell Wall Polysaccharides Using PACE | Xylem: Methods and Protocols | 1544 223–31 |
| 2017 | 10.1021/acssynbio.7b00204 | Morrell, W. C., G. W. Birkel, M. Forrer, T. Lopez, T. W. H. Backman, et al. | The Experiment Data Depot: A Web-Based Software Tool for Biological Experimental Data Storage, Sharing, and Visualization | ACS Synthetic Biology | 6(12) 2248–59 |
| 2017 | 10.1099/mic.0.000546 | Moreira-Soto, R. D., E. Sanchez, C. R. Currie and A. A. Pinto-Tomás | Ultrastructural and microbial analyses of cellulose degradation in leaf-cutter ant colonies | Microbiology (United Kingdom) | 163(11) 1578-1589 |
| 2017 | 10.1099/ijsem.0.002186 | Morais, C. G., T. M. Batista, J. Kominek, B. M. Borelli, C. Furtado, R. G. Moreira, G. R. Franco, L. H. Rosa, C. Fonseca, C. T. Hittinger, M. A. Lachance and C. A. Rosa | Spathaspora boniae sp. nov., a D-xylose-fermenting species in the Candida albicans/lodderomyces clade | International Journal of Systematic and Evolutionary Microbiology | 67(10) 3798-3805 |
| 2017 | 10.1038/ng.3859 | Mondo, S. J., R. O. Dannebaum, R. C. Kuo, K. B. Louie, A. J. Bewick, et al. | Widespread adenine N6-methylation of active genes in fungi | Nature Genetics | 49(6) 964–8 |
| 2017 | 10.1111/1462-2920.13809 | Mondav, R., C. K. McCalley, S. B. Hodgkins, S. Frolking, S. R. Saleska, V. I. Rich, J. P. Chanton and P. M. Crill | Microbial network, phylogenetic diversity and community membership in the active layer across a permafrost thaw gradient | Environmental Microbiology | 19(8) 3201–18 |
| 2017 | 10.1016/j.jenvman.2016.09.060 | Mohapatra, S., S. J. Dandapat and H. Thatoi | Physicochemical characterization, modelling and optimization of ultrasono-assisted acid pretreatment of two Pennisetum sp. using Taguchi and artificial neural networking for enhanced delignification | Journal of Environmental Management | 187 537–49 |
| 2017 | 10.1111/pbi.12655 | Mnich, E., R. Vanholme, P. Oyarce, S. Liu, F. Lu, G. Goeminne, B. Jørgensen, M. S. Motawie, W. Boerjan, J. Ralph, P. Ulvskov, B. L. Møller, N. Bjarnholt and J. Harholt | Degradation of lignin β-aryl ether units in Arabidopsis thaliana expressing LigD, LigF and LigG from Sphingomonas paucimobilis SYK-6 | Plant Biotechnology Journal | 15(5) 581-593 |
| 2017 | 10.1073/pnas.1620119114 | Mizrachi, E., L. Verbeke, N. Christie, A. C. Fierro, S. D. Mansfield, M. F. Davis, E. Gjersing, G. A. Tuskan, M. Van Montagu, Y. Van de Peer, K. Marchal and A. A. Myburg | Network-based integration of systems genetics data reveals pathways associated with lignocellulosic biomass accumulation and processing | Proceedings of the National Academy of Sciences of the United States of America | 114(5) 1195–200 |
| 2017 | 10.1021/acssuschemeng.7b01424 | Mittal, A., R. Katahira, B. S. Donohoe, B. A. Black, S. Pattathil, J. M. Stringer and G. T. Beckham | Alkaline Peroxide Delignification of Corn Stover | ACS Sustainable Chemistry & Engineering | 5(7) 6310–21 |
| 2017 | 10.3791/54771 | Miquel Guennoc, C., C. Rose, F. Guinnet, I. Miquel, J. Labbe and A. Deveau | A New Method for Qualitative Multi-scale Analysis of Bacterial Biofilms on Filamentous Fungal Colonies Using Confocal and Electron Microscopy | Journal of Visualized Experiments | (119) |
| 2017 | 10.1002/jcc.25054 | Mills, M. J. L., K. L. Sale, B. A. Simmons and P. L. A. Popelier | Rhorix: An interface between quantum chemical topology and the 3D graphics program blender | Journal of Computational Chemistry | 38(29) 2538–52 |
| 2017 | 10.1016/j.biombioe.2017.03.012 | Miesel, J. R., L. C. Jach-Smith, M. J. Renz and R. D. Jackson | Distribution of switchgrass (Panicum virgatum L.) aboveground biomass in response to nitrogen addition and across harvest dates | Biomass and Bioenergy | 100 74-83 |
| 2017 | 10.1021/acssuschemeng.7b01527 | Meng, X. Z., B. R. Evans, C. G. Yoo, Y. Q. Pu, B. H. Davison and A. J. Ragauskas | Effect of in Vivo Deuteration on Structure of Switchgrass Lignin | ACS Sustainable Chemistry & Engineering | 5(9) 8004–10 |
| 2017 | 10.1002/bit.26296 | Mendez-Perez, D., J. Alonso-Gutierrez, Q. Hu, M. Molinas, E. E. K. Baidoo, G. Wang, L. J. G. Chan, P. D. Adams, C. J. Petzold, J. D. Keasling and T. S. Lee | Production of jet fuel precursor monoterpenoids from engineered Escherichia coli | Biotechnology and Bioengineering | 114(8) 1703–12 |
| 2017 | 10.1126/science.aan2874 | Melillo, J. M., S. D. Frey, K. M. DeAngelis, W. J. Werner, M. J. Bernard, F. P. Bowles, G. Pold, M. A. Knorr and A. S. Grandy | Long-term pattern and magnitude of soil carbon feedback to the climate system in a warming world | Science | 358(6359) 101–5 |
| 2017 | 10.1111/1462-2920.13678 | McHugh, T. A., E. M. Morrissey, R. C. Mueller, V. Gallegos-Graves, C. R. Kuske and S. C. Reed | Bacterial, fungal, and plant communities exhibit no biomass or compositional response to two years of simulated nitrogen deposition in a semiarid grassland | Environmental Microbiology | 19(4) 1600–11 |
| 2017 | 10.1128/mBio.00644-17 | McDonald, B. R. and C. R. Curriea | Lateral gene transfer dynamics in the ancient bacterial genus Streptomyces | mBio | 8(3) |
| 2017 | 10.1128/mBio.01620-17 | McCully, A. L., B. LaSarre and J. B. McKinlay | Recipient-Biased Competition for an Intracellularly Generated Cross-Fed Nutrient Is Required for Coexistence of Microbial Mutualists | mBio | 8(6) |
| 2017 | 10.1111/1462-2920.13847 | McCully, A. L., B. LaSarre and J. B. McKinlay | Growth-independent cross-feeding modifies boundaries for coexistence in a bacterial mutualism | Environmental Microbiology | 19(9) 3538–50 |
| 2017 | 10.1039/c6gc03515a | McClelland, D. J., A. H. Motagamwala, Y. Li, M. R. Rover, A. M. Wittrig, C. Wu, J. S. Buchanan, R. C. Brown, J. Ralph, J. A. Dumesic and G. W. Huber | Functionality and molecular weight distribution of red oak lignin before and after pyrolysis and hydrogenation | Green Chemistry | 19(5) 1378-1389 |
| 2017 | 10.1105/tpc.16.00910 | McCarthy, J. K., S. R. Smith, J. P. McCrow, M. Tan, H. Zheng, K. Beeri, R. Roth, C. Lichtle, U. Goodenough, C. P. Bowler, C. L. Dupont and A. E. Allen | Nitrate Reductase Knockout Uncouples Nitrate Transport from Nitrate Assimilation and Drives Repartitioning of Carbon Flux in a Model Pennate Diatom | The Plant Cell | 29(8) 2047–70 |
| 2017 | 10.1073/pnas.1708124114 | McAndrew, R. P., N. Sathitsuksanoh, M. M. Mbughuni, R. A. Heins, J. H. Pereira, A. George, K. L. Sale, B. G. Fox, B. A. Simmons and P. D. Adams | Reply to Kiser: Dioxygen binding in NOV1 crystal structures | Proceedings of the National Academy of Sciences of the United States of America | 114(30) E6029–30 |
| 2017 | 10.1007/s00253-016-8078-3 | Masukawa, H., H. Sakurai, R. P. Hausinger and K. Inoue | Increased heterocyst frequency by patN disruption in Anabaena leads to enhanced photobiological hydrogen production at high light intensity and high cell density | Applied Microbiology and Biotechnology | 101(5) 2177-2188 |
| 2017 | 10.1080/08940886.2017.1338418 | Masson, A., J. T. O'Brien, E. R. Williams and H.-Y. N. Holman | Towards Integrating Synchrotron FTIR Microscopy with Mass Spectrometry at the Berkeley Synchrotron Infrared Structural Biology (BSISB) Program | Synchrotron Radiation News | 30(4) 17-23 |
| 2017 | 10.1038/ncomms15892 | Martinez-Hernandez, F., O. Fornas, M. Lluesma Gomez, B. Bolduc, M. J. de la Cruz Pena, J. M. Martinez, J. Anton, J. M. Gasol, R. Rosselli, F. Rodriguez-Valera, M. B. Sullivan, S. G. Acinas and M. Martinez-Garcia | Single-virus genomics reveals hidden cosmopolitan and abundant viruses | Nature Communications | 8 15892 |
| 2017 | 10.1016/j.sab.2017.10.008 | Martin, M. Z., D. C. Glasgow, T. J. Tschaplinski, G. A. Tuskan, L. E. Gunter, N. L. Engle, A. M. Wymore and D. J. Weston | Correlating laser-induced breakdown spectroscopy with neutron activation analysis to determine the elemental concentration in the ionome of the Populus trichocarpa leaf | Spectrochimica Acta Part B: Atomic Spectroscopy | 138 46–53 |
| 2017 | 10.1126/science.aad4501 | Martin, F. M., S. Uroz and D. G. Barker | Ancestral alliances: Plant mutualistic symbioses with fungi and bacteria | Science | 356(6340) |
| 2017 | 10.1016/j.copbio.2016.11.006 | Martien, J. I. and D. Amador-Noguez | Recent applications of metabolomics to advance microbial biofuel production | Current Opinion in Biotechnology | 43 118-126 |
| 2017 | 10.1038/s41598-017-08877-z | Marshall, C. W., D. E. Ross, K. M. Handley, P. B. Weisenhorn, J. N. Edirisinghe, C. S. Henry, J. A. Gilbert, H. D. May and R. S. Norman | Metabolic Reconstruction and Modeling Microbial Electrosynthesis | Scientific Reports | 7(1) 8391 |
| 2017 | 10.1371/journal.pone.0184991 | Maltz, M. R., K. K. Treseder and K. L. McGuire | Links between plant and fungal diversity in habitat fragments of coastal shrubland | PLoS One | 12(9) e0184991 |
| 2017 | 10.1016/j.virusres.2017.07.006 | Malmstrom, C. M., P. Bigelow, P. Trębicki, A. K. Busch, C. Friel, E. Cole, H. Abdel-Azim, C. Phillippo and H. M. Alexander | Crop-associated virus reduces the rooting depth of non-crop perennial native grass more than non-crop-associated virus with known viral suppressor of RNA silencing (VSR) | Virus Research | 241 172-184 |
| 2017 | 10.4236/ojic.2017.72003 | Majumder, E. L. W. and J. D. Wall | Uranium Bio-Transformations: Chemical or Biological Processes? | Open Journal of Inorganic Chemistry | 7(2) 28–60 |
| 2017 | 10.1186/s12864-017-3902-4 | MacMillan, C. P., H. Birke, A. Chuah, E. Brill, Y. Tsuji, J. Ralph, E. S. Dennis, D. Llewellyn and F. A. Pettolino | Tissue and cell-specific transcriptomes in cotton reveal the subtleties of gene regulation underlying the diversity of plant secondary cell walls | BMC Genomics | 18(1) |
| 2017 | 10.1186/s13068-017-0934-6 | Macaya-Sanz, D., J. G. Chen, U. C. Kalluri, W. Muchero, T. J. Tschaplinski, et al. | Agronomic performance of Populus deltoides trees engineered for biofuel production | Biotechnology for Biofuels | 10 253 |
| 2017 | 10.1016/j.copbio.2017.03.008 | Lynd, L. R., X. Liang, M. J. Biddy, A. Allee, H. Cai, T. Foust, M. E. Himmel, M. S. Laser, M. Wang and C. E. Wyman | Cellulosic ethanol: status and innovation | Current Opinion in Biotechnology | 45 202–11 |
| 2017 | 10.1038/nbt.3976 | Lynd, L. R. | The grand challenge of cellulosic biofuels | Nature Biotechnology | 35(10) 912–5 |
| 2017 | 10.1093/nar/gkx691 | Lubock, N. B., D. Zhang, A. M. Sidore, G. M. Church and S. Kosuri | A systematic comparison of error correction enzymes by next-generation sequencing | Nucleic Acids Research | 45(15) 9206-9217 |
| 2017 | 10.1002/1873-3468.12562 | Lubner, J. M., K. L. Dodge-Kafka, C. R. Carlson, G. M. Church, M. F. Chou and D. Schwartz | Cushing's syndrome mutant PKAL205R exhibits altered substrate specificity | FEBS Letters | 591(3) 459–67 |
| 2017 | 10.3390/metabo7040050 | Lubbe, A., B. P. Bowen and T. Northen | Exometabolomic Analysis of Cross-Feeding Metabolites | Metabolites | 7(4) |
| 2017 | 10.1093/bioinformatics/btw706 | Long, M. R. and J. L. Reed | Improving flux predictions by integrating data from multiple strains | Bioinformatics | 33(6) 893–900 |
| 2017 | 10.1016/j.ymben.2016.10.018 | Lo, J., D. G. Olson, S. J. Murphy, L. Tian, S. Hon, A. Lanahan, A. M. Guss and L. R. Lynd | Engineering electron metabolism to increase ethanol production in Clostridium thermocellum | Metabolic Engineering | 39 71–9 |
| 2017 | 10.1103/PhysRevLett.119.048101 | Liu, Z., J. Huang, M. Tyagi, H. O'Neill, Q. Zhang, E. Mamontov, N. Jain, Y. Wang, J. Zhang, J. C. Smith and L. Hong | Dynamical Transition of Collective Motions in Dry Proteins | Physical Review Letters | 119(4) 048101 |
| 2017 | 10.3389/fpls.2017.00982 | Liu, S., C. Fu, J. Gou, L. Sun, D. Huhman, Y. Zhang and Z. Y. Wang | Simultaneous Downregulation of MTHFR and COMT in Switchgrass Affects Plant Performance and Induces Lesion-Mimic Cell Death | Frontiers in Plant Science | 8 982 |
| 2017 | 10.1038/hortres.2017.31 | Liu, D., R. Mewalal, R. Hu, G. A. Tuskan and X. Yang | New technologies accelerate the exploration of non-coding RNAs in horticultural plants | Horticulture Research | 4 17031 |
| 2017 | 10.3389/fpls.2017.01134 | Lin, F., B. J. Williams, P. A. V. Thangella, A. Ladak, A. A. Schepmoes, H. J. Olivos, K. Zhao, S. J. Callister and L. E. Bartley | Proteomics Coupled with Metabolite and Cell Wall Profiling Reveal Metabolic Processes of a Developing Rice Stem Internode | Frontiers in Plant Science | 8 1134 |
| 2017 | 10.1016/j.tplants.2017.08.006 | Libault, M., L. Pingault, P. Zogli and J. Schiefelbein | Plant Systems Biology at the Single-Cell Level | Trends in Plant Science | 22(11) 949–60 |
| 2017 | 10.1038/s41467-017-01695-x | Lian, J., M. HamediRad, S. Hu and H. Zhao | Combinatorial metabolic engineering using an orthogonal tri-functional CRISPR system | Nature Communications | 8(1) 1688 |
| 2017 | 10.1007/s10295-016-1864-1 | Li, Z. J., K. Qiao, N. Liu and G. Stephanopoulos | Engineering Yarrowia lipolytica for poly-3-hydroxybutyrate production | Journal of Industrial Microbiology and Biotechnology | 44(4–5) 605–12 |
| 2017 | 10.1111/1462-2920.13605 | Li, Z., Q. Yao, S. P. Dearth, M. R. Entler, H. F. Castro Gonzalez, J. K. Uehling, R. J. Vilgalys, G. B. Hurst, S. R. Campagna, J. L. Labbe and C. Pan | Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal-endobacterial system | Environmental Microbiology | 19(3) 1041–53 |
| 2017 | 10.1074/jbc.M117.777417 | Li, Z., T. Mukherjee, K. Bowler, S. Namdari, Z. Snow, S. Prestridge, A. Carlton and M. Bar-Peled | A four-gene operon in Bacillus cereus produces two rare spore-decorating sugars | Journal of Biological Chemistry | 292(18) 7636–50 |
| 2017 | 10.1016/j.cell.2017.06.008 | Li, W., Z. Zhu, M. Chern, J. Yin, C. Yang, et al. | A Natural Allele of a Transcription Factor in Rice Confers Broad-Spectrum Blast Resistance | Cell | 170(1) 114–26.e15 |
| 2017 | 10.1186/s13068-017-0736-x | Li, T., C. T. Li, K. Butler, S. G. Hays, M. T. Guarnieri, G. A. Oyler and M. J. Betenbaugh | Mimicking lichens: incorporation of yeast strains together with sucrose-secreting cyanobacteria improves survival, growth, ROS removal, and lipid production in a stable mutualistic co-culture production platform | Biotechnology for Biofuels | 10 55 |
| 2017 | 10.1109/NSSMIC.2017.8533001 | Li, S., G. Geronimo, J. Fried, D. Pinelli, A. Kuczewski, D. Siddons, B. Beheshtipour, R. Bohse and H. Krawczynski | HEXID2: A Low-Power, Low-Noise Pixel Readout ASIC for Hyperspectral Energy-Resolving X-Ray Imaging Detectors | ||
| 2017 | 10.1007/s12155-016-9798-z | Li, M. Y., D. L. Williams, M. Heckwolf, N. de Leon, S. Kaeppler, R. W. Sykes and D. Hodge | Prediction of Cell Wall Properties and Response to Deconstruction Using Alkaline Pretreatment in Diverse Maize Genotypes Using Py-MBMS and NIR | BioEnergy Research | 10(2) 329–43 |
| 2017 | 10.1021/acssuschemeng.7b03602 | Li, M., C. G. Yoo, Y. Pu and A. J. Ragauskas | 31P NMR Chemical Shifts of Solvents and Products Impurities in Biomass Pretreatments | ACS Sustainable Chemistry & Engineering | 6(1) 1265–70 |
| 2017 | 10.1186/s13068-016-0695-7 | Li, M., Y. Pu, C. G. Yoo, E. Gjersing, S. R. Decker, et al. | Study of traits and recalcitrance reduction of field-grown COMT down-regulated switchgrass | Biotechnology for Biofuels | 10 12 |
| 2017 | 10.1002/slct.201700735 | Li, M., Y. Pu, T. J. Tschaplinski and A. J. Ragauskas | 31P NMR Characterization of Tricin and Its Structurally Similar Flavonoids | ChemistrySelect | 2(12) 3557–61 |
| 2017 | 10.1080/21690731.2017.1327006 | Li, J., C. Zhang, P. Huang, E. Kuru, E. T. C. Forster-Benson, T. Li and G. M. Church | Dissecting limiting factors of the Protein synthesis Using Recombinant Elements (PURE) system | Translation | 5(1) e1327006 |
| 2017 | 10.1021/acssynbio.6b00342 | Li, J., W. Haas, K. Jackson, E. Kuru, M. C. Jewett, Z. H. Fan, S. Gygi and G. M. Church | Cogenerating Synthetic Parts Toward a Self-Replicating System | ACS Synthetic Biology | 6(7) 1327–36 |
| 2017 | 10.1073/pnas.1618360114 | Li, H., D. J. Yelle, C. Li, M. Yang, J. Ke, R. Zhang, Y. Liu, N. Zhu, S. Liang, X. Mo, J. Ralph, C. R. Currie and J. Mo | Lignocellulose pretreatment in a fungus-cultivating termite | Proceedings of the National Academy of Sciences of the United States of America | 114(18) 4709-4714 |
| 2017 | 10.1105/tpc.17.00154 | Li, G., R. Jain, M. Chern, N. T. Pham, J. A. Martin, et al. | The Sequences of 1504 Mutants in the Model Rice Variety Kitaake Facilitate Rapid Functional Genomic Studies | The Plant Cell | 29(6) 1218–31 |
| 2017 | 10.1007/s00253-017-8168-x | Li, B. and J. D. Walton | Functional diversity for biomass deconstruction in family 5 subfamily 5 (GH5_5) of fungal endo-β1,4-glucanases | Applied Microbiology and Biotechnology | 101(10) 4093-4101 |
| 2017 | 10.1038/s41588-017-0012-9 | Levy, A., I. Salas Gonzalez, M. Mittelviefhaus, S. Clingenpeel, S. Herrera Paredes, et al. | Genomic features of bacterial adaptation to plants | Nature Genetics | 50(1) 138–50 |
| 2017 | 10.1128/mSystems.00142-16 | Levering, J., C. L. Dupont, A. E. Allen, B. O. Palsson and K. Zengler | Integrated Regulatory and Metabolic Networks of the Marine Diatom Phaeodactylum tricornutum Predict the Response to Rising CO2 Levels | mSystems | 2(1) |
| 2017 | 10.1128/mbio.01696-17 | León, K. B. D., G. M. Zane, V. V. Trotter, G. P. Krantz, A. P. Arkin, G. P. Butland, P. J. Walian, M. W. Fields and J. D. Wall | Unintended Laboratory-Driven Evolution Reveals Genetic Requirements for Biofilm Formation by Desulfovibrio vulgaris Hildenborough | mBio | 8(5) |
| 2017 | 10.1128/mBio.00513-17 | Lemmer, K. C., W. Zhang, S. J. Langer, A. C. Dohnalkova, D. Hu, R. A. Lemke, J. S. Piotrowski, G. Orr, D. R. Noguera and T. J. Donohue | Mutations that alter the bacterial cell envelope increase lipid production | mBio | 8(3) |
| 2017 | 10.1111/gcbb.12352 | LeDuc, S. D., X. Zhang, C. M. Clark and R. C. Izaurralde | Cellulosic feedstock production on Conservation Reserve Program land: potential yields and environmental effects | GCB Bioenergy | 9(2) 460-468 |
| 2017 | 10.1038/ismej.2016.141 | LaSarre, B., A. L. McCully, J. T. Lennon and J. B. McKinlay | Microbial mutualism dynamics governed by dose-dependent toxicity of cross-fed nutrients | The ISME Journal | 11(2) 337–48 |
| 2017 | 10.1111/1758-2229.12523 | Larkin, A. A. and A. C. Martiny | Microdiversity shapes the traits, niche space, and biogeography of microbial taxa | Environmental Microbiology Reports | 9(2) 55–70 |
| 2017 | 10.1007/978-1-4939-6533-5_17 | Lao, J., A. M. Smith-Moritz, J. C. Mortimer and J. L. Heazlewood | Enrichment of the Plant Cytosolic Fraction | Isolation of Plant Organelles and Structures: Methods and Protocols | 1511 213–32 |
| 2017 | 10.1039/c6se00080k | Lam, C. H., S. Das, N. C. Erickson, C. D. Hyzer, M. Garedew, J. E. Anderson, T. J. Wallington, M. A. Tamor, J. E. Jackson and C. M. Saffron | Towards sustainable hydrocarbon fuels with biomass fast pyrolysis oil and electrocatalytic upgrading | Sustainable Energy and Fuels | 1(2) 258-266 |
| 2017 | 10.1007/978-1-4939-7136-7_4 | Lakshmanan, V., P. Ray and K. D. Craven | Toward a Resilient, Functional Microbiome: Drought Tolerance-Alleviating Microbes for Sustainable Agriculture | Plant Stress Tolerance: Methods and Protocols | 1631 69–84 |
| 2017 | 10.1007/978-1-4939-7136-7_23 | Lakshmanan, V., P. Ray and K. D. Craven | Rhizosphere Sampling Protocols for Microbiome (16S/18S/ITS rRNA) Library Preparation and Enrichment for the Isolation of Drought Tolerance-Promoting Microbes | Plant Stress Tolerance: Methods and Protocols | 1631 349–62 |
| 2017 | 10.1016/j.ymben.2017.03.011 | Lafontaine Rivera, J. G., M. K. Theisen, P. W. Chen and J. C. Liao | Kinetically accessible yield (KAY) for redirection of metabolism to produce exo-metabolites | Metabolic Engineering | 41 144–51 |
| 2017 | 10.1093/nar/gkx1268 | Labuhn, M., F. F. Adams, M. Ng, S. Knoess, A. Schambach, E. M. Charpentier, A. Schwarzer, J. L. Mateo, J.-H. Klusmann and D. Heckl | Refined sgRNA efficacy prediction improves large- and small-scale CRISPR–Cas9 applications | Nucleic Acids Research | 46(3) 1375–85 |
| 2017 | 10.1186/s13059-017-1217-z | Kuznetsov, G., D. B. Goodman, G. T. Filsinger, M. Landon, N. Rohland, J. Aach, M. J. Lajoie and G. M. Church | Optimizing complex phenotypes through model-guided multiplex genome engineering | Genome Biology | 18(1) 100 |
| 2017 | 10.1186/s13068-017-0925-7 | Kruer-Zerhusen, N., M. Alahuhta, V. V. Lunin, M. E. Himmel, Y. J. Bomble and D. B. Wilson | Structure of a Thermobifida fusca lytic polysaccharide monooxygenase and mutagenesis of key residues | Biotechnology for Biofuels | 10 243 |
| 2017 | 10.1038/ncomms15526 | Korman, T. P., P. H. Opgenorth and J. U. Bowie | A synthetic biochemistry platform for cell free production of monoterpenes from glucose | Nature Communications | 8 |
| 2017 | 10.1093/jxb/erx275 | Kong, Q., W. Ma, H. Yang, G. Ma, J. J. Mantyla and C. Benning | The Arabidopsis WRINKLED1 transcription factor affects auxin homeostasis in roots | Journal of Experimental Botany | 68(16) 4627-4634 |
| 2017 | 10.1021/acs.iecr.7b01689 | Kong, L., Y. Wu and C. T. Maravelias | Simultaneous utility and heat exchanger area targeting for integrated process synthesis and heat integration | Industrial and Engineering Chemistry Research | 56(41) 11847-11859 |
| 2017 | 10.1073/pnas.1619263114 | Kohler, A. C., M. J. L. Mills, P. D. Adams, B. A. Simmons and K. L. Sale | Structure of aryl O-demethylase offers molecular insight into a catalytic tyrosine-dependent mechanism | Proceedings of the National Academy of Sciences of the United States of America | 114(16) E3205–14 |
| 2017 | 10.1021/acs.est.6b04751 | King, A. J., S. P. Preheim, K. L. Bailey, M. S. Robeson, 2nd, T. Roy Chowdhury, et al. | Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation | Environmental Science & Technology | 51(5) 2879–89 |
| 2017 | 10.1186/s13068-017-0750-z | Kim, S. K., J. Groom, D. Chung, J. Elkins and J. Westpheling | Expression of a heat-stable NADPH-dependent alcohol dehydrogenase from Thermoanaerobacter pseudethanolicus 39E in Clostridium thermocellum 1313 results in increased hydroxymethylfurfural resistance | Biotechnology for Biofuels | 10 66 |
| 2017 | 10.1007/s10295-017-1982-4 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Heterologous expression of a β-D-glucosidase in Caldicellulosiruptor bescii has a surprisingly modest effect on the activity of the exoproteome and growth on crystalline cellulose | Journal of Industrial Microbiology and Biotechnology | 44(12) 1643–51 |
| 2017 | 10.1002/bit.26366 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | In vivo synergistic activity of a CAZyme cassette from Acidothermus cellulolyticus significantly improves the cellulolytic activity of the C. bescii exoproteome | Biotechnology and Bioengineering | 114(11) 2474–80 |
| 2017 | 10.1002/bit.26242 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Engineering the N-terminal end of CelA results in improved performance and growth of Caldicellulosiruptor bescii on crystalline cellulose | Biotechnology and Bioengineering | 114(5) 945–50 |
| 2017 | 10.1007/s00425-017-2687-7 | Kim, S. J., S. Zemelis-Durfee, C. Wilkerson and F. Brandizzi | In Brachypodium a complex signaling is actuated to protect cells from proteotoxic stress and facilitate seed filling | Planta | 246(1) 75-89 |
| 2017 | 10.1039/c6gc02473d | Kim, K. H., B. A. Simmons and S. Singh | Catalytic transfer hydrogenolysis of ionic liquid processed biorefinery lignin to phenolic compounds | Green Chemistry | 19(1) 215–24 |
| 2017 | 10.1021/acssuschemeng.6b03102 | Kim, K. H., T. Dutta, E. D. Walter, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Chemoselective Methylation of Phenolic Hydroxyl Group Prevents Quinone Methide Formation and Repolymerization During Lignin Depolymerization | ACS Sustainable Chemistry & Engineering | 5(5) 3913–9 |
| 2017 | 10.1186/s13068-017-0784-2 | Kim, K. H., T. Dutta, J. Ralph, S. D. Mansfield, B. A. Simmons and S. Singh | Impact of lignin polymer backbone esters on ionic liquid pretreatment of poplar | Biotechnology for Biofuels | 10 101 |
| 2017 | 10.1002/cssc.201601515 | Kim, K. H., R. C. Brown, T. Daugaard, W. F. Tivol, M. Auer, B. Simmons and S. Singh | Strategy for Extending the Stability of Bio-oil-Derived Phenolic Oligomers by Mild Hydrotreatment with Ionic-Liquid-Stabilized Nanoparticles | ChemSusChem | 10(5) 884–93 |
| 2017 | 10.1021/acs.biomac.7b01223 | Kim, H., D. Padmakshan, Y. Li, J. Rencoret, R. D. Hatfield and J. Ralph | Characterization and Elimination of Undesirable Protein Residues in Plant Cell Wall Materials for Enhancing Lignin Analysis by Solution-State Nuclear Magnetic Resonance Spectroscopy | Biomacromolecules | 18(12) 4184-4195 |
| 2017 | 10.1038/ncomms14406 | Kim, H., S. T. Kim, J. Ryu, B. C. Kang, J. S. Kim and S. G. Kim | CRISPR/Cpf1-mediated DNA-free plant genome editing | Nature Communications | 8 14406 |
| 2017 | 10.1016/j.ymben.2017.11.004 | Kim, E. M., H. M. Woo, T. Tian, S. Yilmaz, P. Javidpour, J. D. Keasling and T. S. Lee | Autonomous control of metabolic state by a quorum sensing (QS)-mediated regulator for bisabolene production in engineered E. coli | Metabolic Engineering | 44 325–36 |
| 2017 | 10.1016/j.jmbbm.2017.01.009 | Khandaker, M. S. K., D. M. Dudek, E. P. Beers and D. A. Dillard | Expression, crosslinking, and developing modulus master curves of recombinant resilin | Journal of the Mechanical Behavior of Biomedical Materials | 69 385–94 |
| 2017 | 10.1128/mBio.00857-17 | Kerkhoven, E. J., Y. M. Kim, S. Wei, C. D. Nicora, T. L. Fillmore, S. O. Purvine, B. J. Webb-Robertson, R. D. Smith, S. E. Baker, T. O. Metz and J. Nielsen | Leucine Biosynthesis Is Involved in Regulating High Lipid Accumulation in Yarrowia lipolytica | mBio | 8(3) |
| 2017 | 10.1017/S1431927617002380 | Kemner, K. M., M. Hereld, N. Scherer, A. Selewa, X. Wang, et al. | Integrated Dynamic 3D Imaging of Microbial Processes and Communities in Rhizosphere Environments: The Argonne Small Worlds Project | Microscopy and Microanalysis | 23(S1) 340-341 |
| 2017 | 10.1186/s13068-017-0848-3 | Kebrom, T. H., B. McKinley and J. E. Mullet | Dynamics of gene expression during development and expansion of vegetative stem internodes of bioenergy sorghum | Biotechnology for Biofuels | 10 159 |
| 2017 | 10.1104/pp.17.01172 | Karlen, S. D., R. A. Smith, H. Kim, D. Padmakshan, A. Bartuce, J. K. Mobley, H. C. A. Free, B. G. Smith, P. J. Harris and J. Ralph | Highly decorated lignins in leaf tissues of the canary island date palm phoenix canariensis | Plant Physiology | 175(3) 1058-1067 |
| 2017 | 10.1021/acs.nanolett.6b05077 | Kang, J. H., S. Wang, Z. Shi, W. Zhao, E. Yablonovitch and F. Wang | Goos-Hänchen Shift and Even-Odd Peak Oscillations in Edge-Reflections of Surface Polaritons in Atomically Thin Crystals | Nano Lett | 17(3) 1768-1774 |
| 2017 | 10.1016/j.ymben.2017.03.010 | Kang, A., C. W. Meadows, N. Canu, J. D. Keasling and T. S. Lee | High-throughput enzyme screening platform for the IPP-bypass mevalonate pathway for isopentenol production | Metabolic Engineering | 41 125–34 |
| 2017 | 10.1038/nmeth.4285 | Kalyaanamoorthy, S., B. Q. Minh, T. K. F. Wong, A. von Haeseler and L. S. Jermiin | ModelFinder: fast model selection for accurate phylogenetic estimates | Nature Methods | 14(6) 587–9 |
| 2017 | 10.1128/AEM.01253-17 | Justice, N. B., A. Sczesnak, T. C. Hazen and A. P. Arkin | Environmental Selection, Dispersal, and Organism Interactions Shape Community Assembly in High-Throughput Enrichment Culturing | Applied and Environmental Microbiology | 83(20) |
| 2017 | 10.1104/pp.17.00576 | Jun, S. Y., A. M. Walker, H. Kim, J. Ralph, W. Vermerris, S. E. Sattler and C. Kang | The enzyme activity and substrate specificity of two major cinnamyl alcohol dehydrogenases in Sorghum (Sorghum bicolor), SbCAD2 and SbCAD4 | Plant Physiology | 174(4) 2128-2145 |
| 2017 | 10.1186/s12859-017-1761-2 | Jun, S. R., I. Nookaew, L. Hauser and A. Gorin | Assessment of genome annotation using gene function similarity within the gene neighborhood | BMC Bioinformatics | 18(1) 345 |
| 2017 | 10.1007/978-1-4939-6658-5_7 | Joshi, T., J. Wang, H. Zhang, S. Chen, S. Zeng, B. Xu and D. Xu | The Evolution of Soybean Knowledge Base (SoyKB) | Plant Genomics Databases | 1533 149–59 |
| 2017 | 10.1104/pp.17.00731 | Joo, S., Y. Nishimura, E. Cronmiller, R. H. Hong, T. Kariyawasam, M. H. Wang, N. C. Shao, S. E. D. El Akkad, T. Suzuki, T. Higashiyama, E. Jin and J. H. Lee | Gene regulatory networks for the haploid-to-diploid transition of Chlamydomonas reinhardtii | Plant Physiology | 175(1) 314-332 |
| 2017 | 10.1111/gcbb.12473 | Jones, C. D., X. Zhang, A. D. Reddy, G. P. Robertson and R. C. Izaurralde | The greenhouse gas intensity and potential biofuel production capacity of maize stover harvest in the US Midwest | GCB Bioenergy | 9(10) 1543-1554 |
| 2017 | 10.1016/j.meteno.2017.05.002 | Johnson, C. W., P. E. Abraham, J. G. Linger, P. Khanna, R. L. Hettich and G. T. Beckham | Eliminating a global regulator of carbon catabolite repression enhances the conversion of aromatic lignin monomers to muconate in Pseudomonas putida KT2440 | Metabolic Engineering Communications | 5 19–25 |
| 2017 | 10.1002/pld3.26 | Johnson, C. R., R. J. Millwood, Z. Y. Wang and C. N. Stewart, Jr. | Light and temperature effects on miR156 transgenic switchgrass flowering: A simulated latitudinal study | Plant Direct | 1(5) e00026 |
| 2017 | 10.1186/s13068-017-0939-1 | Johnson, C. R., R. J. Millwood, Y. Tang, J. Gou, R. W. Sykes, G. B. Turner, M. F. Davis, Y. Sang, Z. Y. Wang and C. N. Stewart, Jr. | Field-grown miR156 transgenic switchgrass reproduction, yield, global gene expression analysis, and bioconfinement | Biotechnology for Biofuels | 10 255 |
| 2017 | 10.1186/s13068-017-0734-z | Johnson, A. M., H. Kim, J. Ralph and S. D. Mansfield | Natural acetylation impacts carbohydrate recovery during deconstruction of Populus trichocarpa wood | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1021/acs.jpcb.7b04519 | Jing, X., W. Evangelista Falcon, J. Baudry and E. H. Serpersu | Thermophilic Enzyme or Mesophilic Enzyme with Enhanced Thermostability: Can We Draw a Line? | Journal of Physical Chemistry B | 121(29) 7086–94 |
| 2017 | 10.3389/fpls.2017.00721 | Jin, X., C. Shi, C. Y. Yu, T. Yamada and E. J. Sacks | Determination of Leaf Water Content by Visible and Near-Infrared Spectrometry and Multivariate Calibration in Miscanthus | Frontiers in Plant Science | 8 721 |
| 2017 | 10.1371/journal.pone.0171360 | Jin, X., X. Chen, L. Xiao, C. Shi, L. Chen, B. Yu, Z. Yi, J. H. Yoo, K. Heo, C. Y. Yu, T. Yamada, E. J. Sacks and J. Peng | Application of visible and near-infrared spectroscopy to classification of Miscanthus species | PLoS One | 12(4) e0171360 |
| 2017 | 10.1016/j.biortech.2017.05.047 | Jin, X., X. Chen, C. Shi, M. Li, Y. Guan, C. Y. Yu, T. Yamada, E. J. Sacks and J. Peng | Determination of hemicellulose, cellulose and lignin content using visible and near infrared spectroscopy in Miscanthus sinensis | Bioresource Technology | 241 603–9 |
| 2017 | 10.1002/bit.26229 | Jin, M., C. Sarks, B. D. Bals, N. Posawatz, C. Gunawan, B. E. Dale and V. Balan | Toward high solids loading process for lignocellulosic biofuel production at a low cost | Biotechnology and Bioengineering | 114(5) 980-989 |
| 2017 | 10.1002/bit.26302 | Jin, M., Y. Liu, L. da Costa Sousa, B. E. Dale and V. Balan | Development of rapid bioconversion with integrated recycle technology for ethanol production from extractive ammonia pretreated corn stover | Biotechnology and Bioengineering | 114(8) 1713-1720 |
| 2017 | 10.3389/fmicb.2017.00040 | Jewell, T. N., U. Karaoz, M. Bill, R. Chakraborty, E. L. Brodie, K. H. Williams and H. R. Beller | Metatranscriptomic Analysis Reveals Unexpectedly Diverse Microbial Metabolism in a Biogeochemical Hot Spot in an Alluvial Aquifer | Frontiers in Microbiology | 8 40 |
| 2017 | 10.1016/j.celrep.2017.07.062 | Jensen, P. A., Z. Zhu and T. van Opijnen | Antibiotics Disrupt Coordination between Transcriptional and Phenotypic Stress Responses in Pathogenic Bacteria | Cell Reports | 20(7) 1705–16 |
| 2017 | 10.1038/s41598-017-12901-7 | Jensen, H. M., T. Eng, V. Chubukov, R. A. Herbert and A. Mukhopadhyay | Improving membrane protein expression and function using genomic edits | Scientific Reports | 7(1) 13030 |
| 2017 | 10.3389/fmicb.2017.02618 | Jenkins, S., T. L. Swenson, R. Lau, A. M. Rocha, A. Aaring, T. C. Hazen, R. Chakraborty and T. R. Northen | Construction of Viable Soil Defined Media Using Quantitative Metabolomics Analysis of Soil Metabolites | Frontiers in Microbiology | 8 2618 |
| 2017 | 10.2134/agronj2017.03.0129 | Jean, M., D. Pennington, M. Y. Quigley and K. D. Thelen | Improving biomass and ethanol yield by intercropping a winter cereal with corn | Agronomy Journal | 109(6) 2530-2536 |
| 2017 | 10.1016/j.ymben.2017.05.001 | Jazmin, L. J., Y. Xu, Y. E. Cheah, A. O. Adebiyi, C. H. Johnson and J. D. Young | Isotopically nonstationary 13C flux analysis of cyanobacterial isobutyraldehyde production | Metabolic Engineering | 42 9–18 |
| 2017 | 10.1111/pce.12879 | Jardine, K. J., A. B. Jardine, J. A. Holm, D. L. Lombardozzi, R. I. Negron-Juarez, S. T. Martin, H. R. Beller, B. O. Gimenez, N. Higuchi and J. Q. Chambers | Monoterpene 'thermometer' of tropical forest-atmosphere response to climate warming | Plant Cell & Environment | 40(3) 441–52 |
| 2017 | 10.3390/ijms18102045 | Jardine, K. J., V. Fernandes de Souza, P. Oikawa, N. Higuchi, M. Bill, R. Porras, U. Niinemets and J. Q. Chambers | Integration of C1 and C2 Metabolism in Trees | International Journal of Molecular Sciences | 18(10) |
| 2017 | 10.2135/cropsci2017.03.0193 | Jakubowski, A. R., R. D. Jackson and M. D. Casler | Can biomass yield of switchgrass be increased without increasing nitrogen requirements? | Crop Science | 57(4) 2024-2031 |
| 2017 | 10.2135/cropsci2017.04.0266 | Jakubowski, A. R., M. D. Casler and R. D. Jackson | Legume addition to perennial warm-season grass swards increases harvested biomass | Crop Science | 57(6) 3343-3351 |
| 2017 | 10.1002/pca.2672 | Jaini, R., P. Wang, N. Dudareva, C. Chapple and J. A. Morgan | Targeted Metabolomics of the Phenylpropanoid Pathway in Arabidopsis thaliana using Reversed Phase Liquid Chromatography Coupled with Tandem Mass Spectrometry | Phytochemical Analysis | 28(4) 267–76 |
| 2017 | 10.1371/journal.pone.0170164 | Jacobs, C., L. Lambourne, Y. Xia and D. Segrè | Upon accounting for the impact of isoenzyme loss, gene deletion costs anticorrelate with their evolutionary rates | PLoS ONE | 12(1) |
| 2017 | 10.1038/s41598-017-17049-y | Ievlev, A. V., A. Belianinov, S. Jesse, D. P. Allison, M. J. Doktycz, S. T. Retterer, S. V. Kalinin and O. S. Ovchinnikova | Automated Interpretation and Extraction of Topographic Information from Time of Flight Secondary Ion Mass Spectrometry Data | Scientific Reports | 7(1) 17099 |
| 2017 | 10.1063/1.4982818 | Huynh, T., M. K. Daddysman, Y. Bao, A. Selewa, A. Kuznetsov, L. H. Philipson and N. F. Scherer | Correlative imaging across microscopy platforms using the fast and accurate relocation of microscopic experimental regions (FARMER) method | Review of Scientific Instruments | 88(5) 053702 |
| 2017 | 10.1021/acs.analchem.7b02555 | Hurst, G. B., K. G. Asano, C. J. Doktycz, E. J. Consoli, W. L. Doktycz, C. M. Foster, J. L. Morrell-Falvey, R. F. Standaert and M. J. Doktycz | Proteomics-Based Tools for Evaluation of Cell-Free Protein Synthesis | Analytical Chemistry | 89(21) 11443–51 |
| 2017 | 10.1038/nplants.2017.54 | Huang, P., H. Jiang, C. Zhu, K. Barry, J. Jenkins, L. Sandor, J. Schmutz, M. S. Box, E. A. Kellogg and T. P. Brutnell | Sparse panicle1 is required for inflorescence development in Setaria viridis and maize | Nature Plants | 3 17054 |
| 2017 | 10.1007/978-3-319-45105-3_3 | Huang, P. and M. Feldman | Genetic Diversity and Geographic Distribution of North American Setaria viridis Populations | Genetics and Genomics of Setaria | 19 45–59 |
| 2017 | 10.1002/pld3.18 | Huang, H., M. A. Gehan, S. E. Huss, S. Alvarez, C. Lizarraga, E. L. Gruebbling, J. Gierer, M. J. Naldrett, R. K. Bindbeutel, B. S. Evans, T. C. Mockler and D. A. Nusinow | Cross-species complementation reveals conserved functions for Early Flowering 3 between monocots and dicots | Plant Direct | 1(4) e00018 |
| 2017 | 10.1038/nmeth.4260 | Huan, T., E. M. Forsberg, D. Rinehart, C. H. Johnson, J. Ivanisevic, et al. | Systems biology guided by XCMS Online metabolomics | Nature Methods | 14(5) 461–2 |
| 2017 | 10.1111/tpj.13582 | Hsia, M. M., R. O'Malley, A. Cartwright, R. Nieu, S. P. Gordon, et al. | Sequencing and functional validation of the JGI Brachypodium distachyon T-DNA collection | The Plant Journal | 91(3) 361–70 |
| 2017 | 10.1111/nph.14421 | Hossain, M. S., T. Kawakatsu, K. D. Kim, N. Zhang, C. T. Nguyen, et al. | Divergent cytosine DNA methylation patterns in single-cell, soybean root hairs | New Phytologist | 214(2) 808–19 |
| 2017 | 10.1016/j.ejsobi.2017.04.003 | Horton, D. J., M. W. Kershner and C. B. Blackwood | Suitability of PCR primers for characterizing invertebrate communities from soil and leaf litter targeting metazoan 18S ribosomal or cytochrorne oxidase I (COI) genes | European Journal of Soil Biology | 80 43–8 |
| 2017 | 10.1111/tpj.13743 | Hooper, C. M., T. J. Stevens, A. Saukkonen, I. R. Castleden, P. Singh, G. W. Mann, B. Fabre, J. Ito, M. J. Deery, K. S. Lilley, C. J. Petzold, A. H. Millar, J. L. Heazlewood and H. T. Parsons | Multiple marker abundance profiling: combining selected reaction monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples | The Plant Journal | 92(6) 1202–17 |
| 2017 | 10.1016/j.ymben.2017.06.011 | Hon, S., D. G. Olson, E. K. Holwerda, A. A. Lanahan, S. J. L. Murphy, M. I. Maloney, T. Zheng, B. Papanek, A. M. Guss and L. R. Lynd | The ethanol pathway from Thermoanaerobacterium saccharolyticum improves ethanol production in Clostridium thermocellum | Metabolic Engineering | 42 175–84 |
| 2017 | 10.1128/AEM.00223-17 | Holmes, D. E., P. M. Shrestha, D. J. F. Walker, Y. Dang, K. P. Nevin, T. L. Woodard and D. R. Lovley | Metatranscriptomic Evidence for Direct Interspecies Electron Transfer between Geobacter and Methanothrix Species in Methanogenic Rice Paddy Soils | Applied and Environmental Microbiology | 83(9) |
| 2017 | 10.1186/s13068-017-0974-y | Himmel, M. E., C. A. Abbas, J. O. Baker, E. A. Bayer, Y. J. Bomble, et al. | Undefined cellulase formulations hinder scientific reproducibility | Biotechnology for Biofuels | 10 283 |
| 2017 | 10.1016/j.algal.2017.01.010 | Hildebrand, M., K. Manandhar-Shrestha and R. Abbriano | Effects of chrysolaminarin synthase knockdown in the diatom Thalassiosira pseudonana: Implications of reduced carbohydrate storage relative to green algae | Algal Research | 23 66–77 |
| 2017 | 10.1016/j.bpj.2017.04.003 | Herrmann, J., F. Jabbarpour, P. G. Bargar, J. F. Nomellini, P. N. Li, T. J. Lane, T. M. Weiss, J. Smit, L. Shapiro and S. Wakatsuki | Environmental Calcium Controls Alternate Physical States of the Caulobacter Surface Layer | Biophys J | 112(9) 1841-1851 |
| 2017 | 10.1128/mBio.01739-16 | Herivaux, A., T. Duge de Bernonville, C. Roux, M. Clastre, V. Courdavault, A. Gastebois, J. P. Bouchara, T. Y. James, J. P. Latge, F. Martin and N. Papon | The Identification of Phytohormone Receptor Homologs in Early Diverging Fungi Suggests a Role for Plant Sensing in Land Colonization by Fungi | mBio | 8(1) |
| 2017 | 10.1186/s13068-017-0997-4 | Henske, J. K., S. P. Gilmore, D. Knop, F. J. Cunningham, J. A. Sexton, C. R. Smallwood, V. Shutthanandan, J. E. Evans, M. K. Theodorou and M. A. O'Malley | Transcriptomic characterization of Caecomyces churrovis: a novel, non-rhizoid-forming lignocellulolytic anaerobic fungus | Biotechnology for Biofuels | 10 305 |
| 2017 | 10.1093/infdis/jiw465 | Henry, C. S., E. Rotman, W. W. Lathem, K. E. Tyo, A. R. Hauser and M. J. Mandel | Generation and Validation of the iKp1289 Metabolic Model for Klebsiella pneumoniae KPPR1 | The Journal of Infectious Diseases | 215(Supplement 1) S37–43 |
| 2017 | 10.1039/c6lc01182a | Heinemann, J., K. Deng, S. C. Shih, J. Gao, P. D. Adams, A. K. Singh and T. R. Northen | On-chip integration of droplet microfluidics and nanostructure-initiator mass spectrometry for enzyme screening | Lab on a Chip | 17(2) 323–31 |
| 2017 | 10.3389/fmicb.2017.01072 | Heimerl, T., J. Flechsler, C. Pickl, V. Heinz, B. Salecker, et al. | A Complex Endomembrane System in the Archaeon Ignicoccus hospitalis Tapped by Nanoarchaeum equitans | Frontiers in Microbiology | 8 1072 |
| 2017 | 10.1007/7397_2016_17 | He, X. and A. T. Groover | The Genomics of Wood Formation in Angiosperm Trees | Comparative and Evolutionary Genomics of Angiosperm Trees | 21 205–25 |
| 2017 | 10.1016/j.ymben.2016.12.008 | He, L., Y. Xiu, J. A. Jones, E. E. K. Baidoo, J. D. Keasling, Y. J. Tang and M. A. G. Koffas | Deciphering flux adjustments of engineered E. coli cells during fermentation with changing growth conditions | Metabolic Engineering | 39 247–56 |
| 2017 | 10.1016/j.bbrc.2017.05.131 | He, H., J. Yan, X. Yu, Y. Liang, L. Fang, H. V. Scheller and A. Zhang | The NADPH-oxidase AtRbohI plays a positive role in drought-stress response in Arabidopsis thaliana | Biochemical and Biophysical Research Communications | 491(3) 834–9 |
| 2017 | 10.1371/journal.pone.0180808 | He, H., R. L. Weir, J. J. Toutounchian, J. Pagadala, J. J. Steinle, J. Baudry, D. D. Miller and C. R. Yates | The quinic acid derivative KZ-41 prevents glucose-induced caspase-3 activation in retinal endothelial cells through an IGF-1 receptor dependent mechanism | PLoS One | 12(8) e0180808 |
| 2017 | 10.1172/jci.insight.96783 | He, C., X. Hu, R. S. Jung, M. Larsson, Y. Tu, et al. | Lipoprotein lipase reaches the capillary lumen in chickens despite an apparent absence of GPIHBP1 | JCI Insight | 2(20) |
| 2017 | 10.1186/s13036-017-0048-5 | Hays, S. G., L. L. W. Yan, P. A. Silver and D. C. Ducat | Synthetic photosynthetic consortia define interactions leading to robustness and photoproduction | Journal of Biological Engineering | 11 4 |
| 2017 | 10.1128/IAI.00601-16 | Hasim, S., D. P. Allison, S. T. Retterer, A. Hopke, R. T. Wheeler, M. J. Doktycz and T. B. Reynolds | β-(1,3)-Glucan Unmasking in Some Candida albicans Mutants Correlates with Increases in Cell Wall Surface Roughness and Decreases in Cell Wall Elasticity | Infection and Immunity | 85(1) |
| 2017 | 10.1186/s13068-017-0962-2 | Harman-Ware, A. E., R. M. Happs, B. H. Davison and M. F. Davis | The effect of coumaryl alcohol incorporation on the structure and composition of lignin dehydrogenation polymers | Biotechnology for Biofuels | 10 281 |
| 2017 | 10.1016/j.phytochem.2017.02.022 | Hansen, N. L., J. N. Nissen and B. Hamberger | Two residues determine the product profile of the class II diterpene synthases TPS14 and TPS21 of Tripterygium wilfordii | Phytochemistry | 138 52-56 |
| 2017 | 10.1111/tpj.13410 | Hansen, N. L., A. M. Heskes, B. Hamberger, C. E. Olsen, B. M. Hallström, J. Andersen-Ranberg and B. Hamberger | The terpene synthase gene family in Tripterygium wilfordii harbors a labdane-type diterpene synthase among the monoterpene synthase TPS-b subfamily | Plant Journal | 89(3) 429-441 |
| 2017 | 10.1128/mSystems.00091-17 | Hamilton, J. J., S. L. Garcia, B. S. Brown, B. O. Oyserman, F. Moya-Flores, S. Bertilsson, R. R. Malmstrom, K. T. Forest and K. D. McMahon | Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI | mSystems | 2(4) |
| 2017 | 10.1038/nmicrobiol.2017.87 | Haitjema, C. H., S. P. Gilmore, J. K. Henske, K. V. Solomon, R. de Groot, et al. | A parts list for fungal cellulosomes revealed by comparative genomics | Nature Microbiology | 2 17087 |
| 2017 | 10.1093/femsyr/fox019 | Haase, M. A., J. Kominek, Q. K. Langdon, C. P. Kurtzman and C. T. Hittinger | Genome sequence and physiological analysis of Yamadazyma laniorum f.a. sp. nov. and a reevaluation of the apocryphal xylose fermentation of its sister species, Candida tenuis | FEMS Yeast Research | 17(3) |
| 2017 | 10.1186/s13068-017-0757-5 | Gunawan, C., S. Xue, S. Pattathil, L. da Costa Sousa, B. E. Dale and V. Balan | Comprehensive characterization of non-cellulosic recalcitrant cell wall carbohydrates in unhydrolyzed solids from AFEX-pretreated corn stover | Biotechnology for Biofuels | 10 82 |
| 2017 | 10.1111/nph.14101 | Grabowski, P. P., J. Evans, C. Daum, S. Deshpande, K. W. Barry, M. Kennedy, G. Ramstein, S. M. Kaeppler, C. R. Buell, Y. Jiang and M. D. Casler | Genome-wide associations with flowering time in switchgrass using exome-capture sequencing data | New Phytologist | 213(1) 154–69 |
| 2017 | 10.1111/nph.14758 | Gou, J., C. Fu, S. Liu, C. Tang, S. Debnath, A. Flanagan, Y. Ge, Y. Tang, Q. Jiang, P. R. Larson, J. Wen and Z. Y. Wang | The miR156-SPL4 module predominantly regulates aerial axillary bud formation and controls shoot architecture | New Phytologist | 216(3) 829–40 |
| 2017 | 10.1186/s13059-017-1223-1 | Goodman, D. B., G. Kuznetsov, M. J. Lajoie, B. W. Ahern, M. G. Napolitano, K. Y. Chen, C. Chen and G. M. Church | Millstone: software for multiplex microbial genome analysis and engineering | Genome Biology | 18(1) 101 |
| 2017 | 10.1105/tpc.17.00338 | Gonzales-Vigil, E., C. A. Hefer, M. E. Von Loessl, J. La Mantia and S. D. Mansfield | Exploiting natural variation to uncover an alkene biosynthetic enzyme in poplar | Plant Cell | 29(8) 2000-2015 |
| 2017 | 10.1371/journal.pone.0177189 | Gontang, E. A., F. O. Aylward, C. Carlos, T. G. Del Rio, M. Chovatia, A. Fern, C. C. Lo, S. A. Malfatti, S. G. Tringe, C. R. Currie and R. Kolter | Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach | PLoS ONE | 12(5) |
| 2017 | 10.1021/acsinfecdis.7b00003 | Goins, C. M., S. Dajnowicz, S. Thanna, S. J. Sucheck, J. M. Parks and D. R. Ronning | Exploring Covalent Allosteric Inhibition of Antigen 85C from Mycobacterium tuberculosis by Ebselen Derivatives | ACS Infectious Diseases | 3(5) 378–87 |
| 2017 | 10.1186/s13068-017-0971-1 | Gilna, P., L. R. Lynd, D. Mohnen, M. F. Davis and B. H. Davison | Progress in understanding and overcoming biomass recalcitrance: a BioEnergy Science Center (BESC) perspective | Biotechnology for Biofuels | 10 285 |
| 2017 | 10.1186/s12864-017-4036-4 | Gilmore, S. P., J. K. Henske, J. A. Sexton, K. V. Solomon, S. Seppälä, J. I. Yoo, L. M. Huyett, A. Pressman, J. Z. Cogan, V. Kivenson, X. Peng, Y. P. Tan, D. L. Valentine and M. A. O'Malley | Genomic analysis of methanogenic archaea reveals a shift towards energy conservation | BMC Genomics | 18(1) |
| 2017 | 10.1016/B978-0-323-35824-8.04001-9 | Gilbert, M. E. | Brydson's Plastics Materials (Eighth Edition) | Elsevier Science | |
| 2017 | 10.1103/PhysRevB.96.161110 | Gilbert Corder, S. N., J. Jiang, X. Chen, S. Kittiwatanakul, I. C. Tung, et al. | Controlling phase separation in vanadium dioxide thin films via substrate engineering | Physical Review B | 96(16) 161110 |
| 2017 | 10.1021/acscatal.6b02724 | Gerceker, D., A. H. Motagamwala, K. R. Rivera-Dones, J. B. Miller, G. W. Huber, M. Mavrikakis and J. A. Dumesic | Methane Conversion to Ethylene and Aromatics on PtSn Catalysts | ACS Catalysis | 7(3) 2088-2100 |
| 2017 | 10.7717/peerj.4088 | Gehan, M. A., N. Fahlgren, A. Abbasi, J. C. Berry, S. T. Callen, et al. | PlantCV v2: Image analysis software for high-throughput plant phenotyping | PeerJ | 5 e4088 |
| 2017 | 10.1371/journal.pbio.2004050 | Gasch, A. P., F. B. Yu, J. Hose, L. E. Escalante, M. Place, R. Bacher, J. Kanbar, D. Ciobanu, L. Sandor, I. V. Grigoriev, C. Kendziorski, S. R. Quake and M. N. McClean | Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress | PLoS Biology | 15(12) |
| 2017 | 10.1038/nbt.3718 | Garst, A. D., M. C. Bassalo, G. Pines, S. A. Lynch, A. L. Halweg-Edwards, R. Liu, L. Liang, Z. Wang, R. Zeitoun, W. G. Alexander and R. T. Gill | Genome-wide mapping of mutations at single-nucleotide resolution for protein, metabolic and genome engineering | Nature Biotechnology | 35(1) 48–55 |
| 2017 | 10.3389/fpls.2017.01364 | Gao, W., L. Long, X. Tian, F. Xu, J. Liu, P. K. Singh, J. R. Botella and C. Song | Genome Editing in Cotton with the CRISPR/Cas9 System | Frontiers in Plant Science | 8 1364 |
| 2017 | 10.1021/acs.analchem.7b00599 | Gao, J., K. B. Louie, P. Steinke, B. P. Bowen, M. Raad, R. N. Zuckermann, G. Siuzdak and T. R. Northen | Morphology-Driven Control of Metabolite Selectivity Using Nanostructure-Initiator Mass Spectrometry | Analytical Chemistry | 89(12) 6521–6 |
| 2017 | 10.1038/ncomms15459 | Gander, M. W., J. D. Vrana, W. E. Voje, J. M. Carothers and E. Klavins | Digital logic circuits in yeast with CRISPR-dCas9 NOR gates | Nature Communications | 8 15459 |
| 2017 | 10.1186/s13007-017-0172-8 | Gage, J. L., N. D. Miller, E. P. Spalding, S. M. Kaeppler and N. de Leon | TIPS: A system for automated image-based phenotyping of maize tassels | Plant Methods | 13(1) |
| 2017 | 10.1039/c7lc00576h | Gach, P. C., K. Iwai, P. W. Kim, N. J. Hillson and A. K. Singh | Droplet microfluidics for synthetic biology | Lab on a Chip | 17(20) 3388–400 |
| 2017 | 10.1021/jacs.7b06560 | Fukushima, T., S. Gupta, B. Rad, J. A. Cornejo, C. J. Petzold, L. J. G. Chan, R. A. Mizrahi, C. Y. Ralston and C. M. Ajo-Franklin | The Molecular Basis for Binding of an Electron Transfer Protein to a Metal Oxide Surface | Journal of the American Chemical Society | 139(36) 12647–54 |
| 2017 | 10.1086/692439 | Fukami, T., M. Nakajima, C. Fortunel, P. V. A. Fine, C. Baraloto, S. E. Russo and K. G. Peay | Geographical Variation in Community Divergence: Insights from Tropical Forest Monodominance by Ectomycorrhizal Trees | American Naturalist | 190(S1) S105–22 |
| 2017 | 10.1021/jacs.6b10727 | Fu, D., W. Yang and X. S. Xie | Label-free Imaging of Neurotransmitter Acetylcholine at Neuromuscular Junctions with Stimulated Raman Scattering | Journal of the American Chemical Society | 139(2) 583–6 |
| 2017 | 10.1128/AEM.03035-16 | Fritts, R. K., B. LaSarre, A. M. Stoner, A. L. Posto and J. B. McKinlay | A Rhizobiales-Specific Unipolar Polysaccharide Adhesin Contributes to Rhodopseudomonas palustris Biofilm Formation across Diverse Photoheterotrophic Conditions | Applied and Environmental Microbiology | 83(4) |
| 2017 | 10.1111/1462-2920.13706 | Freedman, A. J. E., B. Tan and J. R. Thompson | Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir | Environmental Microbiology | 19(6) 2228–45 |
| 2017 | 10.3390/molecules22060981 | Forman, V., R. Callari, C. Folly, H. Heider and B. R. Hamberger | Production of putative diterpene carboxylic acid intermediates of triptolide in yeast | Molecules | 22(6) |
| 2017 | 10.1111/nph.14279 | Fochi, V., W. Chitarra, A. Kohler, S. Voyron, V. R. Singan, E. A. Lindquist, K. W. Barry, M. Girlanda, I. V. Grigoriev, F. Martin, R. Balestrini and S. Perotto | Fungal and plant gene expression in the Tulasnella calospora-Serapias vomeracea symbiosis provides clues about nitrogen pathways in orchid mycorrhizas | New Phytologist | 213(1) 365–79 |
| 2017 | 10.1007/s00425-016-2644-x | Floyd, B. E., Y. Mugume, S. C. Morriss, G. C. MacIntosh and D. C. Bassham | Localization of RNS2 ribonuclease to the vacuole is required for its role in cellular homeostasis | Planta | 245(4) 779-792 |
| 2017 | 10.1016/j.cub.2017.03.003 | Floss, D. S., S. K. Gomez, H. J. Park, A. M. MacLean, L. M. Muller, K. K. Bhattarai, V. Levesque-Tremblay, I. E. Maldonado-Mendoza and M. J. Harrison | A Transcriptional Program for Arbuscule Degeneration during AM Symbiosis Is Regulated by MYB1 | Current Biology | 27(8) 1206–12 |
| 2017 | 10.1039/c7an00805h | Fincher, J. A., A. R. Korte, B. Reschke, N. J. Morris, M. J. Powell and A. Vertes | Enhanced sensitivity and metabolite coverage with remote laser ablation electrospray ionization-mass spectrometry aided by coaxial plume and gas dynamics | Analyst | 142(17) 3157-3164 |
| 2017 | 10.1016/j.jes.2016.10.005 | Fernandez-Bayo, J. D., J. Toniato, B. A. Simmons and C. W. Simmons | Structure and activity of thermophilic methanogenic microbial communities exposed to quaternary ammonium sanitizer | Journal of Environmental Sciences | 56 164–8 |
| 2017 | 10.1111/gcb.13755 | Feng, W., J. Liang, L. E. Hale, C. G. Jung, J. Chen, J. Zhou, M. Xu, M. Yuan, L. Wu, R. Bracho, E. Pegoraro, E. A. G. Schuur and Y. Luo | Enhanced decomposition of stable soil organic carbon and microbial catabolic potentials by long-term field warming | Global Change Biology | 23(11) 4765–76 |
| 2017 | 10.1371/journal.pgen.1006841 | Feldman, M. J., R. E. Paul, D. Banan, J. F. Barrett, J. Sebastian, M. C. Yee, H. Jiang, A. E. Lipka, T. P. Brutnell, J. R. Dinneny, A. D. B. Leakey and I. Baxter | Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria | PLoS Genetics | 13(6) e1006841 |
| 2017 | 10.1007/s10681-017-2068-0 | Felderhoff, T. J., J. W. Olmstead and W. Vermerris | A cost-benefit analysis to select the most effective method for positional cloning: genotyping by sequencing versus allele-specific PCR | Euphytica | 213(12) |
| 2017 | 10.3390/pr5040061 | Faraji, M. and E. O. Voit | Improving Bioenergy Crops through Dynamic Metabolic Modeling | Processes | 5(4) |
| 2017 | 10.1093/bioinformatics/btx126 | Faraji, M. and E. O. Voit | Stepwise inference of likely dynamic flux distributions from metabolic time series data | Bioinformatics | 33(14) 2165–72 |
| 2017 | 10.1016/j.mbs.2016.08.004 | Faraji, M. and E. O. Voit | Nonparametric dynamic modeling | Mathematical Biosciences | 287 130–46 |
| 2017 | 10.1038/s41598-017-00234-4 | Farahi, R. H., A. M. Charrier, A. Tolbert, A. L. Lereu, A. Ragauskas, B. H. Davison and A. Passian | Plasticity, elasticity, and adhesion energy of plant cell walls: nanometrology of lignin loss using atomic force microscopy | Scientific Reports | 7(1) 152 |
| 2017 | 10.1073/pnas.1702581114 | Fang, X., A. Sastry, N. Mih, D. Kim, J. Tan, J. T. Yurkovich, C. J. Lloyd, Y. Gao, L. Yang and B. O. Palsson | Global transcriptional regulatory network for Escherichia coli robustly connects gene expression to transcription factor activities | Proceedings of the National Academy of Sciences of the United States of America | 114(38) 10286–91 |
| 2017 | 10.1038/nchem.2673 | Fallas, J. A., G. Ueda, W. Sheffler, V. Nguyen, D. E. McNamara, B. Sankaran, J. H. Pereira, F. Parmeggiani, T. J. Brunette, D. Cascio, T. R. Yeates, P. Zwart and D. Baker | Computational design of self-assembling cyclic protein homo-oligomers | Nature Chemistry | 9(4) 353-360 |
| 2017 | 10.1002/ece3.3466 | Fahrenkrog, A. M., L. G. Neves, M. F. R. Resende, Jr., C. Dervinis, R. Davenport, W. B. Barbazuk and M. Kirst | Population genomics of the eastern cottonwood (Populus deltoides) | Ecology and Evolution | 7(22) 9426–40 |
| 2017 | 10.1111/nph.14154 | Fahrenkrog, A. M., L. G. Neves, M. F. Resende, Jr., A. I. Vazquez, G. de Los Campos, C. Dervinis, R. Sykes, M. Davis, R. Davenport, W. B. Barbazuk and M. Kirst | Genome-wide association study reveals putative regulators of bioenergy traits in Populus deltoides | New Phytologist | 213(2) 799–811 |
| 2017 | 10.1038/nature21056 | Esteva, A., B. Kuprel, R. A. Novoa, J. Ko, S. M. Swetter, H. M. Blau and S. Thrun | Dermatologist-level classification of skin cancer with deep neural networks | Nature | 542(7639) 115–8 |
| 2017 | 10.1186/s12859-017-1478-2 | Erbilgin, O., B. P. Bowen, S. M. Kosina, S. Jenkins, R. K. Lau and T. R. Northen | Dynamic substrate preferences predict metabolic properties of a simple microbial consortium | BMC Bioinformatics | 18(1) 57 |
| 2017 | 10.1104/pp.16.01108 | Eloy, N. B., W. Voorend, W. Lan, M. L. S. Saleme, I. Cesarino, R. Vanholme, R. A. Smith, G. Goeminne, A. Pallidis, K. Morreel, J. Nicomedes, J. Ralph and W. Boerjan | Silencing CHALCONE SYNTHASE in maize impedes the incorporation of tricin into lignin and increases lignin content | Plant Physiology | 173(2) 998-1016 |
| 2017 | 10.1093/jxb/erx185 | Ellsworth, P. Z., P. V. Ellsworth and A. B. Cousins | Relationship of leaf oxygen and carbon isotopic composition with transpiration efficiency in the C4 grasses Setaria viridis and Setaria italica | Journal of Experimental Botany | 68(13) 3513–28 |
| 2017 | 10.3389/fmicb.2017.01657 | Edwards, J. E., R. J. Forster, T. M. Callaghan, V. Dollhofer, S. S. Dagar, et al. | PCR and Omics Based Techniques to Study the Diversity, Ecology and Biology of Anaerobic Fungi: Insights, Challenges and Opportunities | Frontiers in Microbiology | 8 1657 |
| 2017 | 10.1021/acssuschemeng.7b02123 | Dutta, T., N. G. Isern, J. Sun, E. Wang, S. Hull, J. R. Cort, B. A. Simmons and S. Singh | Survey of Lignin-Structure Changes and Depolymerization during Ionic Liquid Pretreatment | ACS Sustainable Chemistry & Engineering | 5(11) 10116–27 |
| 2017 | 10.1039/c7gc00346c | Dumitrache, A., A. Tolbert, J. Natzke, S. D. Brown, B. H. Davison and A. J. Ragauskas | Cellulose and lignin colocalization at the plant cell wall surface limits microbial hydrolysis of Populus biomass | Green Chemistry | 19(9) 2275–85 |
| 2017 | 10.1111/pbi.12666 | Dumitrache, A., J. Natzke, M. Rodriguez, Jr., K. L. Yee, O. A. Thompson, et al. | Transgenic switchgrass (Panicum virgatum L.) targeted for reduced recalcitrance to bioconversion: a 2-year comparative analysis of field-grown lines modified for target gene or genetic element expression | Plant Biotechnology Journal | 15(6) 688–97 |
| 2017 | 10.1038/srep43583 | Dumitrache, A., D. M. Klingeman, J. Natzke, M. Rodriguez, Jr., R. J. Giannone, R. L. Hettich, B. H. Davison and S. D. Brown | Specialized activities and expression differences for Clostridium thermocellum biofilm and planktonic cells | Scientific Reports | 7 43583 |
| 2017 | 10.1111/tpj.13422 | Dueñas, M. E., A. T. Klein, L. E. Alexander, M. D. Yandeau-Nelson, B. J. Nikolau and Y. J. Lee | High spatial resolution mass spectrometry imaging reveals the genetically programmed, developmental modification of the distribution of thylakoid membrane lipids among individual cells of maize leaf | The Plant Journal | 89(4) 825-838 |
| 2017 | 10.1371/journal.pone.0174345 | Douglas, S. M., L. M. Chubiz, W. R. Harcombe and C. J. Marx | Identification of the potentiating mutations and synergistic epistasis that enabled the evolution of inter-species cooperation | PLoS One | 12(5) e0174345 |
| 2017 | 10.2136/vzj2017.06.0125 | Doro, L., C. Jones, J. R. Williams, M. L. Norfleet, R. C. Izaurralde, X. Wang and J. Jeong | The variable saturation hydraulic conductivity method for improving soil water content simulation in EPIC and APEX models | Vadose Zone Journal | 16(13) 45671 |
| 2017 | 10.1111/1462-2920.13670 | Dore, J., A. Kohler, A. Dubost, H. Hundley, V. Singan, Y. Peng, A. Kuo, I. V. Grigoriev, F. Martin, R. Marmeisse and G. Gay | The ectomycorrhizal basidiomycete Hebeloma cylindrosporum undergoes early waves of transcriptional reprogramming prior to symbiotic structures differentiation | Environmental Microbiology | 19(3) 1338–54 |
| 2017 | 10.1099/ijsem.0.002202 | Dobritsa, A. P., E. V. Linardopoulou and M. Samadpour | Transfer of 13 species of the genus Burkholderia to the genus Caballeronia and reclassification of Burkholderia jirisanensis as Paraburkholderia jirisanensis comb. nov | International Journal of Systematic and Evolutionary Microbiology | 67(10) 3846–53 |
| 2017 | 10.1073/pnas.1700764114 | Diner, R. E., C. M. Noddings, N. C. Lian, A. K. Kang, J. B. McQuaid, et al. | Diatom centromeres suggest a mechanism for nuclear DNA acquisition | Proceedings of the National Academy of Sciences of the United States of America | 114(29) E6015–24 |
| 2017 | 10.1201/9781315119496 | Dighton, J. and J. F. White | The Fungal Community: Its Organization and Role in the Ecosystem (Fourth Edition) | CRC Press | |
| 2017 | 10.1002/2016ms000817 | Deng, J., C. K. McCalley, S. Frolking, J. Chanton, P. Crill, R. Varner, G. Tyson, V. Rich, M. Hines, S. R. Saleska and C. S. Li | Adding stable carbon isotopes improves model representation of the role of microbial communities in peatland methane cycling | Journal of Advances in Modeling Earth Systems | 9(2) 1412–30 |
| 2017 | 10.1021/acssynbio.7b00192 | DeLorenzo, D. M., W. R. Henson and T. S. Moon | Development of Chemical and Metabolite Sensors for Rhodococcus opacus PD630 | ACS Synthetic Biology | 6(10) 1973–8 |
| 2017 | 10.1104/pp.17.00362 | del Río, J. C., J. Rencoret, A. Gutiérrez, H. Kim and R. John | Hydroxystilbenes are monomers in palm fruit endocarp lignins | Plant Physiology | 174(4) 2072-2082 |
| 2017 | 10.1016/j.ymben.2017.03.002 | Degreif, D., T. de Rond, A. Bertl, J. D. Keasling and I. Budin | Lipid engineering reveals regulatory roles for membrane fluidity in yeast flocculation and oxygen-limited growth | Metabolic Engineering | 41 46–56 |
| 2017 | 10.1111/gcbb.12407 | DeBruyn, J. M., D. A. Bevard, M. E. Essington, J. Y. McKnight, S. M. Schaeffer, H. L. Baxter, M. Mazarei, D. G. J. Mann, R. A. Dixon, F. Chen, C. Zhuo, Z.-Y. Wang and C. N. Stewart | Field-grown transgenic switchgrass (Panicum virgatum L.) with altered lignin does not affect soil chemistry, microbiology, and carbon storage potential | GCB Bioenergy | 9(6) 1100–9 |
| 2017 | 10.1038/nchembio.2471 | de Rond, T., P. Stow, I. Eigl, R. E. Johnson, L. J. G. Chan, G. Goyal, E. E. K. Baidoo, N. J. Hillson, C. J. Petzold, R. Sarpong and J. D. Keasling | Oxidative cyclization of prodigiosin by an alkylglycerol monooxygenase-like enzyme | Nature Chemical Biology | 13(11) 1155–7 |
| 2017 | 10.1104/pp.17.01462 | De Meester, B., L. de Vries, M. Özparpucu, N. Gierlinger, S. Corneillie, A. Pallidis, G. Goeminne, K. Morreel, M. De Bruyne, R. De Rycke, R. Vanholme and W. Boerjan | Vessel-Specific Reintroduction of CINNAMOYL-COA REDUCTASE1 (CCR1) in Dwarfed ccr1 Mutants Restores Vessel and Xylary Fiber Integrity and Increases Biomass | Plant Physiology | 176(1) 611–33 |
| 2017 | 10.1038/nmeth.4178 | De La Cruz, M. J., J. Hattne, D. Shi, P. Seidler, J. Rodriguez, et al. | Atomic-resolution structures from fragmented protein crystals with the cryoEMEM method MicroEDED | Nature Methods | 14(4) 399-402 |
| 2017 | 10.12688/f1000research.11773.2 | Day, K. J., P. J. La Riviere, T. Chandler, V. P. Bindokas, N. J. Ferrier and B. S. Glick | Improved deconvolution of very weak confocal signals | F1000Res | 6 787 |
| 2017 | 10.1016/j.protis.2016.10.005 | Davis, A., R. Abbriano, S. R. Smith and M. Hildebrand | Clarification of Photorespiratory Processes and the Role of Malic Enzyme in Diatoms | Protist | 168(1) 134–53 |
| 2017 | 10.1186/s13068-017-0792-2 | Dash, S., A. Khodayari, J. Zhou, E. K. Holwerda, D. G. Olson, L. R. Lynd and C. D. Maranas | Development of a core Clostridium thermocellum kinetic metabolic model consistent with multiple genetic perturbations | Biotechnology for Biofuels | 10 108 |
| 2017 | 10.1111/tpj.13413 | Dash, M., Y. S. Yordanov, T. Georgieva, T. J. Tschaplinski, E. Yordanova and V. Busov | Poplar PtabZIP1-like enhances lateral root formation and biomass growth under drought stress | The Plant Journal | 89(4) 692–705 |
| 2017 | 10.1186/s13068-017-0700-9 | Daly, P., J. M. van Munster, M. J. Blythe, R. Ibbett, M. Kokolski, et al. | Expression of Aspergillus niger CAZymes is determined by compositional changes in wheat straw generated by hydrothermal or ionic liquid pretreatments | Biotechnology for Biofuels | 10 35 |
| 2017 | 10.1039/c7ob02605f | Dallabernardina, P., C. Ruprecht, P. J. Smith, M. G. Hahn, B. R. Urbanowicz and F. Pfrengle | Automated glycan assembly of galactosylated xyloglucan oligosaccharides and their recognition by plant cell wall glycan-directed antibodies | Organic & Biomolecular Chemistry | 15(47) 9996–10000 |
| 2017 | 10.1016/j.vaccine.2016.11.065 | Dale, J. B., P. R. Smeesters, H. S. Courtney, T. A. Penfound, C. M. Hohn, J. C. Smith and J. Y. Baudry | Structure-based design of broadly protective group a streptococcal M protein-based vaccines | Vaccine | 35(1) 19–26 |
| 2017 | 10.1074/jbc.M116.774588 | Dajnowicz, S., J. M. Parks, X. Hu, K. Gesler, A. Y. Kovalevsky and T. C. Mueser | Direct evidence that an extended hydrogen-bonding network influences activation of pyridoxal 5'-phosphate in aspartate aminotransferase | Journal of Biological Chemistry | 292(14) 5970–80 |
| 2017 | 10.1186/s12864-017-4114-7 | Daguerre, Y., E. Levati, J. Ruytinx, E. Tisserant, E. Morin, A. Kohler, B. Montanini, S. Ottonello, A. Brun, C. Veneault-Fourrey and F. Martin | Regulatory networks underlying mycorrhizal development delineated by genome-wide expression profiling and functional analysis of the transcription factor repertoire of the plant symbiotic fungus Laccaria bicolor | BMC Genomics | 18(1) 737 |
| 2017 | 10.1111/nph.14306 | da Costa, R. M., S. Pattathil, U. Avci, S. J. Lee, S. P. Hazen, A. Winters, M. G. Hahn and M. Bosch | A cell wall reference profile for Miscanthus bioenergy crops highlights compositional and structural variations associated with development and organ origin | New Phytologist | 213(4) 1710–25 |
| 2017 | 10.1093/femsyr/fox076 | D'Ambrosio, V. and M. K. Jensen | Lighting up yeast cell factories by transcription factor-based biosensors | FEMS Yeast Research | 17(7) |
| 2017 | 10.1371/journal.pone.0172135 | Cuvelier, M. L., J. Guo, A. C. Ortiz, M. J. van Baren, M. A. Tariq, F. Partensky and A. Z. Worden | Responses of the picoprasinophyte Micromonas commoda to light and ultraviolet stress | PLoS One | 12(3) e0172135 |
| 2017 | 10.1186/s13068-017-0870-5 | Crowe, J. D., N. Feringa, S. Pattathil, B. Merritt, C. Foster, D. Dines, R. G. Ong and D. B. Hodge | Identification of developmental stage and anatomical fraction contributions to cell wall recalcitrance in switchgrass | Biotechnology for Biofuels | 10(1) |
| 2017 | 10.1007/s12155-016-9774-7 | Cronin, K. R., T. M. Runge, X. Zhang, R. C. Izaurralde, D. J. Reinemann and J. C. Sinistore | Spatially explicit life cycle analysis of cellulosic ethanol production scenarios in southwestern michigan | Bioenergy Research | 10(1) 13-25 |
| 2017 | 10.1128/genomeA.00653-17 | Crofts, T. S., B. Wang, A. Spivak, T. A. Gianoulis, K. J. Forsberg, M. K. Gibson, L. A. Johnsky, S. M. Broomall, C. N. Rosenzweig, E. W. Skowronski, H. S. Gibbons, M. O. A. Sommer and G. Dantas | Draft Genome Sequences of Three β-Lactam-Catabolizing Soil Proteobacteria | Genome Announcements | 5(32) |
| 2017 | 10.1002/wsbm.1377 | Counts, J. A., B. M. Zeldes, L. L. Lee, C. T. Straub, M. W. W. Adams and R. M. Kelly | Physiological, metabolic and biotechnological features of extremely thermophilic microorganisms | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 9(3) |
| 2017 | 10.1088/1361-648X/aa4e68 | Cortini, R., X. Cheng and J. C. Smith | The tilt-dependent potential of mean force of a pair of DNA oligomers from all-atom molecular dynamics simulations | Journal of Physics: Condensed Matter | 29(8) 084002 |
| 2017 | 10.1128/AEM.01828-17 | Conway, J. M., B. S. McKinley, N. L. Seals, D. Hernandez, P. A. Khatibi, S. Poudel, R. J. Giannone, R. L. Hettich, A. M. Williams-Rhaesa, G. L. Lipscomb, M. W. W. Adams and R. M. Kelly | Functional Analysis of the Glucan Degradation Locus in Caldicellulosiruptor bescii Reveals Essential Roles of Component Glycoside Hydrolases in Plant Biomass Deconstruction | Applied and Environmental Microbiology | 83(24) |
| 2017 | 10.1016/j.meteno.2017.07.002 | Comer, A. D., M. R. Long, J. L. Reed and B. F. Pfleger | Flux Balance Analysis Indicates that Methane Is the Lowest Cost Feedstock for Microbial Cell Factories | Metabolic Engineering Communications | 5 26–33 |
| 2017 | 10.1371/journal.pbio.2002860 | Cole, B. J., M. E. Feltcher, R. J. Waters, K. M. Wetmore, T. S. Mucyn, E. M. Ryan, G. Wang, S. Ul-Hasan, M. McDonald, Y. Yoshikuni, R. R. Malmstrom, A. M. Deutschbauer, J. L. Dangl and A. Visel | Genome-wide identification of bacterial plant colonization genes | PLoS Biology | 15(9) e2002860 |
| 2017 | 10.1016/j.chroma.2017.02.028 | Cocuron, J. C., E. Tsogtbaatar and A. P. Alonso | High-throughput quantification of the levels and labeling abundance of free amino acids by liquid chromatography tandem mass spectrometry | Journal of Chromatography A | 1490 148–55 |
| 2017 | 10.1111/1755-0998.12639 | Clark, L. V. and A. D. Schreier | Resolving microsatellite genotype ambiguity in populations of allopolyploid and diploidized autopolyploid organisms using negative correlations between allelic variables | Molecular Ecology Resources | 17(5) 1090–103 |
| 2017 | 10.1016/j.jaridenv.2017.03.005 | Chung, Y. A., R. L. Sinsabaugh, C. R. Kuske, S. C. Reed and J. A. Rudgers | Spatial variation in edaphic characteristics is a stronger control than nitrogen inputs in regulating soil microbial effects on a desert grass | Journal of Arid Environments | 142 59–65 |
| 2017 | 10.1038/npjsba.2016.35 | Chubukov, V., J. J. Desmarais, G. Wang, L. J. G. Chan, E. E. Baidoo, C. J. Petzold, J. D. Keasling and A. Mukhopadhyay | Engineering glucose metabolism of Escherichia coli under nitrogen starvation | npj Systems Biology and Applications | 3 16035 |
| 2017 | 10.1128/JB.00827-16 | Chubiz, L. M. and C. J. Marx | Growth Trade-Offs Accompany the Emergence of Glycolytic Metabolism in Shewanella oneidensis MR-1 | Journal of Bacteriology | 199(11) |
| 2017 | 10.1128/mBio.02045-16 | Chu, N. D., S. A. Clarke, S. Timberlake, M. F. Polz, A. D. Grossman and E. J. Alm | A Mobile Element in mutS Drives Hypermutation in a Marine Vibrio | mBio | 8(1) |
| 2017 | 10.1128/AEM.03034-16 | Christensen, D. G., J. S. Orr, C. V. Rao and A. J. Wolfe | Increasing Growth Yield and Decreasing Acetylation in Escherichia coli by Optimizing the Carbon-to-Magnesium Ratio in Peptide-Based Media | Applied and Environmental Microbiology | 83(6) |
| 2017 | 10.1371/journal.pone.0178650 | Chowdhary, J., F. E. Loffler and J. C. Smith | Community detection in sequence similarity networks based on attribute clustering | PLoS One | 12(7) e0178650 |
| 2017 | 10.1016/B978-0-12-803725-6.00010-8 | Chow, N. and J. D. Wu | The Cellulosome: A supramolecular assembly of microbial biomass-degrading enzymes | Biotechnology of Microbial Enzymes: Production, Biocatalysis and Industrial Applications | 243–66 |
| 2017 | 10.1371/journal.pone.0176085 | Choi, J., A. Rajagopal, Y. F. Xu, J. D. Rabinowitz and E. K. O'Shea | A systematic genetic screen for genes involved in sensing inorganic phosphate availability in Saccharomyces cerevisiae | PLoS One | 12(5) e0176085 |
| 2017 | 10.1186/s13068-017-0849-2 | Choi, J., D. M. Klingeman, S. D. Brown and C. D. Cox | The LacI family protein GlyR3 co-regulates the celC operon and manB in Clostridium thermocellum | Biotechnology for Biofuels | 10 163 |
| 2017 | 10.1038/ismej.2017.48 | Cheng, L., N. Zhang, M. Yuan, J. Xiao, Y. Qin, et al. | Warming enhances old organic carbon decomposition through altering functional microbial communities | The ISME Journal | 11(8) 1825–35 |
| 2017 | 10.1038/srep43925 | Chen, X., W. C. Chou, Q. Ma and Y. Xu | SeqTU: A Web Server for Identification of Bacterial Transcription Units | Scientific Reports | 7 43925 |
| 2017 | 10.1186/s40793-017-0233-7 | Chakraborty, R., H. Woo, P. Dehal, R. Walker, M. Zemla, M. Auer, L. A. Goodwin, A. Kazakov, P. Novichkov, A. P. Arkin and T. C. Hazen | Complete genome sequence of Pseudomonas stutzeri strain RCH2 isolated from a Hexavalent Chromium [Cr(VI)] contaminated site | Standards in Genomic Sciences | 12 23 |
| 2017 | 10.1038/ismej.2017.165 | Chafee, M., A. Fernàndez-Guerra, P. L. Buttigieg, G. Gerdts, A. M. Eren, H. Teeling and R. I. Amann | Recurrent patterns of microdiversity in a temperate coastal marine environment | The ISME Journal | 12(1) 237-252 |
| 2017 | 10.1105/tpc.16.00922 | Čermák, T., S. J. Curtin, J. Gil-Humanes, R. Čegan, T. J. Y. Kono, E. Konečná, J. J. Belanto, C. G. Starker, J. W. Mathre, R. L. Greenstein and D. F. Voytas | A multipurpose toolkit to enable advanced genome engineering in plants | Plant Cell | 29(6) 1196-1217 |
| 2017 | 10.1093/jxb/erx197 | Caspari, O. D., M. T. Meyer, D. Tolleter, T. M. Wittkopp, N. J. Cunniffe, T. Lawson, A. R. Grossman and H. Griffiths | Pyrenoid loss in Chlamydomonas reinhardtii causes limitations in CO2 supply, but not thylakoid operating efficiency | Journal of Experimental Botany | 68(14) 3903-3913 |
| 2017 | 10.1093/gbe/evx174 | Carlson, C. H., Y. Choi, A. P. Chan, M. J. Serapiglia, C. D. Town and L. B. Smart | Dominance and Sexual Dimorphism Pervade the Salix purpurea L. Transcriptome | Genome Biology and Evolution | 9(9) 2377–94 |
| 2017 | 10.1038/srep44150 | Cao, H., D. Wei, Y. Yang, Y. Shang, G. Li, Y. Zhou, Q. Ma and Y. Xu | Systems-level understanding of ethanol-induced stresses and adaptation in E. coli | Scientific Reports | 7 44150 |
| 2017 | 10.1016/j.tibtech.2017.08.011 | Campbell, K., J. Xia and J. Nielsen | The Impact of Systems Biology on Bioprocessing | Trends in Biotechnology | 35(12) 1156–68 |
| 2017 | 10.1128/mSystems.00015-17 | Burger, B. T., S. Imam, M. J. Scarborough, D. R. Noguera and T. J. Donohue | Combining genome-scale experimental and computational methods to identify essential genes in Rhodobacter sphaeroides | mSystems | 2(3) |
| 2017 | 10.1007/7397_2016_30 | Brunner, A. M., E. Varkonyi-Gasic and R. C. Jones | Phase Change And Phenology In Trees | Comparative and Evolutionary Genomics of Angiosperm Trees | 21 227–74 |
| 2017 | 10.1038/s41598-017-08985-w | Brunecky, R., B. S. Donohoe, J. M. Yarbrough, A. Mittal, B. R. Scott, H. Ding, L. E. Taylor Ii, J. F. Russell, D. Chung, J. Westpheling, S. A. Teter, M. E. Himmel and Y. J. Bomble | The Multi Domain Caldicellulosiruptor bescii CelA Cellulase Excels at the Hydrolysis of Crystalline Cellulose | Scientific Reports | 7(1) 9622 |
| 2017 | 10.1186/s13068-017-0951-5 | Brunecky, R., M. Alahuhta, D. W. Sammond, Q. Xu, M. Chen, D. B. Wilson, J. W. Brady, M. E. Himmel, Y. J. Bomble and V. V. Lunin | Natural diversity of glycoside hydrolase family 48 exoglucanases: insights from structure | Biotechnology for Biofuels | 10 274 |
| 2017 | 10.1021/acs.est.6b04591 | Breunig, H. M., L. Jin, A. Robinson and C. D. Scown | Bioenergy Potential from Food Waste in California | Environmental Science & Technology | 51(3) 1120–8 |
| 2017 | 10.1186/s13068-016-0687-7 | Bredeweg, E. L., K. R. Pomraning, Z. Dai, J. Nielsen, E. J. Kerkhoven and S. E. Baker | A molecular genetic toolbox for Yarrowia lipolytica | Biotechnology for Biofuels | 10 2 |
| 2017 | 10.1073/pnas.1703088114 | Brawley, S. H., N. A. Blouin, E. Ficko-Blean, G. L. Wheeler, M. Lohr, et al. | Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta) | Proceedings of the National Academy of Sciences of the United States of America | 114(31) E6361–70 |
| 2017 | 10.1105/tpc.17.00301 | Boxall, S. F., L. V. Dever, J. Knerová, P. D. Gould and J. Hartwell | Phosphorylation of phosphoenolpyruvate carboxylase is essential for maximal and sustained dark CO2 fixation and core circadian clock operation in the obligate crassulacean acid metabolism species Kalanchoë fedtschenkoi | Plant Cell | 29(10) 2519-2536 |
| 2017 | 10.1038/srep46249 | Bordbar, A., J. T. Yurkovich, G. Paglia, O. Rolfsson, O. E. Sigurjonsson and B. O. Palsson | Elucidating dynamic metabolic physiology through network integration of quantitative time-course metabolomics | Scientific Reports | 7 46249 |
| 2017 | 10.1080/00275514.2016.1271689 | Bonito, G., K. Hameed, M. Toome-Heller, R. Healy, C. Reid, H. L. Liao, M. C. Aime, C. Schadt and R. Vilgalys | Atractiella rhizophila, sp. nov., an endorrhizal fungus isolated from the Populus root microbiome | Mycologia | 109(1) 18–26 |
| 2017 | 10.1016/j.cbpa.2017.10.013 | Bomble, Y. J., C. Y. Lin, A. Amore, H. Wei, E. K. Holwerda, P. N. Ciesielski, B. S. Donohoe, S. R. Decker, L. R. Lynd and M. E. Himmel | Lignocellulose deconstruction in the biosphere | Current Opinion in Chemical Biology | 41 61–70 |
| 2017 | 10.1038/ismej.2016.89 | Bolduc, B., K. Youens-Clark, S. Roux, B. L. Hurwitz and M. B. Sullivan | iVirus: facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure | The ISME Journal | 11(1) 7–14 |
| 2017 | 10.7717/peerj.3243 | Bolduc, B., H. B. Jang, G. Doulcier, Z. Q. You, S. Roux and M. B. Sullivan | vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria | PeerJ | 5 e3243 |
| 2017 | 10.1111/1751-7915.12494 | Blumer-Schuette, S. E., J. V. Zurawski, J. M. Conway, P. Khatibi, D. L. Lewis, Q. Li, V. L. Chiang and R. M. Kelly | Caldicellulosiruptor saccharolyticus transcriptomes reveal consequences of chemical pretreatment and genetic modification of lignocellulose | Microbial Biotechnology | 10(6) 1546–57 |
| 2017 | 10.1038/nature24627 | Blees, A., D. Januliene, T. Hofmann, N. Koller, C. Schmidt, S. Trowitzsch, A. Moeller and R. Tampe | Structure of the human MHC-I peptide-loading complex | Nature | 551(7681) 525–8 |
| 2017 | 10.1128/microbiolspec.FUNK-0081-2016 | Blackwell, M. | Made for Each Other: Ascomycete Yeasts and Insects | Microbiology Spectrum | 5(3) |
| 2017 | 10.1016/j.pbi.2017.06.005 | Blaby-Haas, C. E. and S. S. Merchant | Regulating cellular trace metal economy in algae | Current Opinion in Plant Biology | 39 88–96 |
| 2017 | 10.1007/978-3-319-66365-4_1 | Blaby, I. K. a. C. E. B.-H. | Genomics and Functional Genomics in Chlamydomonas reinhardtii | Chlamydomonas: Molecular Genetics and Physiology | 30 1–26 |
| 2017 | 10.1186/s13068-016-0684-x | Biswas, R., C. M. Wilson, R. J. Giannone, D. M. Klingeman, T. Rydzak, M. B. Shah, R. L. Hettich, S. D. Brown and A. M. Guss | Improved growth rate in Clostridium thermocellum hydrogenase mutant via perturbed sulfur metabolism | Biotechnology for Biofuels | 10 6 |
| 2017 | 10.1186/s13068-017-0866-1 | Biswal, A. K., L. Tan, M. A. Atmodjo, J. DeMartini, I. Gelineo-Albersheim, K. Hunt, I. M. Black, S. S. Mohanty, D. Ryno, C. E. Wyman and D. Mohnen | Comparison of four glycosyl residue composition methods for effectiveness in detecting sugars from cell walls of dicot and grass tissues | Biotechnology for Biofuels | 10 182 |
| 2017 | 10.1021/acs.nanolett.7b04027 | Bhattarai, A., A. G. Joly, W. P. Hess and P. Z. El-Khoury | Visualizing Electric Fields at Au(111) Step Edges via Tip-Enhanced Raman Scattering | Nano Lett | 17(11) 7131-7137 |
| 2017 | 10.1039/c7cc02593a | Bhattarai, A. and P. Z. El-Khoury | Imaging localized electric fields with nanometer precision through tip-enhanced Raman scattering | Chem Commun (Camb) | 53(53) 7310-7313 |
| 2017 | 10.1016/j.carbpol.2016.11.085 | Bhagia, S., R. Kumar and C. E. Wyman | Effects of dilute acid and flowthrough pretreatments and BSA supplementation on enzymatic deconstruction of poplar by cellulase and xylanase | Carbohydrate Polymers | 157 1940–8 |
| 2017 | 10.1128/AEM.03389-16 | Becker, S., A. Scheffel, M. F. Polz and J. H. Hehemann | Accurate Quantification of Laminarin in Marine Organic Matter with Enzymes from Marine Microbes | Applied and Environmental Microbiology | 83(9) |
| 2017 | 10.1016/j.cell.2017.10.034 | Barbieri, E. M., P. Muir, B. O. Akhuetie-Oni, C. M. Yellman and F. J. Isaacs | Precise Editing at DNA Replication Forks Enables Multiplex Genome Engineering in Eukaryotes | Cell | 171(6) 1453–67.e13 |
| 2017 | 10.1021/acschembio.6b00890 | Baran, R., R. Lau, B. P. Bowen, S. Diamond, N. Jose, F. Garcia-Pichel and T. R. Northen | Extensive Turnover of Compatible Solutes in Cyanobacteria Revealed by Deuterium Oxide (D2O) Stable Isotope Probing | ACS Chemical Biology | 12(3) 674–81 |
| 2017 | 10.1016/bs.mie.2016.09.090 | Bao, Y., Y. Mugume and D. C. Bassham | Biochemical Methods to Monitor Autophagic Responses in Plants | Methods Enzymol | 588 497-513 |
| 2017 | 10.1038/srep41174 | Banf, M. and S. Y. Rhee | Enhancing gene regulatory network inference through data integration with markov random fields | Scientific Reports | 7 41174 |
| 2017 | 10.1016/j.bbagrm.2016.09.003 | Banf, M. and S. Y. Rhee | Computational inference of gene regulatory networks: Approaches, limitations and opportunities | Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms | 1860(1) 41–52 |
| 2017 | 10.1039/c6ee03748h | Balch, M. L., E. K. Holwerda, M. F. Davis, R. W. Sykes, R. M. Happs, R. Kumar, C. E. Wyman and L. R. Lynd | Lignocellulose fermentation and residual solids characterization for senescent switchgrass fermentation by Clostridium thermocellum in the presence and absence of continuous in situ ball-milling | Energy & Environmental Science | 10(5) 1252–61 |
| 2017 | 10.1016/j.plantsci.2017.07.007 | Aznar-Moreno, J. A. and T. P. Durrett | Review: Metabolic engineering of unusual lipids in the synthetic biology era | Plant Science | 263 126–31 |
| 2017 | 10.3791/55971 | Aufrecht, J. A., J. M. Ryan, S. Hasim, D. P. Allison, A. Nebenfuhr, M. J. Doktycz and S. T. Retterer | Imaging the Root Hair Morphology of Arabidopsis Seedlings in a Two-layer Microfluidic Platform | Journal of Visualized Experiments | (126) |
| 2017 | 10.1016/j.jprot.2017.06.004 | Aryal, U. K., Z. McBride, D. Chen, J. Xie and D. B. Szymanski | Analysis of protein complexes in Arabidopsis leaves using size exclusion chromatography and label-free protein correlation profiling | Journal of Proteomics | 166 8–18 |
| 2017 | 10.1038/s41467-017-01753-4 | Angle, J. C., T. H. Morin, L. M. Solden, A. B. Narrowe, G. J. Smith, M. A. Borton, C. Rey-Sanchez, R. A. Daly, G. Mirfenderesgi, D. W. Hoyt, W. J. Riley, C. S. Miller, G. Bohrer and K. C. Wrighton | Methanogenesis in oxygenated soils is a substantial fraction of wetland methane emissions | Nature Communications | 8(1) 1567 |
| 2017 | 10.1111/tpj.13449 | Angelos, E., C. Ruberti, S. J. Kim and F. Brandizzi | Maintaining the factory: the roles of the unfolded protein response in cellular homeostasis in plants | Plant Journal | 90(4) 671-682 |
| 2017 | 10.1371/journal.pone.0189604 | Amaike Campen, S., J. Lynn, S. J. Sibert, S. Srikrishnan, P. Phatale, et al. | Expression of naturally ionic liquid-tolerant thermophilic cellulases in Aspergillus niger | PLoS One | 12(12) e0189604 |
| 2017 | 10.1016/j.soilbio.2017.01.001 | Allison, S. D. and M. L. Goulden | Consequences of drought tolerance traits for microbial decomposition in the DEMENT model | Soil Biology and Biochemistry | 107 104–13 |
| 2017 | 10.1002/cpmc.37 | Allen, B., M. Drake, N. Harris and T. Sullivan | Using KBase to Assemble and Annotate Prokaryotic Genomes | Current Protocols in Microbiology | 46 1E.13.1–18 |
| 2017 | 10.1021/acssuschemeng.7b01203 | Akinosho, H. O., C. G. Yoo, A. Dumitrache, J. Natzke, W. Muchero, S. D. Brown and A. J. Ragauskas | Elucidating the Structural Changes to Populus Lignin during Consolidated Bioprocessing with Clostridium thermocellum | ACS Sustainable Chemistry & Engineering | 5(9) 7486–91 |
| 2017 | 10.1002/slct.201701572 | Akinosho, H., K. Yee, M. Rodriguez, W. Muchero, C. G. Yoo, M. Li, O. Thompson, Y. Q. Pu, S. Brown, J. Mielenz and A. J. Ragauskas | Lignin Exhibits Recalcitrance-Associated Features Following the Consolidated Bioprocessing of Populus trichocarpa Natural Variants | ChemistrySelect | 2(33) 10642–7 |
| 2017 | 10.1021/acssuschemeng.7b00449 | Akinosho, H., A. Dumitrache, J. Natzke, W. Muchero, S. S. Jawdy, G. A. Tuskan, S. D. Brown and A. J. Ragauskas | Effects of Biomass Accessibility and Klason Lignin Contents during Consolidated Bioprocessing in Populus trichocarpa | ACS Sustainable Chemistry & Engineering | 5(6) 5075–81 |
| 2017 | 10.1146/annurev-matsci-070616-124259 | Agrawal, A., R. W. Johns and D. J. Milliron | Control of Localized Surface Plasmon Resonances in Metal Oxide Nanocrystals | Annual Review of Materials Research | 47(1) 45688 |
| 2017 | 10.1111/1751-7915.12463 | Adams, M. W. and R. M. Kelly | The renaissance of life near the boiling point - at last, genetics and metabolic engineering | Microbial Biotechnology | 10(1) 37–9 |
| 2018 | 10.1186/s13068-018-1167-z | Zuo, C., M. Blow, A. Sreedasyam, R. C. Kuo, G. K. Ramamoorthy, I. Torres-Jerez, G. Li, M. Wang, D. Dilworth, K. Barry, M. Udvardi, J. Schmutz, Y. Tang and Y. Xu | Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing | Biotechnology for Biofuels | 11(1) 170 |
| 2018 | 10.1104/pp.17.00605 | Zuniga, C., J. Levering, M. R. Antoniewicz, M. T. Guarnieri, M. J. Betenbaugh and K. Zengler | Predicting Dynamic Metabolic Demands in the Photosynthetic Eukaryote Chlorella vulgaris | Plant Physiology | 176(1) 450–62 |
| 2018 | 10.1016/j.agrformet.2018.06.020 | Zou, J., B. Tobin, Y. Luo and B. Osborne | Response of soil respiration and its components to experimental warming and water addition in a temperate Sitka spruce forest ecosystem | Agricultural and Forest Meteorology | 260-261 204-215 |
| 2018 | 10.1016/j.ijms.2017.08.016 | Zhu, Y., R. Zhao, P. D. Piehowski, R. J. Moore, S. Lim, V. J. Orphan, L. Paša-Tolić, W.-J. Qian, R. D. Smith and R. T. Kelly | Subnanogram proteomics: Impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples | International Journal of Mass Spectrometry | 427 45757 |
| 2018 | 10.1186/s13068-018-1049-4 | Zhu, Y., L. Xie, G. Q. Chen, M. Y. Lee, D. Loque and H. V. Scheller | A transgene design for enhancing oil content in Arabidopsis and Camelina seeds | Biotechnology for Biofuels | 11 46 |
| 2018 | 10.1111/gcbb.12520 | Zhu, X., C. Liang, M. D. Masters, I. B. Kantola and E. H. DeLucia | The impacts of four potential bioenergy crops on soil carbon dynamics as shown by biomarker analyses and DRIFT spectroscopy | GCB Bioenergy | 10(7) 489–500 |
| 2018 | 10.1139/gen-2018-0013 %M 29883550 | Zhu, T., Z. Hu, J. C. Rodriguez, K. R. Deal, J. Dvorak, J. P. Vogel, Z. Liu and M.-C. Luo | Analysis of Brachypodium genomes with genome-wide optical maps | Genome | 61(8) 559-565 |
| 2018 | 10.1007/s10681-018-2137-z | Zhu, F., C. M. Wai, J. S. Zhang, T. C. Jones, C. Nagai and R. Ming | Differential expression of hormone related genes between extreme segregants of a Saccharum interspecific F2 population | Euphytica | 214(3) |
| 2018 | 10.1038/s41560-018-0197-x | Zhou, Y. J., E. J. Kerkhoven and J. Nielsen | Barriers and opportunities in bio-based production of hydrocarbons | Nature Energy | 3(11) 925–35 |
| 2018 | 10.1093/molbev/msx302 | Zhou, X., X. X. Shen, C. T. Hittinger and A. Rokas | Evaluating fast maximum likelihood-based phylogenetic programs using empirical phylogenomic data sets | Molecular Biology and Evolution | 35(2) 486-503 |
| 2018 | 10.1007/s00438-018-1473-y | Zhou, R., D. Macaya-Sanz, E. Rodgers-Melnick, C. H. Carlson, F. E. Gouker, L. M. Evans, J. Schmutz, J. W. Jenkins, J. Yan, G. A. Tuskan, L. B. Smart and S. P. DiFazio | Characterization of a large sex determination region in Salix purpurea L. (Salicaceae) | Molecular Genetics and Genomics | 293(6) 1437-1452 |
| 2018 | 10.1098/rsos.171529 | Zhou, L., L. da Costa Sousa, B. E. Dale, J.-X. Feng and V. Balan | The effect of alkali-soluble lignin on purified core cellulase and hemicellulase activities during hydrolysis of extractive ammonia-pretreated lignocellulosic biomass | Royal Society Open Science | 5(6) 171529 |
| 2018 | 10.1007/s00792-018-1055-2 | Zhou, E.-M., W.-D. Xian, C. C. Mefferd, S. C. Thomas, A. L. Adegboruwa, et al. | Thermus sediminis sp. nov., a thiosulfate-oxidizing and arsenate-reducing organism isolated from Little Hot Creek in the Long Valley Caldera, California | Extremophiles | 22(6) 983-991 |
| 2018 | 10.1038/s41593-018-0125-1 | Zheng, Y., W. Shen, J. Zhang, B. Yang, Y. N. Liu, H. Qi, X. Yu, S. Y. Lu, Y. Chen, Y. Z. Xu, Y. Li, F. H. Gage, S. Mi and J. Yao | Author Correction: CRISPR interference-based specific and efficient gene inactivation in the brain | Nature Neuroscience | 21(6) 894 |
| 2018 | 10.1038/s41593-018-0077-5 | Zheng, Y., W. Shen, J. Zhang, B. Yang, Y.-N. Liu, H. Qi, X. Yu, S.-Y. Lu, Y. Chen, Y.-Z. Xu, Y. Li, F. H. Gage, S. Mi and J. Yao | CRISPR interference-based specific and efficient gene inactivation in the brain | Nature Neuroscience | 21(3) 447–54 |
| 2018 | 10.1371/journal.pone.0195143 | Zheng, T., A. A. Lanahan, L. R. Lynd and D. G. Olson | The redox-sensing protein Rex modulates ethanol production in Thermoanaerobacterium saccharolyticum | PLoS One | 13(4) e0195143 |
| 2018 | 10.1111/gcbb.12533 | Zhang, Y. P., L. G. Oates, J. Serate, D. Xie, E. Pohlmann, et al. | Diverse lignocellulosic feedstocks can achieve high field-scale ethanol yields while providing flexibility for the biorefinery and landscape-level environmental benefits | GCB Bioenergy | 10(11) 825–40 |
| 2018 | 10.1038/s41467-018-04513-0 | Zhang, M., C. Gao, X. Guo, S. Guo, Z. Kang, D. Xiao, J. Yan, F. Tao, W. Zhang, W. Dong, P. Liu, C. Yang, C. Ma and P. Xu | Increased glutarate production by blocking the glutaryl-CoA dehydrogenation pathway and a catabolic pathway involving L-2-hydroxyglutarate | Nature Communications | 9(1) 2114 |
| 2018 | 10.1007/s12155-017-9878-8 | Zhang, L., T. E. Juenger, J. M. Osorio and K. D. Behrman | Sensitivity Analysis of the APEX Model for Assessing Sustainability of Switchgrass Grown for Biofuel Production in Central Texas | BioEnergy Research | 11(1) 69–85 |
| 2018 | 10.1038/s41588-018-0237-2 | Zhang, J., X. Zhang, H. Tang, Q. Zhang, X. Hua, et al. | Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. | Nature Genetics | 50(11) 1565–73 |
| 2018 | 10.1111/nph.15297 | Zhang, J., Y. Yang, K. Zheng, M. Xie, K. Feng, et al. | Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus | New Phytologist | 220(2) 502–16 |
| 2018 | 10.1111/nph.15297 | Zhang, J., Y. Yang, K. Zheng, M. Xie, K. Feng, et al. | Genome-wide association studies and expression-based quantitative trait loci analyses reveal roles of HCT2 in caffeoylquinic acid biosynthesis and its regulation by defense-responsive transcription factors in Populus | New Phytologist | 220(2) 502-516 |
| 2018 | 10.3389/fpls.2018.01535 | Zhang, J., M. Xie, G. A. Tuskan, W. Muchero and J. G. Chen | Recent Advances in the Transcriptional Regulation of Secondary Cell Wall Biosynthesis in the Woody Plants | Frontiers in Plant Science | 9 1535 |
| 2018 | 10.1111/nph.15113 | Zhang, F., G. E. Anasontzis, A. Labourel, C. Champion, M. Haon, et al. | The ectomycorrhizal basidiomycete Laccaria bicolor releases a secreted beta-1,4 endoglucanase that plays a key role in symbiosis development | New Phytologist | 220(4) 1309–21 |
| 2018 | 10.1128/mBio.01175-18 | Zhalnina, K., K. Zengler, D. Newman and T. R. Northen | Need for Laboratory Ecosystems To Unravel the Structures and Functions of Soil Microbial Communities Mediated by Chemistry | mBio | 9(4) |
| 2018 | 10.1038/s41564-018-0129-3 | Zhalnina, K., K. B. Louie, Z. Hao, N. Mansoori, U. N. da Rocha, S. Shi, H. Cho, U. Karaoz, D. Loque, B. P. Bowen, M. K. Firestone, T. R. Northen and E. L. Brodie | Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly | Nature Microbiology | 3(4) 470–480 |
| 2018 | 10.1038/s41579-018-0004-5 | Zengler, K. and L. S. Zaramela | The social network of microorganisms - how auxotrophies shape complex communities | Nature Reviews Microbiology | 16(6) 383–90 |
| 2018 | 10.1016/bs.mie.2018.04.027 | Yuzawa, S., A. Zargar, B. Pang, L. Katz and J. D. Keasling | Commodity Chemicals From Engineered Modular Type I Polyketide Synthases | Methods in Enzymology | 608 393–415 |
| 2018 | 10.1007/s10295-018-2021-9 | Yuzawa, S., T. W. H. Backman, J. D. Keasling and L. Katz | Synthetic biology of polyketide synthases | Journal of Industrial Microbiology and Biotechnology | 45(7) 621–33 |
| 2018 | 10.1111/gcb.13820 | Yuan, M. M., J. Zhang, K. Xue, L. Wu, Y. Deng, et al. | Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil | Global Change Biology | 24(1) 297–307 |
| 2018 | 10.3389/fmicb.2018.02917 | Yu, H., D. Susanti, S. E. McGlynn, C. T. Skennerton, K. Chourey, R. Iyer, S. Scheller, P. L. Tavormina, R. L. Hettich, B. Mukhopadhyay and V. J. Orphan | Comparative Genomics and Proteomic Analysis of Assimilatory Sulfate Reduction Pathways in Anaerobic Methanotrophic Archaea | Frontiers in Microbiology | 9 2917 |
| 2018 | 10.3389/fmicb.2018.00570 | Youngblut, N. D., S. E. Barnett and D. H. Buckley | SIPSim: A Modeling Toolkit to Predict Accuracy and Aid Design of DNA-SIP Experiments | Frontiers in Microbiology | 9 570 |
| 2018 | 10.1371/journal.pone.0189616 | Youngblut, N. D., S. E. Barnett and D. H. Buckley | HTSSIP: An R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments | PLoS One | 13(1) e0189616 |
| 2018 | 10.1109/ICASSP.2018.8462234 | Yoo, S., P. Ruiz, X. Huang, K. He, N. J. Ferrier, M. Hereld, A. Selewa, M. Daddysman, N. Scherer, O. Cossairt and A. K. Katsaggelos | 3D Image Reconstruction from Multi-Focus Microscope: Axial Super-Resolution and Multiple-Frame Processing | 2018 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) | 1453-1457 |
| 2018 | 10.1007/s11240-018-1389-6 | Yoo, J. H., E. S. Seong, B. K. Ghimire, K. Heo, X. Jin, T. Yamada, L. V. Clark, E. J. Sacks and C. Y. Yu | Establishment of Miscanthus sinensis with decreased lignin biosynthesis by Agrobacterium-mediated transformation using antisense COMT gene | Plant Cell, Tissue and Organ Culture | 133(3) 359–69 |
| 2018 | Yoo, C. G., A. Dumitrache, Y. Yang, X. Meng, W. Muchero, T. J. Tschaplinski, S. D. Brown, B. Davison, G. Tuskan, J.-G. Chen, Y. Pu and A. Ragauskas | Significance of lignin characteristics in biomass recalcitrance of Populus for biomass valorization | 40th Symposium on Biotechnology for Fuels and Chemicals | ||
| 2018 | 10.1021/acssuschemeng.7b03586 | Yoo, C. G., A. Dumitrache, W. Muchero, J. Natzke, H. Akinosho, M. Li, R. W. Sikes, S. D. Brown, B. Davison, G. A. Tuskan, Y. Q. Pu and A. J. Ragauskas | Significance of Lignin S/G Ratio in Biomass Recalcitrance of Populus trichocarpa Variants for Bioethanol Production | ACS Sustainable Chemistry & Engineering | 6(2) 2162–8 |
| 2018 | 10.1002/9781119312994.apr0435 | Yin, Y., D. Mohnen, I. Gelineo-Albersheim, Y. Xu and M. G. Hahn | Glycosyltransferases of the GT8 Family | Annual Plant Reviews Online | |
| 2018 | 10.1186/s12864-018-4964-7 | Yin, H., H. B. Guo, D. J. Weston, A. M. Borland, P. Ranjan, et al. | Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave | BMC Genomics | 19(1) 588 |
| 2018 | 10.1021/acssuschemeng.7b04597 | Yao, S. G., J. K. Mobley, J. Ralph, M. Crocker, S. Parkin, J. P. Selegue and M. S. Meier | Mechanochemical Treatment Facilitates Two-Step Oxidative Depolymerization of Kraft Lignin | ACS Sustainable Chemistry and Engineering | 6(5) 5990-5998 |
| 2018 | 10.1038/s41559-017-0463-5 | Yao, Q., Z. Li, Y. Song, S. J. Wright, X. Guo, S. G. Tringe, M. M. Tfaily, L. Paša-Tolić, T. C. Hazen, B. L. Turner, M. A. Mayes and C. Pan | Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil | Nature Ecology & Evolution | 2(3) 499-509 |
| 2018 | 10.1186/s13068-018-1087-y | Yao, L., C. G. Yoo, X. Meng, M. Li, Y. Pu, A. J. Ragauskas and H. Yang | A structured understanding of cellobiohydrolase I binding to poplar lignin fractions after dilute acid pretreatment | Biotechnology for Biofuels | 11 96 |
| 2018 | 10.3389/fenrg.2018.00001 | Yao, L., H. T. Yang, C. G. Yoo, X. Z. Meng, Y. Q. Pu, N. J. Hao and A. J. Ragauskas | Characteristics of Lignin Fractions from Dilute Acid Pretreated Switchgrass and Their Effect on Cellobiohydrolase from Trichoderma longibrachiatum | Frontiers in Energy Research | 6 |
| 2018 | 10.1016/j.biortech.2018.05.057 | Yao, L., H. Yang, C. G. Yoo, Y. Pu, X. Meng, W. Muchero, G. A. Tuskan, T. Tschaplinski and A. J. Ragauskas | Understanding the influences of different pretreatments on recalcitrance of Populus natural variants | Bioresource Technology | 265 75–81 |
| 2018 | 10.1016/j.copbio.2017.09.003 | Yang, Y. and C. Benning | Functions of triacylglycerols during plant development and stress | Current Opinion in Biotechnology | 49 191-198 |
| 2018 | 10.1111/nph.15098 | Yang, X., H. Zhao, T. Zhang, Z. Zeng, P. Zhang, B. Zhu, Y. Han, G. T. Braz, M. D. Casler, J. Schmutz and J. Jiang | Amplification and adaptation of centromeric repeats in polyploid switchgrass species | New Phytologist | 218(4) 1645-1657 |
| 2018 | 10.1186/s13068-018-1116-x | Yang, S., J. M. Vera, J. Grass, G. Savvakis, O. V. Moskvin, et al. | Complete genome sequence and the expression pattern of plasmids of the model ethanologen Zymomonas mobilis ZM4 and its xylose-utilizing derivatives 8b and 2032 | Biotechnology for Biofuels | 11(1) 125 |
| 2018 | 10.1186/s13068-018-1116-x | Yang, S., J. M. Vera, J. Grass, G. Savvakis, O. V. Moskvin, et al. | Complete genome sequence and the expression pattern of plasmids of the model ethanologen Zymomonas mobilis ZM4 and its xylose-utilizing derivatives 8b and 2032 | Biotechnology for Biofuels | 11 125 |
| 2018 | 10.1093/jxb/erx241 | Yang, J. and M. Udvardi | Senescence and nitrogen use efficiency in perennial grasses for forage and biofuel production | Journal of Experimental Botany | 69(4) 855–65 |
| 2018 | 10.1002/bbb.1825 | Yang, B., L. Tao and C. E. Wyman | Strengths, challenges, and opportunities for hydrothermal pretreatment in lignocellulosic biorefineries | Biofuels, Bioproducts and Biorefining | 12(1) 125–38 |
| 2018 | 10.1186/s13068-018-1196-7 | Yan, J., A. Aznar, C. Chalvin, D. S. Birdseye, E. E. K. Baidoo, A. Eudes, P. M. Shih, D. Loqué, A. Zhang and H. V. Scheller | Increased drought tolerance in plants engineered for low lignin and low xylan content | Biotechnology for Biofuels | 11(1) 195 |
| 2018 | 10.1371/journal.pone.0194012 | Xue, S., A. D. Jones, L. Sousa, J. Piotrowski, M. Jin, C. Sarks, B. E. Dale and V. Balan | Water-soluble phenolic compounds produced from extractive ammonia pretreatment exerted binary inhibitory effects on yeast fermentation using synthetic hydrolysate | PLoS ONE | 13(3) |
| 2018 | 10.1021/acschembio.8b00804 | Xu, Y. F., W. Lu, J. C. Chen, S. A. Johnson, P. A. Gibney, D. G. Thomas, G. Brown, A. L. May, S. R. Campagna, A. F. Yakunin, D. Botstein and J. D. Rabinowitz | Discovery and Functional Characterization of a Yeast Sugar Alcohol Phosphatase | ACS Chemical Biology | 13(10) 3011–20 |
| 2018 | 10.1007/s42241-018-0110-x | Xu, X. Y., X. Zhang, H. W. Fang, R. X. Lai, Y. F. Zhang, L. Huang and X. B. Liu | Improving the real-time probabilistic channel flood forecasting by incorporating the uncertainty of inflow using the particle filter | Journal of Hydrodynamics | 30(5) 828-840 |
| 2018 | 10.1007/s00299-018-2253-1 | Xu, W., W. Liu, R. Ye, M. Mazarei, D. Huang, X. Zhang and C. N. Stewart, Jr. | A profilin gene promoter from switchgrass (Panicum virgatum L.) directs strong and specific transgene expression to vascular bundles in rice | Plant Cell Reports | 37(4) 587–97 |
| 2018 | 10.1073/pnas.1717308115 | Xu, L., D. Naylor, Z. Dong, T. Simmons, G. Pierroz, et al. | Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria | Proceedings of the National Academy of Sciences of the United States of America | 115(18) E4284–93 |
| 2018 | 10.1021/acssuschemeng.8b01271 | Xu, F., J. Sun, M. Wehrs, K. H. Kim, S. S. Rau, A. M. Chan, B. A. Simmons, A. Mukhopadhyay and S. Singh | Biocompatible Choline-Based Deep Eutectic Solvents Enable One-Pot Production of Cellulosic Ethanol | ACS Sustainable Chemistry & Engineering | 6(7) 8914–9 |
| 2018 | 10.1111/1462-2920.13937 | Xie, Z. X., F. Chen, S. F. Zhang, M. H. Wang, H. Zhang, L. F. Kong, M. H. Dai, H. S. Hong, L. Lin and D. Z. Wang | Metaproteomics of marine viral concentrates reveals key viral populations and abundant periplasmic proteins in the oligotrophic deep chlorophyll maximum of the South China Sea | Environmental Microbiology | 20(2) 477–91 |
| 2018 | 10.3389/fpls.2018.01427 | Xie, M., J. Zhang, T. J. Tschaplinski, G. A. Tuskan, J. G. Chen and W. Muchero | Regulation of Lignin Biosynthesis and Its Role in Growth-Defense Tradeoffs | Frontiers in Plant Science | 9 1427 |
| 2018 | 10.1105/tpc.18.00168 | Xie, M., W. Muchero, A. C. Bryan, K. Yee, H. B. Guo, et al. | A 5-Enolpyruvylshikimate 3-Phosphate Synthase Functions as a Transcriptional Repressor in Populus | The Plant Cell | 30(7) 1645–60 |
| 2018 | 10.1105/tpc.18.00168 | Xie, M., W. Muchero, A. C. Bryan, K. Yee, H.-B. Guo, et al. | A 5-Enolpyruvylshikimate 3-Phosphate Synthase Functions as a Transcriptional Repressor in Populus | The Plant Cell | 30(7) 1645-1660 |
| 2018 | 10.1073/pnas.1716046115 | Xie, L., L. Zhang, C. Wang, X. Wang, Y.-m. Xu, H. Yu, P. Wu, S. Li, L. Han, A. A. L. Gunatilaka, X. Wei, M. Lin, I. Molnár and Y. Xu | Methylglucosylation of aromatic amino and phenolic moieties of drug-like biosynthons by combinatorial biosynthesis | Proceedings of the National Academy of Sciences | 115(22) E4980-E4989 |
| 2018 | 10.1172/JCI93725 | Xiao, Z., J. Baudry, L. Cao, J. Huang, H. Chen, C. R. Yates, W. Li, B. Dong, C. M. Waters, J. C. Smith and L. D. Quarles | Polycystin-1 interacts with TAZ to stimulate osteoblastogenesis and inhibit adipogenesis | Journal of Clinical Investigation | 128(1) 157–74 |
| 2018 | 10.1186/s13068-018-1224-7 | Xiao, Y., X. He, Y. Ojeda-Lassalle, C. Poovaiah and H. D. Coleman | Expression of a hyperthermophilic endoglucanase in hybrid poplar modifies the plant cell wall and enhances digestibility | Biotechnology for Biofuels | 11 225 |
| 2018 | Xiang Huang, A. S., Xiaolei Wang, Matthew K. Daddysman, Itay Gdor, Rosemarie Wilton, Kenneth M. Kemner, Seunghwan Yoo, Aggelos K. Katsaggelos, Kuan He, Oliver Cossairt, Nicola J. Ferrier, Mark Hereld, Norbert F. Scherer | 3D Snapshot Microscopy of Extended Objects | |||
| 2018 | 10.1002/pld3.70 | Xia, J., Y. Zhao, P. Burks, M. Pauly and P. J. Brown | A sorghum NAC gene is associated with variation in biomass properties and yield potential | Plant Direct | 2(7) e00070 |
| 2018 | 10.1371/journal.pone.0205749 | Wyman, S. K., A. Avila-Herrera, S. Nayfach and K. S. Pollard | A most wanted list of conserved microbial protein families with no known domains | PLOS ONE | 13(10) e0205749 |
| 2018 | 10.3389/fmicb.2018.01234 | Wu, X., L. Wu, Y. Liu, P. Zhang, Q. Li, J. Zhou, N. J. Hess, T. C. Hazen, W. Yang and R. Chakraborty | Microbial Interactions With Dissolved Organic Matter Drive Carbon Dynamics and Community Succession | Frontiers in Microbiology | 9 1234 |
| 2018 | 10.1186/s13068-018-1285-7 | Wu, W. and C. T. Maravelias | Synthesis and techno-economic assessment of microbial-based processes for terpenes production | Biotechnology for Biofuels | 11 294 |
| 2018 | 10.1002/bit.26779 | Wu, W., M. R. Long, X. Zhang, J. L. Reed and C. T. Maravelias | A framework for the identification of promising bio-based chemicals | Biotechnology and Bioengineering | 115(9) 2328–40 |
| 2018 | 10.1073/pnas.1720129115 | Wu, W., F. Liu and S. Singh | Toward engineering E. coli with an autoregulatory system for lignin valorization | Proceedings of the National Academy of Sciences of the United States of America | 115(12) 2970–5 |
| 2018 | 10.1021/acssuschemeng.8b03158 | Wu, L., A. Gokhale, K. A. Goulas, J. E. Myers, F. Dean Toste and C. D. Scown | Hybrid Biological–Chemical Approach Offers Flexibility and Reduces the Carbon Footprint of Biobased Plastics, Rubbers, and Fuels | ACS Sustainable Chemistry & Engineering | 6(11) 14523–32 |
| 2018 | 10.1038/nature25447 | Wu, G. A., J. Terol, V. Ibanez, A. López-García, E. Pérez-Román, et al. | Genomics of the origin and evolution of Citrus | Nature | 554(7692) 311-316 |
| 2018 | 10.1093/gbe/evy246 | Wu, B., Z. Xu, A. Knudson, A. Carlson, N. Chen, et al. | Genomics and Development of Lentinus tigrinus: A White-Rot Wood-Decaying Mushroom with Dimorphic Fruiting Bodies | Genome Biology and Evolution | 10(12) 3250-3261 |
| 2018 | 10.1038/s41586-018-0338-1 | Woodcroft, B. J., C. M. Singleton, J. A. Boyd, P. N. Evans, J. B. Emerson, et al. | Genome-centric view of carbon processing in thawing permafrost | Nature | 560(7716) 49–54 |
| 2018 | 10.1007/s13361-018-2002-2 | Wongkongkathep, P., J. Y. Han, T. S. Choi, S. Yin, H. I. Kim and J. A. Loo | Native Top-Down Mass Spectrometry and Ion Mobility MS for Characterizing the Cobalt and Manganese Metal Binding of α-Synuclein Protein | Journal of the American Society for Mass Spectrometry | 29(9) 1870-1880 |
| 2018 | 10.1016/j.ymben.2018.03.005 | Wong, J., L. d’Espaux, I. Dev, C. van der Horst and J. Keasling | De novo synthesis of the sedative valerenic acid in Saccharomyces cerevisiae | Metabolic Engineering | 47 94–101 |
| 2018 | 10.1111/tpj.13915 | Wittkopp, T. M., S. Saroussi, W. Yang, X. Johnson, R. G. Kim, et al. | GreenCut protein CPLD49 of Chlamydomonas reinhardtii associates with thylakoid membranes and is required for cytochrome b6f complex accumulation | Plant Journal | 94(6) 1023-1037 |
| 2018 | 10.3389/fpls.2017.02242 | Wilton, R., A. J. Ahrendt, S. Shinde, D. J. Sholto-Douglas, J. L. Johnson, M. B. Brennan and K. M. Kemner | A New Suite of Plasmid Vectors for Fluorescence-Based Imaging of Root Colonizing Pseudomonads | Frontiers in Plant Science | 8(2242) |
| 2018 | 10.1534/genetics.118.301589 | Wilson, P. B., J. C. Streich, K. D. Murray, S. R. Eichten, R. Cheng, N. C. Aitken, K. Spokas, N. Warthmann, S. P. Gordon, C. Accession, J. P. Vogel and J. O. Borevitz | Global Diversity of the Brachypodium Species Complex as a Resource for Genome-Wide Association Studies Demonstrated for Agronomic Traits in Response to Climate | Genetics | 211(1) 317-331 |
| 2018 | 10.1007/s00442-017-4007-0 | Wills, B. D. and D. A. Landis | The role of ants in north temperate grasslands: a review | Oecologia | 186(2) 323–38 |
| 2018 | 10.1016/j.mec.2018.e00073 | Williams-Rhaesa, A. M., G. M. Rubinstein, I. M. Scott, G. L. Lipscomb, F. L. Poole Ii, R. M. Kelly and M. W. W. Adams | Engineering redox-balanced ethanol production in the cellulolytic and extremely thermophilic bacterium, Caldicellulosiruptor bescii | Metabolic Engineering Communications | 7 e00073 |
| 2018 | 10.1007/s00792-018-1023-x | Williams-Rhaesa, A. M., N. K. Awuku, G. L. Lipscomb, F. L. Poole, G. M. Rubinstein, J. M. Conway, R. M. Kelly and M. W. W. Adams | Native xylose-inducible promoter expands the genetic tools for the biomass-degrading, extremely thermophilic bacterium Caldicellulosiruptor bescii | Extremophiles | 22(4) 629–38 |
| 2018 | 10.3390/pr6010007 | Wilken, S., M. Saxena, L. R. Petzold and M. A. O'Malley | In Silico Identification of Microbial Partners to Form Consortia with Anaerobic Fungi | Processes | 6(1) |
| 2018 | 10.1111/1462-2920.14309 | Wilhelm, R. C., B. T. Hanson, S. Chandra and E. Madsen | Community dynamics and functional characteristics of naphthalene-degrading populations in contaminated surface sediments and hypoxic/anoxic groundwater | Environmental Microbiology | 20(10) 3543–59 |
| 2018 | 10.1029/2017jg004298 | Wik, M., J. E. Johnson, P. M. Crill, J. P. DeStasio, L. Erickson, M. J. Halloran, M. F. Fahnestock, M. K. Crawford, S. C. Phillips and R. K. Varner | Sediment Characteristics and Methane Ebullition in Three Subarctic Lakes | Journal of Geophysical Research: Biogeosciences | 123(8) 2399–411 |
| 2018 | 10.1002/ange.201805827 | Wijesooriya, C. S., J. A. Peterson, P. Shrestha, E. J. Gehrmann, A. H. Winter and E. A. Smith | A Photoactivatable BODIPY Probe for Localization‐Based Super‐Resolution Cellular Imaging | Angewandte Chemie | 130(39) 12867-12871 |
| 2018 | 10.1021/acssynbio.8b00222 | Wiegand, D. J., H. H. Lee, N. Ostrov and G. M. Church | Establishing a Cell-Free Vibrio natriegens Expression System | ACS Synthetic Biology | 7(10) 2475–9 |
| 2018 | 10.1111/gcb.13979 | Wieder, W. R., M. D. Hartman, B. N. Sulman, Y. P. Wang, C. D. Koven and G. B. Bonan | Carbon cycle confidence and uncertainty: Exploring variation among soil biogeochemical models | Global Change Biology | 24(4) 1563–79 |
| 2018 | 10.1111/1462-2920.14366 | Whitman, T., R. Neurath, A. Perera, I. Chu-Jacoby, D. Ning, J. Zhou, P. Nico, J. Pett-Ridge and M. Firestone | Microbial community assembly differs across minerals in a rhizosphere microcosm | Environmental Microbiology | 20(12) 4444–60 |
| 2018 | 10.1186/s13068-018-1095-y | Whitham, J. M., J. W. Moon, M. Rodriguez, Jr., N. L. Engle, D. M. Klingeman, T. Rydzak, M. M. Abel, T. J. Tschaplinski, A. M. Guss and S. D. Brown | Clostridium thermocellum LL1210 pH homeostasis mechanisms informed by transcriptomics and metabolomics | Biotechnology for Biofuels | 11 98 |
| 2018 | 10.1111/nph.14860 | Weston, D. J., M. R. Turetsky, M. G. Johnson, G. Granath, Z. Lindo, et al. | The Sphagnome Project: enabling ecological and evolutionary insights through a genus-level sequencing project | New Phytologist | 217(1) 16–25 |
| 2018 | 10.1101/gr.228429.117 | West, P. T., A. J. Probst, I. V. Grigoriev, B. C. Thomas and J. F. Banfield | Genome-reconstruction for eukaryotes from complex natural microbial communities | Genome Research | 28(4) 569-580 |
| 2018 | 10.1038/s41588-018-0243-4 | Weiss, C. V., J. I. Roop, R. K. Hackley, J. N. Chuong, I. V. Grigoriev, A. P. Arkin, J. M. Skerker and R. B. Brem | Genetic dissection of interspecific differences in yeast thermotolerance | Nature Genetics | 50(11) 1501-1504 |
| 2018 | 10.3389/fenrg.2018.00030 | Weighill, D., P. Jones, M. Shah, P. Ranjan, W. Muchero, et al. | Pleiotropic and Epistatic Network-Based Discovery: Integrated Networks for Target Gene Discovery | Frontiers in Energy Research | 6 |
| 2018 | 10.1186/s12934-018-0866-2 | Wei, Y., D. Bergenholm, M. Gossing, V. Siewers and J. Nielsen | Expression of cocoa genes in Saccharomyces cerevisiae improves cocoa butter production | Microbial Cell Factories | 17(1) 11 |
| 2018 | 10.1186/s12934-018-1045-1 | Wehrs, M., J. P. Prahl, J. Moon, Y. Li, D. Tanjore, J. D. Keasling, T. Pray and A. Mukhopadhyay | Production efficiency of the bacterial non-ribosomal peptide indigoidine relies on the respiratory metabolic state in S. cerevisiae | Microbial Cell Factories | 17(1) 193 |
| 2018 | 10.5194/bg-15-4205-2018 | Wehking, J., D. A. Pickersgill, R. M. Bowers, D. Teschner, U. Pöschl, J. Fröhlich-Nowoisky and V. R. Després | Community composition and seasonal changes of archaea in coarse and fine air particulate matter | Biogeosciences | 15(13) 4205-4214 |
| 2018 | 10.1093/molbev/msy029 | Warshan, D., A. Liaimer, E. Pederson, S.-Y. Kim, N. Shapiro, T. Woyke, B. Altermark, K. Pawlowski, P. D. Weyman, C. L. Dupont and U. Rasmussen | Genomic Changes Associated with the Evolutionary Transitions of Nostoc to a Plant Symbiont | Molecular Biology and Evolution | 35(5) 1160-1175 |
| 2018 | 10.1073/pnas.1715530115 | Wannier, T. M., A. M. Kunjapur, D. P. Rice, M. J. McDonald, M. M. Desai and G. M. Church | Adaptive evolution of genomically recoded Escherichia coli | Proceedings of the National Academy of Sciences of the United States of America | 115(12) 3090–5 |
| 2018 | 10.1021/acssuschemeng.7b04546 | Wang, Y. Y., M. Li, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Fast Fractionation of Technical Lignins by Organic Cosolvents | ACS Sustainable Chemistry & Engineering | 6(5) 6064–72 |
| 2018 | 10.1186/s13068-018-1134-8 | Wang, Y., S. Zhang, Z. Zhu, H. Shen, X. Lin, X. Jin, X. Jiao and Z. K. Zhao | Systems analysis of phosphate-limitation-induced lipid accumulation by the oleaginous yeast Rhodosporidium toruloides | Biotechnology for Biofuels | 11 148 |
| 2018 | 10.1080/10409238.2018.1431201 | Wang, Y., H. Ren and H. Zhao | Expanding the boundary of biocatalysis: design and optimization of in vitro tandem catalytic reactions for biochemical production | Critical Reviews in Biochemistry and Molecular Biology | 53(2) 115–29 |
| 2018 | 10.1016/j.ymben.2018.04.001 | Wang, X., Q. He, Y. Yang, J. Wang, K. Haning, Y. Hu, B. Wu, M. He, Y. Zhang, J. Bao, L. M. Contreras and S. Yang | Advances and prospects in metabolic engineering of Zymomonas mobilis | Metabolic Engineering | 50 57–73 |
| 2018 | 10.1186/s12934-018-0862-6 | Wang, X., E.-B. Goh and H. R. Beller | Engineering E. coli for simultaneous glucose–xylose utilization during methyl ketone production | Microbial Cell Factories | 17(1) 12 |
| 2018 | 10.1021/acs.nanolett.7b04477 | Wang, X., K. Dong, H. S. Choe, H. Liu, S. Lou, K. B. Tom, H. A. Bechtel, Z. You, J. Wu and J. Yao | Multifunctional Microelectro-Opto-mechanical Platform Based on Phase-Transition Materials | Nano Lett | 18(3) 1637-1643 |
| 2018 | 10.1038/s41586-018-0063-9 | Wang, W., R. Mauleon, Z. Hu, D. Chebotarov, S. Tai, et al. | Genomic variation in 3,010 diverse accessions of Asian cultivated rice | Nature | 557(7703) 43-49 |
| 2018 | 10.1021/acssuschemeng.7b04908 | Wang, S. Z., W. W. Zhao, T. S. Lee, S. W. Singer, B. A. Simmons, S. Singh, Q. P. Yuan and G. Cheng | Dimethyl Sulfoxide Assisted Ionic Liquid Pretreatment of Switchgrass for Isoprenol Production | ACS Sustainable Chemistry & Engineering | 6(3) 4354–61 |
| 2018 | 10.1016/j.semcdb.2017.07.018 | Wang, P., Y. Mugume and D. C. Bassham | New advances in autophagy in plants: Regulation, selectivity and function | Semin Cell Dev Biol | 80 113-122 |
| 2018 | 10.1186/s13007-018-0318-3 | Wang, P., L. Guo, R. Jaini, A. Klempien, R. M. McCoy, J. A. Morgan, N. Dudareva and C. Chapple | A 13C isotope labeling method for the measurement of lignin metabolic flux in Arabidopsis stems | Plant Methods | 14 51 |
| 2018 | 10.1042/BST20170272 | Wang, L., C. Y. Ng, S. Dash and C. D. Maranas | Exploring the combinatorial space of complete pathways to chemicals | Biochemical Society Transactions | 46(3) 513–22 |
| 2018 | 10.1021/acssynbio.7b00296 | Wang, L. and C. D. Maranas | MinGenome: An In Silico Top-Down Approach for the Synthesis of Minimized Genomes | ACS Synthetic Biology | 7(2) 462–73 |
| 2018 | 10.1105/tpc.18.00250 | Wang, K., Q. Guo, J. E. Froehlich, H. L. Hersh, A. Zienkiewicz, G. A. Howe and C. Benning | Two abscisic acid-responsive plastid lipase genes involved in jasmonic acid biosynthesis in Arabidopsis thaliana | Plant Cell | 30(5) 1006-1022 |
| 2018 | 10.1038/s41467-018-03863-z | Wang, J. P., M. L. Matthews, C. M. Williams, R. Shi, C. Yang, et al. | Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis | Nature Communications | 9(1) 1579 |
| 2018 | 10.1073/pnas.1800918115 | Walters, W. A., Z. Jin, N. Youngblut, J. G. Wallace, J. Sutter, et al. | Large-scale replicated field study of maize rhizosphere identifies heritable microbes | Proceedings of the National Academy of Sciences | 115(28) 7368-7373 |
| 2018 | 10.1038/s41467-018-05738-9 | Walter Anthony, K., T. Schneider von Deimling, I. Nitze, S. Frolking, A. Emond, R. Daanen, P. Anthony, P. Lindgren, B. Jones and G. Grosse | 21st-century modeled permafrost carbon emissions accelerated by abrupt thaw beneath lakes | Nature Communications | 9(1) 3262 |
| 2018 | 10.1039/c7ee03432f | Walker, T. W., A. K. Chew, H. Li, B. Demir, Z. C. Zhang, G. W. Huber, R. C. Van Lehn and J. A. Dumesic | Universal kinetic solvent effects in acid-catalyzed reactions of biomass-derived oxygenates | Energy and Environmental Science | 11(3) 617-628 |
| 2018 | 10.1128/MRA.01040-18 | Walker, C., S. Ryu, H. Na, M. Zane, K. LaButti, A. Lipzen, S. Haridas, K. Barry, I. V. Grigoriev, J. Quarterman, P. Slininger, B. Dien and C. T. Trinh | Draft Genome Assemblies of Five Robust Yarrowia lipolytica Strains Exhibiting High Lipid Production, Pentose Sugar Utilization, and Sugar Alcohol Secretion from Undetoxified Lignocellulosic Biomass Hydrolysates | Microbiology Resource Announcements | 7(12) |
| 2018 | 10.1039/c8cp03144d | Vural, D., J. C. Smith and L. Petridis | Dynamics of the lignin glass transition | Physical Chemistry Chemical Physics | 20(31) 20504–12 |
| 2018 | 10.1016/j.bpj.2018.02.024 | Vural, D., J. C. Smith and H. R. Glyde | Determination of Dynamical Heterogeneity from Dynamic Neutron Scattering of Proteins | Biophysical Journal | 114(10) 2397–407 |
| 2018 | 10.1039/c7gc03796a | Vural, D., C. Gainaru, H. O'Neill, Y. Q. A. Pu, M. D. Smith, J. M. Parks, S. V. Pingali, E. Mamontov, B. H. Davison, A. P. Sokolov, A. J. Ragauskas, J. C. Smith and L. Petridis | Impact of hydration and temperature history on the structure and dynamics of lignin | Green Chemistry | 20(7) 1602–11 |
| 2018 | 10.1073/pnas.1711497115 | Voon, C. P., X. Guan, Y. Sun, A. Sahu, M. N. Chan, P. Gardeström, S. Wagner, P. Fuchs, T. Nietzel, W. K. Versaw, M. Schwarzländer and B. L. Lim | ATP compartmentation in plastids and cytosol of Arabidopsis thaliana revealed by fluorescent protein sensing | Proc Natl Acad Sci U S A | 115(45) E10778-e10787 |
| 2018 | 10.1104/pp.18.00584 | Voiniciuc, C., K. A. Engle, M. Gunl, S. Dieluweit, M. H. Schmidt, J. Y. Yang, K. W. Moremen, D. Mohnen and B. Usadel | Identification of Key Enzymes for Pectin Synthesis in Seed Mucilage | Plant Physiology | 178(3) 1045–64 |
| 2018 | 10.1038/s41467-018-05915-w | Vogl, T., T. Kickenweiz, J. Pitzer, L. Sturmberger, A. Weninger, et al. | Engineered bidirectional promoters enable rapid multi-gene co-expression optimization | Nature Communications | 9(1) 3589 |
| 2018 | 10.1016/j.chembiol.2018.04.009 | Vögeli, B., K. Geyer, P. D. Gerlinger, S. Benkstein, N. S. Cortina and T. J. Erb | Combining Promiscuous Acyl-CoA Oxidase and Enoyl-CoA Carboxylase/Reductases for Atypical Polyketide Extender Unit Biosynthesis | Cell Chemical Biology | 25(7) 833-839.e4 |
| 2018 | 10.1021/acssuschemeng.8b03794 | Villegas Calvo, M., B. Colombo, L. Corno, G. Eisele, C. Cosentino, G. Papa, B. Scaglia, R. Pilu, B. Simmons and F. Adani | Bioconversion of Giant Cane for Integrated Production of Biohydrogen, Carboxylic Acids, and Polyhydroxyalkanoates (PHAs) in a Multistage Biorefinery Approach | ACS Sustainable Chemistry & Engineering | 6(11) 15361–73 |
| 2018 | 10.1038/s41396-018-0155-4 | Vigneron, A., P. Cruaud, E. Alsop, J. R. de Rezende, I. M. Head and N. Tsesmetzis | Beyond the tip of the iceberg; a new view of the diversity of sulfite- and sulfate-reducing microorganisms | The ISME Journal | 12(8) 2096-2099 |
| 2018 | 10.1038/s41588-018-0246-1 | Vesth, T. C., J. L. Nybo, S. Theobald, J. C. Frisvad, T. O. Larsen, et al. | Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri | Nature Genetics | 50(12) 1688-1695 |
| 2018 | 10.1038/s41396-018-0188-8 | Veličković, D., B. J. Agtuca, S. A. Stopka, A. Vertes, D. W. Koppenaal, L. Paša-Tolić, G. Stacey and C. R. Anderton | Observed metabolic asymmetry within soybean root nodules reflects unexpected complexity in rhizobacteria-legume metabolite exchange | The ISME Journal | 12(9) 2335-2338 |
| 2018 | 10.1111/cbdd.13110 | Velazquez, H. A., D. Riccardi, Z. Xiao, L. D. Quarles, C. R. Yates, J. Baudry and J. C. Smith | Ensemble docking to difficult targets in early-stage drug discovery: Methodology and application to fibroblast growth factor 23 | Chemical Biology & Drug Design | 91(2) 491–504 |
| 2018 | 10.1007/s11104-018-3692-8 | Veach, A. M., D. Yip, N. L. Engle, Z. K. Yang, A. Bible, J. Morrell-Falvey, T. J. Tschaplinski, U. C. Kalluri and C. W. Schadt | Modification of plant cell wall chemistry impacts metabolome and microbiome composition in Populus PdKOR1 RNAi plants | Plant and Soil | 429(1–2) 349–61 |
| 2018 | 10.1186/s40168-018-0548-7 | Vavourakis, C. D., A.-S. Andrei, M. Mehrshad, R. Ghai, D. Y. Sorokin and G. Muyzer | A metagenomics roadmap to the uncultured genome diversity in hypersaline soda lake sediments | Microbiome | 6(1) 168 |
| 2018 | 10.1080/00275514.2018.1456835 | Varriale, S., J. Houbraken, Z. Granchi, O. Pepe, G. Cerullo, V. Ventorino, T. Chin-A-Woeng, M. Meijer, R. Riley, I. V. Grigoriev, B. Henrissat, R. P. de Vries and V. Faraco | Talaromyces borbonicus, sp. nov., a novel fungus from biodegraded Arundo donax with potential abilities in lignocellulose conversion | Mycologia | 110(2) 316-324 |
| 2018 | 10.1111/nph.15332 | van der Schuren, A., C. Voiniciuc, J. Bragg, K. Ljung, J. Vogel, M. Pauly and C. S. Hardtke | Broad spectrum developmental role of Brachypodium AUX1 | New Phytologist | 219(4) 1216-1223 |
| 2018 | 10.1038/s41467-018-04593-y | Valdovinos, F. S., E. L. Berlow, P. Moisset de Espanes, R. Ramos-Jiliberto, D. P. Vazquez and N. D. Martinez | Species traits and network structure predict the success and impacts of pollinator invasions | Nature Communications | 9(1) 2153 |
| 2018 | 10.1093/molbev/msx315 | Vakirlis, N., A. S. Hebert, D. A. Opulente, G. Achaz, C. T. Hittinger, G. Fischer, J. J. Coon and I. Lafontaine | A molecular portrait of de novo genes in yeasts | Molecular Biology and Evolution | 35(3) 631-645 |
| 2018 | 10.3389/fmicb.2018.03058 | Urquhart, A. S., S. J. Mondo, M. R. Mäkelä, J. K. Hane, A. Wiebenga, G. He, S. Mihaltcheva, J. Pangilinan, A. Lipzen, K. Barry, R. P. de Vries, I. V. Grigoriev and A. Idnurm | Genomic and Genetic Insights Into a Cosmopolitan Fungus, Paecilomyces variotii (Eurotiales) | Frontiers in Microbiology | 9 |
| 2018 | 10.1038/s41477-018-0222-x | Ulvskov, P. and H. V. Scheller | Cell walls have a new family | Nature Plants | 4(9) 635–6 |
| 2018 | 10.1186/s12864-017-4393-z | Ullah, F., M. Hamilton, A. S. N. Reddy and A. Ben-Hur | Exploring the relationship between intron retention and chromatin accessibility in plants | BMC Genomics | 19(1) 21 |
| 2018 | 10.1371/journal.pone.0202519 | Tuskan, G. A., R. Mewalal, L. E. Gunter, K. J. Palla, K. Carter, et al. | Defining the genetic components of callus formation: A GWAS approach | PLoS One | 13(8) e0202519 |
| 2018 | 10.3389/fpls.2018.01799 | Tuskan, G. A., A. T. Groover, J. Schmutz, S. P. DiFazio, A. Myburg, et al. | Hardwood Tree Genomics: Unlocking Woody Plant Biology | Frontiers in Plant Science | 9 1799 |
| 2018 | 10.3389/fpls.2018.01799 | Tuskan, G. A., A. T. Groover, J. Schmutz, S. P. DiFazio, A. Myburg, et al. | Hardwood Tree Genomics: Unlocking Woody Plant Biology | Frontiers in Plant Science | 9 |
| 2018 | 10.1016/j.ibiod.2016.09.002 | Tsesmetzis, N., E. B. Alsop, A. Vigneron, F. Marcelis, I. M. Head and B. P. Lomans | Microbial community analysis of three hydrocarbon reservoir cores provides valuable insights for the assessment of reservoir souring potential | International Biodeterioration & Biodegradation | 126 177-188 |
| 2018 | 10.1111/1462-2920.14104 | Tsementzi, D., J. Castro Gordillo, M. Mahagna, Y. Gottlieb and K. T. Konstantinidis | Comparison of closely related, uncultivated Coxiella tick endosymbiont population genomes reveals clues about the mechanisms of symbiosis | Environmental Microbiology | 20(5) 1751–64 |
| 2018 | 10.1186/s40168-018-0495-3 | Tschitschko, B., S. Erdmann, M. Z. DeMaere, S. Roux, P. Panwar, M. A. Allen, T. J. Williams, S. Brazendale, A. M. Hancock, E. A. Eloe-Fadrosh and R. Cavicchioli | Genomic variation and biogeography of Antarctic haloarchaea | Microbiome | 6(1) 113 |
| 2018 | 10.1126/science.aao3030 | Tschauner, O., S. Huang, E. Greenberg, V. B. Prakapenka, C. Ma, G. R. Rossman, A. H. Shen, D. Zhang, M. Newville, A. Lanzirotti and K. Tait | Ice-VII inclusions in diamonds: Evidence for aqueous fluid in Earth’s deep mantle | Science | 359(6380) 1136 |
| 2018 | 10.1128/mSystems.00076-18 | Trubl, G., H. B. Jang, S. Roux, J. B. Emerson, N. Solonenko, et al. | Soil Viruses Are Underexplored Players in Ecosystem Carbon Processing | mSystems | 3(5) |
| 2018 | 10.1111/1365-2745.12919 | Treseder, K. K., E. B. Allen, L. M. Egerton-Warburton, M. M. Hart, J. N. Klironomos, H. Maherali and L. Tedersoo | Arbuscular mycorrhizal fungi as mediators of ecosystem responses to nitrogen deposition: A trait-based predictive framework | Journal of Ecology | 106(2) 480–9 |
| 2018 | 10.1111/1462-2920.14283 | Tran, P., A. Ramachandran, O. Khawasik, B. E. Beisner, M. Rautio, Y. Huot and D. A. Walsh | Microbial life under ice: Metagenome diversity and in situ activity of Verrucomicrobia in seasonally ice-covered Lakes | Environmental Microbiology | 20(7) 2568-2584 |
| 2018 | 10.1016/j.apsoil.2018.08.001 | Torres-Cruz, T. J., C. Hesse, C. R. Kuske and A. Porras-Alfaro | Presence and distribution of heavy metal tolerant fungi in surface soils of a temperate pine forest | Applied Soil Ecology | 131 66–74 |
| 2018 | 10.3835/plantgenome2017.10.0093 | Tornqvist, C. E., M. Taylor, Y. Jiang, J. Evans, C. R. Buell, S. M. Kaeppler and M. D. Casler | Quantitative Trait Locus Mapping for Flowering Time in a Lowland x Upland Switchgrass Pseudo-F2 Population | Plant Genome | 11(2) |
| 2018 | 10.1002/ente.201700626 | Tompsett, G. A., J. T. Boock, C. DiSpirito, E. Stolz, D. R. Knutson, A. G. Rivard, M. R. Overdevest, C. N. Conlon, K. L. J. Prather, J. R. Thompson and M. T. Timko | Extraction Rate and Energy Efficiency of Supercritical Carbon Dioxide Recovery of Higher Alcohols from Dilute Aqueous Solution | Energy Technology | 6(4) 683–93 |
| 2018 | 10.1038/s41477-018-0139-4 | Toju, H., K. G. Peay, M. Yamamichi, K. Narisawa, K. Hiruma, et al. | Core microbiomes for sustainable agroecosystems | Nature Plants | 4(5) 247–57 |
| 2018 | 10.1055/s-0036-1591556 | Timokhin, V., M. Regner, Y. Tsuji, J. Grabber and J. Ralph | Synthesis of Nepetoidin B | Synlett | 29(9) 1229-1231 |
| 2018 | 10.1128/msystems.00070-17 | Timm, C. M., K. R. Carter, A. A. Carrell, S.-R. Jun, S. S. Jawdy, et al. | Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome | mSystems | 3(1) |
| 2018 | 10.1186/s13068-018-1244-3 | Tibocha-Bonilla, J. D., C. Zuniga, R. D. Godoy-Silva and K. Zengler | Advances in metabolic modeling of oleaginous microalgae | Biotechnology for Biofuels | 11 241 |
| 2018 | 10.1093/bioinformatics/bty445 | Tian, M. and J. L. Reed | Integrating proteomic or transcriptomic data into metabolic models using linear bound flux balance analysis | Bioinformatics | 34(22) 3882–8 |
| 2018 | 10.3390/rs10071159 | Tian, L., J. Chen and C. Shao | Interdependent dynamics of LAI-Albedo across the roofing landscapes: Mongolian and Tibetan Plateaus | Remote Sensing | 10(7) |
| 2018 | 10.1038/s41598-018-20016-w | Thompson, M. G., N. Sedaghatian, J. F. Barajas, M. Wehrs, C. B. Bailey, N. Kaplan, N. J. Hillson, A. Mukhopadhyay and J. D. Keasling | Isolation and characterization of novel mutations in the pSC101 origin that increase copy number | Scientific Reports | 8(1) 1590 |
| 2018 | 10.1038/s41598-018-36561-3 | Theobald, S., T. C. Vesth, J. K. Rendsvig, K. F. Nielsen, R. Riley, L. M. de Abreu, A. Salamov, J. C. Frisvad, T. O. Larsen, M. R. Andersen and J. B. Hoof | Uncovering secondary metabolite evolution and biosynthesis using gene cluster networks and genetic dereplication | Scientific Reports | 8(1) 17957 |
| 2018 | 10.1371/journal.pone.0204298 | Teter, J., S. Yeh, M. Khanna and G. Berndes | Water impacts of U.S. biofuels: Insights from an assessment combining economic and biophysical models | PLoS One | 13(9) e0204298 |
| 2018 | 10.3389/fpls.2018.01250 | Taylor, M., C. E. Tornqvist, X. Zhao, P. Grabowski, R. Doerge, J. Ma, J. Volenec, J. Evans, G. P. Ramstein, M. D. Sanciangco, C. R. Buell, M. D. Casler and Y. Jiang | Genome-Wide Association Study in Pseudo-F2 Populations of Switchgrass Identifies Genetic Loci Affecting Heading and Anthesis Dates | Frontiers in Plant Science | 9 1250 |
| 2018 | 10.1038/s41467-018-03089-z | Taş, N., E. Prestat, S. Wang, Y. Wu, C. Ulrich, T. Kneafsey, S. G. Tringe, M. S. Torn, S. S. Hubbard and J. K. Jansson | Landscape topography structures the soil microbiome in arctic polygonal tundra | Nature Communications | 9(1) 777 |
| 2018 | 10.1007/s00572-018-0865-5 | Tarkka, M. T., B. Drigo and A. Deveau | Mycorrhizal microbiomes | Mycorrhiza | 28(5–6) 403–9 |
| 2018 | 10.1002/biot.201700586 | Tarasava, K., E. J. Oh, C. A. Eckert and R. T. Gill | CRISPR-Enabled Tools for Engineering Microbial Genomes and Phenotypes | Biotechnology Journal | 13(9) e1700586 |
| 2018 | 10.1002/bit.26589 | Tarasava, K., R. Liu, A. Garst and R. T. Gill | Combinatorial pathway engineering using type I-E CRISPR interference | Biotechnology and Bioengineering | 115(7) 1878–83 |
| 2018 | 10.1088/1748-9326/aadcb2 | Taptich, M. N., C. D. Scown, K. Piscopo and A. Horvath | Drop-in biofuels offer strategies for meeting California’s 2030 climate mandate | Environmental Research Letters | 13(9) 094018 |
| 2018 | 10.1007/978-3-319-93594-2_9 | Taniguchi, M. and A. B. Cousins | Significance of and C4 Cellular Leaf Structure Levels at the Tissue | The Leaf: A Platform for Performing Photosynthesis | 44 255–79 |
| 2018 | 10.1111/tpj.13988 | Takeda, Y., Y. Tobimatsu, S. D. Karlen, T. Koshiba, S. Suzuki, M. Yamamura, S. Murakami, M. Mukai, T. Hattori, K. Osakabe, J. Ralph, M. Sakamoto and T. Umezawa | Downregulation of p-COUMAROYL ESTER 3-HYDROXYLASE in rice leads to altered cell wall structures and improves biomass saccharification | The Plant Journal | 95(5) 796–811 |
| 2018 | 10.1038/s41467-017-02356-9 | Swenson, T. L., U. Karaoz, J. M. Swenson, B. P. Bowen and T. R. Northen | Linking soil biology and chemistry in biological soil crust using isolate exometabolomics | Nature Communications | 9(1) 19 |
| 2018 | 10.1039/c8gc00518d | Sundstrom, E., J. Yaegashi, J. P. Yan, F. Masson, G. Papa, et al. | Demonstrating a separation-free process coupling ionic liquid pretreatment, saccharification, and fermentation with Rhodosporidium toruloides to produce advanced biofuels | Green Chemistry | 20(12) 2870–9 |
| 2018 | 10.1002/cssc.201701798 | Sun, J., D. Liu, R. P. Young, A. G. Cruz, N. G. Isern, T. Schuerg, J. R. Cort, B. A. Simmons and S. Singh | Solubilization and Upgrading of High Polyethylene Terephthalate Loadings in a Low-Costing Bifunctional Ionic Liquid | ChemSusChem | 11(4) 781–92 |
| 2018 | 10.1093/femsyr/foy011 | Su, Y. K., L. B. Willis, L. Rehmann, D. R. Smith and T. W. Jeffries | Spathaspora passalidarum selected for resistance to AFEX hydrolysate shows decreased cell yield | FEMS Yeast Research | 18(6) |
| 2018 | 10.1111/nph.15076 | Strullu-Derrien, C., M. A. Selosse, P. Kenrick and F. M. Martin | The origin and evolution of mycorrhizal symbioses: from palaeomycology to phylogenomics | New Phytologist | 220(4) 1012–30 |
| 2018 | 10.3390/chemosensors6010011 | Strobbia, P., R. Odion and T. Vo-Dinh | Spectroscopic Chemical Sensing and Imaging: From Plants to Animals and Humans | Chemosensors | 6(1) |
| 2018 | 10.1111/tpj.14067 | Stranne, M., Y. Ren, L. Fimognari, D. Birdseye, J. Yan, M. Bardor, J. C. Mollet, T. Komatsu, J. Kikuchi, H. V. Scheller and Y. Sakuragi | TBL10 is required for O-acetylation of pectic rhamnogalacturonan-I in Arabidopsis thaliana | The Plant Journal | 96(4) 772–85 |
| 2018 | 10.1128/AEM.01124-18 | Stough, J. M. A., M. Kolton, J. E. Kostka, D. J. Weston, D. A. Pelletier and S. W. Wilhelm | Diversity of Active Viral Infections within the Sphagnum Microbiome | Applied and Environmental Microbiology | 84(23) e01124-18 |
| 2018 | 10.3389/fpls.2018.01646 | Stopka, S. A., R. Khattar, B. J. Agtuca, C. R. Anderton, L. Paša-Tolić, G. Stacey and A. Vertes | Metabolic Noise and Distinct Subpopulations Observed by Single Cell LAESI Mass Spectrometry of Plant Cells in situ | Frontiers in Plant Science | 9(1646) |
| 2018 | 10.1021/acssuschemeng.8b02741 | Stone, M. L., E. M. Anderson, K. M. Meek, M. Reed, R. Katahira, F. Chen, R. A. Dixon, G. T. Beckham and Y. Roman-Leshkoy | Reductive Catalytic Fractionation of C-Lignin | ACS Sustainable Chemistry & Engineering | 6(9) 11211–8 |
| 2018 | 10.1111/1751-7915.12982 | Stolze, Y., A. Bremges, I. Maus, A. Pühler, A. Sczyrba and A. Schlüter | Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants | Microbial Biotechnology | 11(4) 667-679 |
| 2018 | 10.1111/jpy.12795 | Stiller, J. W., C. Yang, J. Collén, N. Kowalczyk and B. E. Thompson | Evolution and expression of core SWI/SNF genes in red algae | Journal of Phycology | 54(6) 879-887 |
| 2018 | 10.3389/fmicb.2018.02382 | Steven, B., J. Belnap and C. R. Kuske | Chronic Physical Disturbance Substantially Alters the Response of Biological Soil Crusts to a Wetting Pulse, as Characterized by Metatranscriptomic Sequencing | Frontiers in Microbiology | 9 2382 |
| 2018 | 10.1038/s41588-018-0040-0 | Stein, J. C., Y. Yu, D. Copetti, D. J. Zwickl, L. Zhang, et al. | Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza | Nature Genetics | 50(2) 285-296 |
| 2018 | 10.1093/femsec/fiy130 | Stedtfeld, R. D., X. Guo, T. M. Stedtfeld, H. Sheng, M. R. Williams, et al. | Primer set 2.0 for highly parallel qPCR array targeting antibiotic resistance genes and mobile genetic elements | FEMS Microbiology Ecology | 94(9) |
| 2018 | 10.1186/s40168-018-0499-z | Starr, E. P., S. Shi, S. J. Blazewicz, A. J. Probst, D. J. Herman, M. K. Firestone and J. F. Banfield | Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially-processed plant-derived carbon | Microbiome | 6(1) 122 |
| 2018 | 10.1126/sciadv.aat5107 | Stark, J. C., A. Huang, P. Q. Nguyen, R. S. Dubner, K. J. Hsu, et al. | BioBits™ Bright: A fluorescent synthetic biology education kit | Science Advances | 4(8) |
| 2018 | 10.1111/gbi.12311 | Stanton, C. L., C. T. Reinhard, J. F. Kasting, N. E. Ostrom, J. A. Haslun, T. W. Lyons and J. B. Glass | Nitrous oxide from chemodenitrification: A possible missing link in the Proterozoic greenhouse and the evolution of aerobic respiration | Geobiology | 16(6) 597–609 |
| 2018 | 10.1016/j.meteno.2018.04.002 | Standaert, R. F., R. J. Giannone and J. K. Michener | Identification of parallel and divergent optimization solutions for homologous metabolic enzymes | Metabolic Engineering Communications | 6 56–62 |
| 2018 | 10.1002/anie.201708867 | Stadlmeier, M., J. Bogena, M. Wallner, M. Wuhr and T. Carell | A Sulfoxide-Based Isobaric Labelling Reagent for Accurate Quantitative Mass Spectrometry | Angewandte Chemie International Edition | 57(11) 2958–62 |
| 2018 | 10.1177/0049085717743843 | Srivastava, V. K. | The National Committee Report on Tribal People | Social Change | 48(1) 120-130 |
| 2018 | 10.1016/j.geoderma.2017.11.040 | Sprunger, C. D. and G. Philip Robertson | Early accumulation of active fraction soil carbon in newly established cellulosic biofuel systems | Geoderma | 318 42–51 |
| 2018 | 10.12688/gatesopenres.12777.2 | Spriggs, A., S. Henderson, M. Hand, S. Johnson, J. Taylor and A. Koltunow | Assembled genomic and tissue-specific transcriptomic data resources for two genetically distinct lines of Cowpea (Vigna unguiculata (L.) Walp) | Gates Open Research | 2(7) |
| 2018 | 10.1186/s12864-018-5055-5 | Spindel, J. E., J. Dahlberg, M. Colgan, J. Hollingsworth, J. Sievert, S. H. Staggenborg, R. Hutmacher, C. Jansson and J. P. Vogel | Association mapping by aerial drone reveals 213 genetic associations for Sorghum bicolor biomass traits under drought | BMC Genomics | 19(1) 679 |
| 2018 | 10.1007/s00442-017-4036-8 | Spiesman, B. J., H. Kummel and R. D. Jackson | Carbon storage potential increases with increasing ratio of C4 to C3 grass cover and soil productivity in restored tallgrass prairies | Oecologia | 186(2) 565-576 |
| 2018 | 10.7717/peerj.5614 | Speth, D. R. and V. J. Orphan | Metabolic marker gene mining provides insight in global mcrA diversity and, coupled with targeted genome reconstruction, sheds further light on metabolic potential of the Methanomassiliicoccales | PeerJ | 6 e5614 |
| 2018 | 10.1021/acs.analchem.7b04713 | Sonnett, M., E. Yeung and M. Wühr | Accurate, Sensitive, and Precise Multiplexed Proteomics Using the Complement Reporter Ion Cluster | Analytical Chemistry | 90(8) 5032-5039 |
| 2018 | 10.1039/c8sc03208d | Song, Y., J. K. Mobley, A. H. Motagamwala, M. Isaacs, J. A. Dumesic, J. Ralph, A. F. Lee, K. Wilson and M. Crocker | Gold-catalyzed conversion of lignin to low molecular weight aromatics | Chemical Science | 9(42) 8127–33 |
| 2018 | 10.3390/pr6050041 | Song, H. S. | Special Issue: Microbial Community Modeling: Prediction of Microbial Interactions and Community Dynamics | Processes | 6(5) |
| 2018 | 10.1186/s13068-018-1023-1 | Song, B., B. Li, X. Wang, W. Shen, S. Park, C. Collings, A. Feng, S. J. Smith, J. D. Walton and S. Y. Ding | Real-time imaging reveals that lytic polysaccharide monooxygenase promotes cellulase activity by increasing cellulose accessibility | Biotechnology for Biofuels | 11 41 |
| 2018 | 10.1104/pp.18.01190 | Sommer, M., M. Sutter, S. Gupta, H. Kirst, A. Turmo, et al. | Heterohexamers Formed by CcmK3 and CcmK4 Increase the Complexity of Beta Carboxysome Shells | Plant Physiology | 179(1) 156–67 |
| 2018 | 10.1016/j.fgb.2018.09.004 | Solomon, K. V., J. K. Henske, S. P. Gilmore, A. Lipzen, I. V. Grigoriev, D. Thompson and M. A. O'Malley | Catabolic repression in early-diverging anaerobic fungi is partially mediated by natural antisense transcripts | Fungal Genetics and Biology | 121 1–9 |
| 2018 | 10.1039/C7GC03608F | Smith, M. D., C. M. Cai, X. Cheng, L. Petridis and J. C. Smith | Temperature-dependent phase behaviour of tetrahydrofuran–water alters solubilization of xylan to improve co-production of furfurals from lignocellulosic biomass | Green Chemistry | 20(7) 1612–20 |
| 2018 | 10.1146/annurev-biophys-070317-033358 | Smith, J. C., P. Tan, L. Petridis and L. Hong | Dynamic Neutron Scattering by Biological Systems | Annual Review of Biophysics | 47 335–54 |
| 2018 | 10.1093/femsec/fiy191 | Smith, H. J., A. J. Zelaya, K. B. De León, R. Chakraborty, D. A. Elias, T. C. Hazen, A. P. Arkin, A. B. Cunningham and M. W. Fields | Impact of hydrologic boundaries on microbial planktonic and biofilm communities in shallow terrestrial subsurface environments | FEMS Microbiology Ecology | 94(12) fiy191 |
| 2018 | 10.1038/s41396-018-0086-0 | Smith, G. R., B. S. Steidinger, T. D. Bruns and K. G. Peay | Competition-colonization tradeoffs structure fungal diversity | The ISME Journal | 12(7) 1758–67 |
| 2018 | 10.1128/mbio.00815-18 | Smith, G. J., J. C. Angle, L. M. Solden, M. A. Borton, T. H. Morin, R. A. Daly, M. D. Johnston, K. C. Stefanik, R. Wolfe, B. Gil and K. C. Wrighton | Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland | mBio | 9(6) |
| 2018 | 10.1128/mBio.00815-18 | Smith, G. J., J. C. Angle, L. M. Solden, M. A. Borton, T. H. Morin, R. A. Daly, M. D. Johnston, K. C. Stefanik, R. Wolfe, B. Gil and K. C. Wrighton | Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland | mBio | 9(6) |
| 2018 | 10.1016/j.bjm.2017.03.009 | Škraban, J., N. C. Kyrpides, N. Shapiro, W. B. Whitman and J. Trček | Draft genome sequence of Chryseobacterium limigenitum SUR2T (LMG 28734T) isolated from dehydrated sludge | Brazilian Journal of Microbiology | 49(1) 45783 |
| 2018 | 10.1111/1477-9552.12233 | Skevas, T., I. Skevas and S. M. Swinton | Does Spatial Dependence Affect the Intention to Make Land Available for Bioenergy Crops? | Journal of Agricultural Economics | 69(2) 393-412 |
| 2018 | 10.1038/s41396-018-0065-5 | Singleton, C. M., C. K. McCalley, B. J. Woodcroft, J. A. Boyd, P. N. Evans, S. B. Hodgkins, J. P. Chanton, S. Frolking, P. M. Crill, S. R. Saleska, V. I. Rich and G. W. Tyson | Methanotrophy across a natural permafrost thaw environment | The ISME Journal | 12(10) 2544–58 |
| 2018 | 10.1038/s41564-018-0171-1 | Sieber, C. M. K., A. J. Probst, A. Sharrar, B. C. Thomas, M. Hess, S. G. Tringe and J. F. Banfield | Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy | Nature Microbiology | 3(7) 836-843 |
| 2018 | 10.1021/jacs.8b05544 | Si, T., Q. Tian, Y. Min, L. Zhang, J. V. Sweedler, W. A. van der Donk and H. Zhao | Rapid Screening of Lanthipeptide Analogs via In-Colony Removal of Leader Peptides in Escherichia coli | Journal of the American Chemical Society | 140(38) 11884–8 |
| 2018 | 10.1039/c8gc00353j | Shinde, S. D., X. Z. Meng, R. Kumar and A. J. Ragauskas | Recent advances in understanding the pseudo-lignin formation in a lignocellulosic biorefinery | Green Chemistry | 20(10) 2192–205 |
| 2018 | 10.1111/gcb.14333 | Shi, Z., Y. Lin, K. R. Wilcox, L. Souza, L. Jiang, J. Jiang, C. G. Jung, X. Xu, M. Yuan, X. Guo, L. Wu, J. Zhou and Y. Luo | Successional change in species composition alters climate sensitivity of grassland productivity | Global Change Biology | 24(10) 4993–5003 |
| 2018 | 10.1016/j.soilbio.2018.09.013 | Shi, S. J., D. J. Herman, Z. L. He, J. Pett-Ridge, L. Y. Wu, J. Z. Zhou and M. K. Firestone | Plant roots alter microbial functional genes supporting root litter decomposition | Soil Biology and Biochemistry | 127 90–9 |
| 2018 | 10.1007/s10295-018-2004-x | Shi, S., E. L. Ang and H. Zhao | In vivo biosensors: mechanisms, development, and applications | Journal of Industrial Microbiology and Biotechnology | 45(7) 491–516 |
| 2018 | 10.1093/bioinformatics/bty733 | Shi, L., X. Meng, E. Tseng, M. Mascagni and Z. Wang | SpaRC: scalable sequence clustering using Apache Spark | Bioinformatics | 35(5) 760-768 |
| 2018 | 10.1080/10408398.2017.1303769 | Shi, H. and P. Yu | Advanced synchrotron-based and globar-sourced molecular (micro) spectroscopy contributions to advances in food and feed research on molecular structure, mycotoxin determination, and molecular nutrition | Crit Rev Food Sci Nutr | 58(13) 2164-2175 |
| 2018 | 10.1016/j.cell.2018.10.023 | Shen, X. X., D. A. Opulente, J. Kominek, X. Zhou, J. L. Steenwyk, et al. | Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum | Cell | 175(6) 1533–45.e20 |
| 2018 | 10.1128/mSystems.00155-17 | Shank, E. A. | Considering the Lives of Microbes in Microbial Communities | mSystems | 3(2) |
| 2018 | 10.1016/j.tree.2018.08.005 | Shade, A., R. R. Dunn, S. A. Blowes, P. Keil, B. J. M. Bohannan, M. Herrmann, K. Kusel, J. T. Lennon, N. J. Sanders, D. Storch and J. Chase | Macroecology to Unite All Life, Large and Small | Trends in Ecology & Evolution | 33(10) 731–44 |
| 2018 | 10.1128/msystems.00157-17 | Shade, A. | Understanding Microbiome Stability in a Changing World | mSystems | 3(2) |
| 2018 | 10.1038/nbt.4110 | Seshadri, R., S. C. Leahy, G. T. Attwood, K. H. Teh, S. C. Lambie, et al. | Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection | Nature Biotechnology | 36(4) 359-367 |
| 2018 | 10.1002/cssc.201800730 | Sener, C., A. H. Motagamwala, D. M. Alonso and J. A. Dumesic | Enhanced Furfural Yields from Xylose Dehydration in the γ-Valerolactone/Water Solvent System at Elevated Temperatures | ChemSusChem | 11(14) 2321-2331 |
| 2018 | 10.1002/cssc.201801506 | Sener, C., A. H. Motagamwala, D. M. Alonso and J. A. Dumesic | Enhanced Furfural Yields from Xylose Dehydration in the γ-Valerolactone/Water Solvent System at Elevated Temperatures | ChemSusChem | 11(14) 2266 |
| 2018 | 10.1111/tpj.14088 | Sechet, J., S. Htwe, B. Urbanowicz, A. Agyeman, W. Feng, T. Ishikawa, M. Colomes, K. S. Kumar, M. Kawai-Yamada, J. R. Dinneny, M. A. O'Neill and J. C. Mortimer | Suppression of Arabidopsis GGLT1 affects growth by reducing the L-galactose content and borate cross-linking of rhamnogalacturonan-II | The Plant Journal | 96(5) 1036–50 |
| 2018 | 10.1111/tpj.14003 | Seaver, S. M. D., C. Lerma-Ortiz, N. Conrad, A. Mikaili, A. Sreedasyam, A. D. Hanson and C. S. Henry | PlantSEED enables automated annotation and reconstruction of plant primary metabolism with improved compartmentalization and comparative consistency | The Plant Journal | 95(6) 1102-1113 |
| 2018 | 10.1111/1462-2920.14090 | Scott, K. M., J. Williams, C. M. B. Porter, S. Russel, T. L. Harmer, et al. | Genomes of ubiquitous marine and hypersaline Hydrogenovibrio, Thiomicrorhabdus and Thiomicrospira spp. encode a diversity of mechanisms to sustain chemolithoautotrophy in heterogeneous environments | Environmental Microbiology | 20(8) 2686-2708 |
| 2018 | 10.1128/mbio.02275-17 | Schwessinger, B., J. Sperschneider, W. S. Cuddy, D. P. Garnica, M. E. Miller, J. M. Taylor, P. N. Dodds, M. Figueroa, R. F. Park and J. P. Rathjen | A Near-Complete Haplotype-Phased Genome of the Dikaryotic Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici Reveals High Interhaplotype Diversity | mBio | 9(1) |
| 2018 | 10.1038/s41467-018-07335-2 | Schulz, F., L. Alteio, D. Goudeau, E. M. Ryan, F. B. Yu, R. R. Malmstrom, J. Blanchard and T. Woyke | Hidden diversity of soil giant viruses | Nature Communications | 9(1) 4881 |
| 2018 | 10.1016/bs.mie.2018.04.010 | Schultz, C., J. Lian and H. Zhao | Metabolic Engineering of Saccharomyces cerevisiae Using a Trifunctional CRISPR/Cas System for Simultaneous Gene Activation, Interference, and Deletion | Methods in Enzymology | 608 265-276 |
| 2018 | 10.1093/jee/toy292 | Schuh, M. K., C. A. Bahlai, C. M. Malmstrom and D. A. Landis | Effect of Switchgrass Ecotype and Cultivar on Establishment, Feeding, and Development of Fall Armyworm (Lepidoptera: Noctuidae) | Journal of Economic Entomology | 112(1) 440–49 |
| 2018 | 10.1105/tpc.18.00083 | Scholthof, K.-B. G., S. Irigoyen, P. Catalan and K. K. Mandadi | Brachypodium: A Monocot Grass Model Genus for Plant Biology | The Plant Cell | 30(8) 1673-1694 |
| 2018 | 10.1186/s13059-017-1383-z | Schmid, M. W., A. Giraldo-Fonseca, M. Rövekamp, D. Smetanin, J. L. Bowman and U. Grossniklaus | Extensive epigenetic reprogramming during the life cycle of Marchantia polymorpha | Genome Biology | 19(1) 9 |
| 2018 | 10.1186/s13068-018-1193-x | Scarborough, M. J., G. Lynch, M. Dickson, M. McGee, T. J. Donohue and D. R. Noguera | Increasing the economic value of lignocellulosic stillage through medium-chain fatty acid production | Biotechnology for Biofuels | 11 200 |
| 2018 | 10.1128/mSystems.00221-18 | Scarborough, M. J., C. E. Lawson, J. J. Hamilton, T. J. Donohue and D. R. Noguera | Metatranscriptomic and Thermodynamic Insights into Medium-Chain Fatty Acid Production Using an Anaerobic Microbiome | mSystems | 3(6) |
| 2018 | 10.1186/s13068-018-1043-x | Sawada, D., U. C. Kalluri, H. O’Neill, V. Urban, P. Langan, B. Davison and S. V. Pingali | Tension wood structure and morphology conducive for better enzymatic digestion | Biotechnology for Biofuels | 11(1) 44 |
| 2018 | 10.1016/j.biotechadv.2018.08.009 | Satlewal, A., R. Agrawal, S. Bhagia, J. Sangoro and A. J. Ragauskas | Natural deep eutectic solvents for lignocellulosic biomass pretreatment: Recent developments, challenges and novel opportunities | Biotechnology Advances | 36(8) 2032–50 |
| 2018 | 10.1021/acs.est.8b04481 | Satchwell, A. J., C. D. Scown, S. J. Smith, J. Amirebrahimi, L. Jin, T. W. Kirchstetter, N. J. Brown and C. V. Preble | Accelerating the Deployment of Anaerobic Digestion to Meet Zero Waste Goals | Environmental Science & Technology | 52(23) 13663–9 |
| 2018 | 10.1016/j.tplants.2017.09.003 | Sasse, J., E. Martinoia and T. Northen | Feed Your Friends: Do Plant Exudates Shape the Root Microbiome? | Trends in Plant Science | 23(1) 25–41 |
| 2018 | 10.1371/journal.pgen.1007217 | Sardi, M., V. Paithane, M. Place, D. E. Robinson, J. Hose, D. J. Wohlbach and A. P. Gasch | Genome-wide association across Saccharomyces cerevisiae strains reveals substantial variation in underlying gene requirements for toxin tolerance | PLoS Genetics | 14(2) |
| 2018 | 10.1534/g3.118.200677 | Sardi, M., M. Krause, J. Heilberger and A. P. Gasch | Genotype-by-Environment-by-Environment Interactions in the Saccharomyces cerevisiae Transcriptomic Response to Alcohols and Anaerobiosis | G3 Genes|Genomes|Genetics | 8(12) 3881–90 |
| 2018 | 10.1007/s00294-018-0835-7 | Sardi, M. and A. P. Gasch | Genetic background effects in quantitative genetics: gene-by-system interactions | Current Genetics | 64(6) 1173–6 |
| 2018 | 10.1111/1462-2920.14357 | Samo, T. J., J. A. Kimbrel, D. J. Nilson, J. Pett-Ridge, P. K. Weber and X. Mayali | Attachment between heterotrophic bacteria and microalgae influences symbiotic microscale interactions | Environmental Microbiology | 20(12) 4385–400 |
| 2018 | 10.1186/s13068-018-1178-9 | Sammond, D. W., N. Kastelowitz, B. S. Donohoe, M. Alahuhta, V. V. Lunin, D. Chung, N. S. Sarai, H. Yin, A. Mittal, M. E. Himmel, A. M. Guss and Y. J. Bomble | An iterative computational design approach to increase the thermal endurance of a mesophilic enzyme | Biotechnology for Biofuels | 11 189 |
| 2018 | 10.1002/pro.3420 | Saelices, L., S. A. Sievers, M. R. Sawaya and D. S. Eisenberg | Crystal structures of amyloidogenic segments of human transthyretin | Protein Science | 27(7) 1295-1303 |
| 2018 | 10.1007/s11103-017-0696-3 | Sade, N., M. del Mar Rubio Wilhelmi, X. Ke, Y. Brotman, M. Wright, I. Khan, W. De Souza, E. Bassil, C. M. Tobias, R. Thilmony, J. P. Vogel and E. Blumwald | Salt tolerance of two perennial grass Brachypodium sylvaticum accessions | Plant Molecular Biology | 96(3) 305-314 |
| 2018 | 10.1007/s11103-017-0696-3 | Sade, N., M. Del Mar Rubio Wilhelmi, X. Ke, Y. Brotman, M. Wright, I. Khan, W. De Souza, E. Bassil, C. M. Tobias, R. Thilmony, J. P. Vogel and E. Blumwald | Salt tolerance of two perennial grass Brachypodium sylvaticum accessions | Plant Molecular Biology | 96(3) 305–14 |
| 2018 | 10.1021/acs.iecr.8b04083 | Ryu, J. and C. T. Maravelias | Simultaneous Process and Heat Exchanger Network Synthesis Using a Discrete Temperature Grid | Industrial & Engineering Chemistry Research | 58(15) 6002–16 |
| 2018 | 10.1186/s13068-018-1266-x | Russell, J., S. K. Kim, J. Duma, H. Nothaft, M. E. Himmel, Y. J. Bomble, C. M. Szymanski and J. Westpheling | Deletion of a single glycosyltransferase in Caldicellulosiruptor bescii eliminates protein glycosylation and growth on crystalline cellulose | Biotechnology for Biofuels | 11 259 |
| 2018 | 10.1002/cbic.201700638 | Ruprecht, C., P. Dallabernardina, P. J. Smith, B. R. Urbanowicz and F. Pfrengle | Analyzing Xyloglucan Endotransglycosylases by Incorporating Synthetic Oligosaccharides into Plant Cell Walls | ChemBioChem | 19(8) 793–8 |
| 2018 | 10.1038/s41467-018-05857-3 | Ruegg, T. L., J. H. Pereira, J. C. Chen, A. DeGiovanni, P. Novichkov, V. K. Mutalik, G. P. Tomaleri, S. W. Singer, N. J. Hillson, B. A. Simmons, P. D. Adams and M. P. Thelen | Jungle Express is a versatile repressor system for tight transcriptional control | Nature Communications | 9(1) 3617 |
| 2018 | 10.1016/j.str.2017.12.002 | Rothé, B., C. N. Leettola, L. Leal-Esteban, D. Cascio, S. Fortier, M. Isenschmid, J. U. Bowie and D. B. Constam | Crystal Structure of Bicc1 SAM Polymer and Mapping of Interactions between the Ciliopathy-Associated Proteins Bicc1, ANKS3, and ANKS6 | Structure | 26(2) 209-224.e6 |
| 2018 | 10.1371/journal.pone.0197320 | Roley, S. S., D. S. Duncan, D. Liang, A. Garoutte, R. D. Jackson, J. M. Tiedje and G. P. Robertson | Associative nitrogen fixation (ANF) in switchgrass (Panicum virgatum) across a nitrogen input gradient | PLOS ONE | 13(6) e0197320 |
| 2018 | 10.1002/ecs2.2524 | Rogers, T. J., C. Leppanen, V. Brown, J. A. Fordyce, A. LeBude, T. Ranney, D. Simberloff and M. A. Cregger | Exploring variation in phyllosphere microbial communities across four hemlock species | Ecosphere | 9(12) |
| 2018 | 10.1128/mSystems.00039-18 | Rodriguez-R., L. M., S. Gunturu, J. M. Tiedje, J. R. Cole and K. T. Konstantinidis | Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity | mSystems | 3(3) |
| 2018 | 10.1128/AEM.00014-18 | Rodriguez-R, L. M., J. C. Castro, N. C. Kyrpides, J. R. Cole, J. M. Tiedje and K. T. Konstantinidis | How Much Do rRNA Gene Surveys Underestimate Extant Bacterial Diversity? | Applied and Environmental Microbiology | 84(6) e00014-18 |
| 2018 | 10.1128/AEM.00014-18 | Rodriguez, R. L., J. C. Castro, N. C. Kyrpides, J. R. Cole, J. M. Tiedje and K. T. Konstantinidis | How Much Do rRNA Gene Surveys Underestimate Extant Bacterial Diversity? | Applied and Environmental Microbiology | 84(6) |
| 2018 | 10.1146/annurev-anchem-061417-125635 | Retterer, S. T., J. L. Morrell-Falvey and M. J. Doktycz | Nano-Enabled Approaches to Chemical Imaging in Biosystems | Annual Review of Analytical Chemistry | 11(1) 351–73 |
| 2018 | 10.1021/acs.jafc.7b04638 | Rencoret, J., H. Kim, A. B. Evaristo, A. Gutiérrez, J. Ralph and J. C. Del Río | Variability in Lignin Composition and Structure in Cell Walls of Different Parts of Macaúba (Acrocomia aculeata) Palm Fruit | Journal of Agricultural and Food Chemistry | 66(1) 138-153 |
| 2018 | 10.1007/s00253-017-8717-3 | Reilly, M. C., J. Kim, J. Lynn, B. A. Simmons, J. M. Gladden, J. K. Magnuson and S. E. Baker | Forward genetics screen coupled with whole-genome resequencing identifies novel gene targets for improving heterologous enzyme production in Aspergillus niger | Applied Microbiology and Biotechnology | 102(4) 1797–807 |
| 2018 | 10.1007/978-1-4939-7877-9_10 | Reilly, M. C., S. Amaike Campen, B. A. Simmons, S. E. Baker, J. M. Gladden and J. K. Magnuson | Cloning and Expression of Heterologous Cellulases and Enzymes in Aspergillus niger | Cellulases: Methods and Protocols | 1796 123–33 |
| 2018 | 10.1002/cssc.201800617 | Regner, M., A. Bartuce, D. Padmakshan, J. Ralph and S. D. Karlen | Reductive Cleavage Method for Quantitation of Monolignols and Low-Abundance Monolignol Conjugates | ChemSusChem | 11(10) 1600–5 |
| 2018 | 10.1002/jrs.5482 | Register, J., M. Maiwald, A. Fales, P. Strobbia, B. Sumpf and T. Vo‐Dinh | Shifted‐excitation Raman difference spectroscopy for the detection of SERS‐encoded gold nanostar probes | Journal of Raman Spectroscopy | 49(12) 1961-1967 |
| 2018 | 10.4236/jsbs.2018.81001 | Razar, R. M. and A. Missaoui | Phenotyping Winter Dormancy in Switchgrass to Extend the Growing Season and Improve Biomass Yield | Journal of Sustainable Bioenergy Systems | 8(1) 1–22 |
| 2018 | 10.1094/Pbiomes-04-17-0017-A | Ray, P., M. H. Chi, Y. Q. Guo, C. D. Chen, C. Adam, A. Kuo, K. LaButti, A. Lipzen, K. W. Barry, I. V. Grigoriev, Y. H. Tang and K. D. Craven | Genome Sequence of the Plant Growth Promoting Fungus Serendipita vermifera subsp. bescii: The First Native Strain from North America | Phytobiomes Journal | 2(2) 62–3 |
| 2018 | 10.1007/s11557-017-1337-6 | Raudabaugh, D. B., T. Iturriaga, A. Carver, S. Mondo, J. Pangilinan, A. Lipzen, G. He, M. Amirebrahimi, I. V. Grigoriev and A. N. Miller | Coniella lustricola, a new species from submerged detritus | Mycological Progress | 17(1) 191-203 |
| 2018 | 10.1038/s41598-018-23106-x | Rastogi, A., U. Maheswari, R. G. Dorrell, F. R. J. Vieira, F. Maumus, A. Kustka, J. McCarthy, A. E. Allen, P. Kersey, C. Bowler and L. Tirichine | Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms | Scientific Reports | 8(1) 4834 |
| 2018 | 10.3389/fpls.2018.00399 | Rao, X. and R. A. Dixon | Current Models for Transcriptional Regulation of Secondary Cell Wall Biosynthesis in Grasses | Frontiers in Plant Science | 9 399 |
| 2018 | 10.3835/plantgenome2018.01.0002 | Ramstein, G. P., J. Evans, A. Nandety, M. C. Saha, E. C. Brummer, S. M. Kaeppler, C. R. Buell and M. D. Casler | Candidate variants for additive and interactive effects on bioenergy traits in switchgrass (Panicum virgatum L.) identified by genome-wide association analyses | Plant Genome | 11 |
| 2018 | 10.1016/j.cherd.2018.07.015 | Ramapriya, G. M., W. Y. Won and C. T. Maravelias | A superstructure optimization approach for process synthesis under complex reaction networks | Chemical Engineering Research & Design | 137 589–608 |
| 2018 | 10.1002/aic.16396 | Ralston, M. T. and E. T. Papoutsakis | RNAseq-based transcriptome assembly of Clostridium acetobutylicum for functional genome annotation and discovery | AIChE Journal | 64(12) 4271–80 |
| 2018 | 10.3389/fenrg.2018.00118 | Ragauskas, A. J. and C. G. Yoo | Editorial: Advancements in Biomass Recalcitrance: The Use of Lignin for the Production of Fuels and Chemicals | Frontiers in Energy Research | 6 |
| 2018 | 10.1021/acscatal.8b01640 | Rafiee, M., Z. M. Konz, M. D. Graaf, H. F. Koolman and S. S. Stahl | Electrochemical Oxidation of Alcohols and Aldehydes to Carboxylic Acids Catalyzed by 4-Acetamido-TEMPO: An Alternative to "anelli" and "pinnick" Oxidations | ACS Catalysis | 8(7) 6738-6744 |
| 2018 | 10.1002/pmic.201700479 | Qian, C., H. Chen, A. Johs, X. Lu, J. An, E. M. Pierce, J. M. Parks, D. A. Elias, R. L. Hettich and B. Gu | Quantitative Proteomic Analysis of Biological Processes and Responses of the Bacterium Desulfovibrio desulfuricans ND132 upon Deletion of Its Mercury Methylation Genes | Proteomics | 18(17) e1700479 |
| 2018 | 10.1186/s12870-018-1316-3 | Qi, P., D. Gimode, D. Saha, S. Schroder, D. Chakraborty, X. Wang, M. M. Dida, R. L. Malmberg and K. M. Devos | UGbS-Flex, a novel bioinformatics pipeline for imputation-free SNP discovery in polyploids without a reference genome: finger millet as a case study | BMC Plant Biology | 18(1) 117 |
| 2018 | 10.1111/1462-2920.13953 | Props, R., M. L. Schmidt, J. Heyse, H. A. Vanderploeg, N. Boon and V. J. Denef | Flow cytometric monitoring of bacterioplankton phenotypic diversity predicts high population-specific feeding rates by invasive dreissenid mussels | Environmental Microbiology | 20(2) 521-534 |
| 2018 | 10.1038/s41564-017-0098-y | Probst, A. J., B. Ladd, J. K. Jarett, D. E. Geller-McGrath, C. M. K. Sieber, J. B. Emerson, K. Anantharaman, B. C. Thomas, R. R. Malmstrom, M. Stieglmeier, A. Klingl, T. Woyke, M. C. Ryan and J. F. Banfield | Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface | Nature Microbiology | 3(3) 328-336 |
| 2018 | 10.1093/gbe/evy067 | Probst, A. J. and J. F. Banfield | Homologous Recombination and Transposon Propagation Shape the Population Structure of an Organism from the Deep Subsurface with Minimal Metabolism | Genome Biology and Evolution | 10(4) 1115-1119 |
| 2018 | 10.1371/journal.pgen.1007147 | Price, M. N., G. M. Zane, J. V. Kuehl, R. A. Melnyk, J. D. Wall, A. M. Deutschbauer and A. P. Arkin | Filling gaps in bacterial amino acid biosynthesis pathways with high-throughput genetics | PLOS Genetics | 14(1) e1007147 |
| 2018 | 10.1038/s41586-018-0124-0 | Price, M. N., K. M. Wetmore, R. J. Waters, M. Callaghan, J. Ray, et al. | Mutant phenotypes for thousands of bacterial genes of unknown function | Nature | 557(7706) 503–509 |
| 2018 | 10.1016/j.fgb.2016.08.004 | Presley, G. N., J. Zhang and J. S. Schilling | A genomics-informed study of oxalate and cellulase regulation by brown rot wood-degrading fungi | Fungal Genetics and Biology | 112 64–70 |
| 2018 | 10.1128/AEM.00159-18 | Presley, G. N., E. Panisko, S. O. Purvine and J. S. Schilling | Coupling Secretomics with Enzyme Activities To Compare the Temporal Processes of Wood Metabolism among White and Brown Rot Fungi | Applied and Environmental Microbiology | 84(16) |
| 2018 | 10.1155/2018/4961726 | Presley, G. N., B. K. Ndimba and J. S. Schilling | Brown Rot-Type Fungal Decomposition of Sorghum Bagasse: Variable Success and Mechanistic Implications | International Journal of Microbiology | 2018 4961726 |
| 2018 | 10.1111/1462-2920.13973 | Praet, J., A. Parmentier, R. Schmid-Hempel, I. Meeus, G. Smagghe and P. Vandamme | Large-scale cultivation of the bumblebee gut microbiota reveals an underestimated bacterial species diversity capable of pathogen inhibition | Environmental Microbiology | 20(1) 214-227 |
| 2018 | 10.1371/journal.pone.0204525 | Pozzo, T., S. M. Higdon, S. Pattathil, M. G. Hahn and A. B. Bennett | Characterization of novel glycosyl hydrolases discovered by cell wall glycan directed monoclonal antibody screening and metagenome analysis of maize aerial root mucilage | PLoS One | 13(9) e0204525 |
| 2018 | 10.1186/s13068-018-1076-1 | Poudel, S., R. J. Giannone, M. Basen, I. Nookaew, F. L. Poole, 2nd, R. M. Kelly, M. W. W. Adams and R. L. Hettich | The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate | Biotechnology for Biofuels | 11 80 |
| 2018 | 10.3389/fmicb.2018.03043 | Porcar, M., K. B. Louie, S. M. Kosina, M. W. Van Goethem, B. P. Bowen, K. Tanner and T. R. Northen | Microbial Ecology on Solar Panels in Berkeley, CA, United States | Frontiers in Microbiology | 9 |
| 2018 | 10.3389/fmicb.2018.03043 | Porcar, M., K. B. Louie, S. M. Kosina, M. W. Van Goethem, B. P. Bowen, K. Tanner and T. R. Northen | Microbial Ecology on Solar Panels in Berkeley, CA, United States | Frontiers in Microbiology | 9 3043 |
| 2018 | 10.1128/msphere.00541-18 | Pomraning, K. R., E. L. Bredeweg, E. J. Kerkhoven, K. Barry, S. Haridas, H. Hundley, K. LaButti, A. Lipzen, M. Yan, J. K. Magnuson, B. A. Simmons, I. V. Grigoriev, J. Nielsen and S. E. Baker | Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica | mSphere | 3(6) |
| 2018 | 10.1128/mSphere.00541-18 | Pomraning, K. R., E. L. Bredeweg, E. J. Kerkhoven, K. Barry, S. Haridas, H. Hundley, K. LaButti, A. Lipzen, M. Yan, J. K. Magnuson, B. A. Simmons, I. V. Grigoriev, J. Nielsen and S. E. Baker | Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica | mSphere | 3(6) |
| 2018 | 10.1111/pbi.12772 | Poliner, E., J. A. Pulman, K. Zienkiewicz, K. Childs, C. Benning and E. M. Farré | A toolkit for Nannochloropsis oceanica CCMP1779 enables gene stacking and genetic engineering of the eicosapentaenoic acid pathway for enhanced long-chain polyunsaturated fatty acid production | Plant Biotechnology Journal | 16(1) 298-309 |
| 2018 | 10.1128/genomea.01452-17 | Pold, G., M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Draft Genome Sequences of Three Strains of a Novel Rhizobiales Species Isolated from Forest Soil | Genome Announcements | 6(5) |
| 2018 | 10.1128/genomeA.01452-17 | Pold, G., M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Draft Genome Sequences of Three Strains of a Novel Rhizobiales Species Isolated from Forest Soil | Genome Announcements | 6(5) |
| 2018 | 10.1128/genomea.01451-17 | Pold, G., E. M. Conlon, M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Genome Sequence of Verrucomicrobium sp. Strain GAS474, a Novel Bacterium Isolated from Soil | Genome Announcements | 6(4) |
| 2018 | 10.1128/genomeA.01451-17 | Pold, G., E. M. Conlon, M. Huntemann, M. Pillay, N. Mikhailova, D. Stamatis, T. B. K. Reddy, C. Daum, N. Shapiro, N. Kyrpides, T. Woyke and K. M. DeAngelis | Genome Sequence of Verrucomicrobium sp. Strain GAS474, a Novel Bacterium Isolated from Soil | Genome Announcements | 6(4) |
| 2018 | 10.1126/science.aao5167 | Plesa, C., A. M. Sidore, N. B. Lubock, D. Zhang and S. Kosuri | Multiplexed gene synthesis in emulsions for exploring protein functional landscapes | Science | 359(6373) 343-347 |
| 2018 | 10.1099/ijsem.0.002777 | Pitt, A., J. Schmidt, E. Lang, W. B. Whitman, T. Woyke and M. W. Hahn | Polynucleobacter meluiroseus sp. nov., a bacterium isolated from a lake located in the mountains of the Mediterranean island of Corsica | International Journal of Systematic and Evolutionary Microbiology | 68(6) 1975-1985 |
| 2018 | 10.1002/cppb.20078 | Pingault, L., P. Zogli, J. Brooks and M. Libault | Enhancing Phenotyping and Molecular Analysis of Plant Root System Using Ultrasound Aeroponic Technology | Current Protocols in Chemical Biology | 3(4) e20078 |
| 2018 | 10.1002/mnfr.201700770 | Pi, M., K. Kapoor, R. Ye, J. C. Smith, J. Baudry and L. D. Quarles | GPCR6A Is a Molecular Target for the Natural Products Gallate and EGCG in Green Tea | Molecular Nutrition & Food Research | 62(8) e1700770 |
| 2018 | 10.1371/journal.pone.0195980 | Pi, M., K. Kapoor, R. Ye, D. J. Hwang, D. D. Miller, J. C. Smith, J. Baudry and L. D. Quarles | Computationally identified novel agonists for GPRC6A | PLoS One | 13(4) e0195980 |
| 2018 | 10.1093/treephys/tpx121 | Petzold, H. E., S. B. Rigoulot, C. Zhao, B. Chanda, X. Sheng, M. Zhao, X. Jia, A. W. Dickerman, E. P. Beers and A. M. Brunner | Identification of new protein-protein and protein-DNA interactions linked with wood formation in Populus trichocarpa | Tree Physiology | 38(3) 362-377 |
| 2018 | 10.1111/tpj.13831 | Petzold, H. E., B. Chanda, C. Zhao, S. B. Rigoulot, E. P. Beers and A. M. Brunner | Divaricata and radilas interacting factor (DRIF) also interacts with WOX and KNOX proteins associated with wood formation in Populus trichocarpa | The Plant Journal | 93(6) 1076–87 |
| 2018 | 10.1038/s41570-018-0050-6 | Petridis, L. and J. C. Smith | Molecular-level driving forces in lignocellulosic biomass deconstruction for bioenergy | Nature Reviews Chemistry | 2(11) 382–9 |
| 2018 | 10.1021/jacs.8b04040 | Peterson, J. A., C. Wijesooriya, E. J. Gehrmann, K. M. Mahoney, P. P. Goswami, T. R. Albright, A. Syed, A. S. Dutton, E. A. Smith and A. H. Winter | Family of BODIPY Photocages Cleaved by Single Photons of Visible/Near-Infrared Light | J Am Chem Soc | 140(23) 7343-7346 |
| 2018 | 10.1111/tpj.13940 | Perroud, P.-F., F. B. Haas, M. Hiss, K. K. Ullrich, A. Alboresi, et al. | The Physcomitrella patens gene atlas project: large-scale RNA-seq based expression data | The Plant Journal | 95(1) 168-182 |
| 2018 | 10.1002/yea.3283 | Peris, D., R. Pérez-Torrado, C. T. Hittinger, E. Barrio and A. Querol | On the origins and industrial applications of Saccharomyces cerevisiae × Saccharomyces kudriavzevii hybrids | Yeast | 35(1) 51-69 |
| 2018 | 10.1093/nar/gky1106 | Perez-Riverol, Y., A. Csordas, J. Bai, M. Bernal-Llinares, S. Hewapathirana, et al. | The PRIDE database and related tools and resources in 2019: improving support for quantification data | Nucleic Acids Research | 47(D1) D442–D450 |
| 2018 | 10.1007/s12155-018-9920-5 | Pérez-Pimienta, J. A., R. M. Mojica-Álvarez, L. M. Sánchez-Herrera, A. Mittal and R. W. Sykes | Recalcitrance Assessment of the Agro-industrial Residues from Five Agave Species: Ionic Liquid Pretreatment, Saccharification and Structural Characterization | BioEnergy Research | 11(3) 551–61 |
| 2018 | 10.1016/j.gene.2018.04.024 | Perera, D., Z. V. Magbanua, S. Thummasuwan, D. Mukherjee, M. Arick, P. Chouvarine, C. J. Nairn, J. Schmutz, J. Grimwood, J. F. D. Dean and D. G. Peterson | Exploring the loblolly pine (Pinus taeda L.) genome by BAC sequencing and Cot analysis | Gene | 663 165-177 |
| 2018 | 10.1104/pp.18.00590 | Pelot, K. A., R. Chen, D. M. Hagelthorn, C. A. Young, J. B. Addison, A. Muchlinski, D. Tholl and P. Zerbe | Functional Diversity of Diterpene Synthases in the Biofuel Crop Switchgrass | Plant Physiology | 178(1) 54-71 |
| 2018 | 10.1111/1365-2745.12915 | Peay, K. G. | Timing of mutualist arrival has a greater effect on Pinus muricata seedling growth than interspecific competition | Journal of Ecology | 106(2) 514–23 |
| 2018 | 10.1146/annurev-phyto-080417-045914 | Pawlowska, T. E., M. L. Gaspar, O. A. Lastovetsky, S. J. Mondo, I. Real-Ramirez, E. Shakya and P. Bonfante | Biology of Fungi and Their Bacterial Endosymbionts | Annual Review of Phytopathology | 56(56) 289-309 |
| 2018 | 10.1021/acs.jctc.7b01236 | Pavlova, A., J. M. Parks and J. C. Gumbart | Development of CHARMM-Compatible Force-Field Parameters for Cobalamin and Related Cofactors from Quantum Mechanical Calculations | Journal of Chemical Theory and Computation | 14(2) 784–98 |
| 2018 | 10.1093/gigascience/giy014 | Pavlopoulos, G. A., P. I. Kontou, A. Pavlopoulou, C. Bouyioukos, E. Markou and P. G. Bagos | Bipartite graphs in systems biology and medicine: a survey of methods and applications | GigaScience | 7(4) |
| 2018 | 10.1128/msystems.00232-18 | Paver, S. F., D. Muratore, R. J. Newton and M. L. Coleman | Reevaluating the Salty Divide: Phylogenetic Specificity of Transitions between Marine and Freshwater Systems | mSystems | 3(6) |
| 2018 | 10.1016/j.tibtech.2017.10.013 | Park, Y. K., J. M. Nicaud and R. Ledesma-Amaro | The Engineering Potential of Rhodosporidium toruloides as a Workhorse for Biotechnological Applications | Trends in Biotechnology | 36(3) 304–17 |
| 2018 | 10.1126/sciadv.1601453 | Park, K., Y. Kuo, V. Shvadchak, A. Ingargiola, X. Dai, L. Hsiung, W. Kim, H. Zhou, P. Zou, A. J. Levine, J. Li and S. Weiss | Membrane insertion of—and membrane potential sensing by—semiconductor voltage nanosensors: Feasibility demonstration | Science Advances | 4(1) |
| 2018 | 10.1016/j.jconhyd.2018.08.009 | Paradis, C. J., J. W. Moon, D. A. Elias, L. D. McKay and T. C. Hazen | In situ decay of polyfluorinated benzoic acids under anaerobic conditions | Journal of Contaminant Hydrology | 217 8–16 |
| 2018 | 10.1007/s10040-017-1672-3 | Paradis, C. J., L. D. McKay, E. Perfect, J. D. Istok and T. C. Hazen | Push-pull tests for estimating effective porosity: expanded analytical solution and in situ application | Hydrogeology Journal | 26(2) 381–93 |
| 2018 | 10.1038/s41396-018-0233-7 | Papp, K., R. L. Mau, M. Hayer, B. J. Koch, B. A. Hungate and E. Schwartz | Quantitative stable isotope probing with H218O reveals that most bacterial taxa in soil synthesize new ribosomal RNA | The ISME Journal | 12(12) 3043–5 |
| 2018 | 10.1128/AEM.02441-17 | Papp, K., B. A. Hungate and E. Schwartz | Microbial rRNA Synthesis and Growth Compared through Quantitative Stable Isotope Probing with H218O | Applied and Environmental Microbiology | 84(8) |
| 2018 | 10.1007/s10295-018-2073-x | Papanek, B., K. B. O’Dell, P. Manga, R. J. Giannone, D. M. Klingeman, R. L. Hettich, S. D. Brown and A. M. Guss | Transcriptomic and proteomic changes from medium supplementation and strain evolution in high-yielding Clostridium thermocellum strains | Journal of Industrial Microbiology and Biotechnology | 45(11) 1007–15 |
| 2018 | 10.1016/j.copbio.2017.12.012 | Pan, S. and J. L. Reed | Advances in gap-filling genome-scale metabolic models and model-driven experiments lead to novel metabolic discoveries | Current Opinion in Biotechnology | 51 103-108 |
| 2018 | 10.1038/nbt.4173 | Palluk, S., D. H. Arlow, T. de Rond, S. Barthel, J. S. Kang, R. Bector, H. M. Baghdassarian, A. N. Truong, P. W. Kim, A. K. Singh, N. J. Hillson and J. D. Keasling | De novo DNA synthesis using polymerase-nucleotide conjugates | Nature Biotechnology | 36(7) 645-650 |
| 2018 | 10.1038/nbt.4173 | Palluk, S., D. H. Arlow, T. de Rond, S. Barthel, J. S. Kang, R. Bector, H. M. Baghdassarian, A. N. Truong, P. W. Kim, A. K. Singh, N. J. Hillson and J. D. Keasling | De novo DNA synthesis using polymerase-nucleotide conjugates | Nature Biotechnology | 36(7) 645–50 |
| 2018 | 10.1093/nar/gky1127 | Paez-Espino, D., S. Roux, I.-Min A. Chen, K. Palaniappan, A. Ratner, K. Chu, M. Huntemann, T B K. Reddy, Joan C. Pons, M. Llabrés, Emiley A. Eloe-Fadrosh, Natalia N. Ivanova and Nikos C. Kyrpides | IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes | Nucleic Acids Research | 47(D1) D678-D686 |
| 2018 | 10.1016/j.bbrc.2018.06.051 | Ozseyhan, M. E., P. Li, G. Na, Z. Li, C. Wang and C. Lu | Improved fatty acid profiles in seeds of Camelina sativa by artificial microRNA mediated FATB gene suppression | Biochemical and Biophysical Research Communications | 503(2) 621–4 |
| 2018 | 10.1016/j.plaphy.2017.11.021 | Ozseyhan, M. E., J. Kang, X. Mu and C. Lu | Mutagenesis of the FAE1 genes significantly changes fatty acid composition in seeds of Camelina sativa | Plant Physiology and Biochemistry | 123 1–7 |
| 2018 | 10.1016/j.biotechadv.2018.04.008 | Oyetunde, T., F. S. Bao, J. W. Chen, H. G. Martin and Y. J. Tang | Leveraging knowledge engineering and machine learning for microbial bio-manufacturing | Biotechnology Advances | 36(4) 1308–15 |
| 2018 | 10.1016/j.soilbio.2018.08.024 | Ouyang, Y., S. E. Evans, M. L. Friesen and L. K. Tiemann | Effect of nitrogen fertilization on the abundance of nitrogen cycling genes in agricultural soils: A meta-analysis of field studies | Soil Biology and Biochemistry | 127 71–8 |
| 2018 | 10.1111/1462-2920.14378 | Otwell, A. E., A. López García de Lomana, S. M. Gibbons, M. V. Orellana and N. S. Baliga | Systems biology approaches towards predictive microbial ecology | Environmental Microbiology | 20(12) 4197–209 |
| 2018 | 10.1111/gbi.12295 | Otwell, A. E., S. J. Callister, R. W. Sherwood, S. Zhang, A. R. Goldman, R. D. Smith and R. E. Richardson | Physiological and proteomic analyses of Fe(III)-reducing co-cultures of Desulfotomaculum reducens MI-1 and Geobacter sulfurreducens PCA | Geobiology | 16(5) 522–39 |
| 2018 | 10.1002/rcm.8157 | Ostrom, N. E., H. Gandhi, T. B. Coplen, S. Toyoda, J. K. Bohlke, W. A. Brand, K. L. Casciotti, J. Dyckmans, A. Giesemann, J. Mohn, R. Well, L. Yu and N. Yoshida | Preliminary assessment of stable nitrogen and oxygen isotopic composition of USGS51 and USGS52 nitrous oxide reference gases and perspectives on calibration needs | Rapid Communications in Mass Spectrometry | 32(15) 1207–14 |
| 2018 | 10.1128/AEM.01646-17 | Orellana, L. H., J. C. Chee-Sanford, R. A. Sanford, F. E. Löffler and K. T. Konstantinidis | Year-round shotgun metagenomes reveal stable microbial communities in agricultural soils and novel ammonia oxidizers responding to fertilization | Applied and Environmental Microbiology | 84(2) |
| 2018 | 10.1186/s12915-018-0498-3 | Opulente, D. A., E. J. Rollinson, C. Bernick-Roehr, A. B. Hulfachor, A. Rokas, C. P. Kurtzman and C. T. Hittinger | Factors driving metabolic diversity in the budding yeast subphylum | BMC Biology | 16(1) 26 |
| 2018 | 10.3389/fenrg.2018.00052 | Ong, R. G., S. Shinde, L. D. Sousa and G. R. Sanford | Pre-senescence Harvest of Switchgrass Inhibits Xylose Utilization by Engineered Yeast | Frontiers in Energy Research | 6 |
| 2018 | 10.25585/1488039 | Olson, D. | Identification of secondary mutations in organisms engineered for biofuel production | ||
| 2018 | 10.3389/fpls.2018.01895 | Olins, J. R., L. Lin, S. J. Lee, G. M. Trabucco, K. J. MacKinnon and S. P. Hazen | Secondary Wall Regulating NACs Differentially Bind at the Promoter at a Cellulose Synthase A4 Cis-eQTL | Frontiers in Plant Science | 9 1895 |
| 2018 | 10.1111/tpj.14102 | Ohlrogge, J., N. Thrower, V. Mhaske, S. Stymne, M. Baxter, W. Yang, J. Liu, K. Shaw, B. Shorrosh, M. Zhang, C. Wilkerson and B. Matthäus | PlantFAdb: a resource for exploring hundreds of plant fatty acid structures synthesized by thousands of plants and their phylogenetic relationships | Plant Journal | 96(6) 1299-1308 |
| 2018 | 10.1007/s10529-017-2467-2 | Oguntimein, G. B., M. Rodriguez, Jr., A. Dumitrache, T. Shollenberger, S. R. Decker, B. H. Davison and S. D. Brown | Anaerobic microplate assay for direct microbial conversion of switchgrass and Avicel using Clostridium thermocellum | Biotechnology Letters | 40(2) 303–8 |
| 2018 | 10.1021/acs.jpcc.8b06681 | O’Callahan, B. T., K. T. Crampton, I. V. Novikova, T. Jian, C.-L. Chen, J. E. Evans, M. B. Raschke, P. Z. El-Khoury and A. S. Lea | Imaging Nanoscale Heterogeneity in Ultrathin Biomimetic and Biological Crystals | The Journal of Physical Chemistry C | 122(43) 24891-24895 |
| 2018 | 10.1128/MRA.01047-18 | O'Dell, K. B., E. A. Hatmaker, A. M. Guss and M. R. Mormile | Complete Genome Sequence of Salinisphaera sp. Strain LB1, a Moderately Halo-Acidophilic Bacterium Isolated from Lake Brown, Western Australia | Microbiology Resource Announcements | 7(13) |
| 2018 | 10.1021/acs.chemrev.7b00763 | Nutting, J. E., M. Rafiee and S. S. Stahl | Tetramethylpiperidine N-Oxyl (TEMPO), Phthalimide N-Oxyl (PINO), and related N-Oxyl Species: Electrochemical properties and their use in electrocatalytic reactions | Chemical Reviews | 118(9) 4834-4885 |
| 2018 | 10.1111/ppl.12684 | Nuoendagula, Y. Tsuji, N. Takata, S. Sakamoto, A. Nakagawa-Izumi, T. Taniguchi, J. Ralph, N. Mitsuda and S. Kajita | Change in lignin structure, but not in lignin content, in transgenic poplar overexpressing the rice master regulator of secondary cell wall biosynthesis | Physiologia Plantarum | 163(2) 170-182 |
| 2018 | 10.1186/s40679-018-0062-9 | Novikova, I. V., N. Sharma, T. Moser, R. Sontag, Y. Liu, M. J. Collazo, D. Cascio, T. Shokuhfar, H. Hellmann, M. Knoblauch and J. E. Evans | Protein structural biology using cell-free platform from wheat germ | Advanced Structural and Chemical Imaging | 4(1) |
| 2018 | 10.3389/fmicb.2018.02007 | Nouioui, I., L. Carro, M. García-López, J. P. Meier-Kolthoff, T. Woyke, N. C. Kyrpides, R. Pukall, H.-P. Klenk, M. Goodfellow and M. Göker | Genome-Based Taxonomic Classification of the Phylum Actinobacteria | Frontiers in Microbiology | 9 |
| 2018 | 10.3389/fmicb.2018.00853 | Noirot-Gros, M. F., S. Shinde, P. E. Larsen, S. Zerbs, P. J. Korajczyk, K. M. Kemner and P. H. Noirot | Dynamics of Aspen Roots Colonization by Pseudomonads Reveals Strain-Specific and Mycorrhizal-Specific Patterns of Biofilm Formation | Frontiers in Microbiology | 9 853 |
| 2018 | 10.1016/j.ebiom.2018.04.005 | Nickerson, K. P., S. Senger, Y. Zhang, R. Lima, S. Patel, L. Ingano, W. A. Flavahan, D. K. V. Kumar, C. M. Fraser, C. S. Faherty, M. B. Sztein, M. Fiorentino and A. Fasano | Salmonella Typhi Colonization Provokes Extensive Transcriptional Changes Aimed at Evading Host Mucosal Immune Defense During Early Infection of Human Intestinal Tissue | EBioMedicine | 31 92–109 |
| 2018 | 10.1145/3233547.3233622 | Nguyen, N., I. Blaby and D. F. Wang | A Manifold Learning Based Approach to Reveal the Functional Linkages across Multiple Gene Networks | Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics | 514 |
| 2018 | 10.1002/bbb.1821 | Ng, R. T. L., S. Patchin, W. Wu, N. Sheth and C. T. Maravelias | An optimization-based web application for synthesis and analysis of biomass-to-fuel strategies | Biofuels, Bioproducts and Biorefining | 12(2) 170-176 |
| 2018 | 10.1016/j.apenergy.2018.02.077 | Ng, R. T. L., D. Kurniawan, H. Wang, B. Mariska, W. Wu and C. T. Maravelias | Integrated framework for designing spatially explicit biofuel supply chains | Applied Energy | 216 116-131 |
| 2018 | 10.3389/fmicb.2018.01645 | Newcombe, G., A. Harding, M. Ridout and P. E. Busby | A Hypothetical Bottleneck in the Plant Microbiome | Frontiers in Microbiology | 9 1645 |
| 2018 | 10.1186/s13068-018-1290-x | Neumann, A. P., P. J. Weimer and G. Suen | A global analysis of gene expression in Fibrobacter succinogenes S85 grown on cellulose and soluble sugars at different growth rates | Biotechnology for Biofuels | 11 295 |
| 2018 | 10.1128/msphere.00593-18 | Neumann, A. P. and G. Suen | The Phylogenomic Diversity of Herbivore-Associated Fibrobacter spp. Is Correlated to Lignocellulose-Degrading Potential | mSphere | 3(6) |
| 2018 | 10.28945/4551 | Neumann, A. P. and G. Suen | The phylogenomic diversity of herbivore-associated Fibrobacter spp. is correlated to lignocellulose-degrading potential | Informing Science | 3(6) |
| 2018 | 10.1128/mSphere.00593-18 | Neumann, A. P. and G. Suen | The Phylogenomic Diversity of Herbivore-Associated Fibrobacter spp. Is Correlated to Lignocellulose-Degrading Potential | mSphere | 3(6) |
| 2018 | 10.1093/femsec/fiy114 | Nash, M. V., A. M. Anesio, G. Barker, M. Tranter, G. Varliero, E. A. Eloe-Fadrosh, T. Nielsen, T. Turpin-Jelfs, L. G. Benning and P. Sánchez-Baracaldo | Metagenomic insights into diazotrophic communities across Arctic glacier forefields | FEMS Microbiology Ecology | 94(9) |
| 2018 | 10.1093/gbe/evy154 | Narrowe, A. B., A. Spang, C. W. Stairs, E. F. Caceres, B. J. Baker, C. S. Miller and T. J. G. Ettema | Complex Evolutionary History of Translation Elongation Factor 2 and Diphthamide Biosynthesis in Archaea and Parabasalids | Genome Biology and Evolution | 10(9) 2380-2393 |
| 2018 | 10.1186/s13068-018-1334-2 | Na, G., N. Aryal, A. Fatihi, J. Kang and C. Lu | Seed-specific suppression of ADP-glucose pyrophosphorylase in Camelina sativa increases seed size and weight | Biotechnology for Biofuels | 11 330 |
| 2018 | 10.3389/fpls.2018.01542 | Murphy, K. M., L.-T. Ma, Y. Ding, E. A. Schmelz and P. Zerbe | Functional Characterization of Two Class II Diterpene Synthases Indicates Additional Specialized Diterpenoid Pathways in Maize (Zea mays) | Frontiers in Plant Science | 9 |
| 2018 | 10.1038/s41559-018-0710-4 | Murat, C., T. Payen, B. Noel, A. Kuo, E. Morin, et al. | Pezizomycetes genomes reveal the molecular basis of ectomycorrhizal truffle lifestyle | Nature Ecology & Evolution | 2(12) 1956-1965 |
| 2018 | 10.1128/genomea.00537-18 | Murat, C., A. Kuo, K. W. Barry, A. Clum, R. B. Dockter, et al. | Draft Genome Sequence of Tuber borchii Vittad., a Whitish Edible Truffle | Genome Announcements | 6(25) |
| 2018 | 10.1093/nar/gky977 | Mukherjee, S., D. Stamatis, J. Bertsch, G. Ovchinnikova, H. Y. Katta, A. Mojica, I.-M. A. Chen, N. C. Kyrpides and T. Reddy | Genomes OnLine database (GOLD) v.7: updates and new features | Nucleic Acids Research | 47(D1) D649-D659 |
| 2018 | 10.1073/pnas.1804428115 | Muchero, W., K. L. Sondreli, J. G. Chen, B. R. Urbanowicz, J. Zhang, et al. | Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant-pathogen interactions in a tree | Proceedings of the National Academy of Sciences of the United States of America | 115(45) 11573–8 |
| 2018 | 10.1073/pnas.1804428115 | Muchero, W., K. L. Sondreli, J.-G. Chen, B. R. Urbanowicz, J. Zhang, et al. | Association mapping, transcriptomics, and transient expression identify candidate genes mediating plant–pathogen interactions in a tree | Proceedings of the National Academy of Sciences | 115(45) 11573-11578 |
| 2018 | 10.1039/C7CP07195G | Moyer, P., M. D. Smith, N. Abdoulmoumine, S. C. Chmely, J. C. Smith, L. Petridis and N. Labbé | Relationship between lignocellulosic biomass dissolution and physicochemical properties of ionic liquids composed of 3-methylimidazolium cations and carboxylate anions | Physical Chemistry Chemical Physics | 20(4) 2508–16 |
| 2018 | 10.1126/sciadv.aap9722 | Motagamwala, A. H., W. Won, C. Sener, D. M. Alonso, C. T. Maravelias and J. A. Dumesic | Toward biomass-derived renewable plastics: Production of 2,5-furandicarboxylic acid from fructose | Science Advances | 4(1) |
| 2018 | 10.15252/msb.20188605 | Moser, F., A. Espah Borujeni, A. N. Ghodasara, E. Cameron, Y. Park and C. A. Voigt | Dynamic control of endogenous metabolism with combinatorial logic circuits | Molecular Systems Biology | 14(11) e8605 |
| 2018 | 10.3389/fpls.2018.01757 | Moseley, R. C., R. Mewalal, F. Motta, G. A. Tuskan, S. Haase and X. Yang | Conservation and diversification of circadian rhythmicity between a model crassulacean acid metabolism plant kalanchoë fedtschenkoi and a model C3 photosynthesis plant arabidopsis thaliana | Frontiers in Plant Science | 871 |
| 2018 | 10.1038/s41467-018-04739-y | Mosalaganti, S., J. Kosinski, S. Albert, M. Schaffer, D. Strenkert, P. A. Salomé, S. S. Merchant, J. M. Plitzko, W. Baumeister, B. D. Engel and M. Beck | In situ architecture of the algal nuclear pore complex | Nature Communications | 9(1) |
| 2018 | 10.1111/1462-2920.14051 | Morrissey, E. M., R. L. Mau, E. Schwartz, B. J. Koch, M. Hayer and B. A. Hungate | Taxonomic patterns in the nitrogen assimilation of soil prokaryotes | Environmental Microbiology | 20(3) 1112–9 |
| 2018 | 10.7554/eLife.41038 | Monroe, J. G., T. Powell, N. Price, J. L. Mullen, A. Howard, K. Evans, J. T. Lovell and J. K. McKay | Drought adaptation in Arabidopsis thaliana by extensive genetic loss-of-function | eLife | 7 e41038 |
| 2018 | 10.1002/bbb.1927 | Mokomele, T., L. da Costa Sousa, B. Bals, V. Balan, N. Goosen, B. E. Dale and J. F. Görgens | Using steam explosion or AFEX™ to produce animal feeds and biofuel feedstocks in a biorefinery based on sugarcane residues | Biofuels, Bioproducts and Biorefining | 12(6) 978-996 |
| 2018 | 10.1186/s13068-018-1130-z | Mokomele, T., L. Da Costa Sousa, V. Balan, E. Van Rensburg, B. E. Dale and J. F. Görgens | Ethanol production potential from AFEX™ and steam-exploded sugarcane residues for sugarcane biorefineries | Biotechnology for Biofuels | 11(1) |
| 2018 | 10.3390/inorganics6030075 | Mobley, J. K., J. A. Jennings, T. Morgan, A. Kiefer and M. Crocker | Oxidation of benzylic alcohols and lignin model compounds with layered double hydroxide catalysts | Inorganics | 6(3) |
| 2018 | 10.1186/s13068-018-1198-5 | Miyauchi, S., A. Rancon, E. Drula, H. Hage, D. Chaduli, et al. | Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass | Biotechnology for Biofuels | 11(1) 201 |
| 2018 | 10.1126/science.aat8474 | Mirts, E. N., I. D. Petrik, P. Hosseinzadeh, M. J. Nilges and Y. Lu | A designed heme-[4Fe-4S] metalloenzyme catalyzes sulfite reduction like the native enzyme | Science | 361(6407) 1098–101 |
| 2018 | 10.1093/femsec/fiy093 | Miquel Guennoc, C., C. Rose, J. Labbe and A. Deveau | Bacterial biofilm formation on the hyphae of ectomycorrhizal fungi: a widespread ability under controls? | FEMS Microbiology Ecology | 94(7) |
| 2018 | 10.1016/j.soilbio.2018.06.006 | Minerovic, A. J., O. J. Valverde-Barrantes and C. B. Blackwood | Physical and microbial mechanisms of decomposition vary in importance among root orders and tree species with differing chemical and morphological traits | Soil Biology and Biochemistry | 124 142–9 |
| 2018 | 10.1186/s13068-018-1033-z | Milano, E. R., C. E. Payne, E. Wolfrum, J. Lovell, J. Jenkins, J. Schmutz and T. E. Juenger | Quantitative trait loci for cell wall composition traits measured using near-infrared spectroscopy in the model C4 perennial grass Panicum hallii | Biotechnology for Biofuels | 11(1) 25 |
| 2018 | 10.1186/s13068-018-1033-z | Milano, E. R., C. E. Payne, E. Wolfrum, J. Lovell, J. Jenkins, J. Schmutz and T. E. Juenger | Quantitative trait loci for cell wall composition traits measured using near-infrared spectroscopy in the model C4 perennial grass Panicum hallii | Biotechnology for Biofuels | 11 25 |
| 2018 | 10.1016/j.biombioe.2018.09.017 | Meyer, J. R., S. B. Waghmode, J. He, Y. Gao, D. Hoole, L. da Costa Sousa, V. Balan and M. B. Foston | Isolation of lignin from ammonia fiber expansion (AFEX) pretreated biorefinery waste | Biomass and Bioenergy | 119 446-455 |
| 2018 | 10.1371/journal.pone.0198584 | Metz, Z. P., T. Ding and D. J. Baumler | Using genome-scale metabolic models to compare serovars of the foodborne pathogen Listeria monocytogenes | PLoS One | 13(6) e0198584 |
| 2018 | 10.1038/s41396-018-0270-2 | Meredith, L. K., J. Ogée, K. Boye, E. Singer, L. Wingate, C. von Sperber, A. Sengupta, M. Whelan, E. Pang, M. Keiluweit, N. Brüggemann, J. A. Berry and P. V. Welander | Soil exchange rates of COS and CO18O differ with the diversity of microbial communities and their carbonic anhydrase enzymes | The ISME Journal | 13(2) 290-300 |
| 2018 | 10.3390/soilsystems2030037 | Meredith, L. K., K. Boye, C. Youngerman, M. Whelan, J. Ogée, J. Sauze and L. Wingate | Coupled Biological and Abiotic Mechanisms Driving Carbonyl Sulfide Production in Soils | Soil Systems | 2(3) 37 |
| 2018 | 10.1021/acssuschemeng.7b03285 | Meng, X. Z., Y. Q. Pu, P. Sannigrahi, M. Li, S. L. Cao and A. J. Ragauskas | The Nature of Hololignin | ACS Sustainable Chemistry & Engineering | 6(1) 957–64 |
| 2018 | 10.1021/acssuschemeng.8b01028 | Meng, X. Z., A. Parikh, B. Seemala, R. Kumar, Y. Q. Pu, P. Christopher, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Chemical Transformations of Poplar Lignin during Cosolvent Enhanced Lignocellulosic Fractionation Process | ACS Sustainable Chemistry & Engineering | 6(7) 8711–8 |
| 2018 | 10.1093/bioinformatics/btx564 | Mendoza, B. J. and C. T. Trinh | Enhanced guide-RNA design and targeting analysis for precise CRISPR genome editing of single and consortia of industrially relevant and non-model organisms | Bioinformatics | 34(1) 16–23 |
| 2018 | 10.1038/s41929-018-0027-3 | Mellmer, M. A., C. Sanpitakseree, B. Demir, P. Bai, K. Ma, M. Neurock and J. A. Dumesic | Solvent-enabled control of reactivity for liquid-phase reactions of biomass-derived compounds | Nature Catalysis | 1(3) 199–207 |
| 2018 | 10.1111/1462-2920.14246 | Meinhardt, K. A., N. Stopnisek, M. W. Pannu, S. E. Strand, S. C. Fransen, K. L. Casciotti and D. A. Stahl | Ammonia-oxidizing bacteria are the primary N2O producers in an ammonia-oxidizing archaea dominated alkaline agricultural soil | Environmental Microbiology | 20(6) 2195–206 |
| 2018 | 10.1038/s41598-018-29272-2 | Meier-Kolthoff, J. P., J. Uchiyama, H. Yahara, D. Paez-Espino and K. Yahara | Investigation of recombination-intense viral groups and their genes in the Earth’s virome | Scientific Reports | 8(1) 11496 |
| 2018 | 10.1186/s13068-018-1342-2 | Meadows, C. W., F. Mingardon, B. M. Garabedian, E. E. K. Baidoo, V. T. Benites, A. V. Rodrigues, R. Abourjeily, A. Chanal and T. S. Lee | Discovery of novel geranylgeranyl reductases and characterization of their substrate promiscuity | Biotechnology for Biofuels | 11 340 |
| 2018 | 10.1002/biot.201600433 | Meadows, C. W., A. Kang and T. S. Lee | Metabolic Engineering for Advanced Biofuels Production and Recent Advances Toward Commercialization | Biotechnology Journal | 13(1) |
| 2018 | 10.1038/nature25982 | McQuaid, J. B., A. B. Kustka, M. Obornik, A. Horak, J. P. McCrow, B. J. Karas, H. Zheng, T. Kindeberg, A. J. Andersson, K. A. Barbeau and A. E. Allen | Carbonate-sensitive phytotransferrin controls high-affinity iron uptake in diatoms | Nature | 555(7697) 534–7 |
| 2018 | 10.1371/journal.pone.0195863 | McKinley, B. A., S. N. Olson, K. B. Ritter, D. W. Herb, S. D. Karlen, F. Lu, J. Ralph, W. L. Rooney and J. E. Mullet | Variation in energy sorghum hybrid TX08001 biomass composition and lignin chemistry during development under irrigated and non-irrigated field conditions | PLoS One | 13(4) e0195863 |
| 2018 | 10.1002/pld3.74 | McKinley, B. A., A. L. Casto, W. L. Rooney and J. E. Mullet | Developmental dynamics of stem starch accumulation in Sorghum bicolor | Plant Direct | 2(8) e00074 |
| 2018 | 10.1016/j.algal.2018.01.018 | McKie-Krisberg, Z. M., L. M. L. Laurens, A. Huang and J. E. W. Polle | Comparative energetics of carbon storage molecules in green algae | Algal Research | 31 326-333 |
| 2018 | 10.1128/AEM.00399-18 | McGlynn, S. E., G. L. Chadwick, A. O'Neill, M. Mackey, A. Thor, T. J. Deerinck, M. H. Ellisman and V. J. Orphan | Subgroup Characteristics of Marine Methane-Oxidizing ANME-2 Archaea and Their Syntrophic Partners as Revealed by Integrated Multimodal Analytical Microscopy | Applied and Environmental Microbiology | 84(11) |
| 2018 | 10.1111/gcb.14472 | McGill, B. M., S. K. Hamilton, N. Millar and G. P. Robertson | The greenhouse gas cost of agricultural intensification with groundwater irrigation in a Midwest U.S. row cropping system | Global Change Biology | 24(12) 5948-5960 |
| 2018 | 10.1128/MSPHERE.00574-18 | McDaniel, E. A., T. N. Stuecker, M. Veluvolu, A. P. Gasch and J. A. Lewis | Independent mechanisms for acquired salt tolerance versus growth resumption induced by mild ethanol pretreatment in Saccharomyces cerevisiae | mSphere | 3(6) |
| 2018 | 10.1128/AEM.00404-18 | McCully, A. L., M. G. Behringer, J. R. Gliessman, E. V. Pilipenko, J. L. Mazny, M. Lynch, D. A. Drummond and J. B. McKinlay | An Escherichia coli Nitrogen Starvation Response Is Important for Mutualistic Coexistence with Rhodopseudomonas palustris | Applied and Environmental Microbiology | 84(14) |
| 2018 | 10.1111/tpj.13781 | McCormick, R. F., S. K. Truong, A. Sreedasyam, J. Jenkins, S. Shu, et al. | The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization | The Plant Journal | 93(2) 338–54 |
| 2018 | 10.1021/jacs.8b05200 | McConnell, S. A., B. R. Amer, J. Muroski, J. Fu, C. Chang, R. R. Ogorzalek Loo, J. A. Loo, J. Osipiuk, H. Ton-That and R. T. Clubb | Protein labeling via a specific lysine-isopeptide bond using the pilin polymerizing sortase from Corynebacterium diphtheriae | Journal of the American Chemical Society | 140(27) 8420-8423 |
| 2018 | 10.3389/fpls.2018.01114 | Mazarei, M., H. L. Baxter, M. Li, A. K. Biswal, K. Kim, et al. | Functional Analysis of Cellulose Synthase CesA4 and CesA6 Genes in Switchgrass (Panicum virgatum) by Overexpression and RNAi-Mediated Gene Silencing | Frontiers in Plant Science | 9 |
| 2018 | 10.1093/femsec/fiy047 | Mayali, X. and P. K. Weber | Quantitative isotope incorporation reveals substrate partitioning in a coastal microbial community | FEMS Microbiology Ecology | 94(5) |
| 2018 | 10.3389/fbioe.2018.00117 | Martins-Santana, L., L. C. Nora, A. Sanches-Medeiros, G. L. Lovate, M. H. A. Cassiano and R. Silva-Rocha | Systems and Synthetic Biology Approaches to Engineer Fungi for Fine Chemical Production | Frontiers in Bioengineering and Biotechnology | 6 117 |
| 2018 | 10.1111/nph.14974 | Martino, E., E. Morin, G.-A. Grelet, A. Kuo, A. Kohler, et al. | Comparative genomics and transcriptomics depict ericoid mycorrhizal fungi as versatile saprotrophs and plant mutualists | New Phytologist | 217(3) 1213-1229 |
| 2018 | 10.1038/s41467-017-02571-4 | Martin-Platero, A. M., B. Cleary, K. Kauffman, S. P. Preheim, D. J. McGillicuddy, E. J. Alm and M. F. Polz | High resolution time series reveals cohesive but short-lived communities in coastal plankton | Nature Communications | 9(1) 266 |
| 2018 | 10.1093/database/bay087 | Marks, P. C., M. Bigler, E. B. Alsop, A. Vigneron, B. P. Lomans, R. De Paula, B. Geissler and N. Tsesmetzis | MetaHCR: a web-enabled metagenome data management system for hydrocarbon resources | Database | 2018 |
| 2018 | 10.1128/genomea.01414-17 | Mäkelä, M. R., M. Peng, Z. Granchi, T. Chin-A-Woeng, R. Hegi, S. I. v. Pelt, S. Ahrendt, R. Riley, M. Hainaut, B. Henrissat, I. V. Grigoriev, R. P. d. Vries and K. S. Hildén | Draft Genome Sequence of the Basidiomycete White-Rot Fungus Phlebia centrifuga | Genome Announcements | 6(14) |
| 2018 | 10.1016/j.simyco.2018.09.001 | Makela, M. R., M. DiFalco, E. McDonnell, T. T. M. Nguyen, A. Wiebenga, K. Hilden, M. Peng, I. V. Grigoriev, A. Tsang and R. P. de Vries | Genomic and exoproteomic diversity in plant biomass degradation approaches among Aspergilli | Stud Mycol | 91 79-99 |
| 2018 | 10.1104/pp.17.01351 | Mafu, S., Y. Ding, K. M. Murphy, O. Yaacoobi, J. B. Addison, et al. | Discovery, Biosynthesis and Stress-Related Accumulation of Dolabradiene-Derived Defenses in Maize | Plant Physiology | 176(4) 2677-2690 |
| 2018 | 10.3389/fmicb.2018.01775 | Mackelprang, R., A. M. Grube, R. Lamendella, E. d. C. Jesus, A. Copeland, C. Liang, R. D. Jackson, C. W. Rice, S. Kapucija, B. Parsa, S. G. Tringe, J. M. Tiedje and J. K. Jansson | Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States | Frontiers in Microbiology | 9 |
| 2018 | 10.1371/journal.pcbi.1006088 | MacGilvray, M. E., E. Shishkova, D. Chasman, M. Place, A. Gitter, J. J. Coon and A. P. Gasch | Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response | PLOS Computational Biology | 13(5) e1006088 |
| 2018 | 10.1111/maps.13000 | Ma, C., O. Tschauner, J. R. Beckett, G. R. Rossman, C. Prescher, V. B. Prakapenka, H. A. Bechtel and A. MacDowell | Liebermannite, KAlSi3O8, a new shock-metamorphic, high-pressure mineral from the Zagami Martian meteorite | Meteoritics & Planetary Science | 53(1) 50-61 |
| 2018 | 10.3390/proteomes6040036 | Luxmi, R., C. Blaby-Haas, D. Kumar, N. Rauniyar, S. M. King, R. E. Mains and B. A. Eipper | Proteases Shape the Chlamydomonas Secretome: Comparison to Classical Neuropeptide Processing Machinery | Proteomes | 6(4) |
| 2018 | 10.1002/cpch.38 | Lubner, J. M., J. L. Balsbaugh, G. M. Church, M. F. Chou and D. Schwartz | Characterizing Protein Kinase Substrate Specificity Using the Proteomic Peptide Library (ProPeL) Approach | Current Protocols in Chemical Biology | 10(2) e38 |
| 2018 | 10.1038/s41467-018-07669-x | Lovell, J. T., J. Jenkins, D. B. Lowry, S. Mamidi, A. Sreedasyam, et al. | The genomic landscape of molecular responses to natural drought stress in Panicum hallii | Nature Communications | 9(1) 5213 |
| 2018 | 10.1038/s41467-018-07669-x | Lovell, J. T., J. Jenkins, D. B. Lowry, S. Mamidi, A. Sreedasyam, et al. | The genomic landscape of molecular responses to natural drought stress in Panicum hallii | Nature Communications | 9(1) 5213 |
| 2018 | 10.1099/ijsem.0.002718 | López, G., C. Díaz-Cárdenas, J. David Alzate, L. N. Gonzalez, N. Shapiro, T. Woyke, N. C. Kyrpides, S. Restrepo and S. Baena | Description of Alicyclobacillus montanus sp. nov., a mixotrophic bacterium isolated from acidic hot springs | International Journal of Systematic and Evolutionary Microbiology | 68(5) 1608-1615 |
| 2018 | 10.3389/fmicb.2018.00276 | Lopez, D., S. Ribeiro, P. Label, B. Fumanal, J.-S. Venisse, et al. | Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors | Frontiers in Microbiology | 9 |
| 2018 | 10.1111/nph.15001 | Looney, B. P., P. Meidl, M. J. Piatek, O. Miettinen, F. M. Martin, P. B. Matheny and J. L. Labbe | Russulaceae: a new genomic dataset to study ecosystem function and evolutionary diversification of ectomycorrhizal fungi with their tree associates | New Phytologist | 218(1) 54–65 |
| 2018 | 10.1017/s1431927618002404 | Londono-Calderon, A., W. Sun, Z. Shao, D. H. Alsem and T. Prozorov | Correlative Microbially-Assisted Imaging of Cellulose Deconstruction with Electron Microscopy | Microscopy and Microanalysis | 24(S1) 382-383 |
| 2018 | 10.1111/tpj.13815 | Lomax, A., D. P. Woods, Y. Dong, F. Bouché, Y. Rong, K. S. Mayer, X. Zhong and R. M. Amasino | An ortholog of CURLY LEAF/ENHANCER OF ZESTE like-1 is required for proper flowering in Brachypodium distachyon | Plant Journal | 93(5) 871-882 |
| 2018 | 10.1021/acssynbio.8b00331 | Lobs, A. K., C. Schwartz, S. Thorwall and I. Wheeldon | Highly Multiplexed CRISPRi Repression of Respiratory Functions Enhances Mitochondrial Localized Ethyl Acetate Biosynthesis in Kluyveromyces marxianus | ACS Synthetic Biology | 7(11) 2647–55 |
| 2018 | 10.1186/s40168-017-0392-1 | Liu, Y. F., D. D. Galzerani, S. M. Mbadinga, L. S. Zaramela, J. D. Gu, B. Z. Mu and K. Zengler | Metabolic capability and in situ activity of microorganisms in an oil reservoir | Microbiome | 6(1) 5 |
| 2018 | 10.3389/fpls.2018.01902 | Liu, W., Y. Xiang, X. Zhang, G. Han, X. Sun, Y. Sheng, J. Yan, H. V. Scheller and A. Zhang | Over-Expression of a Maize N-Acetylglutamate Kinase Gene (ZmNAGK) Improves Drought Tolerance in Tobacco | Frontiers in Plant Science | 9 1902 |
| 2018 | 10.1186/s13068-018-1119-7 | Liu, W., M. Mazarei, R. Ye, Y. Peng, Y. Shao, H. L. Baxter, R. W. Sykes, G. B. Turner, M. F. Davis, Z. Y. Wang, R. A. Dixon and C. N. Stewart, Jr. | Switchgrass (Panicum virgatum L.) promoters for green tissue-specific expression of the MYB4 transcription factor for reduced-recalcitrance transgenic switchgrass | Biotechnology for Biofuels | 11 122 |
| 2018 | 10.1016/j.ymben.2018.04.007 | Liu, R., L. Liang, A. Choudhury, M. C. Bassalo, A. D. Garst, K. Tarasava and R. T. Gill | Iterative genome editing of Escherichia coli for 3-hydroxypropionic acid production | Metabolic Engineering | 47 303–13 |
| 2018 | 10.1105/tpc.18.00194 | Liu, M. J., K. Sugimoto, S. Uygun, N. Panchy, M. S. Campbell, M. Yandell, G. A. Howe and S. H. Shiu | Regulatory Divergence in Wound-Responsive Gene Expression between Domesticated and Wild Tomato | The Plant Cell | 30(7) 1445–60 |
| 2018 | 10.3389/fpls.2018.01390 | Liu, L., Z. Jiang, S. Zhang, H. Zhao, W. Yang, J. N. Siedow and Z. M. Pei | Both NaCl and H2O2 Long-Term Stresses Affect Basal Cytosolic Ca(2+) Levels but Only NaCl Alters Cytosolic Ca(2+) Signatures in Arabidopsis | Front Plant Sci | 9 1390 |
| 2018 | 10.1128/mSystems.00143-17 | Liu, H., M. N. Price, R. J. Waters, J. Ray, H. K. Carlson, J. S. Lamson, R. Chakraborty, A. P. Arkin and A. M. Deutschbauer | Magic Pools: Parallel Assessment of Transposon Delivery Vectors in Bacteria | mSystems | 3(1) |
| 2018 | 10.1016/j.copbio.2017.12.006 | Liu, H. and A. M. Deutschbauer | Rapidly moving new bacteria to model-organism status | Current Opinion in Biotechnology | 51 116–22 |
| 2018 | 10.1021/acssuschemeng.8b00384 | Liu, E. S., M. Li, L. Das, Y. Q. Pu, T. Frazier, B. Y. Zhao, M. Crocker, A. J. Ragauskas and J. Shi | Understanding Lignin Fractionation and Characterization from Engineered Switchgrass Treated by an Aqueous Ionic Liquid | ACS Sustainable Chemistry & Engineering | 6(5) 6612–23 |
| 2018 | 10.1021/acssuschemeng.7b03612 | Liu, D. J., J. Sun, B. A. Simmons and S. Singh | N-Heterocyclic Carbene Promoted Decarboxylation of Lignin-Derived Aromatic Acids | ACS Sustainable Chemistry & Engineering | 6(6) 7232–8 |
| 2018 | 10.1016/j.plantsci.2018.06.012 | Liu, D., K. J. Palla, R. Hu, R. C. Moseley, C. Mendoza, M. Chen, P. E. Abraham, J. L. Labbe, U. C. Kalluri, T. J. Tschaplinski, J. C. Cushman, A. M. Borland, G. A. Tuskan and X. Yang | Perspectives on the basic and applied aspects of crassulacean acid metabolism (CAM) research | Plant Science | 274 394–401 |
| 2018 | 10.1002/cssc.201701902 | Liu, D., K. H. Kim, J. Sun, B. A. Simmons and S. Singh | Cascade Production of Lactic Acid from Universal Types of Sugars Catalyzed by Lanthanum Triflate | ChemSusChem | 11(3) 598–604 |
| 2018 | 10.1186/s13068-018-1272-z | Liu, C. L., T. Tian, J. Alonso-Gutierrez, B. Garabedian, S. Wang, E. E. K. Baidoo, V. Benites, Y. Chen, C. J. Petzold, P. D. Adams, J. D. Keasling, T. Tan and T. S. Lee | Renewable production of high density jet fuel precursor sesquiterpenes from Escherichia coli | Biotechnology for Biofuels | 11 285 |
| 2018 | 10.1038/s41586-018-0413-7 | Litman, Z. C., Y. Wang, H. Zhao and J. F. Hartwig | Cooperative asymmetric reactions combining photocatalysis and enzymatic catalysis | Nature | 560(7718) 355–9 |
| 2018 | 10.7717/peerj.6075 | Linz, A. M., S. He, S. L. R. Stevens, K. Anantharaman, R. R. Rohwer, R. R. Malmstrom, S. Bertilsson and K. D. McMahon | Freshwater carbon and nutrient cycles revealed through reconstructed population genomes | PeerJ | 6 e6075 |
| 2018 | 10.1063/1.5004141 | Lindsay, R. J., J. Siess, D. P. Lohry, T. S. McGee, J. S. Ritchie, Q. R. Johnson and T. Shen | Characterizing protein conformations by correlation analysis of coarse-grained contact matrices | Journal of Chemical Physics | 148(2) 025101 |
| 2018 | 10.1093/nar/gky604 | Lindsay, R. J., B. Pham, T. Shen and R. P. McCord | Characterizing the 3D structure and dynamics of chromosomes and proteins in a common contact matrix framework | Nucleic Acids Research | 46(16) 8143–52 |
| 2018 | 10.1016/j.scitotenv.2017.09.239 | Lin, Y., S. D. Karlen, J. Ralph and J. Y. King | Short-term facilitation of microbial litter decomposition by ultraviolet radiation | Science of the Total Environment | 615 838-848 |
| 2018 | 10.1073/pnas.1802191115 | Lin, P. P., A. J. Jaeger, T. Y. Wu, S. C. Xu, A. S. Lee, F. Gao, P. W. Chen and J. C. Liao | Construction and evolution of an Escherichia coli strain relying on nonoxidative glycolysis for sugar catabolism | Proceedings of the National Academy of Sciences of the United States of America | 115(14) 3538–46 |
| 2018 | 10.1007/s10766-017-0524-z | Lin, H., Z. Su, X. Meng, X. Jin, Z. Wang, W. Han, H. An, M. Chi and Z. Wu | Combining Hadoop with MPI to Solve Metagenomics Problems that are both Data- and Compute-intensive | International Journal of Parallel Programming | 46(4) 762-775 |
| 2018 | 10.3389/fmicb.2018.02811 | Lima, A. R. J., A. S. Siqueira, J. M. d. Vasconcelos, J. S. Pereira, J. S. N. d. Azevedo, P. H. G. Moraes, D. C. F. Aguiar, C. P. S. de Lima, J. L. S. G. Vianez-Júnior, M. R. T. Nunes, L. P. Xavier, L. T. Dall’Agnol and E. C. Goncalves | Insights Into Limnothrix sp. Metabolism Based on Comparative Genomics | Frontiers in Microbiology | 9 |
| 2018 | 10.1111/pbi.12898 | Lim, S. D., W. C. Yim, D. Liu, R. Hu, X. Yang and J. C. Cushman | A Vitis vinifera basic helix-loop-helix transcription factor enhances plant cell size, vegetative biomass and reproductive yield | Plant Biotechnology Journal | 16(9) 1595–615 |
| 2018 | 10.1128/genomeA.00337-18 | Liao, Y. T., F. Liu, X. Sun, R. W. Li and V. C. H. Wu | Complete Genome Sequence of Escherichia coli Phage vB_EcoS Sa179lw, Isolated from Surface Water in a Produce-Growing Area in Northern California | Genome Announcements | 6(27) |
| 2018 | 10.1073/pnas.1808351115 | Liao, L., A. L. Schaefer, B. G. Coutinho, P. J. B. Brown and E. P. Greenberg | An aryl-homoserine lactone quorum-sensing signal produced by a dimorphic prosthecate bacterium | Proceedings of the National Academy of Sciences of the United States of America | 115(29) 7587–92 |
| 2018 | 10.1186/s13068-018-1238-1 | Liang, X., J. M. Whitham, E. K. Holwerda, X. Shao, L. Tian, et al. | Development and characterization of stable anaerobic thermophilic methanogenic microbiomes fermenting switchgrass at decreasing residence times | Biotechnology for Biofuels | 11 243 |
| 2018 | 10.1038/s41467-018-05667-7 | Liang, J., Z. Zhou, C. Huo, Z. Shi, J. R. Cole, et al. | More replenishment than priming loss of soil organic carbon with additional carbon input | Nature Communications | 9(1) 3175 |
| 2018 | 10.1111/gcb.14325 | Liang, J., J. Xia, Z. Shi, L. Jiang, S. Ma, et al. | Biotic responses buffer warming-induced soil organic carbon loss in Arctic tundra | Global Change Biology | 24(10) 4946–59 |
| 2018 | 10.1021/acs.jpca.8b01751 | Lian, P., R. C. Johnston, J. M. Parks and J. C. Smith | Quantum Chemical Calculation of pKas of Environmentally Relevant Functional Groups: Carboxylic Acids, Amines, and Thiols in Aqueous Solution | Journal of Physical Chemistry A | 122(17) 4366–74 |
| 2018 | 10.1016/j.ymben.2018.04.011 | Lian, J., S. Mishra and H. Zhao | Recent advances in metabolic engineering of Saccharomyces cerevisiae: New tools and their applications | Metabolic Engineering | 50 85–108 |
| 2018 | 10.1002/biot.201700601 | Lian, J., M. HamediRad and H. Zhao | Advancing Metabolic Engineering of Saccharomyces cerevisiae Using the CRISPR/Cas System | Biotechnology Journal | 13(9) e1700601 |
| 2018 | 10.1002/bit.26569 | Lian, J., Z. Bao, S. Hu and H. Zhao | Engineered CRISPR/Cas9 system for multiplex genome engineering of polyploid industrial yeast strains | Biotechnology and Bioengineering | 115(6) 1630–5 |
| 2018 | 10.1007/s10295-018-2003-y | Li, Z., Y. P. Shen, X. L. Jiang, L. S. Feng and J. Z. Liu | Metabolic evolution and a comparative omics analysis of Corynebacterium glutamicum for putrescine production | Journal of Industrial Microbiology and Biotechnology | 45(2) 123–39 |
| 2018 | 10.1126/sciadv.aau2968 | Li, Y., L. Shuai, H. Kim, A. H. Motagamwala, J. K. Mobley, F. Yue, Y. Tobimatsu, D. Havkin-Frenkel, F. Chen, R. A. Dixon, J. S. Luterbacher, J. A. Dumesic and J. Ralph | An "ideal lignin" facilitates full biomass utilization | Science Advances | 4(9) eaau2968 |
| 2018 | 10.1016/j.scitotenv.2017.10.004 | Li, Y., C. Li, H. Qin, M. Yang, J. Ye, Y. Long and H. Ou | Proteome and phospholipid alteration reveal metabolic network of Bacillus thuringiensis under triclosan stress | Science of The Total Environment | 615 508-516 |
| 2018 | 10.1021/acs.est.8b02314 | Li, W., H. Li, Y. D. Liu, P. Zheng and J. P. Shapleigh | Salinity-Aided Selection of Progressive Onset Denitrifiers as a Means of Providing Nitrite for Anammox | Environmental Science & Technology | 52(18) 10665–72 |
| 2018 | 10.1186/s13068-018-1305-7 | Li, W., K. Amos, M. Li, Y. Pu, S. Debolt, A. J. Ragauskas and J. Shi | Fractionation and characterization of lignin streams from unique high-lignin content endocarp feedstocks | Biotechnology for Biofuels | 11 304 |
| 2018 | 10.1038/s41396-018-0191-0 | Li, P. N., J. Herrmann, B. B. Tolar, F. Poitevin, R. Ramdasi, J. R. Bargar, D. A. Stahl, G. J. Jensen, C. A. Francis, S. Wakatsuki and H. van den Bedem | Nutrient transport suggests an evolutionary basis for charged archaeal surface layer proteins | ISME J | 12(10) 2389-2402 |
| 2018 | 10.1039/c8gc00953h | Li, N., Y. D. Li, C. G. Yoo, X. H. Yang, X. L. Lin, J. Ralph and X. J. Pan | An uncondensed lignin depolymerized in the solid state and isolated from lignocellulosic biomass: a mechanistic study | Green Chemistry | 20(18) 4224–35 |
| 2018 | 10.1016/j.indcrop.2018.07.002 | Li, M., G. Yan, A. Bhalla, L. Maldonado-Pereira, P. R. Russell, S. Y. Ding, J. E. Mullet and D. B. Hodge | Physical fractionation of sweet sorghum and forage/energy sorghum for optimal processing in a biorefinery | Industrial Crops and Products | 124 607-616 |
| 2018 | 10.1002/smll.201803315 | Li, M., M. van Zee, C. T. Riche, B. Tofig, S. D. Gallaher, S. S. Merchant, R. Damoiseaux, K. Goda and D. Di Carlo | A Gelatin Microdroplet Platform for High-Throughput Sorting of Hyperproducing Single-Cell-Derived Microalgal Clones | Small | 14(44) |
| 2018 | 10.3389/fpls.2018.01406 | Li, J., Y. Shi, A. N. Veeranampalayam-Sivakumar and D. P. Schachtman | Elucidating Sorghum Biomass, Nitrogen and Chlorophyll Contents With Spectral and Morphological Traits Derived From Unmanned Aircraft System | Frontiers in Plant Science | 9 1406 |
| 2018 | 10.1186/s12896-018-0464-8 | Li, G., K. C. Jones, A. Eudes, V. R. Pidatala, J. Sun, et al. | Overexpression of a rice BAHD acyltransferase gene in switchgrass (Panicum virgatum L.) enhances saccharification | BMC Biotechnology | 18(1) 54 |
| 2018 | 10.1104/pp.18.00200 | Li, A., S. Jia, A. Yobi, Z. Ge, S. J. Sato, C. Zhang, R. Angelovici, T. E. Clemente and D. R. Holding | Editing of an Alpha-Kafirin Gene Family Increases, Digestibility and Protein Quality in Sorghum | Plant Physiology | 177(4) 1425–38 |
| 2018 | 10.1073/pnas.1720115115 | Lewin, H. A., G. E. Robinson, W. J. Kress, W. J. Baker, J. Coddington, et al. | Earth BioGenome Project: Sequencing life for the future of life | Proceedings of the National Academy of Sciences | 115(17) 4325-4333 |
| 2018 | 10.1038/s41588-017-0012-9 | Levy, A., I. Salas Gonzalez, M. Mittelviefhaus, S. Clingenpeel, S. Herrera Paredes, et al. | Genomic features of bacterial adaptation toplants | Nature Genetics | 50(1) 138-150 |
| 2018 | 10.1016/j.chom.2018.09.005 | Levy, A., J. M. Conway, J. L. Dangl and T. Woyke | Elucidating Bacterial Gene Functions in the Plant Microbiome | Cell Host & Microbe | 24(4) 475–485 |
| 2018 | 10.1111/rec.12655 | Lettow, M. C., L. A. Brudvig, C. A. Bahlai, J. Gibbs, R. P. Jean and D. A. Landis | Bee community responses to a gradient of oak savanna restoration practices | Restoration Ecology | 26(5) 882-890 |
| 2018 | 10.1186/s12934-018-0863-5 | Lei, C., J. Wang, Y. Liu, X. Liu, G. Zhao and J. Wang | A feedback regulatory model for RifQ-mediated repression of rifamycin export in Amycolatopsis mediterranei | Microbial Cell Factories | 17(1) 14 |
| 2018 | 10.1128/AEM.02694-17 | Lee, L. L., S. E. Blumer-Schuette, J. A. Izquierdo, J. V. Zurawski, A. J. Loder, et al. | Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses | Applied and Environmental Microbiology | 84(9) e02694-17 |
| 2018 | 10.1128/AEM.02694-17 | Lee, L. L., S. E. Blumer-Schuette, J. A. Izquierdo, J. V. Zurawski, A. J. Loder, et al. | Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses | Applied and Environmental Microbiology | 84(9) |
| 2018 | 10.1371/journal.pone.0202792 | Lee, J. Z., R. C. Everroad, U. Karaoz, A. M. Detweiler, J. Pett-Ridge, P. K. Weber, L. Prufert-Bebout and B. M. Bebout | Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat | PLoS One | 13(9) e0202792 |
| 2018 | 10.1016/j.mec.2018.e00076 | Lee, J. W., N. P. Niraula and C. T. Trinh | Harnessing a P450 fatty acid decarboxylase from Macrococcus caseolyticus for microbial biosynthesis of odd chain terminal alkenes | Metabolic Engineering Communications | 7 e00076 |
| 2018 | 10.1111/tpj.13782 | LeBlanc, C., F. Zhang, J. Mendez, Y. Lozano, K. Chatpar, V. F. Irish and Y. Jacob | Increased efficiency of targeted mutagenesis by CRISPR/Cas9 in plants using heat stress | The Plant Journal | 93(2) 377–86 |
| 2018 | 10.1016/j.tibtech.2018.06.007 | Lazar, Z., N. Liu and G. Stephanopoulos | Holistic Approaches in Lipid Production by Yarrowia lipolytica | Trends in Biotechnology | 36(11) 1157–70 |
| 2018 | 10.1111/tpj.13860 | Laursen, T., S. H. Stonebloom, V. R. Pidatala, D. S. Birdseye, M. H. Clausen, J. C. Mortimer and H. V. Scheller | Bifunctional glycosyltransferases catalyze both extension and termination of pectic galactan oligosaccharides | The Plant Journal | 94(2) 340–51 |
| 2018 | 10.1016/j.cels.2017.11.012 | Lapointe, C. P., J. A. Stefely, A. Jochem, P. D. Hutchins, G. M. Wilson, N. W. Kwiecien, J. J. Coon, M. Wickens and D. J. Pagliarini | Multi-omics Reveal Specific Targets of the RNA-Binding Protein Puf3p and Its Orchestration of Mitochondrial Biogenesis | Cell Systems | 6(1) 125-135.e6 |
| 2018 | 10.1021/acs.jafc.8b01618 | Lapierre, C., A. Voxeur, S. D. Karlen, R. F. Helm and J. Ralph | Evaluation of Feruloylated and p-Coumaroylated Arabinosyl Units in Grass Arabinoxylans by Acidolysis in Dioxane/Methanol | Journal of Agricultural and Food Chemistry | 66(21) 5418–24 |
| 2018 | 10.1093/molbev/msy166 | Langdon, Q. K., D. Peris, B. Kyle and C. T. Hittinger | sppIDer: A Species Identification Tool to Investigate Hybrid Genomes with High-Throughput Sequencing | Molecular Biology and Evolution | 35(11) 2835–49 |
| 2018 | 10.1021/acscatal.7b04114 | Langan, P. S., V. G. Vandavasi, C. J. Cooper, K. L. Weiss, S. L. Ginell, J. M. Parks and L. Coates | Substrate Binding Induces Conformational Changes in a Class A β-lactamase That Prime It for Catalysis | ACS Catalysis | 8(3) 2428–37 |
| 2018 | 10.1111/tpj.13801 | Lang, D., K. K. Ullrich, F. Murat, J. Fuchs, J. Jenkins, et al. | The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution | The Plant Journal | 93(3) 515-533 |
| 2018 | 10.1016/j.biortech.2018.04.013 | Lane, S., J. Dong and Y. S. Jin | Value-added biotransformation of cellulosic sugars by engineered Saccharomyces cerevisiae | Bioresource Technology | 260 380–94 |
| 2018 | 10.1016/j.biombioe.2017.02.003 | Landis, D. A., C. Gratton, R. D. Jackson, K. L. Gross, D. S. Duncan, C. Liang, T. D. Meehan, B. A. Robertson, T. M. Schmidt, K. A. Stahlheber, J. M. Tiedje and B. P. Werling | Biomass and biofuel crop effects on biodiversity and ecosystem services in the North Central US | Biomass and Bioenergy | 114 18–29 |
| 2018 | 10.3390/polym10080916 | Lan, W., F. Yue, J. Rencoret, J. C. Del Rio, W. Boerjan, F. Lu and J. Ralph | Elucidating Tricin-Lignin Structures: Assigning Correlations in HSQC Spectra of Monocot Lignins | Polymers | 10(8) |
| 2018 | 10.1038/s41467-018-06289-9 | Lai, Y. S., G. Stefano, S. Zemelis-Durfee, C. Ruberti, L. Gibbons and F. Brandizzi | Systemic signaling contributes to the unfolded protein response of the plant endoplasmic reticulum | Nature Communications | 9(1) |
| 2018 | 10.1007/s12275-018-8024-4 | La Reau, A. J. and G. Suen | The Ruminococci: key symbionts of the gut ecosystem | Journal of Microbiology | 56(3) 199–208 |
| 2018 | 10.1016/j.geoderma.2017.11.043 | Kutlu, T., A. K. Guber, M. L. Rivers and A. N. Kravchenko | Moisture absorption by plant residue in soil | Geoderma | 316 47-55 |
| 2018 | 10.3390/en11112921 | Kurambhatti, C. V., D. Kumar, K. D. Rausch, M. E. Tumbleson and V. Singh | Ethanol Production from Corn Fiber Separated after Liquefaction in the Dry Grind Process | Energies | 11(11) |
| 2018 | 10.1016/j.biortech.2018.09.120 | Kurambhatti, C. V., D. Kumar, K. D. Rausch, M. E. Tumbleson and V. Singh | Increasing ethanol yield through fiber conversion in corn dry grind process | Bioresource Technology | 270 742–5 |
| 2018 | 10.1073/pnas.1715137115 | Kunjapur, A. M., D. A. Stork, E. Kuru, O. Vargas-Rodriguez, M. Landon, D. Soll and G. M. Church | Engineering posttranslational proofreading to discriminate nonstandard amino acids | Proceedings of the National Academy of Sciences of the United States of America | 115(3) 619–24 |
| 2018 | 10.1039/c7gc03518g | Kumar, R., S. Bhagia, M. D. Smith, L. Petridis, R. G. Ong, C. M. Cai, A. Mittal, M. H. Himmel, V. Balan, B. E. Dale, A. J. Ragauskas, J. C. Smith and C. E. Wyman | Cellulose-hemicellulose interactions at elevated temperatures increase cellulose recalcitrance to biological conversion | Green Chemistry | 20(4) 921-934 |
| 2018 | 10.1016/j.ymben.2018.07.018 | Kumar, M., B. Ji, P. Babaei, P. Das, D. Lappa, G. Ramakrishnan, T. E. Fox, R. Haque, W. A. Petri, F. Bäckhed and J. Nielsen | Gut microbiota dysbiosis is associated with malnutrition and reduced plasma amino acid levels: Lessons from genome-scale metabolic modeling | Metabolic Engineering | 49 128–42 |
| 2018 | 10.1038/s41467-017-02362-x | Kumar, A., L. Wang, C. Y. Ng and C. D. Maranas | Pathway design using de novo steps through uncharted biochemical spaces | Nature Communications | 9(1) 184 |
| 2018 | 10.1093/molbev/msy102 | Kuang, M. C., J. Kominek, W. G. Alexander, J. F. Cheng, R. L. Wrobel and C. T. Hittinger | Repeated Cis-Regulatory Tuning of a Metabolic Bottleneck Gene during Evolution | Molecular Biology and Evolution | 35(8) 1968–81 |
| 2018 | 10.1093/molbev/msy102 | Kuang, M. C., J. Kominek, W. G. Alexander, J.-F. Cheng, R. L. Wrobel and C. T. Hittinger | Repeated Cis-Regulatory Tuning of a Metabolic Bottleneck Gene during Evolution | Molecular Biology and Evolution | 35(8) 1968-1981 |
| 2018 | 10.1007/s10570-017-1542-0 | Kruer-Zerhusen, N., B. Cantero-Tubilla and D. B. Wilson | Characterization of cellulose crystallinity after enzymatic treatment using Fourier transform infrared spectroscopy (FTIR) | Cellulose | 25(1) 37–48 |
| 2018 | 10.3389/fmicb.2018.01635 | Kroeger, M. E., T. O. Delmont, A. M. Eren, K. M. Meyer, J. Guo, K. Khan, J. L. M. Rodrigues, B. J. M. Bohannan, S. G. Tringe, C. D. Borges, J. M. Tiedje, S. M. Tsai and K. Nüsslein | New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes | Frontiers in Microbiology | 9 |
| 2018 | 10.1021/acssynbio.7b00466 | Krink-Koutsoubelis, N., A. C. Loechner, A. Lechner, H. Link, C. M. Denby, B. Vögeli, T. J. Erb, S. Yuzawa, T. Jakociunas, L. Katz, M. K. Jensen, V. Sourjik and J. D. Keasling | Engineered Production of Short-Chain Acyl-Coenzyme A Esters in Saccharomyces cerevisiae | ACS Synthetic Biology | 7(4) 1105–15 |
| 2018 | 10.1111/gcbb.12552 | Kravchenko, A. N., A. K. Guber, M. Y. Quigley, J. Koestel, H. Gandhi and N. E. Ostrom | X-ray computed tomography to predict soil N2O production via bacterial denitrification and N2O emission in contrasting bioenergy cropping systems | GCB Bioenergy | 10(11) 894–909 |
| 2018 | 10.1073/pnas.1806268115 | Krause, D. J., J. Kominek, D. A. Opulente, X. X. Shen, X. Zhou, Q. K. Langdon, J. DeVirgilio, A. B. Hulfachor, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Functional and evolutionary characterization of a secondary metabolite gene cluster in budding yeasts | Proceedings of the National Academy of Sciences of the United States of America | 115(43) 11030–5 |
| 2018 | 10.1038/s41467-018-04374-7 | Krassowski, T., A. Y. Coughlan, X.-X. Shen, X. Zhou, J. Kominek, D. A. Opulente, R. Riley, I. V. Grigoriev, N. Maheshwari, D. C. Shields, C. P. Kurtzman, C. T. Hittinger, A. Rokas and K. H. Wolfe | Evolutionary instability of CUG-Leu in the genetic code of budding yeasts | Nature Communications | 9(1) 1887 |
| 2018 | 10.1016/j.soilbio.2018.01.033 | Koyama, A., B. Harlow, C. R. Kuske, J. Belnap and R. D. Evans | Plant and microbial biomarkers suggest mechanisms of soil organic carbon accumulation in a Mojave Desert ecosystem under elevated CO2 | Soil Biology and Biochemistry | 120 48–57 |
| 2018 | 10.1016/j.str.2018.01.006 | Kovalevsky, A., M. Aggarwal, H. Velazquez, M. J. Cuneo, M. P. Blakeley, K. L. Weiss, J. C. Smith, S. Z. Fisher and R. McKenna | To Be or Not to Be Protonated: Atomic Details of Human Carbonic Anhydrase-Clinical Drug Complexes by Neutron Crystallography and Simulation | Structure | 26(3) 383–90.e3 |
| 2018 | 10.1186/s13068-018-1216-7 | Kothari, N., E. K. Holwerda, C. M. Cai, R. Kumar and C. E. Wyman | Biomass augmentation through thermochemical pretreatments greatly enhances digestion of switchgrass by Clostridium thermocellum | Biotechnology for Biofuels | 11 219 |
| 2018 | 10.1186/s12866-018-1256-y | Kosina, S. M., A. M. Greiner, R. K. Lau, S. Jenkins, R. Baran, B. P. Bowen and T. R. Northen | Web of microbes (WoM): a curated microbial exometabolomics database for linking chemistry and microbes | BMC Microbiology | 18(1) 115 |
| 2018 | 10.1074/jbc.RA117.001268 | Kontur, W. S., C. A. Bingman, C. N. Olmsted, D. R. Wassarman, A. Ulbrich, D. L. Gall, R. W. Smith, L. M. Yusko, B. G. Fox, D. R. Noguera, J. J. Coon and T. J. Donohue | Novosphingobium aromaticivorans uses a Nu-class glutathione S-transferase as a glutathione lyase in breaking the β-aryl ether bond of lignin | Journal of Biological Chemistry | 293(14) 4955–68 |
| 2018 | 10.1021/acs.iecr.8b00065 | Kong, L. X. and C. T. Maravelias | An Optimization-Based Approach for Simultaneous Chemical Process and Heat Exchanger Network Synthesis | Industrial & Engineering Chemistry Research | 57(18) 6330–43 |
| 2018 | 10.1038/s41564-017-0052-z | Kolinko, S., Y.-W. Wu, F. Tachea, E. Denzel, J. Hiras, et al. | A bacterial pioneer produces cellulase complexes that persist through community succession | Nature Microbiology | 3(1) 99-107 |
| 2018 | 10.1071/FP17265 | Kolbe, A. R., A. J. Studer and A. B. Cousins | Biochemical and transcriptomic analysis of maize diversity to elucidate drivers of leaf carbon isotope composition | Functional Plant Biology | 45(5) 489–500 |
| 2018 | 10.1111/nph.14942 | Kolbe, A. R. and A. B. Cousins | Mesophyll conductance in Zea mays responds transiently to CO2 availability: implications for transpiration efficiency in C4 crops | New Phytologist | 217(4) 1463–74 |
| 2018 | 10.1016/j.chembiol.2018.04.014 | Kohler, A. C., B. A. Simmons and K. L. Sale | Structure-based Engineering of a Plant-Fungal Hybrid Peroxidase for Enhanced Temperature and pH Tolerance | Cell Chemical Biology | 25(8) 974–83.e3 |
| 2018 | 10.1002/ecs2.2090 | Koch, B. J., T. A. McHugh, M. Hayer, E. Schwartz, S. J. Blazewicz, P. Dijkstra, N. van Gestel, J. C. Marks, R. L. Mau, E. M. Morrissey, J. Pett-Ridge and B. A. Hungate | Estimating taxon-specific population dynamics in diverse microbial communities | Ecosphere | 9(1) |
| 2018 | 10.1038/s41467-018-07563-6 | Knorr, S., M. Sinn, D. Galetskiy, R. M. Williams, C. Wang, N. Müller, O. Mayans, D. Schleheck and J. S. Hartig | Widespread bacterial lysine degradation proceeding via glutarate and L-2-hydroxyglutarate | Nature Communications | 9(1) 5071 |
| 2018 | 10.1038/s41598-018-24686-4 | Knapp, D. G., J. B. Németh, K. Barry, M. Hainaut, B. Henrissat, et al. | Comparative genomics provides insights into the lifestyle and reveals functional heterogeneity of dark septate endophytic fungi | Scientific Reports | 8(1) 6321 |
| 2018 | 10.3390/genes9040185 | Kliver, S., M. Rayko, A. Komissarov, E. Bakin, D. Zhernakova, K. Prasad, C. Rushworth, R. Baskar, D. Smetanin, J. Schmutz, D. S. Rokhsar, T. Mitchell-Olds, U. Grossniklaus and V. Brukhin | Assembly of the Boechera retrofracta Genome and Evolutionary Analysis of Apomixis-Associated Genes | Genes | 9(4) 185 |
| 2018 | 10.1073/pnas.1722325115 | Kleiner, M., X. Dong, T. Hinzke, J. Wippler, E. Thorson, B. Mayer and M. Strous | Metaproteomics method to determine carbon sources and assimilation pathways of species in microbial communities | Proceedings of the National Academy of Sciences | 115(24) E5576-E5584 |
| 2018 | 10.1073/pnas.1715954115 | Kjærbølling, I., T. C. Vesth, J. C. Frisvad, J. L. Nybo, S. Theobald, et al. | Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species | Proceedings of the National Academy of Sciences | 115(4) E753-E761 |
| 2018 | 10.3389/fmicb.2018.01492 | Kimbrel, J. A., N. Ballor, Y. W. Wu, M. M. David, T. C. Hazen, B. A. Simmons, S. W. Singer and J. K. Jansson | Microbial Community Structure and Functional Potential Along a Hypersaline Gradient | Frontiers in Microbiology | 9 1492 |
| 2018 | 10.3389/fmicb.2018.01492 | Kimbrel, J. A., N. Ballor, Y.-W. Wu, M. M. David, T. C. Hazen, B. A. Simmons, S. W. Singer and J. K. Jansson | Microbial Community Structure and Functional Potential Along a Hypersaline Gradient | Frontiers in Microbiology | 9 |
| 2018 | 10.1002/ecs2.2399 | Kim, T. N., S. Bartel, B. D. Wills, D. A. Landis and C. Gratton | Disturbance differentially affects alpha and beta diversity of ants in tallgrass prairies | Ecosphere | 9(10) e02399 |
| 2018 | 10.13031/trans.12945 | Kim, S. M., D. K. Lee, S. Thapa, B. S. Dien, M. E. Tumbleson, K. D. Rausch and V. Singh | Cellulosic ethanol potential of feedstocks grown on marginal lands | Transactions of the ASABE | 61(6) 1775-1782 |
| 2018 | 10.1016/j.ymben.2018.09.002 | Kim, S. K. and J. Westpheling | Engineering a spermidine biosynthetic pathway in Clostridium thermocellum results in increased resistance to furans and increased ethanol production | Metabolic Engineering | 49 267–74 |
| 2018 | 10.1128/AEM.02348-17 | Kim, S. K., M. E. Himmel, Y. J. Bomble and J. Westpheling | Expression of a Cellobiose Phosphorylase from Thermotoga maritima in Caldicellulosiruptor bescii Improves the Phosphorolytic Pathway and Results in a Dramatic Increase in Cellulolytic Activity | Applied and Environmental Microbiology | 84(3) |
| 2018 | 10.1111/tpj.13830 | Kim, S. J., S. Zemelis-Durfee, J. K. Jensen, C. G. Wilkerson, K. Keegstra and F. Brandizzi | In the grass species Brachypodium distachyon, the production of mixed-linkage (1,3;1,4)-β-glucan (MLG) occurs in the Golgi apparatus | The Plant Journal | 93(6) 1062–75 |
| 2018 | 10.1002/bbb.1899 | Kim, S., X. S. Zhang, B. E. Dale, A. D. Reddy, C. D. Jones and R. C. Izaurralde | EISA (Energy Independence and Security Act) compliant ethanol fuel from corn stover in a depot-based decentralized system | Biofuels, Bioproducts and Biorefining | 12(5) 873–81 |
| 2018 | 10.1002/bbb.1830 | Kim, S., X. Zhang, B. Dale, A. D. Reddy, C. D. Jones, K. Cronin, R. C. Izaurralde, T. Runge and M. Sharara | Corn stover cannot simultaneously meet both the volume and GHG reduction requirements of the renewable fuel standard | Biofuels, Bioproducts and Biorefining | 12(2) 203-212 |
| 2018 | 10.1039/c7gc03029k | Kim, K. H., T. Dutta, J. Sun, B. Simmons and S. Singh | Biomass pretreatment using deep eutectic solvents from lignin derived phenols | Green Chemistry | 20(4) 809–15 |
| 2018 | 10.1109/NYSDS.2018.8538944 | Kim, C., P. Yin, C. X. Soto, I. K. Blaby and S. Yoo | Multimodal biological analysis using NLP and expression profile | 2018 New York Scientific Data Summit (NYSDS) | |
| 2018 | 10.1093/molbev/msy072 | Kijpornyongpan, T., S. J. Mondo, K. Barry, L. Sandor, J. Lee, A. Lipzen, J. Pangilinan, K. LaButti, M. Hainaut, B. Henrissat, I. V. Grigoriev, J. W. Spatafora and M. C. Aime | Broad Genomic Sampling Reveals a Smut Pathogenic Ancestry of the Fungal Clade Ustilaginomycotina | Molecular Biology and Evolution | 35(8) 1840-1854 |
| 2018 | 10.1186/s12864-018-4609-x | Khosravi, C., E. Battaglia, R. S. Kun, S. Dalhuijsen, J. Visser, M. V. Aguilar-Pontes, M. Zhou, H. M. Heyman, Y. M. Kim, S. E. Baker and R. P. de Vries | Blocking hexose entry into glycolysis activates alternative metabolic conversion of these sugars and upregulates pentose metabolism in Aspergillus nidulans | BMC Genomics | 19(1) 214 |
| 2018 | 10.1016/j.soilbio.2018.07.020 | Khdhiri, M., S. Piché-Choquette, J. Tremblay, S. G. Tringe and P. Constant | Meta-omics survey of [NiFe]-hydrogenase genes fails to capture drastic variations in H2-oxidation activity measured in three soils exposed to H2 | Soil Biology and Biochemistry | 125 239-243 |
| 2018 | 10.1093/femsec/fiy230 | Khan, M. A. W., B. J. M. Bohannan, K. Nüsslein, J. M. Tiedje, S. G. Tringe, E. Parlade, A. Barberán and J. L. M. Rodrigues | Deforestation impacts network co-occurrence patterns of microbial communities in Amazon soils | FEMS Microbiology Ecology | 95(2) |
| 2018 | 10.1128/mBio.00065-18 | Khalfaoui-Hassani, B., H. Wu, C. E. Blaby-Haas, Y. Zhang, F. Sandri, A. F. Verissimo, H. G. Koch and F. Daldal | Widespread Distribution and Functional Specificity of the Copper Importer CcoA: Distinct Cu Uptake Routes for Bacterial Cytochrome c Oxidases | mBio | 9(1) |
| 2018 | 10.1039/c7gc03459h | Kent, M. S., J. J. Zeng, N. Rader, I. C. Avina, C. T. Simoes, C. K. Brenden, M. L. Busse, J. Watt, N. H. Giron, T. M. Alam, M. D. Allendorf, B. A. Simmons, N. S. Bell and K. L. Sale | Efficient conversion of lignin into a water-soluble polymer by a chelator-mediated Fenton reaction: optimization of H2O2 use and performance as a dispersant | Green Chemistry | 20(13) 3024–37 |
| 2018 | 10.1002/cpmc.64 | Kelley, B. R., J. C. Ellis, D. Hyatt, D. Jacobson and J. Johnson | Isolation and Whole-Genome Sequencing of Environmental Campylobacter | Current Protocols in Microbiology | 51(1) e64 |
| 2018 | 10.5281/zenodo.2578238 | Kasmerchak, C. S. and R. Schaetzl | Soils of the GLBRC marginal land experiment (MLE) sites | Kellogg Biological Station Long-term Ecological Research Special Publication | |
| 2018 | 10.1021/acssynbio.7b00287 | Kasey, C. M., M. Zerrad, Y. Li, T. A. Cropp and G. J. Williams | Development of Transcription Factor-Based Designer Macrolide Biosensors for Metabolic Engineering and Synthetic Biology | ACS Synthetic Biology | 7(1) 227–39 |
| 2018 | 10.1186/s12918-018-0593-7 | Karp, P. D., D. Weaver and M. Latendresse | How accurate is automated gap filling of metabolic models? | BMC Systems Biology | 12(1) 73 |
| 2018 | 10.1104/pp.18.00298 | Karlen, S. D., H. C. A. Free, D. Padmakshan, B. G. Smith, J. Ralph and P. J. Harris | Commelinid monocotyledon lignins are acylated by p-coumarate | Plant Physiology | 177(2) 513-521 |
| 2018 | 10.1016/bs.mie.2018.04.029 | Karim, A. S. and M. C. Jewett | Cell-Free Synthetic Biology for Pathway Prototyping | Methods in Enzymology | 608 31-57 |
| 2018 | 10.1016/j.ymben.2017.11.005 | Karim, A. S., J. T. Heggestad, S. A. Crowe and M. C. Jewett | Controlling cell-free metabolism through physiochemical perturbations | Metabolic Engineering | 45 86–94 |
| 2018 | 10.1128/mBio.01366-16 | Karaoz, U., E. Couradeau, U. N. da Rocha, H. C. Lim, T. Northen, F. Garcia-Pichel and E. L. Brodie | Large Blooms of Bacillales (Firmicutes) Underlie the Response to Wetting of Cyanobacterial Biocrusts at Various Stages of Maturity | mBio | 9(2) |
| 2018 | 10.1038/s41396-018-0242-6 | Kappelmann, L., K. Krüger, J.-H. Hehemann, J. Harder, S. Markert, F. Unfried, D. Becher, N. Shapiro, T. Schweder, R. I. Amann and H. Teeling | Polysaccharide utilization loci of North Sea Flavobacteriia as basis for using SusC/D-protein expression for predicting major phytoplankton glycans | The ISME Journal | 13(1) 76-91 |
| 2018 | 10.1039/c7em00533d | Kanzler, C. R., P. Lian, E. L. Trainer, X. Yang, N. Govind, J. M. Parks and A. M. Graham | Emerging investigator series: methylmercury speciation and dimethylmercury production in sulfidic solutions | Environmental Science: Processes & Impacts | 20(4) 584–94 |
| 2018 | 10.1534/g3.118.200443 | Kainer, D., E. A. Stone, A. Padovan, W. J. Foley and C. Kulheim | Accuracy of Genomic Prediction for Foliar Terpene Traits in Eucalyptus polybractea | G3 Genes|Genomes|Genetics | 8(8) 2573–83 |
| 2018 | 10.1002/slct.201801837 | Jung, S., H. L. Trajano, C. G. Yoo, M. B. Foston, F. Hu, A. K. Tolbert, C. E. Wyman and A. J. Ragauskas | Topochemical Understanding of Lignin Distribution During Hydrothermal Flowthrough Pretreatment | ChemistrySelect | 3(32) 9348–52 |
| 2018 | 10.1038/s41467-018-05525-6 | Juarez, J. F., B. Lecube-Azpeitia, S. L. Brown, C. D. Johnston and G. M. Church | Biosensor libraries harness large classes of binding domains for construction of allosteric transcriptional regulators | Nature Communications | 9(1) 3101 |
| 2018 | 10.1109/SC.2018.00060 | Joubert, W., D. Weighill, D. Kainer, S. Climer, A. Justice, K. Fagnan and D. Jacobson | Attacking the Opioid Epidemic: Determining the Epistatic and Pleiotropic Genetic Architectures for Chronic Pain and Opioid Addiction | Proceedings of the International Conference for High Performance Computing, Networking, Storage, and Analysis (SC’18) | |
| 2018 | 10.1016/j.parco.2018.03.009 | Joubert, W., J. Nance, D. Weighill and D. Jacobson | Parallel accelerated vector similarity calculations for genomics applications | Parallel Computing | 75 130–45 |
| 2018 | 10.5194/bg-15-2219-2018 | Jose, N. A., R. Lau, T. L. Swenson, N. Klitgord, F. Garcia-Pichel, B. P. Bowen, R. Baran and T. R. Northen | Flux balance modeling to predict bacterial survival during pulsed-activity events | Biogeosciences | 15(7) 2219–29 |
| 2018 | 10.1021/acscentsci.8b00760 | Jones, C. G., M. W. Martynowycz, J. Hattne, T. J. Fulton, B. M. Stoltz, J. A. Rodriguez, H. M. Nelson and T. Gonen | The CryoEM Method MicroED as a Powerful Tool for Small Molecule Structure Determination | ACS Central Science | 4(11) 1587-1592 |
| 2018 | 10.2134/jeq2017.04.0177 | Jones, C. D., L. G. Oates, G. Philip Robertson and R. Cesar Izaurralde | Perennialization and cover cropping mitigate soil carbon loss from residue harvesting | Journal of Environmental Quality | 47(4) 710-717 |
| 2018 | 10.1128/AEM.00597-18 | Jones, A. J., A. G. Fast, M. Clupper and E. T. Papoutsakis | Small and Low but Potent: the Complex Regulatory Role of the Small RNA SolB in Solventogenesis in Clostridium acetobutylicum | Applied and Environmental Microbiology | 84(14) |
| 2018 | 10.1039/c7cp07126d | Johnson, Q. R., B. Mostofian, G. Fuente Gomez, J. C. Smith and X. Cheng | Effects of carotenoids on lipid bilayers | Physical Chemistry Chemical Physics | 20(5) 3795–804 |
| 2018 | 10.1002/jcc.25192 | Johnson, Q. R., R. J. Lindsay and T. Shen | CAMERRA: An analysis tool for the computation of conformational dynamics by evaluating residue-residue associations | Journal of Computational Chemistry | 39(20) 1568–78 |
| 2018 | 10.1111/nph.15050 | Jensen, J. K., M. Busse-Wicher, C. P. Poulsen, J. U. Fangel, P. J. Smith, et al. | Identification of an algal xylan synthase indicates that there is functional orthology between algal and plant cell wall biosynthesis | New Phytologist | 218(3) 1049-1060 |
| 2018 | 10.1039/c8ee00460a | Jayakody, L. N., C. W. Johnson, J. M. Whitham, R. J. Giannone, B. A. Black, et al. | Thermochemical wastewater valorization via enhanced microbial toxicity tolerance | Energy & Environmental Science | 11(6) 1625–1638 |
| 2018 | 10.1038/s41564-018-0163-1 | Jay, Z. J., J. P. Beam, M. Dlakić, D. B. Rusch, M. A. Kozubal and W. P. Inskeep | Marsarchaeota are an aerobic archaeal lineage abundant in geothermal iron oxide microbial mats | Nature Microbiology | 3(6) 732-740 |
| 2018 | 10.1186/s40168-018-0539-8 | Jarett, J. K., S. Nayfach, M. Podar, W. Inskeep, N. N. Ivanova, J. Munson-McGee, F. Schulz, M. Young, Z. J. Jay, J. P. Beam, N. C. Kyrpides, R. R. Malmstrom, R. Stepanauskas and T. Woyke | Single-cell genomics of co-sorted Nanoarchaeota suggests novel putative host associations and diversification of proteins involved in symbiosis | Microbiome | 6(1) 161 |
| 2018 | 10.1016/j.mib.2018.01.013 | Jansson, J. K. and K. S. Hofmockel | The soil microbiome—from metagenomics to metaphenomics | Current Opinion in Microbiology | 43 162–68 |
| 2018 | 10.1093/jxb/ery213 | Jansson, C., J. Vogel, S. Hazen, T. Brutnell and T. Mockler | Climate-smart crops with enhanced photosynthesis | Journal of Experimental Botany | 69(16) 3801–3809 |
| 2018 | 10.1016/j.cell.2018.03.055 | Jang, C., L. Chen and J. D. Rabinowitz | Metabolomics and Isotope Tracing | Cell | 173(4) 822–37 |
| 2018 | 10.1007/s00253-018-9294-9 | Jagtap, S. S. and C. V. Rao | Microbial conversion of xylose into useful bioproducts | Applied Microbiology and Biotechnology | 102(21) 9015–36 |
| 2018 | 10.3389/fpls.2018.00985 | Jaganathan, D., K. Ramasamy, G. Sellamuthu, S. Jayabalan and G. Venkataraman | CRISPR for Crop Improvement: An Update Review | Frontiers in Plant Science | 9 985 |
| 2018 | 10.1016/j.soilbio.2017.10.009 | Jach-Smith, L. C. and R. D. Jackson | N addition undermines N supplied by arbuscular mycorrhizal fungi to native perennial grasses | Soil Biology and Biochemistry | 116 148-157 |
| 2018 | 10.1111/tpj.14021 | Iwai, M., M. S. Roth and K. K. Niyogi | Subdiffraction-resolution live-cell imaging for visualizing thylakoid membranes | The Plant Journal | 96(1) 233–43 |
| 2018 | 10.1117/12.2291245 | Itay, G., Y. Seunghwan, W. Xiaolei, D. Matthew, W. Rosemarie, F. Nicola, H. Mark, C. Oliver, K. Aggelos and F. S. Norbert | Particle tracking and extended object imaging by interferometric super resolution microscopy | Proc.SPIE | 10499 |
| 2018 | 10.1104/pp.18.00396 | Ishikawa, T., L. Fang, E. A. Rennie, J. Sechet, J. Yan, B. Jing, W. Moore, E. B. Cahoon, H. V. Scheller, M. Kawai-Yamada and J. C. Mortimer | Glucosamine inositolphosphorylceramide transferase1 (GINT1) Is a GlcNAc-Containing Glycosylinositol Phosphorylceramide Glycosyltransferase | Plant Physiology | 177(3) 938–52 |
| 2018 | 10.1073/pnas.1720167115 | Ishii, H. A., J. P. Bradley, H. A. Bechtel, D. E. Brownlee, K. C. Bustillo, J. Ciston, J. N. Cuzzi, C. Floss and D. J. Joswiak | Multiple generations of grain aggregation in different environments preceded solar system body formation | Proc Natl Acad Sci U S A | 115(26) 6608-6613 |
| 2018 | 10.1002/ecy.2095 | Ibáñez, I., D. R. Zak, A. J. Burton and K. S. Pregitzer | Anthropogenic nitrogen deposition ameliorates the decline in tree growth caused by a drier climate | Ecology | 99(2) 411-420 |
| 2018 | 10.1186/s13068-018-1104-1 | Hwang, H. J., S. Y. Lee and P. C. Lee | Engineering and application of synthetic nar promoter for fine-tuning the expression of metabolic pathway genes in Escherichia coli | Biotechnology for Biofuels | 11 103 |
| 2018 | 10.1016/j.cels.2018.03.011 | Hutchins, P. D., J. D. Russell and J. J. Coon | LipiDex: An Integrated Software Package for High-Confidence Lipid Identification | Cell Systems | 6(5) 621-625.e5 |
| 2018 | 10.2217/fmb-2017-0202 | Huang, Y.-T., J.-F. Cheng, Y.-T. Liu, Y.-C. Mao, M.-S. Wu and P.-Y. Liu | Genome-Based Analysis of Virulence Determinants of a Serratia Marcescens Strain from Soft Tissues Following a Snake Bite | Future Microbiology | 13(3) 331-343 |
| 2018 | 10.1016/j.jgar.2018.06.005 | Huang, Y.-T., J.-F. Cheng, S.-Y. Chen, Y.-K. Hong, Z.-Y. Wu and P.-Y. Liu | Draft genome sequence of carbapenem-resistant Shewanella algae strain AC isolated from small abalone (Haliotis diversicolor) | Journal of Global Antimicrobial Resistance | 14 65-67 |
| 2018 | 10.1109/ICIP.2018.8451710 | Huang, X., K. He, S. Yoo, O. Cossairt, A. Katsaggelos, N. Ferrier and M. Hereld | An Interior Point Method for Nonnegative Sparse Signal Reconstruction | 2018 25th IEEE International Conference on Image Processing (ICIP) | 1193-1197 |
| 2018 | 10.1007/s00253-018-9062-x | Huang, G. L., J. E. Gosschalk, Y. S. Kim, R. R. Ogorzalek Loo and R. T. Clubb | Stabilizing displayed proteins on vegetative Bacillus subtilis cells | Applied Microbiology and Biotechnology | 102(15) 6547-6565 |
| 2018 | 10.1126/sciadv.aat5105 | Huang, A., P. Q. Nguyen, J. C. Stark, M. K. Takahashi, N. Donghia, T. Ferrante, A. J. Dy, K. J. Hsu, R. S. Dubner, K. Pardee, M. C. Jewett and J. J. Collins | BioBits Explorer: A modular synthetic biology education kit | Science Advances | 4(8) eaat5105 |
| 2018 | 10.1038/s41598-018-21741-y | Hu, Z., G. Zhang, A. Muhammad, R. A. Samad, Y. Wang, J. D. Walton, Y. He, L. Peng and L. Wang | Genetic loci simultaneously controlling lignin monomers and biomass digestibility of rice straw | Scientific Reports | 8(1) |
| 2018 | 10.1371/journal.pone.0199681 | Hu, G., Y. Liu, T. Duo, B. Zhao, G. Cui, J. Ji, X. Kuang, E. H. Ervin and X. Zhang | Antioxidant metabolism variation associated with alkali-salt tolerance in thirty switchgrass (Panicum virgatum) lines | PLoS One | 13(6) e0199681 |
| 2018 | 10.1038/nchembio.2552 | Hsu, T. M., D. H. Welner, Z. N. Russ, B. Cervantes, R. L. Prathuri, P. D. Adams and J. E. Dueber | Employing a biochemical protecting group for a sustainable indigo dyeing strategy | Nature Chemical Biology | 14(3) 256–61 |
| 2018 | 10.1074/jbc.RA117.001153 | Houtman, C. J., E. Maligaspe, C. G. Hunt, E. Fernández-Fueyo, A. T. Martínez and K. E. Hammel | Fungal lignin peroxidase does not produce the veratryl alcohol cation radical as a diffusible ligninolytic oxidant | Journal of Biological Chemistry | 293(13) 4702-4712 |
| 2018 | 10.1128/AEM.01133-18 | Hori, C., J. Gaskell, D. Cullen, G. Sabat, P. E. Stewart, K. Lail, Y. Peng, K. Barry, I. V. Grigoriev, A. Kohler, L. Fauchery, F. Martin, C. A. Zeiner and J. M. Bhatnagar | Multi-omic Analyses of Extensively Decayed Pinus contorta Reveal Expression of a Diverse Array of Lignocellulose-Degrading Enzymes | Applied and Environmental Microbiology | 84(20) e01133-18 |
| 2018 | 10.1186/s13068-018-1245-2 | Hon, S., E. K. Holwerda, R. S. Worthen, M. I. Maloney, L. Tian, J. Cui, P. P. Lin, L. R. Lynd and D. G. Olson | Expressing the Thermoanaerobacterium saccharolyticum pforA in engineered Clostridium thermocellum improves ethanol production | Biotechnology for Biofuels | 11(1) 242 |
| 2018 | 10.1186/s13068-018-1245-2 | Hon, S., E. K. Holwerda, R. S. Worthen, M. I. Maloney, L. Tian, J. Cui, P. P. Lin, L. R. Lynd and D. G. Olson | Expressing the Thermoanaerobacterium saccharolyticum pforA in engineered Clostridium thermocellum improves ethanol production | Biotechnology for Biofuels | 11 242 |
| 2018 | 10.1073/pnas.1813192115 | Hogle, S. L., C. L. Dupont, B. M. Hopkinson, A. L. King, K. N. Buck, K. L. Roe, R. K. Stuart, A. E. Allen, E. L. Mann, Z. I. Johnson and K. A. Barbeau | Pervasive iron limitation at subsurface chlorophyll maxima of the California Current | Proceedings of the National Academy of Sciences of the United States of America | 115(52) 13300–5 |
| 2018 | 10.1038/s41467-018-06050-2 | Hodgkins, S. B., C. J. Richardson, R. Dommain, H. Wang, P. H. Glaser, et al. | Tropical peatland carbon storage linked to global latitudinal trends in peat recalcitrance | Nature Communications | 9(1) 3640 |
| 2018 | 10.1111/tpj.14049 | Hoang, P. N. T., T. P. Michael, S. Gilbert, P. Chu, S. T. Motley, K. J. Appenroth, I. Schubert and E. Lam | Generating a high-confidence reference genome map of the Greater Duckweed by integration of cytogenomic, optical mapping, and Oxford Nanopore technologies | Plant Journal | 96(3) 670-684 |
| 2018 | 10.1016/j.copbio.2017.10.004 | Hittinger, C. T., J. L. Steele and D. S. Ryder | Diverse yeasts for diverse fermented beverages and foods | Current Opinion in Biotechnology | 49 199-206 |
| 2018 | 10.1093/gbe/evy187 | Higgins, S. A., C. W. Schadt, P. B. Matheny and F. E. Löffler | Phylogenomics reveal the dynamic evolution of fungal nitric oxide reductases and their relationship to secondary metabolism | Genome Biology and Evolution | 10(9) 2474-2489 |
| 2018 | 10.1534/genetics.118.301161 | Higgins, D. A., M. K. M. Young, M. Tremaine, M. Sardi, J. M. Fletcher, et al. | Natural Variation in the Multidrug Efflux Pump SGE1 Underlies Ionic Liquid Tolerance in Yeast | Genetics | 210(1) 219-234 |
| 2018 | 10.1534/genetics.118.301161 | Higgins, D. A., M. K. M. Young, M. Tremaine, M. Sardi, J. M. Fletcher, et al. | Natural Variation in the Multidrug Efflux Pump SGE1 Underlies Ionic Liquid Tolerance in Yeast | Genetics | 210(1) 219–34 |
| 2018 | 10.1111/1462-2920.14130 | Hesse, C., F. Schulz, C. T. Bull, B. T. Shaffer, Q. Yan, N. Shapiro, K. A. Hassan, N. Varghese, L. D. H. Elbourne, I. T. Paulsen, N. Kyrpides, T. Woyke and J. E. Loper | Genome-based evolutionary history of Pseudomonas spp | Environmental Microbiology | 20(6) 2142-2159 |
| 2018 | 10.1371/journal.pbio.2003962 | Herrera Paredes, S., T. Gao, T. F. Law, O. M. Finkel, T. Mucyn, P. Teixeira, I. Salas Gonzalez, M. E. Feltcher, M. J. Powers, E. A. Shank, C. D. Jones, V. Jojic, J. L. Dangl and G. Castrillo | Design of synthetic bacterial communities for predictable plant phenotypes | PLoS Biology | 16(2) e2003962 |
| 2018 | 10.1186/s13068-018-1337-z | Henson, W. R., F. F. Hsu, G. Dantas, T. S. Moon and M. Foston | Lipid metabolism of phenol-tolerant Rhodococcus opacus strains for lignin bioconversion | Biotechnology for Biofuels | 11 339 |
| 2018 | 10.1016/j.ymben.2018.06.009 | Henson, W. R., T. Campbell, D. M. DeLorenzo, Y. Gao, B. Berla, S. J. Kim, M. Foston, T. S. Moon and G. Dantas | Multi-omic elucidation of aromatic catabolism in adaptively evolved Rhodococcus opacus | Metabolic Engineering | 49 69–83 |
| 2018 | 10.1002/bit.26515 | Henske, J. K., S. E. Wilken, K. V. Solomon, C. R. Smallwood, V. Shutthanandan, J. E. Evans, M. K. Theodorou and M. A. O'Malley | Metabolic characterization of anaerobic fungi provides a path forward for bioprocessing of crude lignocellulose | Biotechnology and Bioengineering | 115(4) 874–84 |
| 2018 | 10.1016/j.bej.2017.11.015 | Henske, J. K., S. D. Springer, M. A. O'Malley and A. Butler | Substrate-based differential expression analysis reveals control of biomass degrading enzymes in Pycnoporus cinnabarinus | Biochemical Engineering Journal | 130 83–9 |
| 2018 | 10.1002/aic.16395 | Henske, J. K., S. P. Gilmore, C. H. Haitjema, K. V. Solomon and M. A. O'Malley | Biomass-degrading enzymes are catabolite repressed in anaerobic gut fungi | AIChE Journal | 64(12) 4263–70 |
| 2018 | 10.1038/s41467-018-07649-1 | Heckmann, D., D. C. Zielinski and B. O. Palsson | Modeling genome-wide enzyme evolution predicts strong epistasis underlying catalytic turnover rates | Nature Communications | 9(1) 5270 |
| 2018 | 10.1021/acs.analchem.8b02233 | Hebert, A. S., S. Prasad, M. W. Belford, D. J. Bailey, G. C. McAlister, S. E. Abbatiello, R. Huguet, E. R. Wouters, J. J. Dunyach, D. R. Brademan, M. S. Westphall and J. J. Coon | Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer | Analytical Chemistry | 90(15) 9529–37 |
| 2018 | 10.1128/mBio.02435-17 | He, Z., P. Zhang, L. Wu, A. M. Rocha, Q. Tu, et al. | Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning | mBio | 9(1) |
| 2018 | 10.1364/BOE.9.006477 | He, K., Z. Wang, X. Huang, X. Wang, S. Yoo, P. Ruiz, I. Gdor, A. Selewa, N. J. Ferrier, N. Scherer, M. Hereld, A. K. Katsaggelos and O. Cossairt | Computational multifocal microscopy | Biomedical optics express | 9(12) 6477-6496 |
| 2018 | 10.1364/OE.26.027381 | He, K., X. Huang, X. Wang, S. Yoo, P. Ruiz, I. Gdor, N. J. Ferrier, N. Scherer, M. Hereld, A. K. Katsaggelos and O. Cossairt | Design and simulation of a snapshot multi-focal interferometric microscope | Optics Express | 26(21) 27381-27402 |
| 2018 | 10.1007/978-3-319-44535-9_5-1 | Hazen, T. C. | Cometabolic Bioremediation | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Biodegradation and Bioremediation | 1–15 |
| 2018 | 10.1007/978-3-319-44535-9_11-1 | Hazen, T. C. | In Situ: Groundwater Bioremediation | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Biodegradation and Bioremediation | 1–18 |
| 2018 | 10.1038/s41396-018-0077-1 | Hausmann, B., C. Pelikan, C. W. Herbold, S. Köstlbacher, M. Albertsen, et al. | Peatland Acidobacteria with a dissimilatory sulfur metabolism | The ISME Journal | 12(7) 1729-1742 |
| 2018 | 10.1016/j.str.2018.03.021 | Hattne, J., D. Shi, C. Glynn, C. T. Zee, M. Gallagher-Jones, M. W. Martynowycz, J. A. Rodriguez and T. Gonen | Analysis of Global and Site-Specific Radiation Damage in Cryo-EM | Structure | 26(5) 759-766.e4 |
| 2018 | 10.4236/ajps.2018.93034 | Hatfield, R. D., H. Jung, J. M. Marita and H. Kim | Cell Wall Characteristics of a Maize Mutant Selected for Decreased Ferulates | American Journal of Plant Sciences | 9(3) 446–66 |
| 2018 | 10.5194/bg-15-3873-2018 | Haslun, J. A., N. E. Ostrom, E. L. Hegg and P. H. Ostrom | Estimation of isotope variation of N2O during denitrification by Pseudomonas aureofaciens and Pseudomonas chlororaphis: Implications for N2O source apportionment | Biogeosciences | 15(12) 3873-3882 |
| 2018 | 10.3389/fmicb.2018.00219 | Hasim, S., D. P. Allison, B. Mendez, A. T. Farmer, D. A. Pelletier, S. T. Retterer, S. R. Campagna, T. B. Reynolds and M. J. Doktycz | Elucidating Duramycin’s Bacterial Selectivity and Mode of Action on the Bacterial Cell Envelope | Frontiers in Microbiology | 9 |
| 2018 | 10.1126/science.aav4294 | Harrington, L. B., D. Burstein, J. S. Chen, D. Paez-Espino, E. Ma, I. P. Witte, J. C. Cofsky, N. C. Kyrpides, J. F. Banfield and J. A. Doudna | Programmed DNA destruction by miniature CRISPR-Cas14 enzymes | Science | 362(6416) 839-842 |
| 2018 | 10.1021/acs.energyfuels.8b02113 | Harman-Ware, A. E. and J. R. Ferrell | Methods and Challenges in the Determination of Molecular Weight Metrics of Bio-oils | Energy & Fuels | 32(9) 8905–20 |
| 2018 | 10.1093/treephys/tpx104 | Harding, S. A., H. Hu, B. Nyamdari, L. J. Xue, R. Naran and C. J. Tsai | Tubulins, rhythms and cell walls in poplar leaves: It's all in the timing | Tree Physiology | 38(3) 397-408 |
| 2018 | 10.1073/pnas.1810949115 | Harcombe, W. R., J. M. Chacon, E. M. Adamowicz, L. M. Chubiz and C. J. Marx | Evolution of bidirectional costly mutualism from byproduct consumption | Proceedings of the National Academy of Sciences of the United States of America | 115(47) 12000–4 |
| 2018 | 10.1016/j.ymben.2018.05.018 | Hanko, E. K. R., C. M. Denby, V. Sànchez i Nogué, W. Lin, K. J. Ramirez, C. A. Singer, G. T. Beckham and J. D. Keasling | Engineering β-oxidation in Yarrowia lipolytica for methyl ketone production | Metabolic Engineering | 48 52–62 |
| 2018 | 10.1111/tpj.14047 | Handakumbura, P. P., K. Brow, I. P. Whitney, K. Zhao, K. A. Sanguinet, et al. | SECONDARY WALL ASSOCIATED MYB1 is a positive regulator of secondary cell wall thickening in Brachypodium distachyon and is not found in the Brassicaceae | The Plant Journal | 96(3) 532-545 |
| 2018 | 10.1111/tpj.14047 | Handakumbura, P. P., K. Brow, I. P. Whitney, K. Zhao, K. A. Sanguinet, et al. | Secondary wall associated MYB1 is a positive regulator of secondary cell wall thickening in Brachypodium distachyon and is not found in the Brassicaceae | The Plant Journal | 96(3) 532–45 |
| 2018 | 10.1002/hyp.11447 | Hamilton, S. K., M. Z. Hussain, C. Lowrie, B. Basso and G. P. Robertson | Evapotranspiration is resilient in the face of land cover and climate change in a humid temperate catchment | Hydrological Processes | 32(5) 655–63 |
| 2018 | 10.1002/bit.26570 | HamediRad, M., J. Lian, H. Li and H. Zhao | RNAi assisted genome evolution unveils yeast mutants with improved xylose utilization | Biotechnology and Bioengineering | 115(6) 1552–60 |
| 2018 | 10.1007/s10533-018-0489-z | Hagerty, S. B., S. D. Allison and J. P. Schimel | Evaluating soil microbial carbon use efficiency explicitly as a function of cellular processes: implications for measurements and models | Biogeochemistry | 140(3) 269–83 |
| 2018 | 10.3389/fmicb.2018.00954 | Guo, X., X. Zhou, L. Hale, M. Yuan, J. Feng, et al. | Taxonomic and Functional Responses of Soil Microbial Communities to Annual Removal of Aboveground Plant Biomass | Frontiers in Microbiology | 9 954 |
| 2018 | 10.1038/s41558-018-0254-2 | Guo, X., J. J. Feng, Z. Shi, X. S. Zhou, M. T. Yuan, et al. | Climate warming leads to divergent succession of grassland microbial communities | Nature Climate Change | 8(9) 813–8 |
| 2018 | 10.1016/j.ymben.2018.07.003 | Guo, L., P. Wang, R. Jaini, N. Dudareva, C. Chapple and J. A. Morgan | Dynamic modeling of subcellular phenylpropanoid metabolism in Arabidopsis lignifying cells | Metabolic Engineering | 49 36–46 |
| 2018 | 10.1038/s41564-018-0178-7 | Guo, J., S. Wilken, V. Jimenez, C. J. Choi, C. Ansong, et al. | Specialized proteomic responses and an ancient photoprotection mechanism sustain marine green algal growth during phosphate limitation | Nature Microbiology | 3(7) 781–90 |
| 2018 | 10.1038/s41564-018-0178-7 | Guo, J., S. Wilken, V. Jimenez, C. J. Choi, C. Ansong, et al. | Specialized proteomic responses and an ancient photoprotection mechanism sustain marine green algal growth during phosphate limitation | Nature Microbiology | 3(7) 781-790 |
| 2018 | 10.1155/2018/9784161 | Guo, H. B., Y. Ma, G. A. Tuskan, X. Yang and H. Guo | Classification of Complete Proteomes of Different Organisms and Protein Sets Based on Their Protein Distributions in Terms of Some Key Attributes of Proteins | International Journal of Genomics | 2018 9784161 |
| 2018 | 10.1016/j.ijggc.2018.11.003 | Gundersen, C. B., T. Andersen, R. D. Vogt and S. D. Allison | Growth response of environmental bacteria under exposure to nitramines from CO2-capture | International Journal of Greenhouse Gas Control | 79 248–51 |
| 2018 | 10.1016/j.soilbio.2018.09.030 | Guber, A., A. Kravchenko, B. S. Razavi, D. Uteau, S. Peth, E. Blagodatskaya and Y. Kuzyakov | Quantitative soil zymography: Mechanisms, processes of substrate and enzyme diffusion in porous media | Soil Biology and Biochemistry | 127 156-167 |
| 2018 | 10.1534/g3.118.200235 | Gryganskyi, A. P., J. Golan, S. Dolatabadi, S. Mondo, S. Robb, et al. | Phylogenetic and Phylogenomic Definition of Rhizopus Species | G3 Genes|Genomes|Genetics | 8(6) 2007-2018 |
| 2018 | 10.1111/mec.14912 | Grum-Grzhimaylo, A. A., D. L. Falkoski, J. van den Heuvel, C. A. Valero-Jiménez, B. Min, et al. | The obligate alkalophilic soda-lake fungus Sodiomyces alkalinus has shifted to a protein diet | Molecular Ecology | 27(23) 4808-4819 |
| 2018 | 10.1007/s10295-018-2049-x | Groom, J., D. Chung, S. K. Kim, A. Guss and J. Westpheling | Deletion of the Clostridium thermocellum recA gene reveals that it is required for thermophilic plasmid replication but not plasmid integration at homologous DNA sequences | Journal of Industrial Microbiology and Biotechnology | 45(8) 753–63 |
| 2018 | 10.1186/s12864-018-5221-9 | Griesemer, M., J. A. Kimbrel, C. E. Zhou, A. Navid and P. D’haeseleer | Combining multiple functional annotation tools increases coverage of metabolic annotation | BMC Genomics | 19(1) 948 |
| 2018 | 10.1021/acssynbio.8b00243 | Goyal, G., Z. Costello, J. Alonso-Gutierrez, A. Kang, T. S. Lee, H. Garcia Martin and N. J. Hillson | Parallel Integration and Chromosomal Expansion of Metabolic Pathways | ACS Synthetic Biology | 7(11) 2566–76 |
| 2018 | 10.1186/s12864-018-5179-7 | Gould, B. A., J. D. Palacio-Mejia, J. Jenkins, S. Mamidi, K. Barry, J. Schmutz, T. E. Juenger and D. B. Lowry | Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae) | BMC Genomics | 19(1) 792 |
| 2018 | 10.1186/s12864-018-5179-7 | Gould, B. A., J. D. Palacio-Mejia, J. Jenkins, S. Mamidi, K. Barry, J. Schmutz, T. E. Juenger and D. B. Lowry | Population genomics and climate adaptation of a C4 perennial grass, Panicum hallii (Poaceae) | BMC Genomics | 19(1) 792 |
| 2018 | 10.1111/pbi.12841 | Gou, J., S. Debnath, L. Sun, A. Flanagan, Y. Tang, Q. Jiang, J. Wen and Z.-Y. Wang | From model to crop: functional characterization of SPL8 in M. truncatula led to genetic improvement of biomass yield and abiotic stress tolerance in alfalfa | Plant Biotechnology Journal | 16(4) 951–62 |
| 2018 | 10.1093/femsyr/foy096 | Gossing, M., A. Smialowska and J. Nielsen | Impact of forced fatty acid synthesis on metabolism and physiology of Saccharomyces cerevisiae | FEMS Yeast Research | 18(8) |
| 2018 | 10.1093/bioinformatics/bty227 | Goren, E., P. Liu, C. Wang and C. Wang | BinQuasi: a peak detection method for ChIP-sequencing data with biological replicates | Bioinformatics | 34(17) 2909–17 |
| 2018 | 10.1093/nar/gky041 | Gordon, G. C., J. C. Cameron and B. F. Pfleger | Distinct and redundant functions of three homologs of RNase III in the cyanobacterium Synechococcus sp. strain PCC 7002 | Nucleic Acids Research | 46(4) 1984-1997 |
| 2018 | 10.7554/eLife.33034 | Gonçalves, C., J. H. Wisecaver, J. Kominek, M. Salema Oom, M. J. Leandro, X. X. Shen, D. A. Opulente, X. Zhou, D. Peris, C. P. Kurtzman, C. T. Hittinger, A. Rokas and P. Gonçalves | Evidence for loss and reacquisition of alcoholic fermentation in a fructophilic yeast lineage | eLife | 7 |
| 2018 | 10.1094/PBIOMES-03-18-0012-R | Gomes, E. A., U. G. P. Lana, J. F. Quensen, S. M. De Sousa, C. A. Oliveira, J. Guo, L. J. M. Guimarães and J. M. Tiedje | Root-associated microbiome of maize genotypes with contrasting phosphorus use efficiency | Phytobiomes Journal | 2(3) 129-137 |
| 2018 | 10.1126/science.aat1168 | Goldford, J. E., N. Lu, D. Bajić, S. Estrela, M. Tikhonov, A. Sanchez-Gorostiaga, D. Segrè, P. Mehta and A. Sanchez | Emergent simplicity in microbial community assembly | Science | 361(6401) 469-474 |
| 2018 | 10.1074/jbc.RA117.001681 | Goins, C. M., S. Dajnowicz, M. D. Smith, J. M. Parks and D. R. Ronning | Mycolyltransferase from Mycobacterium tuberculosis in covalent complex with tetrahydrolipstatin provides insights into antigen 85 catalysis | Journal of Biological Chemistry | 293(10) 3651–62 |
| 2018 | 10.1002/bit.26558 | Goh, E. B., Y. Chen, C. J. Petzold, J. D. Keasling and H. R. Beller | Improving methyl ketone production in Escherichia coli by heterologous expression of NADH-dependent FabG | Biotechnology and Bioengineering | 115(5) 1161–72 |
| 2018 | 10.1038/s41396-018-0075-3 | Gluck-Thaler, E. and J. C. Slot | Specialized plant biochemistry drives gene clustering in fungi | The ISME Journal | 12(7) 1694-1705 |
| 2018 | 10.1073/pnas.1811269115 | Glassman, S. I., C. Weihe, J. Li, M. B. N. Albright, C. I. Looby, A. C. Martiny, K. K. Treseder, S. D. Allison and J. B. H. Martiny | Decomposition responses to climate depend on microbial community composition | Proceedings of the National Academy of Sciences of the United States of America | 115(47) 11994–9 |
| 2018 | 10.1128/mSphere.00148-18 | Glassman, S. I. and J. B. H. Martiny | Broadscale Ecological Patterns Are Robust to Use of Exact Sequence Variants versus Operational Taxonomic Units | mSphere | 3(4) |
| 2018 | 10.1080/01490451.2017.1321068 | Glass, J. B., S. Chen, K. S. Dawson, D. R. Horton, S. Vogt, E. D. Ingall, B. S. Twining and V. J. Orphan | Trace Metal Imaging of Sulfate-Reducing Bacteria and Methanogenic Archaea at Single-Cell Resolution by Synchrotron X-Ray Fluorescence Imaging | Geomicrobiology Journal | 35(1) 81–9 |
| 2018 | 10.1091/mbc.E17-11-0666 | Gibney, P. A., A. Schieler, J. C. Chen, J. M. Bacha-Hummel, M. Botstein, M. Volpe, S. J. Silverman, Y. Xu, B. D. Bennett, J. D. Rabinowitz and D. Botstein | Common and divergent features of galactose-1-phosphate and fructose-1-phosphate toxicity in yeast | Molecular Biology of the Cell | 29(8) 897–910 |
| 2018 | 10.1186/s13068-018-1248-z | Ghosh, S., E. K. Holwerda, R. S. Worthen, L. R. Lynd and B. P. Epps | Rheological properties of corn stover slurries during fermentation by Clostridium thermocellum | Biotechnology for Biofuels | 11 246 |
| 2018 | 10.1016/j.ymben.2018.03.004 | George, K. W., M. G. Thompson, J. Kim, E. E. K. Baidoo, G. Wang, V. T. Benites, C. J. Petzold, L. J. G. Chan, S. Yilmaz, P. Turhanen, P. D. Adams, J. D. Keasling and T. S. Lee | Integrated analysis of isopentenyl pyrophosphate (IPP) toxicity in isoprenoid-producing Escherichia coli | Metabolic Engineering | 47 60–72 |
| 2018 | 10.1364/OL.43.002819 | Gdor, I., X. Wang, M. Daddysman, Y. Yifat, R. Wilton, M. Hereld, M.-F. Noirot-Gros and N. F. Scherer | Particle tracking by repetitive phase-shift interferometric super resolution microscopy | Optics Letters | 43(12) 2819-2822 |
| 2018 | 10.1021/acs.analchem.7b02786 | Gates, S. D., R. C. Condit, N. Moussatche, B. J. Stewart, A. J. Malkin and P. K. Weber | High Initial Sputter Rate Found for Vaccinia Virions Using Isotopic Labeling, NanoSIMS, and AFM | Analytical Chemistry | 90(3) 1613–20 |
| 2018 | 10.1038/s41564-018-0124-8 | Garza, D. R., M. C. van Verk, M. A. Huynen and B. E. Dutilh | Towards predicting the environmental metabolome from metagenomics with a mechanistic model | Nature Microbiology | 3(4) 456–60 |
| 2018 | 10.1038/s41467-018-05051-5 | Garsmeur, O., G. Droc, R. Antonise, J. Grimwood, B. Potier, et al. | A mosaic monoploid reference sequence for the highly complex genome of sugarcane | Nature Communications | 9(1) 2638 |
| 2018 | 10.1128/msphere.00202-18 | Garcia, S. L., M. Buck, J. J. Hamilton, C. Wurzbacher, H.-P. Grossart, K. D. McMahon and A. Eiler | Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria | mSphere | 3(3) |
| 2018 | 10.1093/synbio/ysy006 | Garcia, D. C., B. P. Mohr, J. T. Dovgan, G. B. Hurst, R. F. Standaert and M. J. Doktycz | Elucidating the potential of crude cell extracts for producing pyruvate from glucose | Synthetic Biology | 3(1) ysy006 |
| 2018 | 10.1094/pbiomes-04-18-0021-r | Garcia, B. J., J. L. Labbé, P. Jones, P. E. Abraham, I. Hodge, S. Climer, S. Jawdy, L. Gunter, G. A. Tuskan, X. Yang, T. J. Tschaplinski and D. A. Jacobson | Phytobiome and Transcriptional Adaptation of Populus deltoides to Acute Progressive Drought and Cyclic Drought | Phytobiomes Journal | 2(4) 249–60 |
| 2018 | 10.1111/mmi.13909 | Garber, M. E., L. Rajeev, A. E. Kazakov, J. Trinh, D. Masuno, M. G. Thompson, N. Kaplan, J. Luk, P. S. Novichkov and A. Mukhopadhyay | Multiple signaling systems target a core set of transition metal homeostasis genes using similar binding motifs | Molecular Microbiology | 107(6) 704–17 |
| 2018 | 10.1002/cssc.201800598 | Gao, R., Y. Li, H. Kim, J. K. Mobley and J. Ralph | Selective Oxidation of Lignin Model Compounds | ChemSusChem | 11(13) 2045–50 |
| 2018 | 10.3791/57170 | Gao, J., J. Sasse, K. M. Lewald, K. Zhalnina, L. T. Cornmesser, T. A. Duncombe, Y. Yoshikuni, J. P. Vogel, M. K. Firestone and T. R. Northen | Ecosystem Fabrication (EcoFAB) Protocols for The Construction of Laboratory Ecosystems Designed to Study Plant-Microbe Interactions | Journal of Visualized Experiments | (134) |
| 2018 | 10.1038/s41396-018-0223-9 | Ganesh, S., A. D. Bertagnolli, L. A. Bristow, C. C. Padilla, N. Blackwood, M. Aldunate, A. Bourbonnais, M. A. Altabet, R. R. Malmstrom, T. Woyke, O. Ulloa, K. T. Konstantinidis, B. Thamdrup and F. J. Stewart | Single cell genomic and transcriptomic evidence for the use of alternative nitrogen substrates by anammox bacteria | The ISME Journal | 12(11) 2706-2722 |
| 2018 | 10.1111/nph.15258 | Gallego-Giraldo, L., S. Pose, S. Pattathil, A. G. Peralta, M. G. Hahn, B. G. Ayre, J. Sunuwar, J. Hernandez, M. Patel, J. Shah, X. Rao, J. P. Knox and R. A. Dixon | Elicitors and defense gene induction in plants with altered lignin compositions | New Phytologist | 219(4) 1235–51 |
| 2018 | 10.1038/s41594-017-0018-0 | Gallagher-Jones, M., C. Glynn, D. R. Boyer, M. W. Martynowycz, E. Hernandez, et al. | Sub-ångström cryo-EM structure of a prion protofibril reveals a polar clasp | Nature Structural and Molecular Biology | 25(2) 131-134 |
| 2018 | 10.1128/AEM.02076-17 | Gall, D. L., W. S. Kontur, W. Lan, H. Kim, Y. Li, J. Ralph, T. J. Donohue and D. R. Noguera | In vitro enzymatic depolymerization of lignin with release of syringyl, guaiacyl, and tricin units | Applied and Environmental Microbiology | 84(3) |
| 2018 | 10.1534/genetics.118.301487 | Gage, J. L., M. R. White, J. W. Edwards, S. Kaeppler and N. de Leon | Selection signatures underlying dramatic male inflorescence transformation during modern hybrid maize breeding | Genetics | 210(3) 1125-1138 |
| 2018 | 10.1534/g3.118.200700 | Gage, J. L., N. De Leon and M. K. Clayton | Comparing genome-wide association study results from different measurements of an underlying phenotype | G3: Genes, Genomes, Genetics | 8(11) 3715-3722 |
| 2018 | 10.1111/tpj.13849 | Fristedt, R., C. Hu, N. Wheatley, L. M. Roy, R. M. Wachter, L. Savage, J. Harbinson, D. M. Kramer, S. S. Merchant, T. Yeates and R. Croce | RAF2 is a RuBisCO assembly factor in Arabidopsis thaliana | Plant Journal | 94(1) 146-156 |
| 2018 | 10.3389/fmicb.2018.02152 | Freedman, A. J. E., K. C. Peet, J. T. Boock, K. Penn, K. L. J. Prather and J. R. Thompson | Isolation, Development, and Genomic Analysis of Bacillus megaterium SR7 for Growth and Metabolite Production Under Supercritical Carbon Dioxide | Frontiers in Microbiology | 9 2152 |
| 2018 | 10.1002/bit.26727 | Freed, E., J. Fenster, S. L. Smolinski, J. Walker, C. A. Henard, R. Gill and C. A. Eckert | Building a genome engineering toolbox in nonmodel prokaryotic microbes | Biotechnology and Bioengineering | 115(9) 2120–38 |
| 2018 | 10.1186/s12864-018-4911-7 | Franke, K. R., S. A. Schmidt, S. Park, D. H. Jeong, M. Accerbi and P. J. Green | Analysis of Brachypodium miRNA targets: evidence for diverse control during stress and conservation in bioenergy crops | BMC Genomics | 19(1) 547 |
| 2018 | 10.1007/s00253-017-8724-4 | Franco, L. C., S. Steinbeisser, G. M. Zane, J. D. Wall and M. W. Fields | Cr(VI) reduction and physiological toxicity are impacted by resource ratio in Desulfovibrio vulgaris/em> | Applied Microbiology and Biotechnology | 102(6) 2839–50 |
| 2018 | 10.1038/nprot.2017.151 | Forsberg, E. M., T. Huan, D. Rinehart, H. P. Benton, B. Warth, B. Hilmers and G. Siuzdak | Data processing, multi-omic pathway mapping, and metabolite activity analysis using XCMS Online | Nature Protocols | 13(4) 633–51 |
| 2018 | 10.1111/1758-2229.12619 | Flowers, J. J., M. A. Richards, N. Baliga, B. Meyer and D. A. Stahl | Constraint-based modelling captures the metabolic versatility of Desulfovibrio vulgaris | Environmental Microbiology Reports | 10(2) 190–201 |
| 2018 | 10.1186/s13068-017-0995-6 | Flores-Gómez, C. A., E. M. Escamilla Silva, C. Zhong, B. E. Dale, L. Da Costa Sousa and V. Balan | Conversion of lignocellulosic agave residues into liquid biofuels using an AFEX™-based biorefinery | Biotechnology for Biofuels | 11(1) |
| 2018 | 10.1128/AEM.02239-17 | Fleming, E. J., T. Woyke, R. A. Donatello, M. M. M. Kuypers, A. Sczyrba, S. Littmann and D. Emerson | Insights into the Fundamental Physiology of the Uncultured Fe-Oxidizing Bacterium Leptothrix ochracea | Applied and Environmental Microbiology | 84(9) e02239-17 |
| 2018 | 10.1534/genetics.118.300904 | Fischer, M. S., V. W. Wu, J. E. Lee, R. C. O’Malley and N. L. Glass | Regulation of Cell-to-Cell Communication and Cell Wall Integrity by a Network of MAP Kinase Pathways and Transcription Factors in Neurospora crassa | Genetics | 209(2) 489-506 |
| 2018 | 10.1128/mBio.01993-17 | Filippova, E. V., B. Zemaitaitis, T. Aung, A. J. Wolfe and W. F. Anderson | Structural Basis for DNA Recognition by the Two-Component Response Regulator RcsB | mBio | 9(1) |
| 2018 | 10.3389/fpls.2018.00005 | Filichkin, S. A., M. Hamilton, P. D. Dharmawardhana, S. K. Singh, C. Sullivan, A. Ben-Hur, A. S. N. Reddy and P. Jaiswal | Abiotic Stresses Modulate Landscape of Poplar Transcriptome via Alternative Splicing, Differential Intron Retention, and Isoform Ratio Switching | Frontiers in Plant Science | 9 5 |
| 2018 | 10.7554/eLife.36426 | Filiault, D. L., E. S. Ballerini, T. Mandáková, G. Aköz, N. J. Derieg, et al. | The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history | eLife | 7 e36426 |
| 2018 | 10.1016/j.meteno.2018.01.002 | Ferreira, R., P. G. Teixeira, M. Gossing, F. David, V. Siewers and J. Nielsen | Metabolic engineering of Saccharomyces cerevisiae for overproduction of triacylglycerols | Metabolic Engineering Communications | 6 22-27 |
| 2018 | 10.1007/s00122-017-3033-y | Fernandes, S. B., K. O. G. Dias, D. F. Ferreira and P. J. Brown | Efficiency of multi-trait, indirect, and trait-assisted genomic selection for improvement of biomass sorghum | Theoretical and Applied Genetics | 131(3) 747–55 |
| 2018 | 10.1104/pp.18.00146 | Feldman, M. J., P. Z. Ellsworth, N. Fahlgren, M. A. Gehan, A. B. Cousins and I. Baxter | Components of Water Use Efficiency Have Unique Genetic Signatures in the Model C4 Grass Setaria | Plant Physiology | 178(2) 699–715 |
| 2018 | 10.1016/j.joule.2018.09.007 | Fasahati, P. and C. T. Maravelias | Advanced Biofuels of the Future: Atom-Economical or Energy-Economical? | Joule | 2(10) 1915–9 |
| 2018 | 10.3389/fpls.2018.00384 | Faria-Blanc, N., J. C. Mortimer and P. Dupree | A Transcriptomic Analysis of Xylan Mutants Does Not Support the Existence of a Secondary Cell Wall Integrity System in Arabidopsis | Frontiers in Plant Science | 9 384 |
| 2018 | 10.1042/BST20170246 | Faria, J. P., M. Rocha, I. Rocha and C. S. Henry | Methods for automated genome-scale metabolic model reconstruction | Biochemical Society Transactions | 46(4) 931–6 |
| 2018 | 10.1186/s13068-018-1241-6 | Faraji, M., L. L. Fonseca, L. Escamilla-Treviño, J. Barros-Rios, N. L. Engle, Z. K. Yang, T. J. Tschaplinski, R. A. Dixon and E. O. Voit | A dynamic model of lignin biosynthesis in Brachypodium distachyon | Biotechnology for Biofuels | 11(1) 253 |
| 2018 | 10.1186/s13068-018-1028-9 | Faraji, M., L. L. Fonseca, L. Escamilla-Treviño, J. Barros-Rios, N. Engle, Z. K. Yang, T. J. Tschaplinski, R. A. Dixon and E. O. Voit | Mathematical models of lignin biosynthesis | Biotechnology for Biofuels | 11(1) 34 |
| 2018 | 10.1104/pp.18.00978 | Fan, M., K. Herburger, J. K. Jensen, S. Zemelis-Durfee, F. Brandizzi, S. C. Fry and C. G. Wilkerson | A Trihelix Family Transcription Factor Is Associated with Key Genes in Mixed-Linkage Glucan Accumulation | Plant Physiology | 178(3) 1207–21 |
| 2018 | 10.3835/plantgenome2017.06.0055 | Evans, J., M. D. Sanciangco, K. H. Lau, E. Crisovan, K. Barry, et al. | Extensive genetic diversity is present within north American Switchgrass Germplasm | Plant Genome | 11(1) |
| 2018 | 10.1016/j.ymben.2018.02.002 | Eudes, A., R. Berthomieu, Z. Hao, N. Zhao, V. T. Benites, E. E. K. Baidoo and D. Loqué | Production of muconic acid in plants | Metabolic Engineering | 46 13–19 |
| 2018 | 10.3390/genes9080389 | Estrada-de los Santos, P., M. Palmer, B. Chávez-Ramírez, C. Beukes, E. T. Steenkamp, et al. | Whole Genome Analyses Suggests that Burkholderia sensu lato Contains Two Additional Novel Genera (Mycetohabitans gen. nov., and Trinickia gen. nov.): Implications for the Evolution of Diazotrophy and Nodulation in the Burkholderiaceae | Genes | 9(8) 389 |
| 2018 | 10.1021/acs.jproteome.7b00708 | Estenson, K., G. B. Hurst, R. F. Standaert, A. N. Bible, D. Garcia, K. Chourey, M. J. Doktycz and J. L. Morrell-Falvey | Characterization of Indole-3-acetic Acid Biosynthesis and the Effects of This Phytohormone on the Proteome of the Plant-Associated Microbe Pantoea sp. YR343 | Journal of Proteome Research | 17(4) 1361–74 |
| 2018 | 10.1007/s00248-017-1028-5 | Espínola, F., H. M. Dionisi, S. Borglin, C. J. Brislawn, J. K. Jansson, W. P. Mac Cormack, J. Carroll, S. Sjöling and M. Lozada | Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes | Microbial Ecology | 75(1) 123-139 |
| 2018 | 10.1128/AEM.02816-17 | Entwistle, E. M., K. J. Romanowicz, W. A. Argiroff, Z. B. Freedman, J. J. Morris and D. R. Zak | Anthropogenic N deposition alters the composition of expressed class II fungal peroxidases | Applied and Environmental Microbiology | 84(9) |
| 2018 | 10.1186/s12934-018-1006-8 | Eng, T., P. Demling, R. A. Herbert, Y. Chen, V. Benites, J. Martin, A. Lipzen, E. E. K. Baidoo, L. M. Blank, C. J. Petzold and A. Mukhopadhyay | Restoration of biofuel production levels and increased tolerance under ionic liquid stress is enabled by a mutation in the essential Escherichia coli gene cydC | Microbial Cell Factories | 17(1) 159 |
| 2018 | 10.1186/s12934-018-1006-8 | Eng, T., P. Demling, R. A. Herbert, Y. Chen, V. Benites, J. Martin, A. Lipzen, E. E. K. Baidoo, L. M. Blank, C. J. Petzold and A. Mukhopadhyay | Restoration of biofuel production levels and increased tolerance under ionic liquid stress is enabled by a mutation in the essential Escherichia coli gene cydC | Microbial Cell Factories | 17(1) 159 |
| 2018 | 10.1016/j.simyco.2018.10.003 | Emri, T., K. Antal, R. Riley, Z. Karanyi, M. Miskei, E. Orosz, S. E. Baker, A. Wiebenga, R. P. de Vries and I. Pocsi | Duplications and losses of genes encoding known elements of the stress defence system of the Aspergilli contribute to the evolution of these filamentous fungi but do not directly influence their environmental stress tolerance | Studies in Mycology | 91 23-36 |
| 2018 | 10.1016/j.biombioe.2018.10.012 | Emery, S. M., E. R. Kinnetz, L. Bell-Dereske, K. A. Stahlheber, K. L. Gross and D. Pennington | Low variation in arbuscular mycorrhizal fungal associations and effects on biomass among switchgrass cultivars | Biomass and Bioenergy | 119 503–08 |
| 2018 | 10.1371/journal.pgen.1007267 | Emery, M., M. M. S. Willis, Y. Hao, K. Barry, K. Oakgrove, Y. Peng, J. Schmutz, E. Lyons, J. C. Pires, P. P. Edger and G. C. Conant | Preferential retention of genes from one parental genome after polyploidy illustrates the nature and scope of the genomic conflicts induced by hybridization | PLOS Genetics | 14(3) e1007267 |
| 2018 | 10.1038/s41564-018-0190-y | Emerson, J. B., S. Roux, J. R. Brum, B. Bolduc, B. J. Woodcroft, et al. | Host-linked soil viral ecology along a permafrost thaw gradient | Nature Microbiology | 3(8) 870–880 |
| 2018 | 10.1111/nph.15173 | Ellsworth, P. V., P. Z. Ellsworth, N. K. Koteyeva and A. B. Cousins | Cell wall properties in Oryza sativa influence mesophyll CO2 conductance | New Phytologist | 219(1) 66–76 |
| 2018 | 10.1107/S2059798318006678 | Ellinghaus, T. L., J. H. Pereira, R. P. McAndrew, D. H. Welner, A. M. DeGiovanni, J. M. Guenther, H. M. Tran, T. Feldman, B. A. Simmons, K. L. Sale and P. D. Adams | Engineering glycoside hydrolase stability by the introduction of zinc binding | Acta Crystallographica Section D Structural Biology | 74(Part 7) 702–10 |
| 2018 | 10.1111/1462-2920.14375 | Eizaguirre, J. I., D. Peris, M. E. Rodríguez, C. A. Lopes, P. De Los Ríos, C. T. Hittinger and D. Libkind | Phylogeography of the wild Lager-brewing ancestor (Saccharomyces eubayanus) in Patagonia | Environmental Microbiology | 20(10) 3732-3743 |
| 2018 | 10.1111/1462-2920.14043 | Eichorst, S. A., D. Trojan, S. Roux, C. Herbold, T. Rattei and D. Woebken | Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments | Environmental Microbiology | 20(3) 1041-1063 |
| 2018 | 10.1007/978-1-4939-7528-0_5 | Edirisinghe, J. N., J. P. Faria, N. L. Harris, B. H. Allen and C. S. Henry | Reconstruction and Analysis of Central Metabolism in Microbes | Metabolic Network Reconstruction and Modeling: Methods and Protocols | 1716 111–29 |
| 2018 | 10.1038/s41477-018-0235-5 | Ebert, B., C. Rautengarten, H. E. McFarlane, T. Rupasinghe, W. Zeng, K. Ford, H. V. Scheller, A. Bacic, U. Roessner, S. Persson and J. L. Heazlewood | A Golgi UDP-GlcNAc transporter delivers substrates for N-linked glycans and sphingolipids | Nature Plants | 4(10) 792–801 |
| 2018 | 10.1093/pcp/pcy180 | Ebert, B., D. Birdseye, A. J. M. Liwanag, T. Laursen, E. A. Rennie, et al. | The Three Members of the Arabidopsis Glycosyltransferase Family 92 are Functional β-1,4-Galactan Synthases | Plant Cell Physiolology | 59(12) 2624–36 |
| 2018 | 10.1111/1462-2920.13880 | Dyksma, S., P. Pjevac, K. Ovanesov and M. Mussmann | Evidence for H2 consumption by uncultured Desulfobacterales in coastal sediments | Environmental Microbiology | 20(2) 450-461 |
| 2018 | 10.1021/acssuschemeng.7b02991 | Dutta, T., G. Papa, E. Wang, J. Sun, N. G. Isern, J. R. Cort, B. A. Simmons and S. Singh | Characterization of Lignin Streams during Bionic Liquid-Based Pretreatment from Grass, Hardwood, and Softwood | ACS Sustainable Chemistry & Engineering | 6(3) 3079–90 |
| 2018 | 10.1093/femsec/fiy016 | Dunivin, T. K. and A. Shade | Community structure explains antibiotic resistance gene dynamics over a temperature gradient in soil | FEMS Microbiology Ecology | 94(3) |
| 2018 | 10.1021/acs.analchem.8b01989 | Duncombe, T. A., M. Raad, B. P. Bowen, A. K. Singh and T. R. Northen | Insulator Nanostructure Desorption Ionization Mass Spectrometry | Analytical Chemistry | 90(16) 9657–61 |
| 2018 | 10.1038/s41564-018-0210-y | Duerkop, B. A., M. Kleiner, D. Paez-Espino, W. Zhu, B. Bushnell, B. Hassell, S. E. Winter, N. C. Kyrpides and L. V. Hooper | Murine colitis reveals a disease-associated bacteriophage community | Nature Microbiology | 3(9) 1023-1031 |
| 2018 | 10.1007/978-1-4939-7315-6_13 | Dueñas, M. E., A. D. Feenstra, A. R. Korte, P. Hinners and Y. J. Lee | Cellular and Subcellular Level Localization of Maize Lipids and Metabolites Using High-Spatial Resolution MALDI Mass Spectrometry Imaging | Methods Mol Biol | 1676 217-231 |
| 2018 | 10.1186/s13068-018-1172-2 | Du, Z. Y., J. Alvaro, B. Hyden, K. Zienkiewicz, N. Benning, A. Zienkiewicz, G. Bonito and C. Benning | Enhancing oil production and harvest by combining the marine alga Nannochloropsis oceanica and the oleaginous fungus Mortierella elongata | Biotechnology for Biofuels | 11 174 |
| 2018 | 10.1371/journal.pone.0199125 | Du, N., P. Gholami, D. I. Kline, C. L. DuPont, A. G. Dickson, D. Mendola, T. Martz, A. E. Allen and B. G. Mitchell | Simultaneous quantum yield measurements of carbon uptake and oxygen evolution in microalgal cultures | PLoS One | 13(6) e0199125 |
| 2018 | 10.1371/journal.pgen.1007322 | Druzhinina, I. S., K. Chenthamara, J. Zhang, L. Atanasova, D. Yang, et al. | Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts | PLOS Genetics | 14(4) e1007322 |
| 2018 | 10.1021/acssuschemeng.8b00498 | Dou, J., W. Xu, J. J. Koivisto, J. K. Mobley, D. Padmakshan, M. Kögler, C. Xu, S. Willför, J. Ralph and T. Vuorinen | Characteristics of Hot Water Extracts from the Bark of Cultivated Willow (Salix sp.) | ACS Sustainable Chemistry and Engineering | 6(4) 5566-5573 |
| 2018 | 10.1021/acs.jafc.8b02014 | Dou, J., H. Kim, Y. Li, D. Padmakshan, F. Yue, J. Ralph and T. Vuorinen | Structural Characterization of Lignins from Willow Bark and Wood | Journal of Agricultural and Food Chemistry | 66(28) 7294–300 |
| 2018 | 10.1002/yea.3292 | Dossani, Z. Y., A. Reider Apel, H. Szmidt-Middleton, N. J. Hillson, S. Deutsch, J. D. Keasling and A. Mukhopadhyay | A combinatorial approach to synthetic transcription factor-promoter combinations for yeast strain engineering | Yeast | 35(3) 273–80 |
| 2018 | 10.1111/gcbb.12472 | Dong, H. X., S. Y. Liu, L. V. Clark, S. Sharma, J. M. Gifford, J. A. Juvik, A. E. Lipka and E. J. Sacks | Genetic mapping of biomass yield in three interconnected Miscanthus populations | GCB Bioenergy | 10(3) 165–85 |
| 2018 | 10.1099/ijsem.0.002942 | Dobritsa, A. P., K. K. Kutumbaka and M. Samadpour | Reclassification of Eubacterium combesii and discrepancies in the nomenclature of botulinum neurotoxin-producing clostridia: Challenging Opinion 69. Request for an Opinion | International Journal of Systematic and Evolutionary Microbiology | 68(9) 3068–75 |
| 2018 | 10.1021/acschembio.7b01019 | Dippel, A. B., W. A. Anderson, R. S. Evans, S. Deutsch and M. C. Hammond | Chemiluminescent Biosensors for Detection of Second Messenger Cyclic di-GMP | ACS Chemical Biology | 13(7) 1872-1879 |
| 2018 | 10.1104/pp.17.00905 | Ding, X. S., S. W. Mannas, B. A. Bishop, X. Rao, M. Lecoultre, S. Kwon and R. S. Nelson | An Improved Brome mosaic virus Silencing Vector: Greater Insert Stability and More Extensive VIGS | Plant Physiology | 176(1) 496–510 |
| 2018 | 10.1128/MSYSTEMS.00181-18 | DiMucci, D., M. Kon and D. Segrè | Machine learning reveals missing edges and putative interaction mechanisms in microbial ecosystem networks | mSystems | 3(5) |
| 2018 | 10.3389/fenrg.2018.00129 | Dien, B. S., R. B. Mitchell, M. J. Bowman, V. L. Jin, J. Quarterman, M. R. Schmer, V. Singh and P. J. Slininger | Bioconversion of Pelletized Big Bluestem, Switchgrass, and Low-Diversity Grass Mixtures Into Sugars and Bioethanol | Frontiers in Energy Research | 6 |
| 2018 | 10.3390/genes9080379 | diCenzo, G. C., K. Debiec, J. Krzysztoforski, W. Uhrynowski, A. Mengoni, C. Fagorzi, A. Gorecki, L. Dziewit, T. Bajda, G. Rzepa and L. Drewniak | Genomic and Biotechnological Characterization of the Heavy-Metal Resistant, Arsenic-Oxidizing Bacterium Ensifer sp. M14 | Genes | 9(8) |
| 2018 | 10.3791/57876 | Dharampal, P. S., C. M. Carlson, L. Diaz-Garcia and S. A. Steffan | In vitro rearing of solitary bees: A tool for assessing larval risk factors | Journal of Visualized Experiments | 2018(137) |
| 2018 | 10.1093/femsre/fuy008 | Deveau, A., G. Bonito, J. Uehling, M. Paoletti, M. Becker, et al. | Bacterial–fungal interactions: ecology, mechanisms and challenges | FEMS Microbiology Reviews | 42(3) 335–52 |
| 2018 | 10.1038/s41467-018-03293-x | Denby, C. M., R. A. Li, V. T. Vu, Z. Costello, W. Lin, L. J. G. Chan, J. Williams, B. Donaldson, C. W. Bamforth, C. J. Petzold, H. V. Scheller, H. G. Martin and J. D. Keasling | Industrial brewing yeast engineered for the production of primary flavor determinants in hopped beer | Nature Communications | 9(1) 965 |
| 2018 | 10.1021/acssynbio.7b00416 | DeLorenzo, D. M., A. G. Rottinghaus, W. R. Henson and T. S. Moon | Molecular Toolkit for Gene Expression Control and Genome Modification in Rhodococcus opacus PD630 | ACS Synthetic Biology | 7(2) 727–38 |
| 2018 | 10.1038/s41598-018-24486-w | DeLorenzo, D. M. and T. S. Moon | Selection of stable reference genes for RT-qPCR in Rhodococcus opacus PD630 | Scientific Reports | 8(1) 6019 |
| 2018 | 10.1021/acs.jafc.8b00880 | Del Rio, J. C., J. Rencoret, A. Gutierrez, H. Kim and J. Ralph | Structural Characterization of Lignin from Maize (Zea mays L.) Fibers: Evidence for Diferuloylputrescine Incorporated into the Lignin Polymer in Maize Kernels | Journal of Agricultural and Food Chemistry | 66(17) 4402–13 |
| 2018 | 10.1111/1462-2920.14342 | Dekas, A. E., D. A. Fike, G. L. Chadwick, A. Green-Saxena, J. Fortney, S. A. Connon, K. S. Dawson and V. J. Orphan | Widespread nitrogen fixation in sediments from diverse deep-sea sites of elevated carbon loading | Environmental Microbiology | 20(12) 4281–96 |
| 2018 | 10.3389/fenrg.2018.00120 | Decker, S. R., A. E. Harman-Ware, R. M. Happs, E. J. Wolfrum, G. A. Tuskan, D. Kainer, G. B. Oguntimein, M. Rodriguez, D. Weighill, P. Jones and D. Jacobson | High Throughput Screening Technologies in Biomass Characterization | Frontiers in Energy Research | 6 |
| 2018 | 10.1111/nph.14970 | de Souza, W. R., P. K. Martins, J. Freeman, T. K. Pellny, L. V. Michaelson, et al. | Suppression of a single BAHD gene in Setaria viridis causes large, stable decreases in cell wall feruloylation and increases biomass digestibility | New Phytologist | 218(1) 81-93 |
| 2018 | 10.1021/acs.langmuir.8b02792 | De Silva Indrasekara, A. S., S. J. Norton, N. K. Geitner, B. M. Crawford, M. R. Wiesner and T. Vo-Dinh | Tailoring the Core-Satellite Nanoassembly Architectures by Tuning Internanoparticle Electrostatic Interactions | Langmuir | 34(48) 14617-14623 |
| 2018 | 10.1021/acsomega.7b01700 | De Silva Indrasekara, A. S., S. F. Johnson, R. A. Odion and T. Vo-Dinh | Manipulation of the Geometry and Modulation of the Optical Response of Surfactant-Free Gold Nanostars: A Systematic Bottom-Up Synthesis | ACS Omega | 3(2) 2202-2210 |
| 2018 | 10.1016/bs.coac.2018.06.006 | de Raad, M., T. R. Northen and B. P. Bowen | Chapter Thirteen - Analysis and Interpretation of Mass Spectrometry Imaging Datasets | Comprehensive Analytical Chemistry | 82 369–86 |
| 2018 | 10.1007/s00203-018-1490-6 | de los Santos-Villalobos, S., J. M. Kremer, F. I. Parra-Cota, A. C. Hayano-Kanashiro, L. F. García-Ortega, S. K. Gunturu, J. M. Tiedje, S. Y. He and J. J. Peña-Cabriales | Draft genome of the fungicidal biological control agent Burkholderia anthina strain XXVI | Archives of Microbiology | 200(5) 803-810 |
| 2018 | 10.3389/fmicb.2018.00141 | de Freitas Pereira, M., C. Veneault-Fourrey, P. Vion, F. Guinet, E. Morin, et al. | Secretome Analysis from the Ectomycorrhizal Ascomycete Cenococcum geophilum | Frontiers in Microbiology | 9 |
| 2018 | 10.3389/fmicb.2018.00141 | de Freitas Pereira, M., C. Veneault-Fourrey, P. Vion, F. Guinet, E. Morin, et al. | Secretome Analysis from the Ectomycorrhizal Ascomycete Cenococcum geophilum | Frontiers in Microbiology | 9 141 |
| 2018 | 10.1126/science.aas9793 | Davis, S. J., N. S. Lewis, M. Shaner, S. Aggarwal, D. Arent, et al. | Net-zero emissions energy systems | Science | 360(6396) |
| 2018 | 10.1371/journal.pone.0208560 | Dash, M., Y. S. Yordanov, T. Georgieva, H. Wei and V. Busov | Gene network analysis of poplar root transcriptome in response to drought stress identifies a PtaJAZ3PtaRAP2.6-centered hierarchical network | PLoS One | 13(12) e0208560 |
| 2018 | 10.1021/acssuschemeng.8b01763 | Das, L., M. Li, J. Stevens, W. Q. Li, Y. Q. Pu, A. J. Ragauskas and J. Shi | Characterization and Catalytic Transfer Hydrogenolysis of Deep Eutectic Solvent Extracted Sorghum Lignin to Phenolic Compounds | ACS Sustainable Chemistry & Engineering | 6(8) 10408–20 |
| 2018 | 10.1021/acssuschemeng.7b03541 | Das, A., A. Rahimi, A. Ulbrich, M. Alherech, A. H. Motagamwala, A. Bhalla, L. Da Costa Sousa, V. Balan, J. A. Dumesic, E. L. Hegg, B. E. Dale, J. Ralph, J. J. Coon and S. S. Stahl | Lignin Conversion to Low-Molecular-Weight Aromatics via an Aerobic Oxidation-Hydrolysis Sequence: Comparison of Different Lignin Sources | ACS Sustainable Chemistry and Engineering | 6(3) 3367-3374 |
| 2018 | 10.1111/1462-2920.14416 | Daly, P., S. C. López, M. Peng, C. S. Lancefield, S. O. Purvine, et al. | Dichomitus squalens partially tailors its molecular responses to the composition of solid wood | Environmental Microbiology | 20(11) 4141-4156 |
| 2018 | 10.1186/s40168-018-0522-4 | Dalcin Martins, P., R. E. Danczak, S. Roux, J. Frank, M. A. Borton, R. A. Wolfe, M. N. Burris and M. J. Wilkins | Viral and metabolic controls on high rates of microbial sulfur and carbon cycling in wetland ecosystems | Microbiome | 6(1) 138 |
| 2018 | 10.1073/pnas.1807804115 | Czajka, J. J., M. H. Abernathy, V. T. Benites, E. E. K. Baidoo, J. W. Deming and Y. J. Tang | Model metabolic strategy for heterotrophic bacteria in the cold ocean based on Colwellia psychrerythraea 34H | Proceedings of the National Academy of Sciences of the United States of America | 115(49) 12507–12 |
| 2018 | 10.1021/acschembio.8b00422 | Curran, S. C., A. Hagen, S. Poust, L. J. G. Chan, B. M. Garabedian, T. de Rond, M. J. Baluyot, J. T. Vu, A. K. Lau, S. Yuzawa, C. J. Petzold, L. Katz and J. D. Keasling | Probing the Flexibility of an Iterative Modular Polyketide Synthase with Non-Native Substrates in Vitro | ACS Chemical Biology | 13(8) 2261–8 |
| 2018 | 10.1002/ecs2.2079 | Curd, E. E., J. B. H. Martiny, H. Li and T. B. Smith | Bacterial diversity is positively correlated with soil heterogeneity | Ecosphere | 9(1) |
| 2018 | 10.1088/1748-9326/aae6e3 | Cui, X. G., O. Kavvada, T. Huntington and C. D. Scown | Strategies for near-term scale-up of cellulosic biofuel production using sorghum and crop residues in the US | Environmental Research Letters | 13(12) |
| 2018 | 10.3835/plantgenome2017.11.0099 | Cuevas, H. E., L. K. Prom, E. A. Cooper, J. E. Knoll and X. Ni | Genome-Wide Association Mapping of Anthracnose (Colletotrichum sublineolum) Resistance in the U.S. Sorghum Association Panel | Plant Genome | 11(2) |
| 2018 | 10.1038/s41586-018-0207-y | Crits-Christoph, A., S. Diamond, C. N. Butterfield, B. C. Thomas and J. F. Banfield | Novel soil bacteria possess diverse genes for secondary metabolite biosynthesis | Nature | 558(7710) 440-444 |
| 2018 | 10.1186/s40168-018-0413-8 | Cregger, M. A., A. M. Veach, Z. K. Yang, M. J. Crouch, R. Vilgalys, G. A. Tuskan and C. W. Schadt | The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome | Microbiome | 6(1) 31 |
| 2018 | 10.1515/jib-2018-0001 | Cox, R. S., C. Madsen, J. A. McLaughlin, T. Nguyen, N. Roehner, et al. | Synthetic Biology Open Language (SBOL) Version 2.2.0 | Journal of Integrative Bioinformatics | 15(1) |
| 2018 | 10.1073/pnas.1809611115 | Coutinho, B. G., E. Mevers, A. L. Schaefer, D. A. Pelletier, C. S. Harwood, J. Clardy and E. P. Greenberg | A plant-responsive bacterial-signaling system senses an ethanolamine derivative | Proceedings of the National Academy of Sciences of the United States of America | 115(39) 9785–90 |
| 2018 | 10.3389/fenvs.2018.00065 | Couradeau, E., V. J. M. N. L. Felde, D. Parkinson, D. Uteau, A. Rochet, C. Cuellar, G. Winegar, S. Peth, T. R. Northen and F. Garcia-Pichel | In Situ X-Ray Tomography Imaging of Soil Water and Cyanobacteria From Biological Soil Crusts Undergoing Desiccation | Frontiers in Environmental Science | 6 |
| 2018 | 10.1038/s41540-018-0054-3 | Costello, Z. and H. G. Martin | A machine learning approach to predict metabolic pathway dynamics from time-series multiomics data | npj Systems Biology and Applications | 4 19 |
| 2018 | 10.1128/JB.00020-18 | Corzett, C. H., J. Elsherbini, D. M. Chien, J. H. Hehemann, A. Henschel, S. P. Preheim, X. Yu, E. J. Alm and M. F. Polz | Evolution of a Vegetarian Vibrio: Metabolic Specialization of Vibrio breoganii to Macroalgal Substrates | Journal of Bacteriology | 200(15) |
| 2018 | 10.7554/eLife.32110 | Coradetti, S. T., D. Pinel, G. M. Geiselman, M. Ito, S. J. Mondo, M. C. Reilly, Y. F. Cheng, S. Bauer, I. V. Grigoriev, J. M. Gladden, B. A. Simmons, R. B. Brem, A. P. Arkin and J. M. Skerker | Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides | eLife | 7 |
| 2018 | 10.7554/eLife.32110 | Coradetti, S. T., D. Pinel, G. M. Geiselman, M. Ito, S. J. Mondo, M. C. Reilly, Y.-F. Cheng, S. Bauer, I. V. Grigoriev, J. M. Gladden, B. A. Simmons, R. B. Brem, A. P. Arkin and J. M. Skerker | Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides | eLife | 7 e32110 |
| 2018 | 10.1021/acsinfecdis.8b00036 | Cooper, C. J., G. Krishnamoorthy, D. Wolloscheck, J. K. Walker, V. V. Rybenkov, J. M. Parks and H. I. Zgurskaya | Molecular Properties That Define the Activities of Antibiotics in Escherichia coli and Pseudomonas aeruginosa | ACS Infectious Diseases | 4(8) 1223–34 |
| 2018 | 10.1128/genomeA.00581-18 | Cook, L. E., S. S. Gang, A. Ihlan, M. Maune, R. S. Tanner, M. J. McInerney, G. Weinstock, E. A. Lobos and R. P. Gunsalus | Genome Sequence of Acetomicrobium hydrogeniformans OS1 | Genome Announcements | 6(26) |
| 2018 | 10.1002/aic.16354 | Conway, J. M., J. R. Crosby, A. P. Hren, R. T. Southerland, L. L. Lee, V. V. Lunin, P. Alahuhta, M. E. Himmel, Y. J. Bomble, M. W. W. Adams and R. M. Kelly | Novel multidomain, multifunctional glycoside hydrolases from highly lignocellulolytic Caldicellulosiruptor species | AIChE Journal | 64(12) 4218–28 |
| 2018 | 10.1186/s12859-018-2402-0 | Colby, S. M., R. S. McClure, C. C. Overall, R. S. Renslow and J. E. McDermott | Improving network inference algorithms using resampling methods | BMC Bioinformatics | 19(1) 376 |
| 2018 | 10.3389/fenrg.2018.00053 | Coffman, P., N. McCaffrey, J. Gardner, S. Bhagia, R. Kumar, C. E. Wyman and D. Tanjore | In Situ Rheological Method to Evaluate Feedstock Physical Properties Throughout Enzymatic Deconstruction | Frontiers in Energy Research | 6 |
| 2018 | 10.1016/j.tplants.2017.09.008 | Coelho, C. P., P. Huang, D. Y. Lee and T. P. Brutnell | Making Roots, Shoots, and Seeds: IDD Gene Family Diversification in Plants | Trends in Plant Science | 23(1) 66–78 |
| 2018 | 10.1007/s10295-018-2025-5 | Coates, R. C., B. P. Bowen, E. Oberortner, L. Thomashow, M. Hadjithomas, et al. | An integrated workflow for phenazine-modifying enzyme characterization | Journal of Industrial Microbiology and Biotechnology | 45(7) 567-577 |
| 2018 | 10.1016/j.ymben.2018.03.017 | Clark, R. L., L. L. McGinley, H. M. Purdy, T. C. Korosh, J. L. Reed, T. W. Root and B. F. Pfleger | Light-optimized growth of cyanobacterial cultures: Growth phases and productivity of biomass and secreted molecules in light-limited batch growth | Metabolic Engineering | 47 230–42 |
| 2018 | 10.1021/acssynbio.7b00377 | Clark, R. L., G. C. Gordon, N. R. Bennett, H. Lyu, T. W. Root and B. F. Pfleger | High-CO2 Requirement as a Mechanism for the Containment of Genetically Modified Cyanobacteria | ACS Synthetic Biology | 7(2) 384-391 |
| 2018 | Chung, D., N. Sarai, N. Hengge, J. Westpheling, R. Brunecky, P. Azadi, L. Wells, M. E. Himmel and Y. Bomble | Glycosylation is vital to the unique biochemical properties of Caldicellulosiruptor bescii CelA | 40th Symposium on Biotechnology for Fuels and Chemicals | ||
| 2018 | 10.1371/journal.pone.0194663 | Christensen, G. A., J. Moon, A. M. Veach, J. J. Mosher, A. M. Wymore, J. D. van Nostrand, J. Zhou, T. C. Hazen, A. P. Arkin and D. A. Elias | Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition | PLoS One | 13(3) e0194663 |
| 2018 | 10.1002/anie.201712286 | Choi, T. S., J. Lee, J. Y. Han, B. C. Jung, P. Wongkongkathep, J. A. Loo, M. J. Lee and H. I. Kim | Supramolecular Modulation of Structural Polymorphism in Pathogenic α-Synuclein Fibrils Using Copper(II) Coordination | Angewandte Chemie - International Edition | 57(12) 3099-3103 |
| 2018 | 10.1371/journal.pone.0195112 | Chiang, E., M. L. Schmidt, M. A. Berry, B. A. Biddanda, A. Burtner, T. H. Johengen, D. Palladino and V. J. Denef | Verrucomicrobia are prevalent in north-temperate freshwater lakes and display class-level preferences between lake habitats | PLOS ONE | 13(3) e0195112 |
| 2018 | 10.1128/genomea.01444-17 | Chernikova, T. N., N. Kyrpides, R. Bargiela, T. Woyke, N. Shapiro, W. B. Whitman and P. N. Golyshin | Draft Genome Sequence of Monaibacterium marinum C7T, Isolated from Seawater from the Menai Straits, Wales, United Kingdom | Genome Announcements | 6(5) |
| 2018 | 10.1021/acssynbio.7b00405 | Cheng, H.-Y., C. A. Masiello, I. Del Valle, X. Gao, G. N. Bennett and J. J. Silberg | Ratiometric Gas Reporting: A Nondisruptive Approach To Monitor Gene Expression in Soils | ACS Synthetic Biology | 7(3) 903–11 |
| 2018 | 10.1093/icb/icy091 | Cheng, H., N. C. Dove, J. M. Mena, T. Perez and S. Ul-Hasan | The Biota Project: A Case Study of a Multimedia, Grassroots Approach to Scientific Communication for Engaging Diverse Audiences | Integrative and Comparative Biology | 58(6) 1294-1303 |
| 2018 | 10.1002/biot.201700648 | Cheng, F., X. L. Tang and T. Kardashliev | Transcription Factor-Based Biosensors in High-Throughput Screening: Advances and Applications | Biotechnology Journal | 13(7) e1700648 |
| 2018 | 10.1093/nar/gky901 | Chen, I.-M. A., K. Chu, K. Palaniappan, M. Pillay, A. Ratner, et al. | IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes | Nucleic Acids Research | 47(D1) D666-D677 |
| 2018 | 10.1111/nph.14989 | Chen, E. C. H., E. Morin, D. Beaudet, J. Noel, G. Yildirir, et al. | High intraspecific genome diversity in the model arbuscular mycorrhizal symbiont Rhizophagus irregularis | New Phytologist | 220(4) 1161–1171 |
| 2018 | 10.1093/bioinformatics/bty015 | Chen, C. J. and Z. Zhang | iPat: intelligent prediction and association tool for genomic research | Bioinformatics | 34(11) 1925–7 |
| 2018 | 10.1021/acssynbio.8b00158 | Checcucci, A., G. C. diCenzo, V. Ghini, M. Bazzicalupo, A. Becker, et al. | Creation and Characterization of a Genomically Hybrid Strain in the Nitrogen-Fixing Symbiotic Bacterium Sinorhizobium meliloti | ACS Synthetic Biology | 7(10) 2365–78 |
| 2018 | 10.1016/j.copbio.2018.02.013 | Cheah, Y. E. and J. D. Young | Isotopically nonstationary metabolic flux analysis (INST-MFA): putting theory into practice | Current Opinion in Biotechnology | 54 80–7 |
| 2018 | 10.1039/c8nr06470a | Chaves-Lopez, C., H. N. Nguyen, R. C. Oliveira, E. T. Nadres, A. Paparella and D. F. Rodrigues | A morphological, enzymatic and metabolic approach to elucidate apoptotic-like cell death in fungi exposed to h- and α-molybdenum trioxide nanoparticles | Nanoscale | 10(44) 20702–16 |
| 2018 | 10.1111/1462-2920.14405 | Chase, A. B., Z. Gomez-Lunar, A. E. Lopez, J. Li, S. D. Allison, A. C. Martiny and J. B. H. Martiny | Emergence of soil bacterial ecotypes along a climate gradient | Environmental Microbiology | 20(11) 4112–26 |
| 2018 | 10.3389/fenrg.2018.00011 | Charrier, A. M., A. L. Lereu, R. H. Farahi, B. H. Davison and A. Passian | Nanometrology of Biomass for Bioenergy: The Role of Atomic Force Microscopy and Spectroscopy in Plant Cell Characterization | Frontiers in Energy Research | 6 |
| 2018 | 10.1186/s13068-018-1151-7 | Chang, J.-J., M. Anandharaj, C.-Y. Ho, K. Tsuge, T.-Y. Tsai, H.-M. Ke, Y.-J. Lin, M. D. Ha Tran, W.-H. Li and C.-C. Huang | Biomimetic strategy for constructing Clostridium thermocellum cellulosomal operons in Bacillus subtilis | Biotechnology for Biofuels | 11(1) 157 |
| 2018 | 10.1093/bioinformatics/bty446 | Chan, S. H. J., L. Wang, S. Dash and C. D. Maranas | Accelerating flux balance calculations in genome-scale metabolic models by localizing the application of loopless constraints | Bioinformatics | 34(24) 4248–55 |
| 2018 | 10.1038/s41396-018-0210-1 | Chadwick, G. L., J. Hemp, W. W. Fischer and V. J. Orphan | Convergent evolution of unusual complex I homologs with increased proton pumping capacity: energetic and ecological implications | The ISME Journal | 12(11) 2668–80 |
| 2018 | 10.1186/s40694-018-0056-3 | Chadha, S., S. T. Mehetre, R. Bansal, A. Kuo, A. Aerts, I. V. Grigoriev, I. S. Druzhinina and P. K. Mukherjee | Genome-wide analysis of cytochrome P450s of Trichoderma spp.: annotation and evolutionary relationships | Fungal Biology and Biotechnology | 5(1) 12 |
| 2018 | 10.1128/AEM.01185-18 | Cecil, J. H., D. C. Garcia, R. J. Giannone and J. K. Michener | Rapid, Parallel Identification of Catabolism Pathways of Lignin-Derived Aromatic Compounds in Novosphingobium aromaticivorans | Applied and Environmental Microbiology | 84(22) |
| 2018 | 10.2489/jswc.73.6.153A | Cates, A. M., G. R. Sanford, L. W. Good and R. D. Jackson | What do we know about cover crop efficacy in the North Central United States? | Journal of Soil and Water Conservation | 73(6) 153A-157A |
| 2018 | Cates, A. M. | Cover Crop Effects on the Carbon Cycle | Journal | 137 | |
| 2018 | 10.1002/pld3.85 | Casto, A. L., B. A. McKinley, K. M. J. Yu, W. L. Rooney and J. E. Mullet | Sorghum stem aerenchyma formation is regulated by SbNAC_D during internode development | Plant Direct | 2(11) e00085 |
| 2018 | 10.1007/s12155-017-9867-y | Casler, M. D. and G. P. Ramstein | Breeding for Biomass Yield in Switchgrass Using Surrogate Measures of Yield | Bioenergy Research | 11(1) 45669 |
| 2018 | 10.1145/3238147.3240466 | Cashman, M., M. B. Cohen, P. Ranjan and R. W. Cottingham | Navigating the Maze: The Impact of Configurability in Bioinformatics Software | Proceedings of the 33rd ACM/IEEE International Conference on Automated Software Engineering | 757–67 |
| 2018 | 10.1038/s41598-017-17392-0 | Carro, L., I. Nouioui, V. Sangal, J. P. Meier-Kolthoff, M. E. Trujillo, et al. | Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential | Scientific Reports | 8(1) 525 |
| 2018 | 10.3389/fmicb.2018.00364 | Carlos, C., H. Fan and C. R. Currie | Substrate shift reveals roles for members of bacterial consortia in degradation of plant cell wall polymers | Frontiers in Microbiology | 9(MAR) |
| 2018 | 10.1073/pnas.1717900115 | Carella, P., A. Gogleva, M. Tomaselli, C. Alfs and S. Schornack | Phytophthora palmivora establishes tissue-specific intracellular infection structures in the earliest divergent land plant lineage | Proceedings of the National Academy of Sciences | 115(16) E3846-E3855 |
| 2018 | 10.1038/s41598-018-21197-0 | Cardenas, E., L. H. Orellana, K. T. Konstantinidis and W. W. Mohn | Effects of timber harvesting on the genetic potential for carbon and nitrogen cycling in five North American forest ecozones | Scientific Reports | 8(1) 3142 |
| 2018 | 10.1038/s41557-018-0147-z | Cao, Q., W. S. Shin, H. Chan, C. K. Vuong, B. Dubois, B. Li, K. A. Murray, M. R. Sawaya, J. Feigon, D. L. Black, D. S. Eisenberg and L. Jiang | Inhibiting amyloid-ß cytotoxicity through its interaction with the cell surface receptor LilrB2 by structure-based design | Nature Chemistry | 10(12) 1213-1221 |
| 2018 | 10.1128/mra.01384-18 | Cantillo, A., N. Shapiro, T. Woyke, N. C. Kyrpides, S. Baena and M. M. Zambrano | Genome Sequences of Actinobacteria from Extreme Environments in Colombia | Microbiology Resource Announcements | 7(22) |
| 2018 | 10.1016/j.celrep.2018.03.083 | Cano, M., S. C. Holland, J. Artier, R. L. Burnap, M. Ghirardi, J. A. Morgan and J. Yu | Glycogen Synthesis and Metabolite Overflow Contribute to Energy Balancing in Cyanobacteria | Cell Reports | 23(3) 667–72 |
| 2018 | 10.1038/s41396-018-0109-x | Cai, C., A. O. Leu, G. J. Xie, J. Guo, Y. Feng, J. X. Zhao, G. W. Tyson, Z. Yuan and S. Hu | A methanotrophic archaeon couples anaerobic oxidation of methane to Fe(III) reduction | The ISME Journal | 12(8) 1929–39 |
| 2018 | 10.1186/s13570-017-0111-3 | Byakagaba, P., A. Egeru, B. Barasa and D. D. Briske | Uganda’s rangeland policy: intentions, consequences and opportunities | Pastoralism | 8(1) |
| 2018 | 10.1038/s41437-018-0058-1 | Butler, J. B., J. S. Freeman, B. M. Potts, R. E. Vaillancourt, D. Grattapaglia, et al. | Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus | Heredity | 121(1) 87-104 |
| 2018 | 10.1038/s41437-018-0058-1 | Butler, J. B., J. S. Freeman, B. M. Potts, R. E. Vaillancourt, D. Grattapaglia, et al. | Annotation of the Corymbia terpene synthase gene family shows broad conservation but dynamic evolution of physical clusters relative to Eucalyptus | Heredity | 121(1) 87–104 |
| 2018 | 10.3389/fpls.2018.01505 | Busov, V. B. | Manipulation of Growth and Architectural Characteristics in Trees for Increased Woody Biomass Production | Frontiers in Plant Science | 9 1505 |
| 2018 | 10.1186/s13007-018-0306-7 | Burkhow, S. J., N. M. Stephens, Y. Mei, M. E. Duenas, D. J. Freppon, G. Ding, S. C. Smith, Y. J. Lee, B. J. Nikolau, S. A. Whitham and E. A. Smith | Characterizing virus-induced gene silencing at the cellular level with in situ multimodal imaging | Plant Methods | 14 37 |
| 2018 | 10.1016/j.coche.2018.10.003 | Bundy, B. C., J. P. Hunt, M. C. Jewett, J. R. Swartz, D. W. Wood, D. D. Frey and G. Rao | Cell-free biomanufacturing | Current Opinion in Chemical Engineering | 22 177–83 |
| 2018 | 10.1126/science.aat7925 | Budin, I., T. de Rond, Y. Chen, L. J. G. Chan, C. J. Petzold and J. D. Keasling | Viscous control of cellular respiration by membrane lipid composition | Science | 362(6419) 1186–9 |
| 2018 | 10.1534/g3.118.200188 | Bryan, A. C., J. Zhang, J. Guo, P. Ranjan, V. Singan, K. Barry, J. Schmutz, D. Weighill, D. Jacobson, S. Jawdy, G. A. Tuskan, J. G. Chen and W. Muchero | A Variable Polyglutamine Repeat Affects Subcellular Localization and Regulatory Activity of a Populus ANGUSTIFOLIA Protein | G3 Genes|Genomes|Genetics | 8(8) 2631–41 |
| 2018 | 10.1534/g3.118.200188 | Bryan, A. C., J. Zhang, J. Guo, P. Ranjan, V. Singan, K. Barry, J. Schmutz, D. Weighill, D. Jacobson, S. Jawdy, G. A. Tuskan, J.-G. Chen and W. Muchero | A Variable Polyglutamine Repeat Affects Subcellular Localization and Regulatory Activity of a Populus ANGUSTIFOLIA Protein | G3 Genes|Genomes|Genetics | 8(8) 2631-2641 |
| 2018 | 10.1126/science.aau0382 | Brunson, J. K., S. M. K. McKinnie, J. R. Chekan, J. P. McCrow, Z. D. Miles, E. M. Bertrand, V. A. Bielinski, H. Luhavaya, M. Obornik, G. J. Smith, D. A. Hutchins, A. E. Allen and B. S. Moore | Biosynthesis of the neurotoxin domoic acid in a bloom-forming diatom | Science | 361(6409) 1356–8 |
| 2018 | 10.1111/nph.14913 | Bruns, T. D., N. Corradi, D. Redecker, J. W. Taylor and M. Opik | Glomeromycotina: what is a species and why should we care? | New Phytologist | 220(4) 963–7 |
| 2018 | 10.1073/pnas.1811971115 | Brunk, E., R. L. Chang, J. Xia, H. Hefzi, J. T. Yurkovich, D. Kim, E. Buckmiller, H. H. Wang, B. K. Cho, C. Yang, B. O. Palsson, G. M. Church and N. E. Lewis | Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow | Proceedings of the National Academy of Sciences of the United States of America | 115(43) 11096–101 |
| 2018 | 10.1186/s13068-018-1014-2 | Brunecky, R., D. Chung, N. S. Sarai, N. Hengge, J. F. Russell, J. Young, A. Mittal, P. Pason, T. Vander Wall, W. Michener, T. Shollenberger, J. Westpheling, M. E. Himmel and Y. J. Bomble | High activity CAZyme cassette for improving biomass degradation in thermophiles | Biotechnology for Biofuels | 11 22 |
| 2018 | 10.1016/j.semcdb.2017.08.051 | Brophy, J. A. N., T. LaRue and J. R. Dinneny | Understanding and engineering plant form | Seminars in Cell & Developmental Biology | 79 68–77 |
| 2018 | 10.1016/j.resconrec.2018.08.022 | Breunig, H. M., T. Huntington, L. Jin, A. Robinson and C. D. Scown | Temporal and geographic drivers of biomass residues in California | Resources, Conservation and Recycling | 139 287–97 |
| 2018 | 10.1093/nar/gky174 | Boyd, J. A., B. J. Woodcroft and G. W. Tyson | GraftM: a tool for scalable, phylogenetically informed classification of genes within metagenomes | Nucleic Acids Research | 46(10) e59 |
| 2018 | 10.1007/s11104-017-3497-1 | Bowsher, A. W., S. Evans, L. K. Tiemann and M. L. Friesen | Effects of soil nitrogen availability on rhizodeposition in plants: a review | Plant and Soil | 423(1–2) 59–85 |
| 2018 | 10.1039/c7gc03239k | Bouxin, F. P., H. Strub, T. Dutta, J. Aguilhon, T. J. Morgan, F. Mingardon, M. Konda, S. Singh, B. Simmons and A. George | Elucidating transfer hydrogenation mechanisms in non-catalytic lignin depolymerization | Green Chemistry | 20(15) 3566–80 |
| 2018 | 10.1111/tpj.14042 | Bourgeois, Y., C. Stritt, J.-C. Walser, S. P. Gordon, J. P. Vogel and A. C. Roulin | Genome-wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon | The Plant Journal | 96(2) 438-451 |
| 2018 | 10.1186/s12934-017-0848-9 | Bottoms, S., Q. Dickinson, M. McGee, L. Hinchman, A. Higbee, A. Hebert, J. Serate, D. Xie, Y. Zhang, J. J. Coon, C. L. Myers, R. Landick and J. S. Piotrowski | Chemical genomic guided engineering of gamma-valerolactone tolerant yeast | Microbial Cell Factories | 17(1) |
| 2018 | 10.1073/pnas.1800155115 | Borton, M. A., D. W. Hoyt, S. Roux, R. A. Daly, S. A. Welch, et al. | Coupled laboratory and field investigations resolve microbial interactions that underpin persistence in hydraulically fractured shales | Proceedings of the National Academy of Sciences | 115(28) E6585-E6594 |
| 2018 | 10.1111/1462-2920.14467 | Borton, M. A., R. A. Daly, B. O'Banion, D. W. Hoyt, D. N. Marcus, et al. | Comparative genomics and physiology of the genus Methanohalophilus, a prevalent methanogen in hydraulically fractured shale | Environmental Microbiology | 20(12) 4596-4611 |
| 2018 | 10.1007/978-3-319-93594-2_10 | Borland, A. M., A. Leverett, N. Hurtado-Castano, R. Hu and X. Yang | Functional Anatomical Traits of the Photosynthetic Organs of Plants with Crassulacean Acid Metabolism | The Leaf: A Platform for Performing Photosynthesis | 44 281–305 |
| 2018 | 10.1093/dnares/dsy016 | Borgognone, A., R. Castanera, M. Morselli, L. López-Varas, L. Rubbi, A. G. Pisabarro, M. Pellegrini and L. Ramírez | Transposon-associated epigenetic silencing during Pleurotus ostreatus life cycle | DNA Research | 25(5) 451-464 |
| 2018 | 10.1039/c8mt00252e | Boiteau, R. M., S. J. Fansler, Y. Farris, J. B. Shaw, D. W. Koppenaal, L. Pasa-Tolic and J. K. Jansson | Siderophore profiling of co-habitating soil bacteria by ultra-high resolution mass spectrometry | Metallomics | 11(1) 166–75 |
| 2018 | 10.1111/mmi.13903 | Blake, A. D., N. R. Beri, H. S. Guttman, R. Cheng and J. G. Gardner | The complex physiology of Cellvibrio japonicus xylan degradation relies on a single cytoplasmic β-xylosidase for xylo-oligosaccharide utilization | Molecular Microbiology | 107(5) 610–22 |
| 2018 | 10.1128/mSystems.00045-18 | Blair, P. M., M. L. Land, M. J. Piatek, D. A. Jacobson, T. S. Lu, M. J. Doktycz and D. A. Pelletier | Exploration of the Biosynthetic Potential of the Populus Microbiome | mSystems | 3(5) |
| 2018 | 10.1007/978-1-4939-7724-6_10 | Blaby-Haas, C. E., M. D. Page and S. S. Merchant | Using YFP as a Reporter of Gene Expression in the Green Alga Chlamydomonas reinhardtii | Methods in Molecular Biology | 1755 135–48 |
| 2018 | 10.1128/genomea.01411-17 | Biswas, R., M. Huntemann, A. Clum, M. Pillay, K. Palaniappan, et al. | Complete Genome Sequence of Thermoanaerobacterium sp. Strain RBIITD, a Butyrate- and Butanol-Producing Thermophile | Genome Announcements | 6(2) |
| 2018 | 10.1128/genomeA.01411-17 | Biswas, R., M. Huntemann, A. Clum, M. Pillay, K. Palaniappan, et al. | Complete Genome Sequence of Thermoanaerobacterium sp. Strain RBIITD, a Butyrate- and Butanol-Producing Thermophile | Genome Announcements | 6(2) |
| 2018 | 10.1186/s13068-017-1002-y | Biswal, A. K., M. A. Atmodjo, S. Pattathil, R. A. Amos, X. Yang, et al. | Working towards recalcitrance mechanisms: increased xylan and homogalacturonan production by overexpression of GAlactUronosylTransferase12 (GAUT12) causes increased recalcitrance and decreased growth in Populus | Biotechnology for Biofuels | 11 9 |
| 2018 | 10.1038/nbt.4067 | Biswal, A. K., M. A. Atmodjo, M. Li, H. L. Baxter, C. G. Yoo, et al. | Sugar release and growth of biofuel crops are improved by downregulation of pectin biosynthesis | Nature Biotechnology | 36(3) 249–57 |
| 2018 | 10.1021/acs.nanolett.8b01690 | Bhattarai, A., A. Krayev, A. Temiryazev, D. Evplov, K. T. Crampton, W. P. Hess and P. Z. El-Khoury | Tip-Enhanced Raman Scattering from Nanopatterned Graphene and Graphene Oxide | Nano Lett | 18(6) 4029-4033 |
| 2018 | 10.1021/acs.jpclett.8b03324 | Bhattarai, A., K. T. Crampton, A. G. Joly, L. Kovarik, W. P. Hess and P. Z. El-Khoury | Imaging the Optical Fields of Functionalized Silver Nanowires through Molecular TERS | J Phys Chem Lett | 9(24) 7105-7109 |
| 2018 | 10.1002/ecm.1303 | Bhatnagar, J. M., K. G. Peay and K. K. Treseder | Litter chemistry influences decomposition through activity of specific microbial functional guilds | Ecological Monographs | 88(3) 429-444 |
| 2018 | 10.1186/s13068-018-1124-x | Bhalla, A., P. Fasahati, C. A. Particka, A. E. Assad, R. J. Stoklosa, N. Bansal, R. Semaan, C. M. Saffron, D. B. Hodge and E. L. Hegg | Integrated experimental and technoeconomic evaluation of two-stage Cu-catalyzed alkaline-oxidative pretreatment of hybrid poplar | Biotechnology for Biofuels | 11 143 |
| 2018 | 10.1021/acssuschemeng.7b02067 | Bhalla, A., N. Bansal, S. Pattathil, M. Li, W. Shen, et al. | Engineered Lignin in Poplar Biomass Facilitates Cu-Catalyzed Alkaline-Oxidative Pretreatment | ACS Sustainable Chemistry and Engineering | 6(3) 1932-1941 |
| 2018 | 10.1016/j.biortech.2018.08.034 | Bhagia, S., Y. Pu, B. R. Evans, B. H. Davison and A. J. Ragauskas | Hemicellulose characterization of deuterated switchgrass | Bioresource Technology | 269 567–70 |
| 2018 | 10.1038/s41598-018-31269-w | Bhagia, S., X. Meng, B. R. Evans, J. R. Dunlap, G. Bali, J. Chen, K. S. Reeves, H. C. Ho, B. H. Davison, Y. Pu and A. J. Ragauskas | Ultrastructure and Enzymatic Hydrolysis of Deuterated Switchgrass | Scientific Reports | 8(1) 13226 |
| 2018 | 10.1002/bit.26582 | Bhagia, S., J. F. S. Ferreira, N. Kothari, A. Nunez, X. Liu, N. da Silva Dias, D. L. Suarez, R. Kumar and C. E. Wyman | Sugar yield and composition of tubers from Jerusalem Artichoke (Helianthus tuberosus) irrigated with saline waters | Biotechnology and Bioengineering | 115(6) 1475–84 |
| 2018 | 10.1038/s41598-018-19848-3 | Bhagia, S., R. Dhir, R. Kumar and C. E. Wyman | Deactivation of Cellulase at the Air-Liquid Interface Is the Main Cause of Incomplete Cellulose Conversion at Low Enzyme Loadings | Scientific Reports | 8(1) 1350 |
| 2018 | 10.3389/fpls.2018.01732 | Bewg, W. P., D. Ci and C. J. Tsai | Genome Editing in Trees: From Multiple Repair Pathways to Long-Term Stability | Frontiers in Plant Science | 9 1732 |
| 2018 | 10.7717/peerj.5727 | Berry, J. C., N. Fahlgren, A. A. Pokorny, R. S. Bart and K. M. Veley | An automated, high-throughput method for standardizing image color profiles to improve image-based plant phenotyping | PeerJ | 6 e5727 |
| 2018 | 10.1038/s41589-018-0153-x | Bernhardsgrütter, I., B. Vögeli, T. Wagner, D. M. Peter, N. S. Cortina, J. Kahnt, G. Bange, S. Engilberge, E. Girard, F. Riobé, O. Maury, S. Shima, J. Zarzycki and T. J. Erb | The multicatalytic compartment of propionyl-CoA synthase sequesters a toxic metabolite | Nature Chemical Biology | 14(12) 1127-1132 |
| 2018 | 10.1007/s00253-018-9043-0 | Berim, A. and D. R. Gang | Production of methoxylated flavonoids in yeast using ring A hydroxylases and flavonoid O-methyltransferases from sweet basil | Applied Microbiology and Biotechnology | 102(13) 5585–98 |
| 2018 | 10.1002/bit.26518 | Bergenholm, D., M. Gossing, Y. Wei, V. Siewers and J. Nielsen | Modulation of saturation and chain length of fatty acids in Saccharomyces cerevisiae for production of cocoa butter-like lipids | Biotechnology and Bioengineering | 115(4) 932–42 |
| 2018 | 10.1038/s41589-018-0017-4 | Beller, H. R., A. V. Rodrigues, K. Zargar, Y. W. Wu, A. K. Saini, R. M. Saville, J. H. Pereira, P. D. Adams, S. G. Tringe, C. J. Petzold and J. D. Keasling | Discovery of enzymes for toluene synthesis from anoxic microbial communities | Nature Chemical Biology | 14(5) 451–7 |
| 2018 | 10.1038/s41589-018-0017-4 | Beller, H. R., A. V. Rodrigues, K. Zargar, Y.-W. Wu, A. K. Saini, R. M. Saville, J. H. Pereira, P. D. Adams, S. G. Tringe, C. J. Petzold and J. D. Keasling | Discovery of enzymes for toluene synthesis from anoxic microbial communities | Nature Chemical Biology | 14(5) 451-457 |
| 2018 | 10.3389/fmicb.2018.02129 | Bell, E., T. Lamminmäki, J. Alneberg, A. F. Andersson, C. Qian, W. Xiong, R. L. Hettich, L. Balmer, M. Frutschi, G. Sommer and R. Bernier-Latmani | Biogeochemical Cycling by a Low-Diversity Microbial Community in Deep Groundwater | Frontiers in Microbiology | 9 |
| 2018 | 10.1111/pbi.12747 | Baxter, H. L., M. Mazarei, A. Dumitrache, J. M. Natzke, M. Rodriguez, Jr., J. Gou, C. Fu, R. W. Sykes, G. B. Turner, M. F. Davis, S. D. Brown, B. H. Davison, Z. Y. Wang and C. N. Stewart, Jr. | Transgenic miR156 switchgrass in the field: growth, recalcitrance and rust susceptibility | Plant Biotechnology Journal | 16(1) 39–49 |
| 2018 | 10.15252/msb.20188371 | Bassalo, M. C., A. D. Garst, A. Choudhury, W. C. Grau, E. J. Oh, E. Spindler, T. Lipscomb and R. T. Gill | Deep scanning lysine metabolism in Escherichia coli | Molecular Systems Biology | 14(11) e8371 |
| 2018 | 10.1002/pmic.201800123 | Basisty, N., J. G. Meyer, L. Wei, B. W. Gibson and B. Schilling | Simultaneous Quantification of the Acetylome and Succinylome by 'One-Pot' Affinity Enrichment | Proteomics | 18(17) e1800123 |
| 2018 | 10.1021/acs.est.8b05176 | Baral, N. R., C. Quiroz-Arita and T. H. Bradley | Probabilistic Lifecycle Assessment of Butanol Production from Corn Stover Using Different Pretreatment Methods | Environmental Science & Technology | 52(24) 14528–37 |
| 2018 | 10.1021/acsphotonics.8b00206 | Bar-Elli, O., D. Steinitz, G. Yang, R. Tenne, A. Ludwig, Y. Kuo, A. Triller, S. Weiss and D. Oron | Rapid Voltage Sensing with Single Nanorods via the Quantum Confined Stark Effect | ACS Photonics | 5(7) 2860-2867 |
| 2018 | 10.1007/s13399-018-0330-x | Bär, J., T. Phongpreecha, S. K. Singh, M. Kral Yilmaz, C. E. Foster, J. D. Crowe and D. B. Hodge | Deconstruction of hybrid poplar to monomeric sugars and aromatics using ethanol organosolv fractionation | Biomass Conversion and Biorefinery | 8(4) 813-824 |
| 2018 | 10.1038/nbt.4132 | Bao, Z., M. HamediRad, P. Xue, H. Xiao, I. Tasan, R. Chao, J. Liang and H. Zhao | Genome-scale engineering of Saccharomyces cerevisiae with single-nucleotide precision | Nature Biotechnology | 36(6) 505–8 |
| 2018 | 10.1093/jxb/ery225 | Bansal, S., H. J. Kim, G. Na, M. E. Hamilton, E. B. Cahoon, C. Lu and T. P. Durrett | Towards the synthetic design of camelina oil enriched in tailored acetyl-triacylglycerols with medium-chain fatty acids | Journal of Experimental Botany | 69(18) 4395–402 |
| 2018 | 10.1007/s11101-017-9530-4 | Banerjee, A. and B. Hamberger | P450s controlling metabolic bifurcations in plant terpene specialized metabolism | Phytochemistry Reviews | 17(1) 81-111 |
| 2018 | 10.1002/pld3.41 | Banan, D., R. E. Paul, M. J. Feldman, M. W. Holmes, H. Schlake, I. Baxter, H. Jiang and A. D. B. Leakey | High-fidelity detection of crop biomass quantitative trait loci from low-cost imaging in the field | Plant Direct | 2(2) e00041 |
| 2018 | 10.1038/s41396-017-0006-8 | Balasundaram, S. V., J. Hess, M. B. Durling, S. C. Moody, L. Thorbek, et al. | The fungus that came in from the cold: dry rot’s pre-adapted ability to invade buildings | The ISME Journal | 12(3) 791-801 |
| 2018 | 10.1093/femsec/fiy102 | Bakermans, C. | Adaptations to marine versus terrestrial low temperature environments as revealed by comparative genomic analyses of the genus Psychrobacter | FEMS Microbiology Ecology | 94(7) |
| 2018 | 10.1007/s00253-018-9265-1 | Baker, S. E. | Protein hyperproduction in fungi by design | Applied Microbiology and Biotechnology | 102(20) 8621–8 |
| 2018 | 10.1186/s12862-018-1193-2 | Bahri, B. A., G. Daverdin, X. Xu, J. F. Cheng, K. W. Barry, E. C. Brummer and K. M. Devos | Natural variation in genes potentially involved in plant architecture and adaptation in switchgrass (Panicum virgatum L.) | BMC Evolutionary Biology | 18(1) 91 |
| 2018 | 10.1186/s12862-018-1193-2 | Bahri, B. A., G. Daverdin, X. Xu, J.-F. Cheng, K. W. Barry, E. C. Brummer and K. M. Devos | Natural variation in genes potentially involved in plant architecture and adaptation in switchgrass (Panicum virgatum L.) | BMC Evolutionary Biology | 18(1) 91 |
| 2018 | 10.3389/fpls.2018.01669 | Badmi, R., R. S. Payyavula, G. Bali, H. B. Guo, S. S. Jawdy, et al. | A New Calmodulin-Binding Protein Expresses in the Context of Secondary Cell Wall Biosynthesis and Impacts Biomass Properties in Populus | Frontiers in Plant Science | 9 1669 |
| 2018 | 10.3390/metabo8010003 | Backman, T. W. H., D. Ando, J. Singh, J. D. Keasling and H. García Martín | Constraining Genome-Scale Models to Represent the Bow Tie Structure of Metabolism for 13C Metabolic Flux Analysis | Metabolites | 8(1) 3 |
| 2018 | 10.1111/1462-2920.14273 | Bachy, C., C. J. Charlesworth, A. M. Chan, J. F. Finke, C. H. Wong, C. L. Wei, S. Sudek, M. L. Coleman, C. A. Suttle and A. Z. Worden | Transcriptional responses of the marine green alga Micromonas pusilla and an infecting prasinovirus under different phosphate conditions | Environmental Microbiology | 20(8) 2898–912 |
| 2018 | 10.1111/1462-2920.14273 | Bachy, C., C. J. Charlesworth, A. M. Chan, J. F. Finke, C.-H. Wong, C.-L. Wei, S. Sudek, M. L. Coleman, C. A. Suttle and A. Z. Worden | Transcriptional responses of the marine green alga Micromonas pusilla and an infecting prasinovirus under different phosphate conditions | Environmental Microbiology | 20(8) 2898-2912 |
| 2018 | 10.1186/s13068-017-1007-6 | Aznar, A., C. Chalvin, P. M. Shih, M. Maimann, B. Ebert, D. S. Birdseye, D. Loqué and H. V. Scheller | Gene stacking of multiple traits for high yield of fermentable sugars in plant biomass | Biotechnology for Biofuels | 11(1) 2 |
| 2018 | 10.1093/nar/gkx1313 | Azad, A., G. A. Pavlopoulos, C. A. Ouzounis, N. C. Kyrpides and A. Buluç | HipMCL: a high-performance parallel implementation of the Markov clustering algorithm for large-scale networks | Nucleic Acids Research | 46(6) e33 |
| 2018 | 10.1002/adbi.201800048 | Aufrecht, J. A., C. M. Timm, A. Bible, J. L. Morrell-Falvey, D. A. Pelletier, M. J. Doktycz and S. T. Retterer | Quantifying the Spatiotemporal Dynamics of Plant Root Colonization by Beneficial Bacteria in a Microfluidic Habitat | Advanced Biosystems | 2(6) |
| 2018 | 10.1186/s13068-018-1039-6 | Attia, M. A., C. E. Nelson, W. A. Offen, N. Jain, G. J. Davies, J. G. Gardner and H. Brumer | In vitro and in vivo characterization of three Cellvibrio japonicus glycoside hydrolase family 5 members reveals potent xyloglucan backbone-cleaving functions | Biotechnology for Biofuels | 11 45 |
| 2018 | 10.1002/ecs2.2370 | Asao, S., W. J. Parton, M. Chen and W. Gao | Photodegradation accelerates ecosystem N cycling in a simulated California grassland | Ecosphere | 9(8) e02370 |
| 2018 | 10.1534/g3.118.200656 | Arnesen, J. A., J. Małagocka, A. Gryganskyi, I. V. Grigoriev, K. Voigt, J. E. Stajich and H. H. De Fine Licht | Early Diverging Insect-Pathogenic Fungi of the Order Entomophthorales Possess Diverse and Unique Subtilisin-Like Serine Proteases | G3 Genes|Genomes|Genetics | 8(10) 3311-3319 |
| 2018 | 10.1038/nbt.4163 | Arkin, A. P., R. W. Cottingham, C. S. Henry, N. L. Harris, R. L. Stevens, et al. | KBase: The United States Department of Energy Systems Biology Knowledgebase | Nature Biotechnology | 36(7) 566–9 |
| 2018 | 10.1021/acs.jpca.8b05912 | Apra, E., A. Bhattarai, K. T. Crampton, E. J. Bylaska, N. Govind, W. P. Hess and P. Z. El-Khoury | Time Domain Simulations of Single Molecule Raman Scattering | J Phys Chem A | 122(37) 7437-7442 |
| 2018 | 10.1007/978-1-4939-7295-1_21 | Ando, D. and H. Garcia Martin | Two-Scale 13C Metabolic Flux Analysis for Metabolic Engineering | Synthetic Metabolic Pathways: Methods and Protocols | 1671 333–52 |
| 2018 | 10.1038/s41396-018-0078-0 | Anantharaman, K., B. Hausmann, S. P. Jungbluth, R. S. Kantor, A. Lavy, L. A. Warren, M. S. Rappé, M. Pester, A. Loy, B. C. Thomas and J. F. Banfield | Expanded diversity of microbial groups that shape the dissimilatory sulfur cycle | The ISME Journal | 12(7) 1715-1728 |
| 2018 | 10.1074/jbc.RA118.004463 | Amos, R. A., S. Pattathil, J. Y. Yang, M. A. Atmodjo, B. R. Urbanowicz, K. W. Moremen and D. Mohnen | A two-phase model for the non-processive biosynthesis of homogalacturonan polysaccharides by the GAUT1:GAUT7 complex | Journal of Biological Chemistry | 293(49) 19047–63 |
| 2018 | 10.1002/bit.26530 | Alonso-Gutierrez, J., D. Koma, Q. Hu, Y. Yang, L. J. G. Chan, C. J. Petzold, P. D. Adams, C. E. Vickers, L. K. Nielsen, J. D. Keasling and T. S. Lee | Toward industrial production of isoprenoids in Escherichia coli: Lessons learned from CRISPR-Cas9 based optimization of a chromosomally integrated mevalonate pathway | Biotechnology and Bioengineering | 115(4) 1000–13 |
| 2018 | 10.1128/AEM.00598-18 | Albright, M. B. N., R. Johansen, D. Lopez, V. Gallegos-Graves, B. Steven, C. R. Kuske and J. Dunbar | Short-Term Transcriptional Response of Microbial Communities to Nitrogen Fertilization in a Pine Forest Soil | Applied and Environmental Microbiology | 84(15) |
| 2018 | 10.1038/s41467-018-06993-6 | Al-Bassam, M. M., J. N. Kim, L. S. Zaramela, B. P. Kellman, C. Zuniga, J. M. Wozniak, D. J. Gonzalez and K. Zengler | Optimization of carbon and energy utilization through differential translational efficiency | Nature Communications | 9(1) 4474 |
| 2018 | 10.1080/00275514.2018.1446650 | Aime, M. C., H. Urbina, J. A. Liber, G. Bonito and R. Oono | Two new endophytic Atractiellomycetes, Atractidochium hillariae and Proceropycnis hameedii | Mycologia | 110(1) 136–46 |
| 2018 | 10.1038/s41564-018-0261-0 | Ahrendt, S. R., C. A. Quandt, D. Ciobanu, A. Clum, A. Salamov, et al. | Leveraging single-cell genomics to expand the fungal tree of life | Nature Microbiology | 3(12) 1417-1428 |
| 2018 | 10.1016/j.simyco.2018.10.001 | Aguilar-Pontes, M. V., J. Brandl, E. McDonnell, K. Strasser, T. T. M. Nguyen, R. Riley, S. Mondo, A. Salamov, J. L. Nybo, T. C. Vesth, I. V. Grigoriev, M. R. Andersen, A. Tsang and R. P. de Vries | The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi | Stud Mycol | 91 61-78 |
| 2018 | 10.1039/c7mt00349h | Ackerman, C. M., P. K. Weber, T. Xiao, B. Thai, T. J. Kuo, E. Zhang, J. Pett-Ridge and C. J. Chang | Multimodal LA-ICP-MS and nanoSIMS imaging enables copper mapping within photoreceptor megamitochondria in a zebrafish model of Menkes disease | Metallomics | 10(3) 474–85 |
| 2018 | 10.1371/journal.pone.0190019 | Abraham, P. E., B. J. Garcia, L. E. Gunter, S. S. Jawdy, N. Engle, X. Yang, D. A. Jacobson, R. L. Hettich, G. A. Tuskan and T. J. Tschaplinski | Quantitative proteome profile of water deficit stress responses in eastern cottonwood (Populus deltoides) leaves | PLoS One | 13(2) e0190019 |
| 2018 | 10.1111/ppa.12913 | Abraham, N. D., P. Chitrampal, S. Kerio and J. M. LeBoldus | Multiplex qPCR for detection and quantification of Sphaerulina musiva in Populus stems | Plant Pathology | 67(9) 1874–82 |
| 2018 | 10.1016/j.agrformet.2018.02.016 | Abraha, M., S. K. Hamilton, J. Q. Chen and G. P. Robertson | Ecosystem carbon exchange on conversion of Conservation Reserve Program grasslands to annual and perennial cropping systems | Agricultural and Forest Meteorology | 253 151–60 |
| 2018 | 10.1002/eap.1745 | Abraha, M., I. Gelfand, S. K. Hamilton, J. Chen and G. P. Robertson | Legacy effects of land use on soil nitrous oxide emissions in annual crop and perennial grassland ecosystems | Ecological Applications | 28(5) 1362–9 |
| 2018 | 10.1016/j.synbio.2017.12.001 | Abdel-Mawgoud, A. M. and G. Stephanopoulos | Simple glycolipids of microbes: Chemistry, biological activity and metabolic engineering | Synthetic and Systems Biotechnology | 3(1) 3–19 |
| 2018 | 10.1016/j.ymben.2018.07.016 | Abdel-Mawgoud, A. M., K. A. Markham, C. M. Palmer, N. Liu, G. Stephanopoulos and H. S. Alper | Metabolic engineering in the host Yarrowia lipolytica | Metabolic Engineering | 50 192–208 |
| 2019 | 10.1038/s41564-019-0567-6 | Zuñiga, C., C. T. Li, G. Yu, M. M. Al-Bassam, T. Li, L. Jiang, L. S. Zaramela, M. Guarnieri, M. J. Betenbaugh and K. Zengler | Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities | Nature Microbiology | 4(12) 2184-2191 |
| 2019 | 10.1038/s41564-019-0621-4 | Zuniga, C., C. T. Li, G. Yu, M. M. Al-Bassam, T. Li, L. Jiang, L. S. Zaramela, M. Guarnieri, M. J. Betenbaugh and K. Zengler | Author Correction: Environmental stimuli drive a transition from cooperation to competition in synthetic phototrophic communities | Nature Microbiology | 4(12) 2578 |
| 2019 | 10.1111/1462-2920.14608 | Zimmerman, A. E., C. Bachy, X. Ma, S. Roux, H. B. Jang, M. B. Sullivan, J. R. Waldbauer and A. Z. Worden | Closely related viruses of the marine picoeukaryotic alga Ostreococcus lucimarinus exhibit different ecological strategies | Environmental Microbiology | 21(6) 2148–70 |
| 2019 | 10.1111/tpj.14340 | Zhuo, C., X. Rao, R. Azad, R. Pandey, X. Xiao, A. Harkelroad, X. Wang, F. Chen and R. A. Dixon | Enzymatic basis for C-lignin monomer biosynthesis in the seed coat of Cleome hassleriana | The Plant Journal | 99(3) 506–20 |
| 2019 | 10.1073/pnas.1916224116 | Zheng, H., J. Perreau, J. E. Powell, B. Han, Z. Zhang, W. K. Kwong, S. G. Tringe and N. A. Moran | Division of labor in honey bee gut microbiota for plant polysaccharide digestion | Proceedings of the National Academy of Sciences | 116(51) 25909-25916 |
| 2019 | 10.1007/s11103-019-00856-4 | Zhao, Y., J. Y. Kim, R. Karan, J. H. Jung, B. Pathak, B. Williamson, B. Kannan, D. Wang, C. Fan, W. Yu, S. Dong, V. Srivastava and F. Altpeter | Generation of a selectable marker free, highly expressed single copy locus as landing pad for transgene stacking in sugarcane | Plant Molecular Biology | 100(3) 247–63 |
| 2019 | 10.3389/fgene.2019.00253 | Zhao, L., H. Zhang, M. V. Kohnen, K. Prasad, L. Gu and A. S. N. Reddy | Analysis of Transcriptome and Epitranscriptome in Plants Using PacBio Iso-Seq and Nanopore-Based Direct RNA Sequencing | Frontiers in Genetics | 10 253 |
| 2019 | 10.3389/fpls.2019.01275 | Zhao, K., F. Lin, S. P. Romero-Gamboa, P. Saha, H. J. Goh, G. An, K. H. Jung, S. P. Hazen and L. E. Bartley | Rice Genome-Scale Network Integration Reveals Transcriptional Regulators of Grass Cell Wall Synthesis | Frontiers in Plant Science | 10 1275 |
| 2019 | 10.3389/fmicb.2019.02596 | Zhang, Y., J. M. Vera, D. Xie, J. Serate, E. Pohlmann, J. D. Russell, A. S. Hebert, J. J. Coon, T. K. Sato and R. Landick | Multiomic Fermentation Using Chemically Defined Synthetic Hydrolyzates Revealed Multiple Effects of Lignocellulose-Derived Inhibitors on Cell Physiology and Xylose Utilization in Zymomonas mobilis | Frontiers in Microbiology | 10 2596 |
| 2019 | 10.1128/MRA.00793-19 | Zhang, Y., Y. T. Liao, A. Salvador, X. Sun and V. C. H. Wu | Complete Genome Sequence of a Shiga Toxin-Converting Bacteriophage, Escherichia Phage Lys12581Vzw, Induced from an Outbreak Shiga Toxin-Producing Escherichia coli Strain | Microbiology Resource Announcements | 8(36) |
| 2019 | 10.1186/s13068-019-1560-2 | Zhang, Y., S. Lane, J. M. Chen, S. K. Hammer, J. Luttinger, L. Yang, Y. S. Jin and J. L. Avalos | Xylose utilization stimulates mitochondrial production of isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae | Biotechnology for Biofuels | 12 223 |
| 2019 | 10.1038/s41598-018-37988-4 | Zhang, Y., C. E. Blaby-Haas, S. Steimle, A. F. Verissimo, V. A. Garcia-Angulo, H. G. Koch, F. Daldal and B. Khalfaoui-Hassani | Cu Transport by the Extended Family of CcoA-like Transporters (CalT) in Proteobacteria | Scientific Reports | 9(1) 1208 |
| 2019 | 10.1021/acs.est.9b01345 | Zhang, X., J. Xia, J. Pu, C. Cai, G. W. Tyson, Z. Yuan and S. Hu | Biochar-Mediated Anaerobic Oxidation of Methane | Environmental Science & Technology | 53(12) 6660–8 |
| 2019 | 10.1007/s12042-019-09239-x | Zhang, W. P., J. S. Lin, F. Dong, Q. Ma, S. L. Wu, X. Y. Ma, M. Fatima, H. F. Jia and R. Ming | Genomic and Allelic Analyses of Laccase Genes in Sugarcane (Saccharum spontaneum L.) | Tropical Plant Biology | 12(3) 219–29 |
| 2019 | 10.1016/j.jbiotec.2018.10.012 | Zhang, S., S. S. Jagtap, A. Deewan and C. V. Rao | pH selectively regulates citric acid and lipid production in Yarrowia lipolytica W29 during nitrogen-limited growth on glucose | Journal of Biotechnology | 290 10–5 |
| 2019 | 10.1128/mbio.01570-19 | Zhang, M., Z. Kang, X. Guo, S. Guo, D. Xiao, Y. Liu, C. Ma, P. Xu and C. Gao | Regulation of Glutarate Catabolism by GntR Family Regulator CsiR and LysR Family Regulator GcdR in Pseudomonas putida KT2440 | mBio | 10(4) |
| 2019 | 10.1111/gcbb.12609 | Zhang, L., T. E. Juenger, D. B. Lowry and K. D. Behrman | Climatic impact, future biomass production, and local adaptation of four switchgrass cultivars | GCB Bioenergy | 11(8) 956–70 |
| 2019 | 10.1016/j.ibiod.2019.104731 | Zhang, J. W., D. H. Hu, G. Orr and J. Schilling | Fluorescence in situ mRNA hybridization for gene expression detection in a wood decay fungus | International Biodeterioration & Biodegradation | 143 |
| 2019 | 10.1111/pbi.12962 | Zhang, J., Q. Zhang, L. Li, H. Tang, Q. Zhang, Y. Chen, J. Arrow, X. Zhang, A. Wang, C. Miao and R. Ming | Recent polyploidization events in three Saccharum founding species | Plant Biotechnology Journal | 17(1) 264–74 |
| 2019 | 10.1128/mBio.02176-19 | Zhang, J., K. A. T. Silverstein, J. D. Castano, M. Figueroa and J. S. Schilling | Gene Regulation Shifts Shed Light on Fungal Adaption in Plant Biomass Decomposers | mBio | 10(6) |
| 2019 | 10.1016/j.fgb.2018.11.005 | Zhang, J., H. D. Mitchell, L. M. Markillie, M. J. Gaffrey, G. Orr and J. Schilling | Reference genes for accurate normalization of gene expression in wood-decomposing fungi | Fungal Genetics and Biology | 123 33–40 |
| 2019 | 10.1039/c8se00471d | Zhang, J., M. Li, A. C. Bryan, C. G. Yoo, W. Rottmann, et al. | Overexpression of a serine hydroxymethyltransferase increases biomass production and reduces recalcitrance in the bioenergy crop Populus | Sustainable Energy & Fuels | 3(1) 195–207 |
| 2019 | 10.1074/jbc.RA119.008497 | Zhang, J., Y. Chen, C. Wu, P. Liu, W. Wang and D. Wei | The transcription factor ACE3 controls cellulase activities and lactose metabolism via two additional regulators in the fungus Trichoderma reesei | Journal of Biological Chemistry | 294(48) 18435-18450 |
| 2019 | 10.1038/s41592-019-0465-0 | Zengler, K., K. Hofmockel, N. S. Baliga, S. W. Behie, H. C. Bernstein, et al. | EcoFABs: advancing microbiome science through standardized fabricated ecosystems | Nature Methods | 16(7) 567–71 |
| 2019 | 10.1186/s12864-019-6287-8 | Zeng, S., Z. Lyu, S. R. K. Narisetti, D. Xu and T. Joshi | Knowledge Base Commons (KBCommons) v1.1: a universal framework for multi-omics data integration and biological discoveries | BMC Genomics | 20(11) 947 |
| 2019 | 10.1016/j.watres.2019.114917 | Zelaya, A. J., A. E. Parker, K. L. Bailey, P. Zhang, J. Van Nostrand, D. Ning, D. A. Elias, J. Zhou, T. C. Hazen, A. P. Arkin and M. W. Fields | High spatiotemporal variability of bacterial diversity over short time scales with unique hydrochemical associations within a shallow aquifer | Water Research | 164 114917 |
| 2019 | 10.1128/msystems.00055-19 | Zegeye, E. K., C. J. Brislawn, Y. Farris, S. J. Fansler, K. S. Hofmockel, J. K. Jansson, A. T. Wright, E. B. Graham, D. Naylor, R. S. McClure and H. C. Bernstein | Selection, Succession, and Stabilization of Soil Microbial Consortia | mSystems | 4(4) |
| 2019 | 10.1107/S2052252518017621 | Zee, C. T., C. Glynn, M. Gallagher-Jones, J. Miao, C. G. Santiago, D. Cascio, T. Gonen, M. R. Sawaya and J. A. Rodriguez | Homochiral and racemic MicroED structures of a peptide repeat from the ice-nucleation protein InaZ | IUCrJ | 6(Part 2) 197–205 |
| 2019 | 10.1104/pp.19.00396 | Yu, X. H., Y. Cai, J. Chai, J. Schwender and J. Shanklin | Expression of a Lychee Phosphatidylcholine:Diacylglycerol Cholinephosphotransferase with an Escherichia coli Cyclopropane Synthase Enhances Cyclopropane Fatty Acid Accumulation in Camelina Seeds | Plant Physiology | 180(3) 1351–61 |
| 2019 | 10.1038/s41396-019-0356-5 | Yu, X., M. F. Polz and E. J. Alm | Interactions in self-assembled microbial communities saturate with diversity | The ISME Journal | 13(6) 1602–17 |
| 2019 | 10.1080/15592324.2018.1561121 | Yu, L., J. Fan and C. Xu | Peroxisomal fatty acid β-oxidation negatively impacts plant survival under salt stress | Plant Signaling & Behavior | 14(2) 1561121 |
| 2019 | 10.1016/j.ymben.2019.08.014 | Yu King Hing, N., F. Liang, P. Lindblad and J. A. Morgan | Combining isotopically non-stationary metabolic flux analysis with proteomics to unravel the regulation of the Calvin-Benson-Bassham cycle in Synechocystis sp. PCC 6803 | Metabolic Engineering | 56 77–84 |
| 2019 | 10.1128/AEM.00110-19 | Youssef, N. H., I. F. Farag, C. R. Hahn, J. Jarett, E. Becraft, et al. | Genomic Characterization of Candidate Division LCP-89 Reveals an Atypical Cell Wall Structure, Microcompartment Production, and Dual Respiratory and Fermentative Capacities | Applied and Environmental Microbiology | 85(10) e00110-19 |
| 2019 | 10.1016/j.cub.2019.07.086 | Yoshida, S., S. Kim, E. K. Wafula, J. Tanskanen, Y. M. Kim, et al. | Genome Sequence of Striga asiatica Provides Insight into the Evolution of Plant Parasitism | Current Biology | 29(18) 3041–52.e4 |
| 2019 | 10.1038/s41598-019-47529-2 | Yoo, C. Y., N. Mano, A. Finkler, H. Weng, I. S. Day, A. S. N. Reddy, B. W. Poovaiah, H. Fromm, P. M. Hasegawa and M. V. Mickelbart | A Ca2+/CaM-regulated transcriptional switch modulates stomatal development in response to water deficit | Scientific Reports | 9(1) 12282 |
| 2019 | 10.1021/bk-2019-1338.ch003 | Yoo, C. G., A. J. Ragauskas and Y. Pu | Measurement of Physicochemical Properties of Lignin | Understanding Lignocellulose: Synergistic Computational and Analytic Methods | 1338 33–47 |
| 2019 | 10.1111/nph.15346 | Yip, D. Z., A. M. Veach, Z. K. Yang, M. A. Cregger and C. W. Schadt | Methanogenic Archaea dominate mature heartwood habitats of Eastern Cottonwood (Populus deltoides) | New Phytologist | 222(1) 115–21 |
| 2019 | 10.1021/acs.est.9b00812 | Yeung, L. Y., J. A. Haslun, N. E. Ostrom, T. Sun, E. D. Young, M. van Kessel, S. Lucker and M. S. M. Jetten | In Situ Quantification of Biological N2 Production Using Naturally Occurring 15N15N | Environmental Science & Technology | 53(9) 5168–75 |
| 2019 | 10.15376/biores.14.4.9658-9676 | Yao, L., C. G. Yoo, Y. Q. Pu, X. Z. Meng, W. Muchero, G. A. Tuskan, T. J. Tschaplinski, A. J. Ragauskas and H. T. Yang | Physicochemical Changes of Cellulose and Their Influences on Populus trichocarpa Digestibility after Different Pretreatments | BioResources | 14(4) 9658–76 |
| 2019 | 10.1186/s12870-019-2111-5 | Yang, Y., C. G. Yoo, W. Rottmann, K. A. Winkeler, C. M. Collins, L. E. Gunter, S. S. Jawdy, X. Yang, Y. Pu, A. J. Ragauskas, G. A. Tuskan and J. G. Chen | PdWND3A, a wood-associated NAC domain-containing protein, affects lignin biosynthesis and composition in Populus | BMC Plant Biology | 19(1) 486 |
| 2019 | 10.1016/j.indcrop.2019.01.023 | Yang, X. P., J. Todd, R. Arundale, J. B. Binder, Z. L. Luo, M. S. Islam, S. Sood and J. P. Wang | Identifying loci controlling fiber composition in polyploid sugarcane (Saccharum spp.) through genome-wide association study | Industrial Crops and Products | 130 598–605 |
| 2019 | 10.1094/PHYTO-08-18-0282-R | Yang, X., S. Sood, Z. Luo, J. Todd and J. Wang | Genome-Wide Association Studies Identified Resistance Loci to Orange Rust and Yellow Leaf Virus Diseases in Sugarcane (Saccharum spp.) | Phytopathology | 109(4) 623–31 |
| 2019 | 10.1111/pbi.12992 | Yang, X., J. Song, J. Todd, Z. Peng, D. Paudel, Z. Luo, X. Ma, Q. You, E. Hanson, Z. Zhao, Y. Zhao, J. Zhang, R. Ming and J. Wang | Target enrichment sequencing of 307 germplasm accessions identified ancestry of ancient and modern hybrids and signatures of adaptation and selection in sugarcane (Saccharum spp.), a 'sweet' crop with 'bitter' genomes | Plant Biotechnology Journal | 17(2) 488–98 |
| 2019 | 10.34133/2019/9680853 | Yang, X., L. S. Qi, A. Jaramillo and Z.-M. Cheng | Biodesign Research to Advance the Principles and Applications of Biosystems Design | BioDesign Research | 2019 |
| 2019 | 10.1093/jxb/erz408 | Yang, X., D. Liu, T. J. Tschaplinski and G. A. Tuskan | Comparative genomics can provide new insights into the evolutionary mechanisms and gene function in CAM plants | Journal of Experimental Biology | 70(22) 6539–47 |
| 2019 | 10.1002/hyp.13370 | Yang, Q. C., X. S. Zhang, J. E. Almendinger, M. Y. Huang, G. Y. Leng, Y. Y. Zhou, K. G. Zhao, G. R. Asrar, X. Li and J. L. Qiu | Improving the SWAT forest module for enhancing water resource projections: A case study in the St. Croix River basin | Hydrological Processes | 33(5) 864–75 |
| 2019 | 10.1016/j.envpol.2019.04.129 | Yang, Q., X. Zhang, J. E. Almendinger, M. Huang, X. Chen, G. Leng, Y. Zhou, K. Zhao, G. R. Asrar and X. Li | Climate change will pose challenges to water quality management in the St. Croix River basin | Environmental Pollution | 251 302–11 |
| 2019 | 10.1029/2018wr024447 | Yang, P., T. L. Ng and X. M. Cai | Reward-Based Participant Management for Crowdsourcing Rainfall Monitoring: An Agent-Based Model Simulation | Water Resources Research | 55(10) 8122–41 |
| 2019 | 10.1007/s12539-018-0293-4 | Yang, H., H. D. Watts, V. Gibilterra, T. B. Weiss, L. Petridis, D. J. Cosgrove and J. D. Kubicki | Quantum Calculations on Plant Cell Wall Component Interactions | Interdisciplinary Sciences: Computational Life Sciences | 11(3) 485–95 |
| 2019 | 10.1063/1.5126500 | Yang, H., H. Li and T. Liu | Photobleaching statistics in single-molecule on-/off-time distributions | J Chem Phys | 151(17) 174101 |
| 2019 | 10.1111/nph.15505 | Yan, X., J. Liu, H. Kim, B. Liu, X. Huang, et al. | CAD1 and CCR2 protein complex formation in monolignol biosynthesis in Populus trichocarpa | New Phytologist | 222(1) 244–60 |
| 2019 | 10.1002/cssc.201901084 | Yan, J., L. Liang, Q. He, C. Li, F. Xu, J. Sun, E.-B. Goh, N. V. S. N. M. Konda, H. R. Beller, B. A. Simmons, T. R. Pray, V. S. Thompson, S. Singh and N. Sun | Methyl Ketones from Municipal Solid Waste Blends by One-Pot Ionic-Liquid Pretreatment, Saccharification, and Fermentation | ChemSusChem | 12(18) 4313–22 |
| 2019 | 10.1093/jxb/erz311 | Yan, J., Y. Huang, H. He, T. Han, P. Di, J. Sechet, L. Fang, Y. Liang, H. V. Scheller, J. C. Mortimer, L. Ni, M. Jiang, X. Hou and A. Zhang | Xyloglucan endotransglucosylase-hydrolase30 negatively affects salt tolerance in Arabidopsis | Journal of Experimental Botany | 70(19) 5495–506 |
| 2019 | 10.1038/s41477-019-0429-5 | Yan, D., S. R. Yadav, A. Paterlini, W. J. Nicolas, J. D. Petit, et al. | Sphingolipid biosynthesis modulates plasmodesmal ultrastructure and phloem unloading | Nature Plants | 5(6) 604–15 |
| 2019 | 10.1128/MRA.00516-19 | Xue, Y., I. Jonassen, L. Ovreas and N. Tas | Bacterial and Archaeal Metagenome-Assembled Genome Sequences from Svalbard Permafrost | Microbiology Resource Announcements | 8(27) |
| 2019 | 10.1007/s00374-018-1331-4 | Xue, C., Y. W. Hao, X. W. Pu, C. R. Penton, Q. Wang, M. X. Zhao, B. Z. Zhang, W. Ran, Q. W. Huang, Q. R. Shen and J. M. Tiedje | Effect of LSU and ITS genetic markers and reference databases on analyses of fungal communities | Biology and Fertility of Soils | 55(1) 79–88 |
| 2019 | 10.1002/asjc.1782 | Xu, Y., G. Zhang, N. Li, J. Zhang, S. Li and L. Wang | Data-Driven Performance Monitoring for Model Predictive Control Using a mahalanobis distance based overall index | Asian Journal of Control | 21(2) 891-907 |
| 2019 | 10.1038/s41396-018-0288-5 | Xu, X., R. Zarecki, S. Medina, S. Ofaim, X. Liu, C. Chen, S. Hu, D. Brom, D. Gat, S. Porob, H. Eizenberg, Z. Ronen, J. Jiang and S. Freilich | Modeling microbial communities from atrazine contaminated soils promotes the development of biostimulation solutions | The ISME Journal | 13(2) 494–508 |
| 2019 | 10.7717/peerj.7887 | Xu, S., S. L. Ottinger, S. M. Schaeffer, J. M. DeBruyn, C. N. Stewart, Jr., M. Mazarei and S. Jagadamma | Effects of field-grown transgenic switchgrass carbon inputs on soil organic carbon cycling | PeerJ | 7 e7887 |
| 2019 | 10.1186/s13068-019-1446-3 | Xie, H., N. L. Engle, S. Venketachalam, C. G. Yoo, J. Barros, et al. | Combining loss of function of olylpolyglutamate synthetase1 and caffeoyl-coa 3-o-methyltransferase1 for lignin reduction and improved saccharification efficiency in Arabidopsis thaliana | Biotechnology for Biofuels | 12 108 |
| 2019 | 10.1128/mra.00275-19 | Xia, Y., S. DeBolt, Q. Ma, A. McDermaid, C. Wang, N. Shapiro, T. Woyke and N. C. Kyrpides | Improved Draft Genome Sequence of Pseudomonas poae A2-S9, a Strain with Plant Growth-Promoting Activity | Microbiology Resource Announcements | 8(15) |
| 2019 | 10.1016/j.jare.2019.01.011 | Wu, Z.-Y., Y.-T. Huang, W.-C. Chao, S.-P. Ho, J.-F. Cheng and P.-Y. Liu | Reversal of carbapenem-resistance in Shewanella algae by CRISPR/Cas9 genome editing | Journal of Advanced Research | 18 61-69 |
| 2019 | 10.1186/s42480-019-0022-8 | Wu, W., K. M. Yenkie and C. T. Maravelias | Synthesis and analysis of separation processes for extracellular chemicals generated from microbial conversions | BMC Chemical Engineering | 1(1) |
| 2019 | 10.1016/j.isci.2019.04.012 | Wu, W. and C. T. Maravelias | Identifying the Characteristics of Promising Renewable Replacement Chemicals | iScience | 15 136–46 |
| 2019 | 10.1093/pcp/pcy207 | Wu, P., M. Peng, Z. Li, N. Yuan, Q. Hu, C. E. Foster, C. Saski, G. Wu, D. Sun and H. Luo | DRMY1, a Myb-Like Protein, Regulates Cell Expansion and Seed Production in Arabidopsis thaliana | Plant and Cell Physiology | 60(2) 285–302 |
| 2019 | 10.1038/s41438-019-0143-5 | Wu, G. A. and F. G. Gmitter | Novel assembly strategy cracks open the mysteries of walnut genome evolution | Horticulture Research | 6 |
| 2019 | 10.1016/j.molcel.2018.12.015 | Wright, A. V., J. Y. Wang, D. Burstein, L. B. Harrington, D. Paez-Espino, N. C. Kyrpides, A. T. Iavarone, J. F. Banfield and J. A. Doudna | A Functional Mini-Integrase in a Two-Protein Type V-C CRISPR System | Molecular Cell | 73(4) 727-737.e3 |
| 2019 | 10.1111/1758-2229.12716 | Woyke, T. and F. Schulz | Entities inside one another - a matryoshka doll in biology? | Environmental Microbiology Reports | 11(1) 26-28 |
| 2019 | 10.1038/s41579-019-0220-7 | Woyke, T. | Beyond the census of human gut dwellers | Nature Reviews Microbiology | 17(7) 401 |
| 2019 | 10.1038/s41598-019-43026-8 | Woolf, D. and J. Lehmann | Microbial models with minimal mineral protection can explain long-term soil organic carbon persistence | Scientific Reports | 9(1) 6522 |
| 2019 | 10.7554/ELIFE.42153 | Woods, D., Y. Dong, F. Bouche, R. Bednarek, M. Rowe, T. Ream and R. Amasino | A florigen paralog is required for short-day vernalization in a pooid grass | eLife | 8 |
| 2019 | 10.3389/feart.2019.00059 | Wilson, R. M., R. B. Neumann, K. B. Crossen, N. M. Raab, S. B. Hodgkins, S. R. Saleska, B. Bolduc, B. Woodcroft, G. W. Tyson, J. P. Chanton and V. I. Rich | Microbial Community Analyses Inform Geochemical Reaction Network Models for Predicting Pathways of Greenhouse Gas Production | Frontiers in Earth Science | 7 |
| 2019 | 10.1093/ee/nvz127 | Wills, B., T. Kim, A. Fox, C. Gratton and D. Landis | Reducing Native Ant Abundance Decreases Predation Rates in Midwestern Grasslands | Environmental Entomology | 48(6) 1360–8 |
| 2019 | 10.3389/fenrg.2018.00133 | Williams, D. L., R. G. Ong, J. E. Mullet and D. B. Hodge | Integration of Pretreatment With Simultaneous Counter-Current Extraction of Energy Sorghum for High-Titer Mixed Sugar Production | Frontiers in Energy Research | 6 |
| 2019 | 10.1016/j.coisb.2019.02.001 | Wilken, S. E., C. L. Swift, I. A. Podolsky, T. S. Lankiewicz, S. Seppälä and M. A. O'Malley | Linking ‘omics’ to function unlocks the biotech potential of non-model fungi | Current Opinion in Systems Biology | 14 9–17 |
| 2019 | 10.3791/59495 | Wiegand, D. J., H. H. Lee, N. Ostrov and G. M. Church | Cell-free Protein Expression Using the Rapidly Growing Bacterium Vibrio natriegens | Journal of Visualized Experiments | (145) |
| 2019 | 10.1029/2019gl085543 | Wieder, W. R., B. N. Sulman, M. D. Hartman, C. D. Koven and M. A. Bradford | Arctic Soil Governs Whether Climate Change Drives Global Losses or Gains in Soil Carbon | Geophysical Research Letters | 46(24) 14486–95 |
| 2019 | 10.1016/j.soilbio.2019.107571 | Whitman, T., E. Whitman, J. Woolet, M. D. Flannigan, D. K. Thompson and M. A. Parisien | Soil bacterial and fungal response to wildfires in the Canadian boreal forest across a burn severity gradient | Soil Biology and Biochemistry | 138 |
| 2019 | 10.1111/pce.13546 | Weng, X., J. T. Lovell, S. L. Schwartz, C. Cheng, T. Haque, L. Zhang, S. Razzaque and T. E. Juenger | Complex interactions between day length and diurnal patterns of gene expression drive photoperiodic responses in a perennial C4 grass | Plant Cell & Environment | 42(7) 2165–82 |
| 2019 | 10.3389/fgene.2019.00874 | Weighill, D., T. J. Tschaplinski, G. A. Tuskan and D. Jacobson | Data Integration in Poplar: 'Omics Layers and Integration Strategies | Frontiers in Genetics | 10 874 |
| 2019 | 10.3389/fgene.2019.00487 | Weighill, D., D. Macaya-Sanz, S. P. DiFazio, W. Joubert, M. Shah, J. Schmutz, A. Sreedasyam, G. Tuskan and D. Jacobson | Wavelet-Based Genomic Signal Processing for Centromere Identification and Hypothesis Generation | Frontiers in Genetics | 10 |
| 2019 | 10.3389/fgene.2019.00487 | Weighill, D., D. Macaya-Sanz, S. P. DiFazio, W. Joubert, M. Shah, J. Schmutz, A. Sreedasyam, G. Tuskan and D. Jacobson | Wavelet-Based Genomic Signal Processing for Centromere Identification and Hypothesis Generation | Frontiers in Genetics | 10 487 |
| 2019 | 10.3389/fgene.2019.00417 | Weighill, D., P. Jones, C. Bleker, P. Ranjan, M. Shah, N. Zhao, M. Martin, S. DiFazio, D. Macaya-Sanz, J. Schmutz, A. Sreedasyam, T. Tschaplinski, G. Tuskan and D. Jacobson | Multi-Phenotype Association Decomposition: Unraveling Complex Gene-Phenotype Relationships | Frontiers in Genetics | 10 417 |
| 2019 | 10.3389/fbioe.2019.00030 | Wei, H., Y. Yang, M. E. Himmel, M. P. Tucker, S. Y. Ding, S. Yang and R. Arora | Identification and Characterization of Five Cold Stress-Related Rhododendron Dehydrin Genes: Spotlight on a FSK-Type Dehydrin With Multiple F-Segments | Frontiers in Bioengineering and Biotechnology | 7 30 |
| 2019 | 10.1016/j.tim.2019.01.006 | Wehrs, M., D. Tanjore, T. Eng, J. Lievense, T. R. Pray and A. Mukhopadhyay | Engineering Robust Production Microbes for Large-Scale Cultivation | Trends in Microbiology | 27(6) 524–37 |
| 2019 | 10.1039/C9GC00920E | Wehrs, M., J. M. Gladden, Y. Liu, L. Platz, J.-P. Prahl, J. Moon, G. Papa, E. Sundstrom, G. M. Geiselman, D. Tanjore, J. D. Keasling, T. R. Pray, B. A. Simmons and A. Mukhopadhyay | Sustainable bioproduction of the blue pigment indigoidine: Expanding the range of heterologous products in R. toruloides to include non-ribosomal peptides | Green Chemistry | 21(12) 3394–406 |
| 2019 | 10.1111/pce.13509 | Watts-Williams, S. J., B. D. Emmett, V. Levesque-Tremblay, A. M. MacLean, X. Sun, J. W. Satterlee, Z. Fei and M. J. Harrison | Diverse Sorghum bicolor accessions show marked variation in growth and transcriptional responses to arbuscular mycorrhizal fungi | Plant Cell & Environment | 42(5) 1758–74 |
| 2019 | 10.1111/gcb.14553 | Ware, I. M., M. E. Van Nuland, J. A. Schweitzer, Z. Yang, C. W. Schadt, L. C. Sidak-Loftis, N. E. Stone, J. D. Busch, D. M. Wagner and J. K. Bailey | Climate-driven reduction of genetic variation in plant phenology alters soil communities and nutrient pools | Global Change Biology | 25(4) 1514–28 |
| 2019 | 10.1016/j.biortech.2019.02.123 | Wang, Z., B. S. Dien, K. D. Rausch, M. E. Tumbleson and V. Singh | Improving ethanol yields with deacetylated and two-stage pretreated corn stover and sugarcane bagasse by blending commercial xylose-fermenting and wild type Saccharomyces yeast | Bioresource Technology | 282 103–9 |
| 2019 | 10.1002/aic.16716 | Wang, Y., X. Yu and H. Zhao | Biosystems design by directed evolution | AIChE Journal | 66(3) |
| 2019 | 10.1021/acs.nanolett.9b01734 | Wang, X., H. Yi, I. Gdor, M. Hereld and N. F. Scherer | Nanoscale Resolution 3D Snapshot Particle Tracking by Multifocal Microscopy | Nano Letters | 19(10) 6781-6787 |
| 2019 | 10.1021/jacs.8b12967 | Wang, X., C. Wang, L. Duan, L. Zhang, H. Liu, Y.-m. Xu, Q. Liu, T. Mao, W. Zhang, M. Chen, M. Lin, A. A. L. Gunatilaka, Y. Xu and I. Molnár | Rational Reprogramming of O-Methylation Regioselectivity for Combinatorial Biosynthetic Tailoring of Benzenediol Lactone Scaffolds | Journal of the American Chemical Society | 141(10) 4355-4364 |
| 2019 | 10.1021/acssuschemeng.8b05144 | Wang, S. Z., G. Cheng, J. Dong, T. Tian, T. S. Lee, A. Multhopadhyay, B. A. Simmons, Q. P. Yuan and S. W. Singer | Tolerance Characterization and Isoprenol Production of Adapted Escherichia coli in the Presence of Ionic Liquids | ACS Sustainable Chemistry & Engineering | 7(1) 1457–63 |
| 2019 | 10.1007/s12155-019-10072-z | Wang, S., G. R. Sanford, G. P. Robertson, R. D. Jackson and K. D. Thelen | Perennial Bioenergy Crop Yield and Quality Response to Nitrogen Fertilization | BioEnergy Research | 13(1) 157–66 |
| 2019 | 10.1016/j.biteb.2019.01.021 | Wang, S., G. Cheng, J. Dong, T. Tian, T. S. Lee, A. Mukhopadhyay, B. A. Simmons, Q. Yuan and S. W. Singer | NaCl enhances Escherichia coli growth and isoprenol production in the presence of imidazolium-based ionic liquids | Bioresource Technology Reports | 6 1–5 |
| 2019 | 10.1364/BOE.10.005497 | Wang, S., J. V. Chacko, A. K. Sagar, K. W. Eliceiri and M. Yuan | Nonparametric empirical Bayesian framework for fluorescence-lifetime imaging microscopy | Biomed Opt Express | 10(11) 5497-5517 |
| 2019 | 10.1021/acs.analchem.8b03132 | Wang, L., X. Xing, L. Chen, L. Yang, X. Su, H. Rabitz, W. Lu and J. D. Rabinowitz | Peak Annotation and Verification Engine for Untargeted LC-MS Metabolomics | Analytical Chemistry | 91(3) 1838–46 |
| 2019 | 10.1007/s12042-019-09220-8 | Wang, J., Y. X. Li, F. Zhu, R. Ming and L. Q. Chen | Genome-Wide Analysis of Nitrate Transporter (NRT/NPF) Family in Sugarcane Saccharum spontaneum L. | Tropical Plant Biology | 12(3) 133–49 |
| 2019 | 10.1002/pld3.167 | Wang, J., M. S. Hossain, Z. Lyu, J. Schmutz, G. Stacey, D. Xu and T. Joshi | SoyCSN: Soybean context-specific network analysis and prediction based on tissue-specific transcriptome data | Plant Direct | 3(9) e00167 |
| 2019 | 10.1016/j.biortech.2018.09.072 | Wang, H., Y. Pu, A. Ragauskas and B. Yang | From lignin to valuable products-strategies, challenges, and prospects | Bioresource Technology | 271 449–61 |
| 2019 | 10.1038/s41564-019-0573-8 | Wang, G., Z. Zhao, J. Ke, Y. Engel, Y.-M. Shi, et al. | CRAGE enables rapid activation of biosynthetic gene clusters in undomesticated bacteria | Nature Microbiology | 4(12) 2498-2510 |
| 2019 | 10.13335/j.1000-3673.pst.2018.2221 | Wang, C., J. Zhu, Y. Xia, Y. Guo, X. Mo and T. Luo | A real-time decentralized robust dispatch approach of multi-area power system | Dianwang Jishu/Power System Technology | 43(12) 4478-4485 |
| 2019 | 10.1038/s41396-019-0493-x | Wang, B., W. Qin, Y. Ren, X. Zhou, M. Y. Jung, et al. | Expansion of Thaumarchaeota habitat range is correlated with horizontal transfer of ATPase operons | The ISME Journal | 13(12) 3067–79 |
| 2019 | 10.1038/s41396-019-0493-x | Wang, B., W. Qin, Y. Ren, X. Zhou, M.-Y. Jung, et al. | Expansion of Thaumarchaeota habitat range is correlated with horizontal transfer of ATPase operons | The ISME Journal | 13(12) 3067-3079 |
| 2019 | 10.1186/s13059-019-1729-9 | Wang, B., J. P. Mojica, N. Perera, C.-R. Lee, J. T. Lovell, A. Sharma, C. Adam, A. Lipzen, K. Barry, D. S. Rokhsar, J. Schmutz and T. Mitchell-Olds | Ancient polymorphisms contribute to genome-wide variation by long-term balancing selection and divergent sorting in Boechera stricta | Genome Biology | 20(1) 126 |
| 2019 | 10.1016/j.soilbio.2019.107522 | Wang, B. and S. D. Allison | Emergent properties of organic matter decomposition by soil enzymes | Soil Biology and Biochemistry | 136 |
| 2019 | 10.1016/j.jcat.2018.11.028 | Walker, T. W., A. H. Motagamwala, J. A. Dumesic and G. W. Huber | Fundamental catalytic challenges to design improved biomass conversion technologies | Journal of Catalysis | 369 518–25 |
| 2019 | 10.1016/j.ymben.2019.03.003 | Walker, C., S. Ryu and C. T. Trinh | Exceptional solvent tolerance in Yarrowia lipolytica is enhanced by sterols | Metabolic Engineering | 54 83–95 |
| 2019 | 10.1371/journal.pone.0212389 | Wagner, E. R., K. S. Myers, N. M. Riley, J. J. Coon and A. P. Gasch | PKA and HOG signaling contribute separable roles to anaerobic xylose fermentation in yeast engineered for biofuel production | PLoS One | 14(5) e0212389 |
| 2019 | 10.1021/bk-2019-1338.ch004 | Vural, D. | Dynamics of Lignin: Molecular Dynamics and Neutron Scattering | Understanding Lignocellulose: Synergistic Computational and Analytic Methods | 1338 49–67 |
| 2019 | 10.3389/fmicb.2019.00003 | Vuono, D. C., R. W. Read, J. Hemp, B. W. Sullivan, J. A. Arnone, 3rd, I. Neveux, R. R. Blank, E. Loney, D. Miceli, M. H. Winkler, R. Chakraborty, D. A. Stahl and J. J. Grzymski | Resource Concentration Modulates the Fate of Dissimilated Nitrogen in a Dual-Pathway Actinobacterium | Frontiers in Microbiology | 10 3 |
| 2019 | 10.1093/gbe/evz136 | Vuong, H. Q. and Q. S. McFrederick | Comparative Genomics of Wild Bee and Flower Isolated Lactobacillus Reveals Potential Adaptation to the Bee Host | Genome Biology and Evolution | 11(8) 2151–61 |
| 2019 | 10.1016/j.agrformet.2019.107731 | von Haden, A. C., E. Marín-Spiotta, R. D. Jackson and C. J. Kucharik | Soil microclimates influence annual carbon loss via heterotrophic soil respiration in maize and switchgrass bioenergy cropping systems | Agricultural and Forest Meteorology | 279 |
| 2019 | 10.1007/s10533-019-00564-7 | von Haden, A. C., C. J. Kucharik, R. D. Jackson and E. Marín-Spiotta | Litter quantity, litter chemistry, and soil texture control changes in soil organic carbon fractions under bioenergy cropping systems of the North Central U.S | Biogeochemistry | 143(3) 313-326 |
| 2019 | 10.1021/acs.analchem.9b00819 | Villalobos Solis, M. I., R. J. Giannone, R. L. Hettich and P. E. Abraham | Exploiting the Dynamic Relationship between Peptide Separation Quality and Peptide Coisolation in a Multiple-Peptide Matches-per-Spectrum Approach Offers a Strategy To Optimize Bottom-Up Proteomics Throughput and Depth | Analytical Chemistry | 91(11) 7273–9 |
| 2019 | 10.1128/msystems.00091-18 | Vigneron, A., E. B. Alsop, P. Cruaud, G. Philibert, B. King, L. Baksmaty, D. Lavallee, B. P. Lomans, E. Eloe-Fadrosh, N. C. Kyrpides, I. M. Head and N. Tsesmetzis | Contrasting Pathways for Anaerobic Methane Oxidation in Gulf of Mexico Cold Seep Sediments | mSystems | 4(1) |
| 2019 | 10.1039/c8gc03209b | Vermaas, J. V., L. Petridis, J. Ralph, M. F. Crowley and G. T. Beckham | Systematic parameterization of lignin for the CHARMM force field | Green Chemistry | 21(1) 109–22 |
| 2019 | 10.1073/pnas.1904643116 | Vermaas, J. V., R. A. Dixon, F. Chen, S. D. Mansfield, W. Boerjan, J. Ralph, M. F. Crowley and G. T. Beckham | Passive membrane transport of lignin-related compounds | Proceedings of the National Academy of Sciences of the United States of America | 116(46) 23117–23 |
| 2019 | 10.1021/acssuschemeng.8b05665 | Vermaas, J. V., L. D. Dellon, L. J. Broadbelt, G. T. Beckham and M. F. Crowley | Automated Transformation of Lignin Topologies into Atomic Structures with LigninBuilder | ACS Sustainable Chemistry & Engineering | 7(3) 3443–53 |
| 2019 | 10.1073/pnas.1818259116 | Venetz, J. E., L. Del Medico, A. Wölfle, P. Schächle, Y. Bucher, D. Appert, F. Tschan, C. E. Flores-Tinoco, M. van Kooten, R. Guennoun, S. Deutsch, M. Christen and B. Christen | Chemical synthesis rewriting of a bacterial genome to achieve design flexibility and biological functionality | Proceedings of the National Academy of Sciences | 116(16) 8070-8079 |
| 2019 | 10.3389/fevo.2019.00300 | Veen, G. F., E. R. Jasper Wubs, R. D. Bardgett, E. Barrios, M. A. Bradford, et al. | Applying the aboveground-belowground interaction concept in agriculture: Spatio-temporal scales matter | Frontiers in Ecology and Evolution | 7(AUG) |
| 2019 | 10.1186/s40168-019-0668-8 | Veach, A. M., R. Morris, D. Z. Yip, Z. K. Yang, N. L. Engle, M. A. Cregger, T. J. Tschaplinski and C. W. Schadt | Rhizosphere microbiomes diverge among Populus trichocarpa plant-host genotypes and chemotypes, but it depends on soil origin | Microbiome | 7(1) 76 |
| 2019 | 10.1038/s41467-019-08717-w | Vasdekis, A. E., H. Alanazi, A. M. Silverman, C. J. Williams, A. J. Canul, J. B. Cliff, A. C. Dohnalkova and G. Stephanopoulos | Eliciting the impacts of cellular noise on metabolic trade-offs by quantitative mass imaging | Nature Communications | 10(1) 848 |
| 2019 | 10.1117/12.2531007 | Vasdekis, A. E., H. Alanazi, A. M. Silverman, A. J. Canul, A. C. Dohnalkova, J. B. Cliff and G. Stephanopoulos | Imaging the competition between growth and production of self-assembled lipid droplets at the single-cell level | Proceedings of SPIE - The International Society for Optical Engineering | 11060 |
| 2019 | 10.1073/pnas.1907500116 | Varoquaux, N., B. Cole, C. Gao, G. Pierroz, C. R. Baker, et al. | Transcriptomic analysis of field-droughted sorghum from seedling to maturity reveals biotic and metabolic responses | Proceedings of the National Academy of Sciences of the United States of America | 116(52) 27124-27132 |
| 2019 | 10.1038/s41559-019-0834-1 | Varga, T., K. Krizsán, C. Földi, B. Dima, M. Sánchez-García, et al. | Megaphylogeny resolves global patterns of mushroom evolution | Nature Ecology & Evolution | 3(4) 668-678 |
| 2019 | 10.1146/annurev-arplant-050718-100114 | VanWallendael, A., A. Soltani, N. C. Emery, M. M. Peixoto, J. Olsen and D. B. Lowry | A Molecular View of Plant Local Adaptation: Incorporating Stress-Response Networks | Annual Review of Plant Biology | 70 559–83 |
| 2019 | 10.1038/s41477-019-0510-0 | Vanholme, R., L. Sundin, K. C. Seetso, H. Kim, X. Liu, et al. | COSY catalyses trans-cis isomerization and lactonization in the biosynthesis of coumarins | Nature Plants | 5(10) 1066–75 |
| 2019 | 10.1016/j.copbio.2019.02.018 | Vanholme, R., B. De Meester, J. Ralph and W. Boerjan | Lignin biosynthesis and its integration into metabolism | Current Opinion in Biotechnology | 56 230–9 |
| 2019 | 10.1128/mBio.02287-19 | Van Goethem, M. W., T. L. Swenson, G. Trubl, S. Roux and T. R. Northen | Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust | mBio | 10(6) |
| 2019 | 10.1111/tpj.14500 | Valliyodan, B., S. B. Cannon, P. E. Bayer, S. Shu, A. V. Brown, et al. | Construction and comparison of three reference-quality genome assemblies for soybean | The Plant Journal | 100(5) 1066-1082 |
| 2019 | 10.1038/s41467-019-08448-y | Valliere, M. A., T. P. Korman, N. B. Woodall, G. A. Khitrov, R. E. Taylor, D. Baker and J. U. Bowie | A cell-free platform for the prenylation of natural products and application to cannabinoid production | Nature Communications | 10(1) 565 |
| 2019 | 10.1104/pp.19.00653 | Uygun, S., C. B. Azodi and S. H. Shiu | Cis-Regulatory Code for Predicting Plant Cell-Type Transcriptional Response to High Salinity | Plant Physiology | 181(4) 1739–51 |
| 2019 | 10.1021/acs.biochem.7b01069 | Urtecho, G., A. D. Tripp, K. D. Insigne, H. Kim and S. Kosuri | Systematic Dissection of Sequence Elements Controlling σ70 Promoters Using a Genomically Encoded Multiplexed Reporter Assay in Escherichia coli | Biochemistry | 58(11) 1539–51 |
| 2019 | 10.1038/s41598-018-36971-3 | Ulrich, D. E. M., S. Sevanto, M. Ryan, M. B. N. Albright, R. B. Johansen and J. M. Dunbar | Plant-microbe interactions before drought influence plant physiological responses to subsequent severe drought | Scientific Reports | 9(1) 249 |
| 2019 | 10.3389/fpls.2019.01643 | Ulrich, D. E. M., S. Sevanto, S. Peterson, M. Ryan and J. Dunbar | Effects of Soil Microbes on Functional Traits of Loblolly Pine (Pinus taeda) Seedling Families From Contrasting Climates | Frontiers in Plant Science | 10 1643 |
| 2019 | 10.1111/nph.15396 | Ullah, C., C.-J. Tsai, S. B. Unsicker, L. Xue, M. Reichelt, J. Gershenzon and A. Hammerbacher | Salicylic acid activates poplar defense against the biotrophic rust fungus Melampsora larici-populina via increased biosynthesis of catechin and proanthocyanidins | New Phytologist | 221(2) 960-975 |
| 2019 | 10.1371/journal.pone.0212355 | Ul-Hasan, S., R. M. Bowers, A. Figueroa-Montiel, A. F. Licea-Navarro, J. M. Beman, T. Woyke and C. J. Nobile | Community ecology across bacteria, archaea and microbial eukaryotes in the sediment and seawater of coastal Puerto Nuevo, Baja California | PLOS ONE | 14(2) e0212355 |
| 2019 | 10.3389/fmicb.2019.02163 | Uehling, J. K., M. R. Entler, H. R. Meredith, L. J. Millet, C. M. Timm, et al. | Microfluidics and Metabolomics Reveal Symbiotic Bacterial-Fungal Interactions Between Mortierella elongata and Burkholderia Include Metabolite Exchange | Frontiers in Microbiology | 10 2163 |
| 2019 | 10.1098/rstb.2019.0082 | Tyml, T., S. V. Date and T. Woyke | A single-cell genome perspective on studying intracellular associations in unicellular eukaryotes | Philosophical Transactions of the Royal Society B: Biological Sciences | 374(1786) 20190082 |
| 2019 | 10.7554/eLife.43002 | Tye, B. W., N. Commins, L. V. Ryazanova, M. Wuhr, M. Springer, D. Pincus and L. S. Churchman | Proteotoxicity from aberrant ribosome biogenesis compromises cell fitness | eLife | 8 |
| 2019 | 10.1016/j.jmb.2018.11.003 | Tuukkanen, A. T., D. Freire, S. Chan, M. A. Arbing, R. W. Reed, et al. | Structural Variability of EspG Chaperones from Mycobacterial ESX-1, ESX-3, and ESX-5 Type VII Secretion Systems | Journal of Molecular Biology | 431(2) 289–307 |
| 2019 | 10.1016/j.copbio.2019.02.017 | Tuskan, G. A., W. Muchero, T. J. Tschaplinski and A. J. Ragauskas | Population-level approaches reveal novel aspects of lignin biosynthesis, content, composition and structure | Current Opinion in Biotechnology | 56 250–7 |
| 2019 | 10.1038/s41477-019-0360-9 | Tuskan, G. A. | The unexpected malleability of lignin | Nature Plants | 5(2) 128 |
| 2019 | 10.1016/j.celrep.2019.06.041 | Turco, G. M., J. Rodriguez-Medina, S. Siebert, D. Han, M. Á. Valderrama-Gómez, H. Vahldick, C. N. Shulse, B. J. Cole, C. E. Juliano, D. E. Dickel, M. A. Savageau and S. M. Brady | Molecular Mechanisms Driving Switch Behavior in Xylem Cell Differentiation | Cell Reports | 28(2) 342-351.e4 |
| 2019 | 10.1194/jlr.M093534 | Tsui, H. S., N. V. B. Pham, B. R. Amer, M. C. Bradley, J. E. Gosschalk, M. Gallagher-Jones, H. Ibarra, R. T. Clubb, C. E. Blaby-Haas and C. F. Clarke | Human COQ10A and COQ10B are distinct lipid-binding START domain proteins required for coenzyme Q function | Journal of Lipid Research | 60(7) 1293–310 |
| 2019 | 10.1074/jbc.RA119.009130 | Tsednee, M., M. Castruita, P. A. Salomé, A. Sharma, B. E. Lewis, et al. | Manganese co-localizes with calcium and phosphorus in Chlamydomonas acidocalcisomes and is mobilized in manganese-deficient conditions | Journal of Biological Chemistry | 294(46) 17626–41 |
| 2019 | 10.1093/aob/mcz002 | Tschaplinski, T. J., P. E. Abraham, S. S. Jawdy, L. E. Gunter, M. Z. Martin, N. L. Engle, X. Yang and G. A. Tuskan | The nature of the progression of drought stress drives differential metabolomic responses in Populus deltoides | Annals of Botany | 124(4) 617–26 |
| 2019 | 10.1021/acs.analchem.9b02979 | Trujillo, E. A., A. S. Hebert, D. R. Brademan and J. J. Coon | Maximizing Tandem Mass Spectrometry Acquisition Rates for Shotgun Proteomics | Analytical Chemistry | 91(20) 12625–9 |
| 2019 | 10.7717/peerj.7265 | Trubl, G., S. Roux, N. Solonenko, Y. F. Li, B. Bolduc, J. Rodriguez-Ramos, E. A. Eloe-Fadrosh, V. I. Rich and M. B. Sullivan | Towards optimized viral metagenomes for double-stranded and single-stranded DNA viruses from challenging soils | PeerJ | 7 e7265 |
| 2019 | 10.7717/peerj.7265 | Trubl, G., S. Roux, N. Solonenko, Y.-F. Li, B. Bolduc, J. Rodríguez-Ramos, E. A. Eloe-Fadrosh, V. I. Rich and M. B. Sullivan | Towards optimized viral metagenomes for double-stranded and single-stranded DNA viruses from challenging soils | PeerJ | 7 e7265 |
| 2019 | 10.1128/mSphere.00345-19 | Tran, V. G., M. Cao, Z. Fatma, X. Song and H. Zhao | Development of a CRISPR/Cas9-Based Tool for Gene Deletion in Issatchenkia orientalis | mSphere | 4(3) |
| 2019 | 10.1038/s41598-019-42865-9 | Torres-Cortes, G., B. J. Garcia, S. Compant, S. Rezki, P. Jones, A. Preveaux, M. Briand, A. Roulet, O. Bouchez, D. Jacobson and M. Barret | Differences in resource use lead to coexistence of seed-transmitted microbial populations | Scientific Reports | 9(1) 6648 |
| 2019 | Tobimatsu, Y., T. Takano, T. Umezawa and J. Ralph | Solution-state multidimensional NMR of lignins: approaches and applications | Lignin: Biosynthesis, Functions and Economic Significance | 79–110 | |
| 2019 | 10.1021/acssynbio.8b00429 | Tian, T., J. W. Kang, A. Kang and T. S. Lee | Redirecting Metabolic Flux via Combinatorial Multiplex CRISPRi-Mediated Repression for Isopentenol Production in Escherichia coli | ACS Synthetic Biology | 8(2) 391–402 |
| 2019 | 10.1186/s13068-019-1524-6 | Tian, L., P. M. Conway, N. D. Cervenka, J. Cui, M. Maloney, D. G. Olson and L. R. Lynd | Metabolic engineering of Clostridium thermocellum for n-butanol production from cellulose | Biotechnology for Biofuels | 12(1) 186 |
| 2019 | 10.1186/s13068-019-1524-6 | Tian, L., P. M. Conway, N. D. Cervenka, J. Cui, M. Maloney, D. G. Olson and L. R. Lynd | Metabolic engineering of Clostridium thermocellum for n-butanol production from cellulose | Biotechnology for Biofuels | 12 186 |
| 2019 | 10.1038/s41598-018-37979-5 | Tian, L., N. D. Cervenka, A. M. Low, D. G. Olson and L. R. Lynd | A mutation in the AdhE alcohol dehydrogenase of Clostridium thermocellum increases tolerance to several primary alcohols, including isobutanol, n-butanol and ethanol | Scientific Reports | 9(1) 1736 |
| 2019 | 10.1038/s41598-018-37979-5 | Tian, L., N. D. Cervenka, A. M. Low, D. G. Olson and L. R. Lynd | A mutation in the AdhE alcohol dehydrogenase of Clostridium thermocellum increases tolerance to several primary alcohols, including isobutanol, n-butanol and ethanol | Scientific Reports | 9(1) 1736 |
| 2019 | 10.1021/acschembio.9b00532 | Throckmorton, K., V. Vinnik, R. Chowdhury, T. Cook, M. G. Chevrette, C. Maranas, B. Pfleger and M. G. Thomas | Directed Evolution Reveals the Functional Sequence Space of an Adenylation Domain Specificity Code | ACS Chemical Biology | 14(9) 2044–54 |
| 2019 | 10.1128/AEM.00896-19 | Thorgersen, M. P., X. Ge, F. L. Poole, 2nd, M. N. Price, A. P. Arkin and M. W. W. Adams | Nitrate-Utilizing Microorganisms Resistant to Multiple Metals from the Heavily Contaminated Oak Ridge Reservation | Applied and Environmental Microbiology | 85(17) |
| 2019 | 10.1016/j.mec.2019.e00098 | Thompson, M. G., L. E. Valencia, J. M. Blake-Hedges, P. Cruz-Morales, A. E. Velasquez, A. N. Pearson, L. N. Sermeno, W. A. Sharpless, V. T. Benites, Y. Chen, E. E. K. Baidoo, C. J. Petzold, A. M. Deutschbauer and J. D. Keasling | Omics-driven identification and elimination of valerolactam catabolism in Pseudomonas putida KT2440 for increased product titer | Metabolic Engineering Communications | 9 e00098 |
| 2019 | 10.1021/acssynbio.9b00255 | Thompson, M. G., Z. Costello, N. F. C. Hummel, P. Cruz-Morales, J. M. Blake-Hedges, R. N. Krishna, W. Skyrud, A. N. Pearson, M. R. Incha, P. M. Shih, H. Garcia-Martin and J. D. Keasling | Robust Characterization of Two Distinct Glutarate Sensing Transcription Factors of Pseudomonas putida l-Lysine Metabolism | ACS Synthetic Biology | 8(10) 2385–96 |
| 2019 | 10.1128/mbio.02577-18 | Thompson, M. G., J. M. Blake-Hedges, P. Cruz-Morales, J. F. Barajas, S. C. Curran, et al. | Massively Parallel Fitness Profiling Reveals Multiple Novel Enzymes in Pseudomonas putida Lysine Metabolism | mBio | 10(3) |
| 2019 | 10.1371/journal.pone.0215502 | Thompson, J., R. Johansen, J. Dunbar and B. Munsky | Machine learning to predict microbial community functions: An analysis of dissolved organic carbon from litter decomposition | PLoS One | 14(7) e0215502 |
| 2019 | 10.1128/mSystems.00263-18 | Thommes, M., T. Wang, Q. Zhao, I. C. Paschalidis and D. Segre | Designing Metabolic Division of Labor in Microbial Communities | mSystems | 4(2) |
| 2019 | 10.3389/fmicb.2019.01427 | Thomas, S. C., K. O. Tamadonfar, C. O. Seymour, D. Lai, J. A. Dodsworth, S. K. Murugapiran, E. A. Eloe-Fadrosh, P. Dijkstra and B. P. Hedlund | Position-Specific Metabolic Probing and Metagenomics of Microbial Communities Reveal Conserved Central Carbon Metabolic Network Activities at High Temperatures | Frontiers in Microbiology | 10 |
| 2019 | 10.3791/59035 | Tfaily, M. M., R. M. Wilson, H. M. Brewer, R. K. Chu, H. M. Heyman, D. W. Hoyt, J. E. Kyle and S. O. Purvine | Single-throughput Complementary High-resolution Analytical Techniques for Characterizing Complex Natural Organic Matter Mixtures | Journal of Visualized Experiments | (143) |
| 2019 | 10.1007/s12155-019-09985-6 | Tejera, M., N. Boersma, A. Vanloocke, S. Archontoulis, P. Dixon, F. Miguez and E. Heaton | Multi-year and Multi-site Establishment of the Perennial Biomass Crop Miscanthus x giganteus Using a Staggered Start Design to Elucidate N Response | BioEnergy Research | 12(3) 471–83 |
| 2019 | 10.1016/bs.abr.2018.11.006 | Teixeira, R. T., X. Sheng and A. M. Brunner | Activity of the shoot apical and cambial meristems: Coordination and responses to environmental signals | Advances in Botanical Research | 89 185-199 |
| 2019 | 10.1016/j.mib.2019.08.003 | Teixeira, P. J. P., N. R. Colaianni, C. R. Fitzpatrick and J. L. Dangl | Beyond pathogens: microbiota interactions with the plant immune system | Current Opinion in Microbiology | 49 7–17 |
| 2019 | 10.1007/s12155-019-09978-5 | Taylor, M., C.-E. Tornqvist, X. Zhao, R. W. Doerge, M. D. Casler and Y. Jiang | Identification of Quantitative Trait Loci for Plant Height, Crown Diameter, and Plant Biomass in a Pseudo-F2 Population of Switchgrass | BioEnergy Research | 12(2) 267–74 |
| 2019 | 10.3389/fmicb.2019.01986 | Tatli, M., A. S. Hebert, J. J. Coon and D. Amador-Noguez | Genome Wide Phosphoproteome Analysis of Zymomonas mobilis Under Anaerobic, Aerobic, and N2-Fixing Conditions | Frontiers in Microbiology | 10 1986 |
| 2019 | 10.1029/2018jg004779 | Tang, J. Y. and W. J. Riley | A Theory of Effective Microbial Substrate Affinity Parameters in Variably Saturated Soils and an Example Application to Aerobic Soil Heterotrophic Respiration | Journal of Geophysical Research: Biogeosciences | 124(4) 918–40 |
| 2019 | 10.3389/fmicb.2019.00960 | Tan, Y. J. C., C. Zhao, M. Nasreen, L. O’Rourke, R. Dhouib, L. Roberts, Y. Wan, S. A. Beatson and U. Kappler | Control of Bacterial Sulfite Detoxification by Conserved and Species-Specific Regulatory Circuits | Frontiers in Microbiology | 10 |
| 2019 | 10.1111/1462-2920.14741 | Tan, H., A. Kohler, R. Miao, T. Liu, Q. Zhang, et al. | Multi-omic analyses of exogenous nutrient bag decomposition by the black morel Morchella importuna reveal sustained carbon acquisition and transferring | Environmental Microbiology | 21(10) 3909-3926 |
| 2019 | 10.1016/j.soilbio.2018.08.025 | Szymanski, L. M., G. R. Sanford, K. A. Heckman, R. D. Jackson and E. Marin-Spiotta | Conversion to bioenergy crops alters the amount and age of microbially-respired soil carbon | Soil Biology and Biochemistry | 128 35–44 |
| 2019 | 10.1111/nph.15472 | Sun, X., W. Chen, S. Ivanov, A. M. MacLean, H. Wight, T. Ramaraj, J. Mudge, M. J. Harrison and Z. Fei | Genome and evolution of the arbuscular mycorrhizal fungus Diversispora epigaea (formerly Glomus versiforme) and its bacterial endosymbionts | New Phytologist | 221(3) 1556–73 |
| 2019 | 10.1021/acssynbio.9b00217 | Sun, L., S. Kwak and Y. S. Jin | Vitamin A Production by Engineered Saccharomyces cerevisiae from Xylose via Two-Phase in Situ Extraction | ACS Synthetic Biology | 8(9) 2131–40 |
| 2019 | 10.1128/mSystems.00230-18 | Succurro, A., D. Segre and O. Ebenhoh | Emergent Subpopulation Behavior Uncovered with a Community Dynamic Metabolic Model of Escherichia coli Diauxic Growth | mSystems | 4(1) |
| 2019 | 10.1021/acs.analchem.8b04360 | Strobbia, P., T. Sadler, R. A. Odion and T. Vo-Dinh | SERS in Plain Sight: A Polarization Modulation Method for Signal Extraction | Anal Chem | 91(5) 3319-3326 |
| 2019 | 10.1021/acs.analchem.9b01350 | Strobbia, P., Y. Ran, B. M. Crawford, V. Cupil-Garcia, R. Zentella, H. N. Wang, T. P. Sun and T. Vo-Dinh | Inverse Molecular Sentinel-Integrated Fiberoptic Sensor for Direct and in Situ Detection of miRNA Targets | Anal Chem | 91(9) 6345-6352 |
| 2019 | 10.1117/12.2512010 | Strobbia, P., B. Crawford, H.-N. Wang, R. Zentella, M. Boyanov, Z.-M. Pei, T.-P. Sun, K. Kemner and T. Vo-Dinh | Application of plasmonic nanoprobes for SERS sensing and imaging of biotargets in plant systems | Proceedings of Plasmonics in Biology and Medicine XVII | 10894 19–24 |
| 2019 | 10.1073/pnas.1815238116 | Strenkert, D., S. Schmollinger, S. D. Gallaher, P. A. Salome, S. O. Purvine, C. D. Nicora, T. Mettler-Altmann, E. Soubeyrand, A. P. M. Weber, M. S. Lipton, G. J. Basset and S. S. Merchant | Multiomics resolution of molecular events during a day in the life of Chlamydomonas | Proceedings of the National Academy of Sciences of the United States of America | 116(6) 2374–83 |
| 2019 | 10.1128/AEM.00622-19 | Streett, H. E., K. M. Kalis and E. T. Papoutsakis | A Strongly Fluorescing Anaerobic Reporter and Protein-Tagging System for Clostridium Organisms Based on the Fluorescence-Activating and Absorption-Shifting Tag Protein (FAST) | Applied and Environmental Microbiology | 85(14) |
| 2019 | 10.1038/s41467-019-11376-6 | Straub, C. T., P. A. Khatibi, J. P. Wang, J. M. Conway, A. M. Williams-Rhaesa, I. M. Peszlen, V. L. Chiang, M. W. W. Adams and R. M. Kelly | Quantitative fermentation of unpretreated transgenic poplar by Caldicellulosiruptor bescii | Nature Communications | 10(1) 3548 |
| 2019 | 10.1002/bit.26993 | Straub, C. T., P. A. Khatibi, J. K. Otten, M. W. W. Adams and R. M. Kelly | Lignocellulose solubilization and conversion by extremely thermophilic Caldicellulosiruptor bescii improves by maintaining metabolic activity | Biotechnology and Bioengineering | 116(8) 1901–8 |
| 2019 | 10.1038/s41564-018-0307-3 | Strandwitz, P., K. H. Kim, D. Terekhova, J. K. Liu, A. Sharma, et al. | GABA-modulating bacteria of the human gut microbiota | Nature Microbiology | 4(3) 396–403 |
| 2019 | 10.1021/acs.analchem.8b05084 | Stopka, S. A., L. Z. Samarah, J. B. Shaw, A. V. Liyu, D. Veličković, B. J. Agtuca, C. Kukolj, D. W. Koppenaal, G. Stacey, L. Paša-Tolić, C. R. Anderton and A. Vertes | Ambient Metabolic Profiling and Imaging of Biological Samples with Ultrahigh Molecular Resolution Using Laser Ablation Electrospray Ionization 21 Tesla FTICR Mass Spectrometry | Analytical Chemistry | 91(8) 5028-5035 |
| 2019 | 10.1186/s12870-019-1669-2 | Stonebloom, S. H. and H. V. Scheller | Transcriptome analysis of rubber biosynthesis in guayule (Parthenium argentatum gray) | BMC Plant Biology | 19(1) 71 |
| 2019 | 10.1038/s41598-019-42469-3 | Stone, K. A., Q. P. He and J. Wang | Two Experimental Protocols for Accurate Measurement of Gas Component Uptake and Production Rates in Bioconversion Processes | Scientific Reports | 9(1) 5899 |
| 2019 | 10.1073/pnas.1901471116 | Stoffel, G. M. M., D. A. Saez, H. DeMirci, B. Vögeli, Y. Rao, J. Zarzycki, Y. Yoshikuni, S. Wakatsuki, E. Vöhringer-Martinez and T. J. Erb | Four amino acids define the CO2 binding pocket of enoyl-CoA carboxylases/reductases | Proceedings of the National Academy of Sciences | 116(28) 13964-13969 |
| 2019 | 10.1073/pnas.1901471116 | Stoffel, G. M. M., D. A. Saez, H. DeMirci, B. Vogeli, Y. Rao, J. Zarzycki, Y. Yoshikuni, S. Wakatsuki, E. Vohringer-Martinez and T. J. Erb | Four amino acids define the CO2 binding pocket of enoyl-CoA carboxylases/reductases | Proc Natl Acad Sci U S A | 116(28) 13964-13969 |
| 2019 | 10.1016/j.agwat.2019.04.008 | Stenjem, R. S., A. M. Thompson, K. G. Karthikeyan, B. J. Lepore, A. D. Kendall and D. W. Hyndman | Quantity and quality of water percolating below the root zone of three biofuel feedstock crop systems | Agricultural Water Management | 221 109–19 |
| 2019 | 10.1371/journal.pbio.3000255 | Steenwyk, J. L., D. A. Opulente, J. Kominek, X. X. Shen, X. Zhou, et al. | Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts | PLoS Biology | 17(5) e3000255 |
| 2019 | 10.1073/pnas.1908291116 | Starr, E. P., E. E. Nuccio, J. Pett-Ridge, J. F. Banfield and M. K. Firestone | Metatranscriptomic reconstruction reveals RNA viruses with the potential to shape carbon cycling in soil | Proceedings of the National Academy of Sciences of the United States of America | 116(51) 25900–8 |
| 2019 | 10.1021/acssynbio.8b00381 | Stark, J. C., A. Huang, K. J. Hsu, R. S. Dubner, J. Forbrook, et al. | BioBits Health: Classroom Activities Exploring Engineering, Biology, and Human Health with Fluorescent Readouts | ACS Synthetic Biology | 8(5) 1001–9 |
| 2019 | 10.1111/1758-2229.12740 | St. John, E., G. E. Flores, J. Meneghin and A.-L. Reysenbach | Deep-sea hydrothermal vent metagenome-assembled genomes provide insight into the phylum Nanoarchaeota | Environmental Microbiology Reports | 11(2) 262-270 |
| 2019 | 10.3389/fmicb.2019.00862 | Spring, S., D. Y. Sorokin, S. Verbarg, M. Rohde, T. Woyke and N. C. Kyrpides | Sulfate-Reducing Bacteria That Produce Exopolymers Thrive in the Calcifying Zone of a Hypersaline Cyanobacterial Mat | Frontiers in Microbiology | 10 |
| 2019 | 10.1002/eap.1828 | Spiesman, B. J., A. Bennett, R. Isaacs and C. Gratton | Harvesting effects on wild bee communities in bioenergy grasslands depend on nesting guild | Ecological Applications | 29(2) e01828 |
| 2019 | 10.1016/j.carbpol.2019.115119 | Sowinski, E. E., S. Gilbert, E. Lam and N. C. Carpita | Linkage structure of cell-wall polysaccharides from three duckweed species | Carbohydrate Polymers | 223 115119 |
| 2019 | 10.1093/gigascience/giz129 | Souza, G. M., M.-A. Van Sluys, C. G. Lembke, H. Lee, G. R. A. Margarido, et al. | Assembly of the 373k gene space of the polyploid sugarcane genome reveals reservoirs of functional diversity in the world's leading biomass crop | GigaScience | 8(12) |
| 2019 | 10.1021/acssuschemeng.9b00606 | Sousa, L. d. C., J. Humpula, V. Balan, B. E. Dale and S. P. S. Chundawat | Impact of Ammonia Pretreatment Conditions on the Cellulose III Allomorph Ultrastructure and Its Enzymatic Digestibility | ACS Sustainable Chemistry & Engineering | 7(17) 14411–24 |
| 2019 | 10.1080/07352689.2019.1673968 | Soto, M. J., B. R. Urbanowicz and M. G. Hahn | Plant Fucosyltransferases and the Emerging Biological Importance of Fucosylated Plant Structures | Critical Reviews in Plant Sciences | 38(4) 327–38 |
| 2019 | 10.1039/c9gc01663e | Song, Y., A. H. Motagamwala, S. D. Karlen, J. A. Dumesic, J. Ralph, J. K. Mobley and M. Crocker | A comparative study of secondary depolymerization methods on oxidized lignins | Green Chemistry | 21(14) 3940–7 |
| 2019 | 10.3389/fmicb.2019.01264 | Song, H.-S., J.-Y. Lee, S. Haruta, W. C. Nelson, D.-Y. Lee, S. R. Lindemann, J. K. Fredrickson and H. C. Bernstein | Minimal Interspecies Interaction Adjustment (MIIA): Inference of Neighbor-Dependent Interactions in Microbial Communities | Frontiers in Microbiology | 10 |
| 2019 | 10.1111/nph.15585 | Sonawane, B. V. and A. B. Cousins | Uncertainties and limitations of using carbon-13 and oxygen-18 leaf isotope exchange to estimate the temperature response of mesophyll CO2 conductance in C3 plants | New Phytologist | 222(1) 122–31 |
| 2019 | 10.1038/s41467-019-12407-y | Smith, S. R., C. L. Dupont, J. K. McCarthy, J. T. Broddrick, M. Obornik, et al. | Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom | Nature Communications | 10(1) 4552 |
| 2019 | 10.3389/fmicb.2019.02475 | Smith, M. W., L. Herfort, A. R. Rivers and H. M. Simon | Genomic Signatures for Sedimentary Microbial Utilization of Phytoplankton Detritus in a Fast-Flowing Estuary | Frontiers in Microbiology | 10 |
| 2019 | 10.1038/s41396-019-0385-0 | Smith, A. R., B. Kieft, R. Mueller, M. R. Fisk, O. U. Mason, R. Popa and F. S. Colwell | Carbon fixation and energy metabolisms of a subseafloor olivine biofilm | The ISME Journal | 13(7) 1737–49 |
| 2019 | 10.1128/AEM.02103-19 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Erratum: To Fix or Not To Fix: Controls on Free-Living Nitrogen Fixation in the Rhizosphere (Applied and Environmental Microbiology (2019) 85: 6 (e02546-18) DOI: 10.1128/AEM.02546-18) | Applied and Environmental Microbiology | 85(22) |
| 2019 | 10.1128/AEM.02546-18 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | To Fix or Not To Fix: Controls on Free-Living Nitrogen Fixation in the Rhizosphere | Applied and Environmental Microbiology | 85(6) |
| 2019 | 10.1007/s11104-019-04307-3 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Optimization of the 15N2 incorporation and acetylene reduction methods for free-living nitrogen fixation | Plant and Soil | 445(1–2) 595–611 |
| 2019 | 10.1016/j.biteb.2019.100275 | Sitepu, I. R., L. L. Enriquez, V. Nguyen, C. Doyle, B. A. Simmons, S. W. Singer, R. Fry, C. W. Simmons and K. Boundy-Mills | Ethanol production in switchgrass hydrolysate by ionic liquid-tolerant yeasts | Bioresource Technology Reports | 7 |
| 2019 | 10.1111/1758-2229.12725 | Sirois, S. H. and D. H. Buckley | Factors governing extracellular DNA degradation dynamics in soil | Environmental Microbiology Reports | 11(2) 173–84 |
| 2019 | 10.1021/acs.iecr.9b01124 | Singh, S. K., A. W. Savoy, Z. Y. Yuan, H. Luo, S. S. Stahl, E. L. Hegg and D. B. Hodge | Integrated Two-Stage Alkaline-Oxidative Pretreatment of Hybrid Poplar. Part 1: Impact of Alkaline Pre-Extraction Conditions on Process Performance and Lignin Properties | Industrial & Engineering Chemistry Research | 58(35) 15989–99 |
| 2019 | 10.3389/fmicb.2019.02181 | Singer, E., J. Bonnette, T. Woyke and T. E. Juenger | Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species | Frontiers in Microbiology | 10 |
| 2019 | 10.3389/fmicb.2019.02181 | Singer, E., J. Bonnette, T. Woyke and T. E. Juenger | Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species | Frontiers in Microbiology | 10 2181 |
| 2019 | 10.1111/1758-2229.12727 | Singer, E., J. Bonnette, S. C. Kenaley, T. Woyke and T. E. Juenger | Plant compartment and genetic variation drive microbiome composition in switchgrass roots | Environmental Microbiology Reports | 11(2) 185–195 |
| 2019 | 10.1186/s12864-019-6407-5 | Silva-Pereira, T. T., C. Y. Ikuta, C. K. Zimpel, N. C. S. Camargo, A. F. de Souza Filho, J. S. Ferreira Neto, M. B. Heinemann and A. M. S. Guimarães | Genome sequencing of Mycobacterium pinnipedii strains: genetic characterization and evidence of superinfection in a South American sea lion (Otaria flavescens) | BMC Genomics | 20(1) 1030 |
| 2019 | 10.1107/S1600577519001577 | Sierra, R. G., A. Batyuk, Z. Sun, A. Aquila, M. S. Hunter, et al. | The Macromolecular Femtosecond Crystallography Instrument at the Linac Coherent Light Source | J Synchrotron Radiat | 26(Pt 2) 346-357 |
| 2019 | 10.1128/mBio.01580-18 | Siegel, S. D., B. R. Amer, C. Wu, M. R. Sawaya, J. E. Gosschalk, R. T. Clubb and H. Ton-That | Structure and Mechanism of LcpA, a Phosphotransferase That Mediates Glycosylation of a Gram-Positive Bacterial Cell Wall-Anchored Protein | mBio | 10(1) |
| 2019 | 10.1128/mbio.02128-19 | Sieber, C. M. K., B. G. Paul, C. J. Castelle, P. Hu, S. G. Tringe, D. L. Valentine, G. L. Andersen and J. F. Banfield | Unusual Metabolism and Hypervariation in the Genome of a Gracilibacterium (BD1-5) from an Oil-Degrading Community | mBio | 10(6) |
| 2019 | 10.1016/j.celrep.2019.04.054 | Shulse, C. N., B. J. Cole, D. Ciobanu, J. Lin, Y. Yoshinaga, M. Gouran, G. M. Turco, Y. Zhu, R. C. O’Malley, S. M. Brady and D. E. Dickel | High-Throughput Single-Cell Transcriptome Profiling of Plant Cell Types | Cell Reports | 27(7) 2241-2247.e4 |
| 2019 | 10.1128/AEM.01210-19 | Shulse, C. N., M. Chovatia, C. Agosto, G. Wang, M. Hamilton, S. Deutsch, Y. Yoshikuni and M. J. Blow | Engineered Root Bacteria Release Plant-Available Phosphate from Phytate | Applied and Environmental Microbiology | 85(18) e01210-19 |
| 2019 | 10.3390/s19204446 | Shuai, G., R. A. Martinez-Feria, J. Zhang, S. Li, R. Price and B. Basso | Capturing Maize Stand Heterogeneity Across Yield-Stability Zones Using Unmanned Aerial Vehicles (UAV) | Sensors | 19(20) |
| 2019 | 10.1128/mbio.01262-19 | Shih, P. M. | Early Cyanobacteria and the Innovation of Microbial Sunscreens | mBio | 10(3) |
| 2019 | 10.1128/mSystems.00296-19 | Shi, Z., H. Yin, J. D. Van Nostrand, J. W. Voordeckers, Q. Tu, Y. Deng, M. Yuan, A. Zhou, P. Zhang, N. Xiao, D. Ning, Z. He, L. Wu and J. Zhou | Functional Gene Array-Based Ultrasensitive and Quantitative Detection of Microbial Populations in Complex Communities | mSystems | 4(4) |
| 2019 | 10.1007/s00253-019-10111-x | Shi, L. D., M. Wang, Y. L. Han, C. Y. Lai, J. P. Shapleigh and H. P. Zhao | Multi-omics reveal various potential antimonate reductases from phylogenetically diverse microorganisms | Applied Microbiology and Biotechnology | 103(21–2) 9119–29 |
| 2019 | 10.3390/genes10121017 | Shi, L. and Z. Wang | Computational Strategies for Scalable Genomics Analysis | Genes | 10(12) 1017 |
| 2019 | 10.1021/acssuschemeng.9b01166 | Shen, W., C. Collings, M. Y. Li, J. Markovicz, J. Ralph, S. D. Mansfield and S. Y. Ding | Imaging Changes in Cell Walls of Engineered Poplar by Stimulated Raman Scattering and Atomic Force Microscopy | ACS Sustainable Chemistry & Engineering | 7(12) 10616–22 |
| 2019 | 10.1371/journal.pcbi.1006835 | Shen, F., R. Sun, J. Yao, J. Li, Q. Liu, N. D. Price, C. Liu and Z. Wang | OptRAM: In-silico strain design via integrative regulatory-metabolic network modeling | PLOS Computational Biology | 15(3) e1006835 |
| 2019 | 10.1007/s00216-019-01658-9 | Sheflin, A. M., J. S. Kirkwood, L. M. Wolfe, C. E. Jahn, C. D. Broeckling, D. P. Schachtman and J. E. Prenni | High-throughput quantitative analysis of phytohormones in sorghum leaf and root tissue by ultra-performance liquid chromatography-mass spectrometry | Analytical and Bioanalytical Chemistry | 411(19) 4839–48 |
| 2019 | 10.1002/pld3.122 | Sheflin, A. M., D. Chiniquy, C. Yuan, E. Goren, I. Kumar, M. Braud, T. Brutnell, A. L. Eveland, S. Tringe, P. Liu, S. Kresovich, E. L. Marsh, D. P. Schachtman and J. E. Prenni | Metabolomics of sorghum roots during nitrogen stress reveals compromised metabolic capacity for salicylic acid biosynthesis | Plant Direct | 3(3) e00122 |
| 2019 | 10.1007/s10021-019-00363-z | Shcherbak, I. and G. P. Robertson | Nitrous Oxide (N2O) Emissions from Subsurface Soils of Agricultural Ecosystems | Ecosystems | 22(7) 1650–63 |
| 2019 | 10.1016/j.pecs.2018.10.006 | Sharifzadeh, M., M. Sadeqzadeh, M. Guo, T. N. Borhani, N. V. S. N. Murthy Konda, M. C. Garcia, L. Wang, J. Hallett and N. Shah | The multi-scale challenges of biomass fast pyrolysis and bio-oil upgrading: Review of the state of art and future research directions | Progress in Energy and Combustion Science | 71 1–80 |
| 2019 | 10.1021/acs.biomac.8b01511 | Shah, R., S. Huang, S. V. Pingali, D. Sawada, Y. Pu, M. Rodriguez, Jr., A. J. Ragauskas, S. H. Kim, B. R. Evans, B. H. Davison and H. O’Neill | Hemicellulose–Cellulose Composites Reveal Differences in Cellulose Organization after Dilute Acid Pretreatment | Biomacromolecules | 20(2) 893–903 |
| 2019 | 10.1016/j.mib.2019.09.008 | Shade, A. and N. Stopnisek | Abundance-occupancy distributions to prioritize plant core microbiome membership | Current Opinion in Microbiology | 49 50–8 |
| 2019 | 10.1038/s41597-019-0287-z | Sevim, V., J. Lee, R. Egan, A. Clum, H. Hundley, et al. | Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies | Scientific Data | 6(1) 285 |
| 2019 | 10.1016/j.mec.2019.e00091 | Seppälä, S., J. I. Yoo, D. Yur and M. A. O'Malley | Heterologous transporters from anaerobic fungi bolster fluoride tolerance in Saccharomyces cerevisiae | Metabolic Engineering Communications | 9 |
| 2019 | 10.1186/s13068-019-1583-8 | Seo, H., J.-W. Lee, S. Garcia and C. T. Trinh | Single mutation at a highly conserved region of chloramphenicol acetyltransferase enables isobutyl acetate production directly from cellulose by Clostridium thermocellum at elevated temperatures | Biotechnology for Biofuels | 12(1) 245 |
| 2019 | 10.1105/tpc.18.00930 | Sekhon, R. S., C. Saski, R. Kumar, B. S. Flinn, F. Luo, T. M. Beissinger, A. J. Ackerman, M. W. Breitzman, W. C. Bridges, N. de Leon and S. M. Kaeppler | Integrated Genome-Scale Analysis Identifies Novel Genes and Networks Underlying Senescence in Maize | The Plant Cell | 31(9) 1968–89 |
| 2019 | 10.1074/jbc.RA118.007120 | Scott, I. M., G. M. Rubinstein, F. L. Poole, 2nd, G. L. Lipscomb, G. J. Schut, A. M. Williams-Rhaesa, D. M. Stevenson, D. Amador-Noguez, R. M. Kelly and M. W. W. Adams | The thermophilic biomass-degrading bacterium Caldicellulosiruptor bescii utilizes two enzymes to oxidize glyceraldehyde 3-phosphate during glycolysis | Journal of Biological Chemistry | 294(25) 9995–10005 |
| 2019 | 10.1007/978-1-4939-9721-3_10 | Schwartz, E., M. Hayer, B. A. Hungate and R. L. Mau | Stable Isotope Probing of Microorganisms in Environmental Samples with H218O | Methods in Molecular Biology | 2046 129–36 |
| 2019 | 10.1016/j.ymben.2019.06.007 | Schwartz, C., J.-F. Cheng, R. Evans, C. A. Schwartz, J. M. Wagner, S. Anglin, A. Beitz, W. Pan, S. Lonardi, M. Blenner, H. S. Alper, Y. Yoshikuni and I. Wheeldon | Validating genome-wide CRISPR-Cas9 function improves screening in the oleaginous yeast Yarrowia lipolytica | Metabolic Engineering | 55 102-110 |
| 2019 | 10.1002/bit.27001 | Schultz, J. C., M. Cao and H. Zhao | Development of a CRISPR/Cas9 system for high efficiency multiplexed gene deletion in Rhodosporidium toruloides | Biotechnology and Bioengineering | 116(8) 2103–9 |
| 2019 | 10.1128/JB.00768-18 | Schilling, B., N. Basisty, D. G. Christensen, D. Sorensen, J. S. Orr, A. J. Wolfe and C. V. Rao | Global Lysine Acetylation in Escherichia coli Results from Growth Conditions That Favor Acetate Fermentation | Journal of Bacteriology | 201(9) |
| 2019 | 10.1038/s41586-019-1748-4 | Schada von Borzyskowski, L., F. Severi, K. Krüger, L. Hermann, A. Gilardet, et al. | Marine Proteobacteria metabolize glycolate via the β-hydroxyaspartate cycle | Nature | 575(7783) 500-504 |
| 2019 | 10.1016/j.cell.2019.07.016 | Sberro, H., B. J. Fremin, S. Zlitni, F. Edfors, N. Greenfield, M. P. Snyder, G. A. Pavlopoulos, N. C. Kyrpides and A. S. Bhatt | Large-Scale Analyses of Human Microbiomes Reveal Thousands of Small, Novel Genes | Cell | 178(5) 1245-1259.e14 |
| 2019 | 10.1039/c8se00287h | Satari, B., K. Karimi and R. Kumar | Cellulose solvent-based pretreatment for enhanced second-generation biofuel production: a review | Sustainable Energy & Fuels | 3(1) 11–62 |
| 2019 | 10.1021/acs.biochem.9b00617 | Satagopan, S., J. A. North, M. A. Arbing, V. A. Varaljay, S. N. Haines, J. A. Wildenthal, K. M. Byerly, A. Shin and F. R. Tabita | Structural Perturbations of Rhodopseudomonas palustris Form II RuBisCO Mutant Enzymes That Affect CO2 Fixation | Biochemistry | 58(37) 3880–92 |
| 2019 | 10.1111/nph.15662 | Sasse, J., J. Kant, B. J. Cole, A. P. Klein, B. Arsova, et al. | Multilab EcoFAB study shows highly reproducible physiology and depletion of soil metabolites by a model grass | New Phytologist | 222(2) 1149–1160 |
| 2019 | 10.1186/s13068-019-1381-3 | Sasaki, Y., T. Eng, R. A. Herbert, J. Trinh, Y. Chen, A. Rodriguez, J. Gladden, B. A. Simmons, C. J. Petzold and A. Mukhopadhyay | Engineering Corynebacterium glutamicum to produce the biogasoline isopentenol from plant biomass hydrolysates | Biotechnology for Biofuels | 12(1) 41 |
| 2019 | 10.1371/journal.pcbi.1006692 | Sarkar, D., T. J. Mueller, D. Liu, H. B. Pakrasi and C. D. Maranas | A diurnal flux balance model of Synechocystis sp. PCC 6803 metabolism | PLoS Computational Biology | 15(1) e1006692 |
| 2019 | 10.1186/s42480-019-0021-9 | Sarkar, D. and C. D. Maranas | Engineering microbial chemical factories using metabolic models | BMC Chemical Engineering | 1(1) |
| 2019 | 10.1016/B978-0-12-809633-8.09128-7 | Sarai, N. S., M. E. Himmel, Y. J. Bomble, A. Kahn and E. A. Bayer | 3.02 - Fundamentals and Industrial Applicability of Multifunctional CAZyme Systems | Comprehensive Biotechnology (Third Edition) | 14–23 |
| 2019 | 10.1002/jnr.24513 | Sarafian, T. A., A. Yacoub, A. Kunz, B. Aranki, G. Serobyan, W. Cohn, J. P. Whitelegge and J. B. Watson | Enhanced mitochondrial inhibition by 3,4-dihydroxyphenyl-acetaldehyde (DOPAL)-oligomerized α-synuclein | Journal of Neuroscience Research | 97(12) 1689–705 |
| 2019 | 10.1093/glycob/cwz067 | Saqib, A., H. V. Scheller, F. Fredslund and D. H. Welner | Molecular characteristics of plant UDP-arabinopyranose mutases | Glycobiology | 29(12) 839–46 |
| 2019 | 10.1111/php.13057 | Santra, K., E. A. Smith, X. Song and J. W. Petrich | A Bayesian Approach for Extracting Fluorescence Lifetimes from Sparse Data Sets and Its Significance for Imaging Experiments | Photochem Photobiol | 95(3) 773-779 |
| 2019 | 10.1186/s13568-019-0783-8 | Sander, K., M. Yeary, K. Mahan, J. Whitham, R. J. Giannone, S. D. Brown, M. Rodriguez, Jr., D. E. Graham and B. Hankoua | Expression of benzoyl-CoA metabolism genes in the lignocellulolytic host Caldicellulosiruptor bescii | AMB Express | 9(1) 59 |
| 2019 | 10.1002/mbo3.639 | Sander, K., D. Chung, D. Hyatt, J. Westpheling, D. M. Klingeman, M. Rodriguez, Jr., N. L. Engle, T. J. Tschaplinski, B. H. Davison and S. D. Brown | Rex in Caldicellulosiruptor bescii: Novel regulon members and its effect on the production of ethanol and overflow metabolites | MicrobiologyOpen | 8(2) e00639 |
| 2019 | 10.1016/j.ymben.2019.08.004 | Sandberg, T. E., M. J. Salazar, L. L. Weng, B. O. Palsson and A. M. Feist | The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology | Metabolic Engineering | 56 1–16 |
| 2019 | 10.21769/BioProtoc.3304 | Samira, R., X. Zhang, J. Kimball, Y. Cui, G. Stacey and P. Balint-Kurti | Quantifying MAMP-induced Production of Reactive Oxygen Species in Sorghum and Maize | Bio-Protocol | 9(14) |
| 2019 | 10.1105/tpc.18.00952 | Salome, P. A. and S. S. Merchant | A Series of Fortunate Events: Introducing Chlamydomonas as a Reference Organism | The Plant Cell | 31(8) 1682–707 |
| 2019 | 10.1007/s10529-018-2622-4 | Sake, C. L., A. J. Metcalf and N. R. Boyle | The challenge and potential of photosynthesis: unique considerations for metabolic flux measurements in photosynthetic microorganisms | Biotechnology Letters | 41(1) 35–45 |
| 2019 | 10.1016/j.fuel.2018.09.037 | Sakai, S. and D. Rothamer | Impact of ethanol blending on particulate emissions from a spark-ignition direct-injection engine | Fuel | 236 1548–58 |
| 2019 | 10.1038/s41467-019-11488-z | Saifuddin, M., J. M. Bhatnagar, D. Segrè and A. C. Finzi | Microbial carbon use efficiency predicted from genome-scale metabolic models | Nature Communications | 10(1) |
| 2019 | 10.1128/mra.00927-19 | Sahib, M. R., P. Yang, N. Bokros, N. Shapiro, T. Woyke, N. C. Kyrpides, Y. Xia and S. DeBolt | Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants | Microbiology Resource Announcements | 8(45) |
| 2019 | 10.1128/MRA.00927-19 | Sahib, M. R., P. Yang, N. Bokros, N. Shapiro, T. Woyke, N. C. Kyrpides, Y. Xia and S. DeBolt | Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants | Microbiology Resource Announcements | 8(45) |
| 2019 | 10.1117/1.JBO.25.1.014506 | Sagar, M. A. K., B. Dai, J. Chacko, J. Weber, A. Velten, S. Sanders, J. White and K. Eliceiri | Optical fiber-based dispersion for spectral discrimination in fluorescence lifetime imaging systems | J Biomed Opt | 25(1) 45674 |
| 2019 | 10.1038/s41467-019-08515-4 | Sadre, R., P. Kuo, J. Chen, Y. Yang, A. Banerjee, C. Benning and B. Hamberger | Cytosolic lipid droplets as engineered organelles for production and accumulation of terpenoid biomaterials in leaves | Nature Communications | 10(1) 853 |
| 2019 | 10.1128/mra.01249-18 | Sackett, J. D., B. R. Kruger, E. D. Becraft, J. K. Jarett, R. Stepanauskas, T. Woyke and D. P. Moser | Four Draft Single-Cell Genome Sequences of Novel, Nearly Identical Kiritimatiellaeota Strains Isolated from the Continental Deep Subsurface | Microbiology Resource Announcements | 8(11) |
| 2019 | 10.1128/MRA.01178-19 | Rusley, C., T. C. Onstott, T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. M. Pfiffner, L. G. Whyte and M. C. Y. Lau | Metagenome-Assembled Genome of USCα AHI, a Potential High-Affinity Methanotroph from Axel Heiberg Island, Canadian High Arctic | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1016/j.watres.2019.03.053 | Rubio-Rincón, F. J., D. G. Weissbrodt, C. M. Lopez-Vazquez, L. Welles, B. Abbas, M. Albertsen, P. H. Nielsen, M. C. M. van Loosdrecht and D. Brdjanovic | “Candidatus Accumulibacter delftensis”: A clade IC novel polyphosphate-accumulating organism without denitrifying activity on nitrate | Water Research | 161 136–51 |
| 2019 | 10.7717/peerj.6902 | Roux, S., G. Trubl, D. Goudeau, N. Nath, E. Couradeau, et al. | Optimizing de novo genome assembly from PCR-amplified metagenomes | PeerJ | 7 e6902 |
| 2019 | 10.7717/peerj.6902 | Roux, S., G. Trubl, D. Goudeau, N. Nath, E. Couradeau, et al. | Optimizing de novo genome assembly from PCR-amplified metagenomes | PeerJ | 7 e6902 |
| 2019 | 10.1038/s41564-019-0510-x | Roux, S., M. Krupovic, R. A. Daly, A. L. Borges, S. Nayfach, et al. | Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth’s biomes | Nature Microbiology | 4(11) 1895-1906 |
| 2019 | 10.1111/1758-2229.12700 | Roux, S. and J. R. Brum | A viral reckoning: viruses emerge as essential manipulators of global ecosystems | Environmental Microbiology Reports | 11(1) 45724 |
| 2019 | 10.1038/nbt.4306 | Roux, S., E. M. Adriaenssens, B. E. Dutilh, E. V. Koonin, A. M. Kropinski, et al. | Minimum Information about an Uncultivated Virus Genome (MIUViG) | Nature Biotechnology | 37(1) 29-37 |
| 2019 | 10.1128/msystems.00111-19 | Roux, S. | A Viral Ecogenomics Framework To Uncover the Secrets of Nature’s “Microbe Whisperers” | mSystems | 4(3) |
| 2019 | 10.1038/s42003-019-0577-1 | Roth, M. S., D. J. Westcott, M. Iwai and K. K. Niyogi | Hexokinase is necessary for glucose-mediated photosynthesis repression and lipid accumulation in a green alga | Communications Biology | 2 347 |
| 2019 | 10.1105/tpc.18.00742 | Roth, M. S., S. D. Gallaher, D. J. Westcott, M. Iwai, K. B. Louie, et al. | Regulation of Oxygenic Photosynthesis during Trophic Transitions in the Green Alga Chromochloris zofingiensis | The Plant Cell | 31(3) 579–601 |
| 2019 | 10.1016/j.ibusrev.2018.05.009 | Rosca, E. and J. C. Bendul | Value chain integration of base of the pyramid consumers: An empirical study of drivers and performance outcomes | International Business Review | 28(1) 162-176 |
| 2019 | 10.3389/fpsyg.2019.01625 | Roman, M., C. M. Bostan, L. R. Diaconu-Gherasim and T. Constantin | Personality traits and postnatal depression: The mediated role of postnatal anxiety and moderated role of type of birth | Frontiers in Psychology | 10(JULY) |
| 2019 | 10.1016/j.soilbio.2018.11.006 | Roley, S. S., C. Xue, S. K. Hamilton, J. M. Tiedje and G. P. Robertson | Isotopic evidence for episodic nitrogen fixation in switchgrass (Panicum virgatum L.) | Soil Biology and Biochemistry | 129 90–8 |
| 2019 | 10.1007/s00284-019-01657-0 | Rojas-Rojas, F. U., D. Sánchez-López, E. Y. Tapia-García, I. Arroyo-Herrera, M. Maymon, et al. | Draft Genome of Burkholderia cenocepacia TAtl-371, a Strain from the Burkholderia cepacia Complex Retains Antagonism in Different Carbon and Nitrogen Sources | Current Microbiology | 76(5) 566-574 |
| 2019 | 10.1186/s12934-019-1083-3 | Roell, G. W., J. Zha, R. R. Carr, M. A. Koffas, S. S. Fong and Y. J. Tang | Engineering microbial consortia by division of labor | Microbial Cell Factories | 18(1) 35 |
| 2019 | 10.1016/j.ymben.2019.06.013 | Roell, G. W., R. R. Carr, T. Campbell, Z. Shang, W. R. Henson, J. J. Czajka, H. G. Martin, F. Zhang, M. Foston, G. Dantas, T. S. Moon and Y. J. Tang | A concerted systems biology analysis of phenol metabolism in Rhodococcus opacus PD630 | Metabolic Engineering | 55 120–30 |
| 2019 | 10.1002/ppp3.29 | Rodriguez‐Zaccaro, F. D. and A. Groover | Wood and water: How trees modify wood development to cope with drought | Plants, People, Planet | 1(4) 346–55 |
| 2019 | 10.1016/j.biortech.2019.121365 | Rodriguez, A., N. Ersig, G. M. Geiselman, K. Seibel, B. A. Simmons, J. K. Magnuson, A. Eudes and J. M. Gladden | Conversion of depolymerized sugars and aromatics from engineered feedstocks by two oleaginous red yeasts | Bioresource Technology | 286 121365 |
| 2019 | 10.1038/s41396-019-0561-2 | Rochman, F. F., M. Kwon, R. Khadka, I. Tamas, A. A. Lopez-Jauregui, A. Sheremet, A. V. Smirnova, R. R. Malmstrom, S. Yoon, T. Woyke, P. F. Dunfield and T. J. Verbeke | Novel copper-containing membrane monooxygenases (CuMMOs) encoded by alkane-utilizing Betaproteobacteria | The ISME Journal | 14(3) 714-726 |
| 2019 | 10.1016/j.fgb.2018.12.004 | Robinson, A. J. and D. O. Natvig | Diverse members of the Xylariales lack canonical mating-type regions | Fungal Genetics and Biology | 122 47-52 |
| 2019 | 10.1038/s41580-019-0108-4 | Rinschen, M. M., J. Ivanisevic, M. Giera and G. Siuzdak | Identification of bioactive metabolites using activity metabolomics | Nature Reviews Molecular Cell Biology | 20(6) 353–67 |
| 2019 | 10.1007/s10295-019-02218-x | Riley, L. A., L. Ji, R. J. Schmitz, J. Westpheling and A. M. Guss | Rational development of transformation in Clostridium thermocellum ATCC 27405 via complete methylome analysis and evasion of native restriction-modification systems | Journal of Industrial Microbiology and Biotechnology | 46(9–10) 1435–43 |
| 2019 | 10.1007/s11103-019-00861-7 | Rigoulot, S. B., H. E. Petzold, S. P. Williams, A. M. Brunner and E. P. Beers | Populus trichocarpa clade A PP2C protein phosphatases: their stress-induced expression patterns, interactions in core abscisic acid signaling, and potential for regulation of growth and development | Plant Molecular Biology | 100(3) 303–17 |
| 2019 | 10.1016/j.tplants.2019.01.006 | Rhee, S. Y., K. D. Birnbaum and D. W. Ehrhardt | Towards Building a Plant Cell Atlas | Trends in Plant Science | 24(4) 303–10 |
| 2019 | 10.1104/pp.19.00344 | Rencoret, J., D. Neiva, G. Marques, A. Gutierrez, H. Kim, J. Gominho, H. Pereira, J. Ralph and J. C. Del Rio | Hydroxystilbene Glucosides Are Incorporated into Norway Spruce Bark Lignin | Plant Physiology | 180(3) 1310–21 |
| 2019 | 10.1038/s41396-019-0418-8 | Ren, M., X. Feng, Y. Huang, H. Wang, Z. Hu, S. Clingenpeel, B. K. Swan, M. M. Fonseca, D. Posada, R. Stepanauskas, J. T. Hollibaugh, P. G. Foster, T. Woyke and H. Luo | Phylogenomics suggests oxygen availability as a driving force in Thaumarchaeota evolution | The ISME Journal | 13(9) 2150-2161 |
| 2019 | 10.1111/1462-2920.14753 | Reji, L., B. B. Tolar, J. M. Smith, F. P. Chavez and C. A. Francis | Depth distributions of nitrite reductase (nirK) gene variants reveal spatial dynamics of thaumarchaeal ecotype populations in coastal Monterey Bay | Environmental Microbiology | 21(11) 4032-4045 |
| 2019 | 10.1038/s41587-019-0286-9 | Reis, A. C., S. M. Halper, G. E. Vezeau, D. P. Cetnar, A. Hossain, P. R. Clauer and H. M. Salis | Simultaneous repression of multiple bacterial genes using nonrepetitive extra-long sgRNA arrays | Nature Biotechnology | 37(11) 1294–301 |
| 2019 | 10.1038/s41598-019-50125-z | Reese, K. L., C. L. Fisher, P. D. Lane, J. D. Jaryenneh, M. W. Moorman, A. D. Jones, M. Frank and T. W. Lane | Chemical Profiling of Volatile Organic Compounds in the Headspace of Algal Cultures as Early Biomarkers of Algal Pond Crashes | Scientific Reports | 9(1) 13866 |
| 2019 | 10.1016/j.rhisph.2019.100161 | Razavi, B. S., X. Zhang, N. Bilyera, A. Guber and M. Zarebanadkouki | Soil zymography: Simple and reliable? Review of current knowledge and optimization of the method | Rhizosphere | 11 |
| 2019 | 10.1111/1758-2229.12757 | Ray, P., P. E. Abraham, Y. Guo, R. J. Giannone, N. L. Engle, Z. K. Yang, D. Jacobson, R. L. Hettich, T. J. Tschaplinski and K. D. Craven | Scavenging organic nitrogen and remodelling lipid metabolism are key survival strategies adopted by the endophytic fungi, Serendipita vermifera and Serendipita bescii to alleviate nitrogen and phosphorous starvation in vitro | Environmental Microbiology Reports | 11(4) 548–57 |
| 2019 | 10.1093/abbs/gmz080 | Rao, X. and R. A. Dixon | Co-expression networks for plant biology: why and how | Acta Biochimica et Biophysica Sinica | 51(10) 981–8 |
| 2019 | 10.1111/pbi.13000 | Rao, X., X. Chen, H. Shen, Q. Ma, G. Li, Y. Tang, M. Pena, W. York, T. P. Frazier, S. Lenaghan, X. Xiao, F. Chen and R. A. Dixon | Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum) | Plant Biotechnology Journal | 17(3) 580-593 |
| 2019 | 10.1111/pbi.13000 | Rao, X., X. Chen, H. Shen, Q. Ma, G. Li, Y. Tang, M. Pena, W. York, T. P. Frazier, S. Lenaghan, X. Xiao, F. Chen and R. A. Dixon | Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum) | Plant Biotechnology Journal | 17(3) 580–93 |
| 2019 | 10.1016/j.snb.2019.01.167 | Ran, Y., P. Strobbia, V. Cupil-Garcia and T. Vo-Dinh | Fiber-optrode SERS probes using plasmonic silver-coated gold nanostars | Sensors and Actuators B: Chemical | 287 95-101 |
| 2019 | 10.1534/g3.118.200969 | Ramstein, G. P. and M. D. Casler | Extensions of BLUP Models for Genomic Prediction in Heterogeneous Populations: Application in a Diverse Switchgrass Sample | G3 Genes|Genomes|Genetics | 9(3) 789–805 |
| 2019 | 10.1007/978-3-030-10777-2_1 | Ramin, K. I. a. S. D. A. | Carbon cycle implications of soil microbial interactions | Understanding Terrestrial Microbial Communities | 6 1–29 |
| 2019 | 10.3389/fmicb.2019.02956 | Ramin, K. I. and S. D. Allison | Bacterial Tradeoffs in Growth Rate and Extracellular Enzymes | Frontiers in Microbiology | 10 2956 |
| 2019 | 10.1016/j.copbio.2019.02.019 | Ralph, J., C. Lapierre and W. Boerjan | Lignin structure and its engineering | Current Opinion in Biotechnology | 56 240–9 |
| 2019 | 10.1371/journal.pone.0214960 | Rajeev, L., E. G. Luning, G. M. Zane, T. R. Juba, A. E. Kazakov, P. S. Novichkov, J. D. Wall and A. Mukhopadhyay | LurR is a regulator of the central lactate oxidation pathway in sulfate-reducing Desulfovibrio species | PLoS One | 14(4) e0214960 |
| 2019 | 10.1111/1462-2920.14500 | Rajeev, L., M. E. Garber, G. M. Zane, M. N. Price, I. Dubchak, J. D. Wall, P. S. Novichkov, A. Mukhopadhyay and A. E. Kazakov | A new family of transcriptional regulators of tungstoenzymes and molybdate/tungstate transport | Environmental Microbiology | 21(2) 784–99 |
| 2019 | 10.1021/jacs.9b07243 | Rafiee, M., M. Alherech, S. D. Karlen and S. S. Stahl | Electrochemical Aminoxyl-Mediated Oxidation of Primary Alcohols in Lignin to Carboxylic Acids: Polymer Modification and Depolymerization | Journal of the American Chemical Society | 141(38) 15266–76 |
| 2019 | 10.1038/s41598-019-48257-3 | Qi, P., D. Eudy, J. C. Schnable, J. Schmutz, P. L. Raymer and K. M. Devos | High Density Genetic Maps of Seashore Paspalum Using Genotyping-By-Sequencing and Their Relationship to The Sorghum Bicolor Genome | Scientific Reports | 9(1) 12183 |
| 2019 | 10.1093/molbev/msz185 | Priyam, A., B. J. Woodcroft, V. Rai, I. Moghul, A. Munagala, et al. | Sequenceserver: A Modern Graphical User Interface for Custom BLAST Databases | Molecular Biology and Evolution | 36(12) 2922–4 |
| 2019 | 10.1128/mSystems.00297-18 | Price, M. N., J. Ray, A. T. Iavarone, H. K. Carlson, E. M. Ryan, R. R. Malmstrom, A. P. Arkin and A. M. Deutschbauer | Oxidative Pathways of Deoxyribose and Deoxyribonate Catabolism | mSystems | 4(1) |
| 2019 | 10.1128/mSystems.00072-19 | Price, M. N. and A. P. Arkin | Curated BLAST for Genomes | mSystems | 4(2) |
| 2019 | 10.1021/acs.jpcb.9b06243 | Prates, E. T., M. F. Crowley, M. S. Skaf and G. T. Beckham | Catalytic Mechanism of Aryl-Ether Bond Cleavage in Lignin by LigF and LigG | Journal of Physical Chemistry B | 123(48) 10142–51 |
| 2019 | 10.1093/sysbio/syz029 | Prasanna, A. N., D. Gerber, T. Kijpornyongpan, M. C. Aime, V. P. Doyle and L. G. Nagy | Model Choice, Missing Data, and Taxon Sampling Impact Phylogenomic Inference of Deep Basidiomycota Relationships | Systematic Biology | 69(1) 17-37 |
| 2019 | 10.3389/fmicb.2019.02594 | Poudel, S., R. J. Giannone, A. T. Farmer, S. R. Campagna, A. N. Bible, J. L. Morrell-Falvey, J. G. Elkins and R. L. Hettich | Integrated Proteomics and Lipidomics Reveal That the Swarming Motility of Paenibacillus polymyxa Is Characterized by Phospholipid Modification, Surfactant Deployment, and Flagellar Specialization Relative to Swimming Motility | Frontiers in Microbiology | 10 2594 |
| 2019 | 10.5194/bg-16-4875-2019 | Pold, G., S. A. Sistla and K. M. DeAngelis | Metabolic tradeoffs and heterogeneity in microbial responses to temperature determine the fate of litter carbon in simulations of a warmer world | Biogeosciences | 16(24) 4875–88 |
| 2019 | 10.1146/annurev-chembioeng-060718-030340 | Podolsky, I. A., S. Seppälä, T. S. Lankiewicz, J. L. Brown, C. L. Swift, apos and M. A. Malley | Harnessing Nature’s Anaerobes for Biotechnology and Bioprocessing | Annual Review of Chemical and Biomolecular Engineering | 10 105–28 |
| 2019 | 10.1128/MRA.01065-19 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of Terriglobus albidus Strain ORNL, an Acidobacterium Isolated from the Populus deltoides Rhizosphere | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1016/j.phytochem.2019.01.014 | Piva, L. R. O., K. J. Jardine, B. O. Gimenez, R. de Oliveira Perdiz, V. S. Menezes, F. M. Durgante, L. O. Cobello, N. Higuchi and J. Q. Chambers | Volatile monoterpene 'fingerprints' of resinous Protium tree species in the Amazon rainforest | Phytochemistry | 160 61–70 |
| 2019 | 10.1002/9781119409144.ch136 | Pingault, L., Z. Qiao and M. Libault | Comparative genomic and transcriptomic analyses of legume genes controlling the nodulation process | The Model Legume Medicago Truncatula | 1055–61 |
| 2019 | 10.1111/gcbb.12599 | Pignon, C. P., I. Spitz, E. J. Sacks, U. Jorgensen, K. Korup and S. P. Long | Siberian Miscanthus sacchariflorus accessions surpass the exceptional chilling tolerance of the most widely cultivated clone of Miscanthus x giganteus | GCB Bioenergy | 11(7) 883–94 |
| 2019 | 10.1074/mcp.TIR119.001317 | Peshkin, L., M. Gupta, L. Ryazanova and M. Wühr | Bayesian confidence intervals for multiplexed proteomics integrate ion-statistics with peptide quantification concordance | Molecular and Cellular Proteomics | 18(10) 2108-2120 |
| 2019 | 10.1016/j.copbio.2018.09.011 | Perkins, M., R. A. Smith and L. Samuels | The transport of monomers during lignification in plants: anything goes but how? | Current Opinion in Biotechnology | 56 69–74 |
| 2019 | 10.1039/C9GC00323A | Pérez Pimienta, J. A., G. Papa, A. Rodriguez, C. A. Barcelos, L. Liang, V. Stavila, A. Sanchez, J. M. Gladden and B. A. Simmons | Pilot-scale hydrothermal pretreatment and optimized saccharification enables bisabolene production from multiple feedstocks | Green Chemistry | 21(11) 3152–64 |
| 2019 | 10.1039/c8gc03504k | Perez, J. M., W. S. Kontur, M. Alherech, J. Coplien, S. D. Karlen, S. S. Stahl, T. J. Donohue and D. R. Noguera | Funneling aromatic products of chemically depolymerized lignin into 2-pyrone-4-6-dicarboxylic acid with Novosphingobium aromaticivorans | Green Chemistry | 21(6) 1340–50 |
| 2019 | 10.3390/ijms20184363 | Pereira, P. N. and J. C. Cushman | Exploring the Relationship between Crassulacean Acid Metabolism (CAM) and Mineral Nutrition with a Special Focus on Nitrogen | International Journal of Molecular Sciences | 20(18) |
| 2019 | 10.1002/cbic.201800580 | Pelot, K. A., D. M. Hagelthorn, Y. J. Hong, D. J. Tantillo and P. Zerbe | Diterpene Synthase-Catalyzed Biosynthesis of Distinct Clerodane Stereoisomers | ChemBioChem | 20(1) 111–117 |
| 2019 | 10.1007/978-3-030-05448-9_6 | Pellegrin, C., F. Martin and C. Veneault-Fourrey | Molecular Signalling During the Ectomycorrhizal Symbiosis | Biology of the Fungal Cell | 95–109 |
| 2019 | 10.1111/1462-2920.14727 | Pellegrin, C., Y. Daguerre, J. Ruytinx, F. Guinet, M. Kemppainen, N. F. D. Frey, V. Puech-Pages, A. Hecker, A. G. Pardo, F. M. Martin and C. Veneault-Fourrey | Laccaria bicolor MiSSP8 is a small-secreted protein decisive for the establishment of the ectomycorrhizal symbiosis | Environmental Microbiology | 21(10) 3765–79 |
| 2019 | 10.1016/j.soilbio.2018.10.009 | Pegoraro, E., M. Mauritz, R. Bracho, C. Ebert, P. Dijkstra, B. A. Hungate, K. T. Konstantinidis, Y. Q. Luo, C. Schadel, J. M. Tiedje, J. Z. Zhou and E. A. G. Schuur | Glucose addition increases the magnitude and decreases the age of soil respired carbon in a long-term permafrost incubation study | Soil Biology and Biochemistry | 129 201–11 |
| 2019 | 10.1016/bs.aambs.2018.10.002 | Paul, C., S. Filippidou, I. Jamil, W. Kooli, G. L. House, et al. | Bacterial spores, from ecology to biotechnology | Advances in Applied Microbiology | 106 79–111 |
| 2019 | 10.1021/jacs.8b10242 | Patri, A. S., B. Mostofian, Y. Q. Pu, N. Ciaffone, M. Soliman, M. D. Smith, R. Kumar, X. L. Cheng, C. E. Wyrnan, L. Tetard, A. J. Ragauskas, J. C. Smith, L. Petridis and C. M. Cai | A Multifunctional Cosolvent Pair Reveals Molecular Principles of Biomass Deconstruction | Journal of the American Chemical Society | 141(32) 12545–57 |
| 2019 | 10.1186/s13068-019-1515-7 | Patri, A. S., L. McAlister, C. M. Cai, R. Kumar and C. E. Wyman | CELF significantly reduces milling requirements and improves soaking effectiveness for maximum sugar recovery of Alamo switchgrass over dilute sulfuric acid pretreatment | Biotechnology for Biofuels | 12 |
| 2019 | 10.1038/s41598-019-46538-5 | Patabadige, D. E. W., L. J. Millet, J. A. Aufrecht, P. G. Shankles, R. F. Standaert, S. T. Retterer and M. J. Doktycz | Label-free time- and space-resolved exometabolite sampling of growing plant roots through nanoporous interfaces | Scientific Reports | 9 |
| 2019 | 10.1039/c9cp01431d | Paslack, C., J. C. Smith, M. Heyden and L. V. Schafer | Hydration-mediated stiffening of collective membrane dynamics by cholesterol | Physical Chemistry Chemical Physics | 21(20) 10370–6 |
| 2019 | 10.1105/tpc.19.00081 | Parsons, H. T., T. J. Stevens, H. E. McFarlane, S. Vidal-Melgosa, J. Griss, N. Lawrence, R. Butler, M. M. L. Sousa, M. Salemi, W. G. T. Willats, C. J. Petzold, J. L. Heazlewood and K. S. Lilley | Separating Golgi Proteins from Cis to Trans Reveals Underlying Properties of Cisternal Localization | The Plant Cell | 31(9) 2010–34 |
| 2019 | 10.1093/jxb/erz369 | Park, S., B. Song, W. Shen and S. Y. Ding | A mutation in the catalytic domain of cellulose synthase 6 halts its transport to the Golgi apparatus | Journal of Experimental Botany | 70(21) 6071–83 |
| 2019 | 10.1038/s41589-019-0364-9 | Park, J. O., L. B. Tanner, M. H. Wei, D. B. Khana, T. B. Jacobson, Z. Y. Zhang, S. A. Rubin, S. H. J. Li, M. B. Higgins, D. M. Stevenson, D. Amador-Noguez and J. D. Rabinowitz | Near-equilibrium glycolysis supports metabolic homeostasis and energy yield | Nature Chemical Biology | 15(10) 1001–8 |
| 2019 | 10.1038/s42255-019-0077-0 | Park, J. O., N. Liu, K. M. Holinski, D. F. Emerson, K. J. Qiao, B. M. Woolston, J. Y. Xu, Z. Lazar, M. A. Islam, C. Vidoudez, P. R. Girguis and G. Stephanopoulos | Synergistic substrate cofeeding stimulates reductive metabolism | Nature Metabolism | 1(6) 643–51 |
| 2019 | 10.1007/s00253-019-10089-6 | Park, H., B. Min, Y. Jang, J. Kim, A. Lipzen, et al. | Comprehensive genomic and transcriptomic analysis of polycyclic aromatic hydrocarbon degradation by a mycoremediation fungus, Dentipellis sp. KUC8613 | Applied Microbiology and Biotechnology | 103(19) 8145-8155 |
| 2019 | 10.1111/gcbb.12585 | Parish, A. L., A. D. Kendall, A. M. Thompson, R. S. Stenjem and D. W. Hyndman | Cellulosic biofuel crops alter evapotranspiration and drainage fluxes: Direct quantification using automated equilibrium tension lysimeters | GCB Bioenergy | 11(3) 505–16 |
| 2019 | 10.1111/gwat.12770 | Paradis, C. J., E. R. Dixon, L. M. Lui, A. P. Arkin, J. C. Parker, J. D. Istok, E. Perfect, L. D. McKay and T. C. Hazen | Improved Method for Estimating Reaction Rates During Push-Pull Tests | Groundwater | 57(2) 292–302 |
| 2019 | 10.1002/cbic.201800650 | Pappireddi, N., L. Martin and M. Wuhr | A Review on Quantitative Multiplexed Proteomics | ChemBioChem | 20(10) 1210–24 |
| 2019 | 10.1016/j.soilbio.2018.12.016 | Papp, K., B. A. Hungate and E. Schwartz | mRNA, rRNA and DNA quantitative stable isotope probing with H218O indicates use of old rRNA among soil Thaumarchaeota | Soil Biology and Biochemistry | 130 159–66 |
| 2019 | 10.1111/1758-2229.12790 | Pannu, M. W., K. A. Meinhardt, A. Bertagnolli, S. C. Fransen, D. A. Stahl and S. E. Strand | Nitrous oxide emissions associated with ammonia-oxidizing bacteria abundance in fields of switchgrass with and without intercropped alfalfa | Environmental Microbiology Reports | 11(5) 727–35 |
| 2019 | 10.1186/s12915-019-0710-0 | Pankievicz, V. C. S., T. B. Irving, L. G. S. Maia and J. M. Ané | Are we there yet? The long walk towards the development of efficient symbiotic associations between nitrogen-fixing bacteria and non-leguminous crops | BMC Biology | 17(1) |
| 2019 | 10.1186/s12862-019-1398-z | Panchy, N. L., C. B. Azodi, E. F. Winship, R. C. O’Malley and S.-H. Shiu | Expression and regulatory asymmetry of retained Arabidopsis thaliana transcription factor genes derived from whole genome duplication | BMC Evolutionary Biology | 19(1) 77 |
| 2019 | 10.1186/s12862-019-1398-z | Panchy, N. L., C. B. Azodi, E. F. Winship, R. C. O'Malley and S. H. Shiu | Expression and regulatory asymmetry of retained Arabidopsis thaliana transcription factor genes derived from whole genome duplication | BMC Evolutionary Biology | 19 |
| 2019 | 10.1016/bs.aambs.2018.10.001 | Palmieri, F., A. Estoppey, G. L. House, A. Lohberger, S. Bindschedler, P. S. G. Chain and P. Junier | Oxalic acid, a molecule at the crossroads of bacterial-fungal interactions | Advances in Applied Microbiology | 106 49–77 |
| 2019 | 10.1371/journal.pone.0222080 | Palmer, N. A., R. V. Chowda-Reddy, A. A. Muhle, S. Tatineni, G. Yuen, S. J. Edm, R. B. Mitchell and G. Sarath | Transcriptome divergence during leaf development in two contrasting switchgrass (Panicum virgatum L.) cultivars | PLoS One | 14(9) |
| 2019 | 10.1128/AEM.01993-19 | Palevich, N., W. J. Kelly, S. C. Leahy, S. Denman, E. Altermann, J. Rakonjac and G. T. Attwood | Comparative Genomics of Rumen Butyrivibrio spp. Uncovers a Continuum of Polysaccharide-Degrading Capabilities | Applied and Environmental Microbiology | 86(1) e01993-19 |
| 2019 | 10.1093/nar/gkz932 | Palaniappan, K., I.-M. A. Chen, K. Chu, A. Ratner, R. Seshadri, N. C. Kyrpides, N. N. Ivanova and N. J. Mouncey | IMG-ABC v.5.0: an update to the IMG/Atlas of Biosynthetic Gene Clusters Knowledgebase | Nucleic Acids Research | 48(D1) D422-D430 |
| 2019 | 10.1186/s40168-019-0768-5 | Paez-Espino, D., J. Zhou, S. Roux, S. Nayfach, G. A. Pavlopoulos, F. Schulz, K. D. McMahon, D. Walsh, T. Woyke, N. N. Ivanova, E. A. Eloe-Fadrosh, S. G. Tringe and N. C. Kyrpides | Diversity, evolution, and classification of virophages uncovered through global metagenomics | Microbiome | 7(1) 157 |
| 2019 | 10.1186/s13068-019-1417-8 | Paës, G., D. Navarro, Y. Benoit, S. Blanquet, B. Chabbert, et al. | Tracking of enzymatic biomass deconstruction by fungal secretomes highlights markers of lignocellulose recalcitrance | Biotechnology for Biofuels | 12(1) 76 |
| 2019 | 10.1093/femsle/fnz125 | Pacheco, A. R. and D. Segre | A multidimensional perspective on microbial interactions | FEMS Microbiology Letters | 366(11) |
| 2019 | 10.1038/s41467-018-07946-9 | Pacheco, A. R., M. Moel and D. Segre | Costless metabolic secretions as drivers of interspecies interactions in microbial ecosystems | Nature Communications | 10(1) 103 |
| 2019 | 10.1371/journal.pone.0210558 | Oyetunde, T., D. Liu, H. G. Martin and Y. J. Tang | Machine learning framework for assessment of microbial factory performance | PLoS One | 14(1) e0210558 |
| 2019 | 10.1038/s41477-018-0350-3 | Oyarce, P., B. De Meester, F. Fonseca, L. de Vries, G. Goeminne, A. Pallidis, R. De Rycke, Y. Tsuji, Y. Li, S. Van den Bosch, B. Sels, J. Ralph, R. Vanholme and W. Boerjan | Introducing curcumin biosynthesis in Arabidopsis enhances lignocellulosic biomass processing | Nature Plants | 5(2) 225–37 |
| 2019 | 10.1128/msphere.00099-19 | Otoupal, P. B., M. Ito, A. P. Arkin, J. K. Magnuson, J. M. Gladden and J. M. Skerker | Multiplexed CRISPR-Cas9-Based Genome Editing of Rhodosporidium toruloides | mSphere | 4(2) |
| 2019 | 10.1128/JB.00410-18 | Orr, J. S., D. G. Christensen, A. J. Wolfe and C. V. Rao | Extracellular Acidic pH Inhibits Acetate Consumption by Decreasing Gene Transcription of the Tricarboxylic Acid Cycle and the Glyoxylate Shunt | Journal of Bacteriology | 201(2) |
| 2019 | 10.1038/s41598-019-53679-0 | Orellana, L. H., J. K. Hatt, R. Iyer, K. Chourey, R. L. Hettich, J. C. Spain, W. H. Yang, J. C. Chee-Sanford, R. A. Sanford, F. E. Löffler and K. T. Konstantinidis | Comparing DNA, RNA and protein levels for measuring microbial dynamics in soil microcosms amended with nitrogen fertilizer | Scientific Reports | 9(1) |
| 2019 | 10.1038/s41396-019-0491-z | Orellana, L. H., T. B. Francis, K. Krüger, H. Teeling, M.-C. Müller, B. M. Fuchs, K. T. Konstantinidis and R. I. Amann | Niche differentiation among annually recurrent coastal Marine Group II Euryarchaeota | The ISME Journal | 13(12) 3024-3036 |
| 2019 | 10.1093/femsyr/foz032 | Opulente, D. A., Q. K. Langdon, K. V. Buh, M. A. B. Haase, K. Sylvester, R. V. Moriarty, M. Jarzyna, S. L. Considine, R. M. Schneider and C. T. Hittinger | Pathogenic budding yeasts isolated outside of clinical settings | FEMS Yeast Research | 19(3) |
| 2019 | 10.1021/acssynbio.9b00020 | Opgenorth, P., Z. Costello, T. Okada, G. Goyal, Y. Chen, et al. | Lessons from Two Design–Build–Test–Learn Cycles of Dodecanol Production in Escherichia coli Aided by Machine Learning | ACS Synthetic Biology | 8(6) 1337–1351 |
| 2019 | 10.1007/s11032-019-1081-5 | Olatoye, M. O., L. V. Clark, J. P. Wang, X. P. Yang, T. Yamada, E. J. Sacks and A. E. Lipka | Evaluation of genomic selection and marker-assisted selection in Miscanthus and energycane | Molecular Breeding | 39(12) |
| 2019 | 10.1105/tpc.18.00755 | Okekeogbu, I. O., S. Pattathil, S. M. González Fernández-Niño, U. K. Aryal, B. W. Penning, J. Lao, J. L. Heazlewood, M. G. Hahn, M. C. McCann and N. C. Carpita | Glycome and Proteome Components of Golgi Membranes Are Common between Two Angiosperms with Distinct Cell-Wall Structures | The Plant Cell | 31(5) 1094–12 |
| 2019 | 10.1080/15592324.2019.1672513 | Okekeogbu, I. O., U. K. Aryal, S. M. G. Fernández-Niño, B. W. Penning, J. L. Heazlewood, M. C. McCann and N. C. Carpita | Differential distributions of trafficking and signaling proteins of the maize ER-Golgi apparatus | Plant Signaling & Behavior | 14(12) 1672513 |
| 2019 | 10.1186/s13068-019-1479-7 | Ohlsson, J. A., H. R. Hallingback, M. Jebrane, A. E. Harman-Ware, T. Shollenberger, S. R. Decker, M. Sandgren and A. C. Ronnberg-Wastljung | Genetic variation of biomass recalcitrance in a natural Salix viminalis (L.) population | Biotechnology for Biofuels | 12 135 |
| 2019 | 10.1016/j.jbiotec.2018.12.013 | Oh, E. J., N. Wei, S. Kwak, H. Kim and Y. S. Jin | Overexpression of RCK1 improves acetic acid tolerance in Saccharomyces cerevisiae | Journal of Biotechnology | 292 1–4 |
| 2019 | 10.1117/12.2524847 | Odion, R. A., P. Strobbia, B. M. Crawford and T. Vo-Dinh | Surface-enhanced spatially offset Raman spectroscopy (SESORS) for subsurface detection of nanostar probes | Proceedings of Advanced Environmental, Chemical, and Biological Sensing Technologies XV | 11007 110070I |
| 2019 | 10.1080/15427528.2019.1566186 | Obeng, E., A. K. Obour, N. O. Nelson, J. A. Moreno, I. A. Ciampitti, D. H. Wang and T. P. Durrett | Seed yield and oil quality as affected by Camelina cultivar and planting date | Journal of Crop Improvement | 33(2) 202–22 |
| 2019 | 10.1021/acs.jpcc.9b05777 | O’Callahan, B. T., M. Hentschel, M. B. Raschke, P. Z. El-Khoury and A. S. Lea | Ultrasensitive Tip- and Antenna-Enhanced Infrared Nanoscopy of Protein Complexes | The Journal of Physical Chemistry C | 123(28) 17505-17509 |
| 2019 | 10.1126/sciadv.aaw9180 | O'Kane, P. T., Q. M. Dudley, A. K. McMillan, M. C. Jewett and M. Mrksich | High-throughput mapping of CoA metabolites by SAMDI-MS to optimize the cell-free biosynthesis of HMG-CoA | Science Advances | 5(6) eaaw9180 |
| 2019 | 10.1007/s13361-018-2027-6 | Nshanian, M., C. Lantz, P. Wongkongkathep, T. Schrader, F. G. Klarner, A. Blumke, C. Despres, M. Ehrmann, C. Smet-Nocca, G. Bitan and J. A. Loo | Native Top-Down Mass Spectrometry and Ion Mobility Spectrometry of the Interaction of Tau Protein with a Molecular Tweezer Assembly Modulator | Journal of the American Society for Mass Spectrometry | 30(1) 16–23 |
| 2019 | 10.1038/s41597-019-0132-4 | Nowinski, B., C. B. Smith, C. M. Thomas, K. Esson, R. Marin, et al. | Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom | Scientific Data | 6(1) 129 |
| 2019 | 10.1111/1751-7915.13318 | Nora, L. C., C. A. Westmann, L. Martins-Santana, L. F. Alves, L. M. O. Monteiro, M. E. Guazzaroni and R. Silva-Rocha | The art of vector engineering: towards the construction of next-generation genetic tools | Microbial Biotechnology | 12(1) 125–47 |
| 2019 | 10.1186/s12934-019-1167-0 | Nora, L. C., M. Wehrs, J. Kim, J.-F. Cheng, A. Tarver, B. A. Simmons, J. Magnuson, M. Harmon-Smith, R. Silva-Rocha, J. M. Gladden, A. Mukhopadhyay, J. M. Skerker and J. Kirby | A toolset of constitutive promoters for metabolic engineering of Rhodosporidium toruloides | Microbial Cell Factories | 18(1) 117 |
| 2019 | 10.1038/s41598-019-52400-5 | Noirot-Gros, M. F., S. Forrester, G. Malato, P. E. Larsen and P. Noirot | CRISPR interference to interrogate genes that control biofilm formation in Pseudomonas fluorescens | Scientific Reports | 9(1) 15954 |
| 2019 | 10.1073/pnas.1904623116 | Ning, D., Y. Deng, J. M. Tiedje and J. Zhou | A general framework for quantitatively assessing ecological stochasticity | Proceedings of the National Academy of Sciences of the United States of America | 116(34) 16892–8 |
| 2019 | 10.1016/j.pbi.2019.06.004 | Niechayev, N. A., P. N. Pereira and J. C. Cushman | Understanding trait diversity associated with crassulacean acid metabolism (CAM) | Current Opinion in Plant Biology | 49 74–85 |
| 2019 | 10.1016/bs.mie.2018.12.009 | Nichols, T. M., N. W. Kennedy and D. Tullman-Ercek | Cargo encapsulation in bacterial microcompartments: Methods and analysis | Methods in Enzymology | 617 155–86 |
| 2019 | 10.3390/v11040351 | Nibert, M. L., H. J. Debat, A. R. Manny, I. V. Grigoriev and H. H. De Fine Licht | Mitovirus and Mitochondrial Coding Sequences from Basal Fungus Entomophthora muscae | Viruses | 11(4) 351 |
| 2019 | 10.1186/s12864-019-6329-2 | Nguyen, N. D., I. K. Blaby and D. Wang | ManiNetCluster: a novel manifold learning approach to reveal the functional links between gene networks | BMC Genomics | 20(Supplement 12) 1003 |
| 2019 | 10.1016/j.carbon.2018.10.099 | Nguyen, H. N., C. Chaves-Lopez, R. C. Oliveira, A. Paparella and D. E. Rodrigues | Cellular and metabolic approaches to investigate the effects of graphene and graphene oxide in the fungi Aspergillus flavus and Aspergillus niger | Carbon | 143 419–29 |
| 2019 | 10.1016/j.apenergy.2019.03.020 | Ng, R. T. L., P. Fasahati, K. F. Huang and C. T. Maravelias | Utilizing stillage in the biorefinery: Economic, technological and energetic analysis | Applied Energy | 241 491–503 |
| 2019 | 10.1038/s41598-019-38836-9 | Ng, C. Y., L. Wang, A. Chowdhury and C. D. Maranas | Pareto Optimality Explanation of the Glycolytic Alternatives in Nature | Scientific Reports | 9(1) 2633 |
| 2019 | 10.1073/pnas.1907517116 | Needham, D. M., S. Yoshizawa, T. Hosaka, C. Poirier, C. J. Choi, et al. | A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators | Proceedings of the National Academy of Sciences | 116(41) 20574-20583 |
| 2019 | 10.1038/s41586-019-1058-x | Nayfach, S., Z. J. Shi, R. Seshadri, K. S. Pollard and N. C. Kyrpides | New insights from uncultivated genomes of the global human gut microbiome | Nature | 568(7753) 505-510 |
| 2019 | 10.1186/s12859-019-2844-z | Navid, A., Y. Jiao, S. E. Wong and J. Pett-Ridge | System-level analysis of metabolic trade-offs during anaerobic photoheterotrophic growth in Rhodopseudomonas palustris | BMC Bioinformatics | 20(1) 233 |
| 2019 | 10.1016/j.cub.2019.09.024 | Navarro-Mendoza, M. I., C. Pérez-Arques, S. Panchal, F. E. Nicolás, S. J. Mondo, P. Ganguly, J. Pangilinan, I. V. Grigoriev, J. Heitman, K. Sanyal and V. Garre | Early Diverging Fungus Mucor circinelloides Lacks Centromeric Histone CENP-A and Displays a Mosaic of Point and Regional Centromeres | Current Biology | 29(22) 3791-3802.e6 |
| 2019 | 10.1128/mSystems.00320-19 | Narrowe, A. B., M. A. Borton, D. W. Hoyt, G. J. Smith, R. A. Daly, J. C. Angle, E. K. Eder, A. R. Wong, R. A. Wolfe, A. Pappas, G. Bohrer, C. S. Miller and K. C. Wrighton | Uncovering the Diversity and Activity of Methylotrophic Methanogens in Freshwater Wetland Soils | mSystems | 4(6) |
| 2019 | 10.1039/c8cc07482h | Nagy, G., D. Velickovic, R. K. Chu, A. A. Carrell, D. J. Weston, Y. M. Ibrahim, C. R. Anderton and R. D. Smith | Towards resolving the spatial metabolome with unambiguous molecular annotations in complex biological systems by coupling mass spectrometry imaging with structures for lossless ion manipulations | Chemical Communications | 55(3) 306–9 |
| 2019 | 10.1111/tpj.14223 | Na, G., X. Mu, P. Grabowski, J. Schmutz and C. Lu | Enhancing microRNA167A expression in seed decreases the α-linolenic acid content and increases seed size in Camelina sativa | The Plant Journal | 98(2) 346-358 |
| 2019 | 10.1111/tpj.14223 | Na, G., X. Mu, P. Grabowski, J. Schmutz and C. Lu | Enhancing microRNA167A expression in seed decreases the α-linolenic acid content and increases seed size in Camelina sativa | The Plant Journal | 98(2) 346–58 |
| 2019 | 10.1371/journal.pgen.1008037 | Myers, K. S., N. M. Riley, M. E. MacGilvray, T. K. Sato, M. McGee, J. Heilberger, J. J. Coon and A. P. Gasch | Rewired cellular signaling coordinates sugar and hypoxic responses for anaerobic xylose fermentation in yeast | PLoS Genetics | 15(3) e1008037 |
| 2019 | 10.1038/s41467-018-08177-8 | Mutalik, V. K., P. S. Novichkov, M. N. Price, T. K. Owens, M. Callaghan, S. Carim, A. M. Deutschbauer and A. P. Arkin | Dual-barcoded shotgun expression library sequencing for high-throughput characterization of functional traits in bacteria | Nature Communications | 10(1) 308 |
| 2019 | 10.3791/59992 | Murphy, K. M., S. Chung, S. Fogla, H. B. Minsky, K. Y. Zhu and P. Zerbe | A Customizable Approach for the Enzymatic Production and Purification of Diterpenoid Natural Products | Journal of Visualized Experiments | (152) |
| 2019 | 10.1111/nph.15479 | Murik, O., L. Tirichine, J. Prihoda, Y. Thomas, W. L. Araujo, A. E. Allen, A. R. Fernie and C. Bowler | Downregulation of mitochondrial alternative oxidase affects chloroplast function, redox status and stress response in a marine diatom | New Phytologist | 221(3) 1303–16 |
| 2019 | 10.1016/j.pbi.2019.05.004 | Muller, L. M. and M. J. Harrison | Phytohormones, miRNAs, and peptide signals integrate plant phosphorus status with arbuscular mycorrhizal symbiosis | Current Opinion in Plant Biology | 50 132–9 |
| 2019 | 10.1038/s41477-019-0501-1 | Muller, L. M., K. Flokova, E. Schnabel, X. Sun, Z. Fei, J. Frugoli, H. J. Bouwmeester and M. J. Harrison | A CLE-SUNN module regulates strigolactone content and fungal colonization in arbuscular mycorrhiza | Nature Plants | 5(9) 933–9 |
| 2019 | 10.3389/fpls.2019.01144 | Muchlinski, A., X. Chen, J. T. Lovell, T. G. Köllner, K. A. Pelot, P. Zerbe, M. Ruggiero, L. Callaway, S. Laliberte, F. Chen and D. Tholl | Biosynthesis and Emission of Stress-Induced Volatile Terpenes in Roots and Leaves of Switchgrass (Panicum virgatum L.) | Frontiers in Plant Science | 10 |
| 2019 | 10.1007/s10295-018-02122-w | Mouncey, N. J., H. Otani, D. Udwary and Y. Yoshikuni | New voyages to explore the natural product galaxy | Journal of Industrial Microbiology and Biotechnology | 46(45720) 273-279 |
| 2019 | 10.1039/c9ee00447e | Motagamwala, A. H., K. F. Huang, C. T. Maravelias and J. A. Dumesic | Solvent system for effective near-term production of hydroxymethylfurfural (HMF) with potential for long-term process improvement | Energy & Environmental Science | 12(7) 2212–22 |
| 2019 | 10.1021/bk-2019-1338.ch007 | Mostofian, B., L. Petridis and C. M. Cai | Exploring Molecular Mechanisms of Cosolvent Enhanced Biomass Deconstruction: An Overview of Recent Progress | Understanding Lignocellulose: Synergistic Computational and Analytic Methods | 1338 103–17 |
| 2019 | 10.3389/fpls.2019.00292 | Moseley, R. C., G. A. Tuskan and X. Yang | Comparative genomics analysis provides new insight into molecular basis of stomatal movement in Kalanchoë fedtschenkoi | Frontiers in Plant Science | 10 |
| 2019 | 10.2174/0929866526666181128125725 | Morton, S. A., S. Gupta, C. J. Petzold and C. Y. Ralston | Recent Advances in X-Ray Hydroxyl Radical Footprinting at the Advanced Light Source Synchrotron | Protein & Peptide Letters | 26(1) 70–5 |
| 2019 | 10.1038/s41592-019-0616-3 | Morton, J. T., A. A. Aksenov, L. F. Nothias, J. R. Foulds, R. A. Quinn, et al. | Learning representations of microbe-metabolite interactions | Nature Methods | 16(12) 1306–14 |
| 2019 | 10.1177/1535370218793890 | Mortimer, J. C. | Plant synthetic biology could drive a revolution in biofuels and medicine | Experimental Biology and Medicine | 244(4) 323–31 |
| 2019 | 10.1038/s41559-019-0918-y | Morrissey, E. M., R. L. Mau, M. Hayer, X. A. Liu, E. Schwartz, P. Dijkstra, B. J. Koch, K. Allen, S. J. Blazewicz, K. Hofmockel, J. Pett-Ridge and B. A. Hungate | Evolutionary history constrains microbial traits across environmental variation | Nature Ecology & Evolution | 3(7) 1064–9 |
| 2019 | 10.1111/nph.15687 | Morin, E., S. Miyauchi, H. San Clemente, E. C. H. Chen, A. Pelin, et al. | Comparative genomics of Rhizophagus irregularis, R. cerebriforme, R. diaphanus and Gigaspora rosea highlights specific genetic features in Glomeromycotina | New Phytologist | 222(3) 1584-1598 |
| 2019 | 10.1101/661256 | Moore, K. A., J. W. Tay and J. C. Cameron | Multi-generational Analysis and Manipulation of Chromosomes in a Polyploid Cyanobacterium | bioRxiv | |
| 2019 | 10.1073/pnas.1817074116 | Moore, B. M., P. Wang, P. Fan, B. Leong, C. A. Schenck, J. P. Lloyd, M. D. Lehti-Shiu, R. L. Last, E. Pichersky and S. H. Shiu | Robust predictions of specialized metabolism genes through machine learning | Proceedings of the National Academy of Sciences of the United States of America | 116(6) 2344–53 |
| 2019 | 10.1186/s13068-019-1569-6 | Mondo, S. J., D. J. Jiménez, R. E. Hector, A. Lipzen, M. Yan, K. LaButti, K. Barry, J. D. van Elsas, I. V. Grigoriev and N. N. Nichols | Genome expansion by allopolyploidization in the fungal strain Coniochaeta 2T2.1 and its exceptional lignocellulolytic machinery | Biotechnology for Biofuels | 12(1) 229 |
| 2019 | 10.7146/torture.v29i1.112897 | Momartin, S., M. Coello, E. Pittaway, R. Downham and J. Aroche | Capoeira angola: An alternative intervention program for traumatized adolescent refugees from war-torn countries | Torture | 29(1) 85-96 |
| 2019 | 10.1016/j.biortech.2018.10.049 | Mokomele, T., L. da Costa Sousa, V. Balan, E. van Rensburg, B. E. Dale and J. F. Gorgens | Incorporating anaerobic co-digestion of steam exploded or ammonia fiber expansion pretreated sugarcane residues with manure into a sugarcane-based bioenergy-livestock nexus | Bioresource Technology | 272 326–36 |
| 2019 | 10.1096/fasebj.2019.33.1_supplement.216.2 | Mohnen, D. A., R. A. Amos, A. K. Biswal, K. A. Engle, D. K. Ryno, S. S. Mohanty and M. A. Atmodjo | A new model for the biochemistry of pectin synthesis: GAUTs synthesize diverse HG glycans in structurally and functionally distinct plant cell wall polymers | The FASEB Journal | 33 |
| 2019 | 10.1002/slct.201802187 | Mohapatra, S., C. Mishra, B. B. Merritt, S. Pattathil and H. Thatoi | Evaluating the Role of Ultrasonication-Assisted Alkali Pretreatment and Enzymatic Hydrolysis on Cellwall Polysaccharides of Pennisetum Grass Varieties as Potential Biofuel Feedstock | ChemistrySelect | 4(3) 1042–54 |
| 2019 | 10.1007/s11627-019-09993-3 | Mohan, C., D. D. Wang and F. Altpeter | Establishing a Rapid Readout System for Genome Editing of Sugarcane | In Vitro Cellular & Developmental Biology-Plant | 55(4) 487 |
| 2019 | 10.1038/s41467-019-08672-6 | Mizuno, C. M., C. Guyomar, S. Roux, R. Lavigne, F. Rodriguez-Valera, M. B. Sullivan, R. Gillet, P. Forterre and M. Krupovic | Numerous cultivated and uncultivated viruses encode ribosomal proteins | Nature Communications | 10(1) 752 |
| 2019 | 10.1016/j.ydbio.2019.03.015 | Mitros, T., J. B. Lyons, A. M. Session, J. Jenkins, S. Shu, T. Kwon, M. Lane, C. Ng, T. C. Grammer, M. K. Khokha, J. Grimwood, J. Schmutz, R. M. Harland and D. S. Rokhsar | A chromosome-scale genome assembly and dense genetic map for Xenopus tropicalis | Developmental Biology | 452(1) 45889 |
| 2019 | 10.1128/msphere.00348-19 | Mitchell, A., I. Blader, P. Bradford, S. D’Orazio, W. P. Duprex, C. D. Ellermeier, A. Fernandez-Sesma, M. J. Imperiale, K. McMahon, M. F. Pasetti and S. Tringe | mSphere of Influence: the View from the Microbiologists of the Future | mSphere | 4(3) |
| 2019 | 10.1021/acs.accounts.9b00011 | Mirts, E. N., A. Bhagi-Damodaran and Y. Lu | Understanding and Modulating Metalloenzymes with Unnatural Amino Acids, Non-Native Metal Ions, and Non-Native Metallocofactors | Accounts of Chemical Research | 52(4) 935–44 |
| 2019 | 10.1186/s40694-019-0071-z | Millet, L. J., J. Aufrecht, J. Labbe, J. Uehling, R. Vilgalys, M. L. Estes, C. Miquel Guennoc, A. Deveau, S. Olsson, G. Bonito, M. J. Doktycz and S. T. Retterer | Increasing access to microfluidics for studying fungi and other branched biological structures | Fungal Biology and Biotechnology | 6 1 |
| 2019 | 10.3389/fmicb.2019.00515 | Mewalal, R., H. Yin, R. Hu, S. Jawdy, P. Vion, G. A. Tuskan, F. Le Tacon, J. L. Labbe and X. Yang | Identification of Populus Small RNAs Responsive to Mutualistic Interactions With Mycorrhizal Fungi, Laccaria bicolor and Rhizophagus irregularis | Frontiers in Microbiology | 10 515 |
| 2019 | 10.1016/j.biortech.2018.09.130 | Meng, X., A. Parikh, B. Seemala, R. Kumar, Y. Pu, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Characterization of fractional cuts of co-solvent enhanced lignocellulosic fractionation lignin isolated by sequential precipitation | Bioresource Technology | 272 202–8 |
| 2019 | 10.1038/s41596-019-0191-1 | Meng, X., C. Crestini, H. Ben, N. Hao, Y. Pu, A. J. Ragauskas and D. S. Argyropoulos | Determination of hydroxyl groups in biorefinery resources via quantitative 31P NMR spectroscopy | Nature Protocols | 14(9) 2627–47 |
| 2019 | 10.1080/23802359.2018.1547140 | Méndez-Leyva, A. B., J. Guo, E. A. Mudd, J. Wong, J.-M. Schwartz and A. Day | The chloroplast genome of the marine microalga Tisochrysis lutea | Mitochondrial DNA Part B | 4(1) 253–55 |
| 2019 | 10.1038/s41467-019-09090-4 | Mellmer, M. A., C. Sanpitakseree, B. Demir, K. Ma, W. A. Elliott, P. Bai, R. L. Johnson, T. W. Walker, B. H. Shanks, R. M. Rioux, M. Neurock and J. A. Dumesic | Effects of chloride ions in acid-catalyzed biomass dehydration reactions in polar aprotic solvents | Nature Communications | 10(1) 1132 |
| 2019 | 10.2138/gselements.15.2.111 | Meile, C. and T. D. Scheibe | Reactive Transport Modeling of Microbial Dynamics | Elements | 15(2) 111–6 |
| 2019 | 10.1002/pld3.181 | Mei, Y., B. M. Beernink, E. E. Ellison, E. Konecna, A. K. Neelakandan, D. F. Voytas and S. A. Whitham | Protein expression and gene editing in monocots using foxtail mosaic virus vectors | Plant Direct | 3(11) e00181 |
| 2019 | 10.1016/j.ymben.2019.06.003 | Mehrer, C. R., J. M. Rand, M. R. Incha, T. B. Cook, B. Demir, A. H. Motagamwala, D. Kim, J. A. Dumesic and B. F. Pfleger | Growth-coupled bioconversion of levulinic acid to butanone | Metabolic Engineering | 55 92–101 |
| 2019 | 10.1002/bit.26976 | McTaggart, T. L., D. Bever, S. Bassett and N. A. Da Silva | Synthesis of polyketides from low cost substrates by the thermotolerant yeast Kluyveromyces marxianus | Biotechnology and Bioengineering | 116(7) 1721–30 |
| 2019 | 10.1038/s41564-019-0362-4 | McKay, L. J., M. Dlakić, M. W. Fields, T. O. Delmont, A. M. Eren, Z. J. Jay, K. B. Klingelsmith, D. B. Rusch and W. P. Inskeep | Co-occurring genomic capacity for anaerobic methane and dissimilatory sulfur metabolisms discovered in the Korarchaeota | Nature Microbiology | 4(4) 614–22 |
| 2019 | 10.1128/MRA.01538-18 | McComb, E., J. Holm, B. Ma and J. Ravel | Complete Genome Sequence of Lactobacillus crispatus CO3MRSI1 | Microbiology Resource Announcements | 8(5) |
| 2019 | 10.1128/msystems.00114-19 | McClure, R. S. | Toward a Better Understanding of Species Interactions through Network Biology | mSystems | 4(3) |
| 2019 | 10.1039/c9gc00589g | McClelland, D. J., P. H. Galebach, A. H. Motagamwala, A. M. Wittrig, S. D. Karlen, J. S. Buchanan, J. A. Dumesic and G. W. Huber | Supercritical methanol depolymerization and hydrodeoxygenation of lignin and biomass over reduced copper porous metal oxides | Green Chemistry | 21(11) 2988–3005 |
| 2019 | 10.1186/s12870-019-1653-x | Mazaheri, M., M. Heckwolf, B. Vaillancourt, J. L. Gage, B. Burdo, et al. | Genome-wide association analysis of stalk biomass and anatomical traits in maize | BMC Plant Biology | 19(1) 45 |
| 2019 | 10.1007/978-1-4939-9721-3_6 | Mayali, X., P. K. Weber, E. Nuccio, J. Lietard, M. Somoza, S. J. Blazewicz and J. Pett-Ridge | Chip-SIP: Stable Isotope Probing Analyzed with rRNA-Targeted Microarrays and NanoSIMS | Methods in Molecular Biology | 2046 71–87 |
| 2019 | 10.1128/MRA.01518-18 | Matu, A., A. Lum Nde, L. Oosthuizen, A. Hitzeroth, M. Badenhorst, et al. | Draft Genome Sequences of Seven Chryseobacterium Type Strains | Microbiology Resource Announcements | 8(1) |
| 2019 | 10.1038/s41467-018-08246-y | Matheus Carnevali, P. B., F. Schulz, C. J. Castelle, R. S. Kantor, P. M. Shih, et al. | Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria | Nature Communications | 10(1) 463 |
| 2019 | 10.1186/s12864-019-5485-8 | Masonbrink, R., T. R. Maier, U. Muppirala, A. S. Seetharam, E. Lord, et al. | The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes | BMC Genomics | 20(1) 119 |
| 2019 | 10.1038/s41396-019-0410-3 | Martiny, A. C. | High proportions of bacteria are culturable across major biomes | The ISME Journal | 13(8) 2125–8 |
| 2019 | 10.1128/AEM.00189-19 | Martins, P. D., J. Frank, H. Mitchell, L. M. Markillie and M. J. Wilkins | Wetland Sediments Host Diverse Microbial Taxa Capable of Cycling Alcohols | Applied and Environmental Microbiology | 85(12) e00189-19 |
| 2019 | 10.1128/mSystems.00016-19 | Martino, C., J. T. Morton, C. A. Marotz, L. R. Thompson, A. Tripathi, R. Knight and K. Zengler | A Novel Sparse Compositional Technique Reveals Microbial Perturbations | mSystems | 4(1) |
| 2019 | 10.1002/bbb.1989 | Martinez-Hernandez, E., X. Cui, C. D. Scown, M. A. Amezcua-Allieri, J. Aburto and B. A. Simmons | Techno-economic and greenhouse gas analyses of lignin valorization to eugenol and phenolic products in integrated ethanol biorefineries | Biofuels, Bioproducts and Biorefining | 13(4) 978–93 |
| 2019 | 10.1016/j.syapm.2018.12.003 | Martinez, M. A., B. J. Woodcroft, J. C. Ignacio Espinoza, A. A. Zayed, C. M. Singleton, et al. | Discovery and ecogenomic context of a global Caldiserica-related phylum active in thawing permafrost, Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., comprising the four species Cryosericum septentrionale gen. nov. sp. nov., Ca. C. hinesii sp. nov., Ca. C. odellii sp. nov., Ca. C. terrychapinii sp. nov | Systematic and Applied Microbiology | 42(1) 54–66 |
| 2019 | 10.1016/j.syapm.2018.12.003 | Martinez, M. A., B. J. Woodcroft, J. C. Ignacio Espinoza, A. A. Zayed, C. M. Singleton, et al. | Discovery and ecogenomic context of a global Caldiserica-related phylum active in thawing permafrost, Candidatus Cryosericota phylum nov., Ca. Cryosericia class nov., Ca. Cryosericales ord. nov., Ca. Cryosericaceae fam. nov., comprising the four species Cryosericum septentrionale gen. nov. sp. nov., Ca. C. hinesii sp. nov., Ca. C. odellii sp. nov., Ca. C. terrychapinii sp. nov | Systematic and Applied Microbiology | 42(1) 54-66 |
| 2019 | 10.1128/mSystems.00284-18 | Martien, J. I., A. S. Hebert, D. M. Stevenson, M. R. Regner, D. B. Khana, J. J. Coon and D. Amador-Noguez | Systems-Level Analysis of Oxygen Exposure in Zymomonas mobilis: Implications for Isoprenoid Production | mSystems | 4(1) |
| 2019 | 10.2144/btn-2018-0192 | Marotz, C., A. Sharma, G. Humphrey, N. Gottel, C. Daum, J. A. Gilbert, E. Eloe-Fadrosh and R. Knight | Triplicate PCR reactions for 16S rRNA gene amplicon sequencing are unnecessary | BioTechniques | 67(1) 29–32 |
| 2019 | 10.1073/pnas.1913803116 | Marckmann, D., P. I. Trasnea, J. Schimpf, C. Winterstein, A. Andrei, S. Schmollinger, C. E. Blaby-Haas, T. Friedrich, F. Daldal and H. G. Koch | The cbb3-type cytochrome oxidase assembly factor CcoG is a widely distributed cupric reductase | Proceedings of the National Academy of Sciences of the United States of America | 116(42) 21166–75 |
| 2019 | 10.1016/j.watres.2019.04.038 | Mao, X., B. Stenuit, J. Tremblay, K. Yu, S. G. Tringe and L. Alvarez-Cohen | Structural dynamics and transcriptomic analysis of Dehalococcoides mccartyi within a TCE-Dechlorinating community in a completely mixed flow reactor | Water Research | 158 146-156 |
| 2019 | 10.1016/bs.aecr.2019.06.009 | Manning, P., J. Loos, A. D. Barnes, P. Batáry, F. J. J. A. Bianchi, et al. | Transferring biodiversity-ecosystem function research to the management of ‘real-world’ ecosystems | Advances in Ecological Research | 61 323-356 |
| 2019 | 10.1104/pp.19.00533 | Man Ha, C., D. Fine, A. Bhatia, X. Rao, M. Z. Martin, N. L. Engle, D. J. Wherritt, T. J. Tschaplinski, L. W. Sumner and R. A. Dixon | Ectopic Defense Gene Expression Is Associated with Growth Defects in Medicago truncatula Lignin Pathway Mutants | Plant Physiology | 181(1) 63–84 |
| 2019 | 10.1128/msystems.00118-19 | Malmstrom, R. R. and E. A. Eloe-Fadrosh | Advancing Genome-Resolved Metagenomics beyond the Shotgun | mSystems | 4(3) |
| 2019 | 10.1016/j.soilbio.2019.01.025 | Malik, A. A., J. Puissant, T. Goodall, S. D. Allison and R. I. Griffiths | Soil microbial communities with greater investment in resource acquisition have lower growth yield | Soil Biology and Biochemistry | 132 36-39 |
| 2019 | 10.1016/j.copbio.2018.10.014 | Mahon, E. L. and S. D. Mansfield | Tailor-made trees: engineering lignin for ease of processing and tomorrow's bioeconomy | Current Opinion in Biotechnology | 56 147–55 |
| 2019 | 10.1099/ijsem.0.004720 | Mahmoud, H., L. Jose and S. Eapen | Grimontia sedimenti sp. nov., isolated from benthic sediments near coral reefs south of Kuwait | International Journal of Systematic and Evolutionary Microbiology | 71(3) |
| 2019 | 10.1515/jib-2019-0025 | Madsen, C., A. G. Moreno, U. P, Z. Palchick, N. Roehner, et al. | Synthetic Biology Open Language (SBOL) Version 2.3 | Journal of Integrative Bioinformatics | 16(2) |
| 2019 | 10.1007/978-3-030-17743-0_6 | Macioszek, E. and D. Lach | The Analysis of Roundabouts Perception by Drivers, Cyclists and Pedestrians | Springer Proceedings in Business and Economics | 61-75 |
| 2019 | 10.1073/pnas.1820001116 | Machovina, M. M., S. J. B. Mallinson, B. C. Knott, A. W. Meyers, M. Garcia-Borras, et al. | Enabling microbial syringol conversion through structure-guided protein engineering | Proceedings of the National Academy of Sciences of the United States of America | 116(28) 13970–6 |
| 2019 | 10.1186/s12864-018-5393-3 | Ma, F., B. K. Fuqua, Y. Hasin, C. Yukhtman, C. D. Vulpe, A. J. Lusis and M. Pellegrini | A comparison between whole transcript and 3' RNA sequencing methods using Kapa and Lexogen library preparation methods | BMC Genomics | 20(1) 9 |
| 2019 | 10.1073/pnas.1818275116 | Luu, D. D., A. Joe, Y. Chen, K. Parys, O. Bahar, R. Pruitt, L. J. G. Chan, C. J. Petzold, K. Long, C. Adamchak, V. Stewart, Y. Belkhadir and P. C. Ronald | Biosynthesis and secretion of the microbial sulfated peptide RaxX and binding to the rice XA21 immune receptor | Proceedings of the National Academy of Sciences | 116(17) 8525–34 |
| 2019 | 10.1534/genetics.119.302749 | Lütkenhaus, R., S. Traeger, J. Breuer, L. Carreté, A. Kuo, A. Lipzen, J. Pangilinan, D. Dilworth, L. Sandor, S. Pöggeler, T. Gabaldón, K. Barry, I. V. Grigoriev and M. Nowrousian | Comparative Genomics and Transcriptomics To Analyze Fruiting Body Development in Filamentous Ascomycetes | Genetics | 213(4) 1545-1563 |
| 2019 | 10.1016/j.coisb.2019.01.001 | Lugagne, J. B. and M. J. Dunlop | Cell-machine interfaces for characterizing gene regulatory network dynamics | Current Opinion in Systems Biology | 14 45665 |
| 2019 | 10.1039/C8EM00331A | Luek, J. L., M. Harir, P. Schmitt-Kopplin, P. J. Mouser and M. Gonsior | Organic sulfur fingerprint indicates continued injection fluid signature 10 months after hydraulic fracturing | Environmental Science: Processes & Impacts | 21(2) 206-213 |
| 2019 | 10.3389/fbioe.2019.00249 | Lubbers, R. J. M., A. Dilokpimol, J. Navarro, M. Peng, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev, J. Visser, K. S. Hildén and R. P. de Vries | Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger | Frontiers in Bioengineering and Biotechnology | 7 |
| 2019 | 10.3389/fpls.2019.01744 | Lu, S., M. Aziz, D. Sturtevant, K. D. Chapman and L. Guo | Heterogeneous Distribution of Erucic Acid in Brassica napus Seeds | Frontiers in Plant Science | 10 1744 |
| 2019 | 10.1016/j.biortech.2019.121589 | Lu, K., N. Hao, X. Meng, Z. Luo, G. A. Tuskan and A. J. Ragauskas | Investigating the correlation of biomass recalcitrance with pyrolysis oil using poplar as the feedstock | Bioresource Technology | 289 121589 |
| 2019 | 10.1073/pnas.1821543116 | Lowry, D. B., J. T. Lovell, L. Zhang, J. Bonnette, P. A. Fay, et al. | QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient | Proceedings of the National Academy of Sciences of the United States of America | 116(26) 12933-12941 |
| 2019 | 10.1128/mra.00264-19 | López, S. C., M. Peng, P. Daly, B. Andreopoulos, J. Pangilinan, et al. | Draft Genome Sequences of Three Monokaryotic Isolates of the White-Rot Basidiomycete Fungus Dichomitus squalens | Microbiology Resource Announcements | 8(18) |
| 2019 | 10.1007/s10021-019-00439-w | Looby, C. I., E. C. Hollenbeck and K. K. Treseder | Fungi in the Canopy: How Soil Fungi and Extracellular Enzymes Differ Between Canopy and Ground Soils | Ecosystems | 23(4) 768–82 |
| 2019 | 10.1111/tpj.14349 | Lonardi, S., M. Muñoz-Amatriaín, Q. Liang, S. Shu, S. I. Wanamaker, et al. | The genome of cowpea (Vigna unguiculata [L.] Walp.) | The Plant Journal | 98(5) 767-782 |
| 2019 | 10.3389/fmicb.2019.00124 | Lohberger, A., J. E. Spangenberg, Y. Ventura, S. Bindschedler, E. P. Verrecchia, R. Bshary and P. Junier | Effect of Organic Carbon and Nitrogen on the Interactions of Morchella spp. and Bacteria Dispersing on Their Mycelium | Frontiers in Microbiology | 10 124 |
| 2019 | 10.1128/jb.00405-18 | Lo, J., T. Zheng, S. Hon, D. G. Olson and L. R. Lynd | Correction for Lo et al., “The Bifunctional Alcohol and Aldehyde Dehydrogenase Gene, adhE, Is Necessary for Ethanol Production in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum” | Journal of Bacteriology | 201(1) |
| 2019 | 10.1038/s41598-019-47797-y | Lloyd, J. P., M. J. Bowman, C. B. Azodi, R. P. Sowers, G. D. Moghe, K. L. Childs and S. H. Shiu | Evolutionary characteristics of intergenic transcribed regions indicate rare novel genes and widespread noisy transcription in the Poaceae | Scientific Reports | 9(1) 12122 |
| 2019 | 10.1021/acssynbio.8b00485 | Liu, Y., R. Landick and S. Raman | A Regulatory NADH/NAD+ Redox Biosensor for Bacteria | ACS Synthetic Biology | 8(2) 264–73 |
| 2019 | 10.1038/s41467-019-09836-0 | Liu, Y., D. T. Huynh and T. O. Yeates | A 3.8 Å resolution cryo-EM structure of a small protein bound to an imaging scaffold | Nature Communications | 10(1) 1864 |
| 2019 | 10.1021/acssuschemeng.9b02800 | Liu, X. R., Y. D. Li, C. M. Ewulonu, J. Ralph, F. Xu, Q. L. Zhang, M. Wu and Y. Huang | Mild Alkaline Pretreatment for Isolation of Native-Like Lignin and Lignin-Containing Cellulose Nanofibers (LCNF) from Crop Waste | ACS Sustainable Chemistry & Engineering | 7(16) 14135–42 |
| 2019 | 10.1093/nar/gkz772 | Liu, X., S. T. P. Gupta, D. Bhimsaria, J. L. Reed, J. A. Rodríguez-Martínez, A. Z. Ansari and S. Raman | De novo design of programmable inducible promoters | Nucleic Acids Research | 47(19) 10452–63 |
| 2019 | 10.1111/oik.05548 | Liu, S. S., J. Streich, J. O. Borevitz, K. J. Rice, T. T. Li, B. Li and K. J. Bradford | Environmental resource deficit may drive the evolution of intraspecific trait variation in invasive plant populations | Oikos | 128(2) 171–84 |
| 2019 | 10.1038/s41467-019-13500-y | Liu, R. M., L. L. Liang, E. Freed, H. Chang, E. Oh, Z. Y. Liu, A. Garst, C. A. Eckert and R. T. Gill | Synthetic chimeric nucleases function for efficient genome editing | Nature Communications | 10(1) 5524 |
| 2019 | 10.1016/j.ymben.2018.07.007 | Liu, R., L. Liang, A. Choudhury, A. D. Garst, C. A. Eckert, E. J. Oh, J. Winkler and R. T. Gill | Multiplex navigation of global regulatory networks (MINR) in yeast for improved ethanol tolerance and production | Metabolic Engineering | 51 50–8 |
| 2019 | 10.1038/s41396-018-0255-1 | Liu, N., H. Li, M. G. Chevrette, L. Zhang, L. Cao, H. Zhou, X. Zhou, Z. Zhou, P. B. Pope, C. R. Currie, Y. Huang and Q. Wang | Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite | The ISME Journal | 13(1) 104–17 |
| 2019 | 10.1371/journal.pcbi.1006848 | Liu, J. K., C. Lloyd, M. M. Al-Bassam, A. Ebrahim, J. N. Kim, C. Olson, A. Aksenov, P. Dorrestein and K. Zengler | Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen | PLoS Computational Biology | 15(3) e1006848 |
| 2019 | 10.1038/s41467-019-09288-6 | Liu, J. J., G. C. Zhang, S. Kwak, E. J. Oh, E. J. Yun, K. Chomvong, J. H. D. Cate and Y. S. Jin | Overcoming the thermodynamic equilibrium of an isomerization reaction through oxidoreductive reactions for biotransformation | Nature Communications | 10(1) 1356 |
| 2019 | 10.1021/acssynbio.9b00110 | Liu, F., J. Mao, T. Lu and Q. Hua | Synthetic, Context-Dependent Microbial Consortium of Predator and Prey | ACS Synthetic Biology | 8(8) 1713–22 |
| 2019 | 10.1093/jxb/erz415 | Liu, D., M. Chen, B. Mendoza, H. Cheng, R. Hu, L. Li, C. T. Trinh, G. A. Tuskan and X. Yang | CRISPR/Cas9-mediated targeted mutagenesis for functional genomics research of crassulacean acid metabolism plants | Journal of Experimental Botany | 70(22) 6621–9 |
| 2019 | 10.3389/fpls.2019.00693 | Liu, C.-J., Y. Zhao and K. Zhang | Cytokinin Transporters: Multisite Players in Cytokinin Homeostasis and Signal Distribution | Frontiers in Plant Science | 10 |
| 2019 | 10.1186/s12934-019-1101-5 | Lis, A. V., K. Schneider, J. Weber, J. D. Keasling, M. K. Jensen and T. Klein | Exploring small-scale chemostats to scale up microbial processes: 3-hydroxypropionic acid production in S. cerevisiae | Microbial Cell Factories | 18(1) 50 |
| 2019 | 10.1007/s12042-019-09238-y | Lin, J. S., M. T. Zhu, M. X. Cai, W. P. Zhang, M. Fatima, H. F. Jia, F. F. Li and R. Ming | Identification and Expression Analysis of TCP Genes in Saccharum spontaneum L | Tropical Plant Biology | 12(3) 206–18 |
| 2019 | 10.3389/fpls.2019.00101 | Lim, S. D., S. Lee, W. G. Choi, W. C. Yim and J. C. Cushman | Laying the Foundation for Crassulacean Acid Metabolism (CAM) Biodesign: Expression of the C4 Metabolism Cycle Genes of CAM in Arabidopsis | Frontiers in Plant Science | 10 101 |
| 2019 | 10.1094/MPMI-05-18-0133-R | Liao, H. L., G. Bonito, J. A. Rojas, K. Hameed, S. Wu, C. W. Schadt, J. Labbe, G. A. Tuskan, F. Martin, I. V. Grigoriev and R. Vilgalys | Fungal Endophytes of Populus trichocarpa Alter Host Phenotype, Gene Expression, and Rhizobiome Composition | Molecular Plant-Microbe Interactions | 32(7) 853–64 |
| 2019 | 10.1094/mpmi-05-18-0133-r | Liao, H.-L., G. Bonito, J. A. Rojas, K. Hameed, S. Wu, C. W. Schadt, J. Labbé, G. A. Tuskan, F. Martin, I. V. Grigoriev and R. Vilgalys | Fungal Endophytes of Populus trichocarpa Alter Host Phenotype, Gene Expression, and Rhizobiome Composition | Molecular Plant-Microbe Interactions® | 32(7) 853-864 |
| 2019 | 10.1186/s13068-019-1467-y | Liang, Y., A. Eudes, S. Yogiswara, B. Jing, V. T. Benites, R. Yamanaka, C. Cheng-Yue, E. E. Baidoo, J. C. Mortimer, H. V. Scheller and D. Loqué | A screening method to identify efficient sgRNAs in Arabidopsis, used in conjunction with cell-specific lignin reduction | Biotechnology for Biofuels | 12(1) 130 |
| 2019 | 10.1016/j.gee.2018.07.002 | Liang, L., J. Yan, Q. He, T. Luong, T. R. Pray, B. A. Simmons and N. Sun | Scale-up of biomass conversion using 1-ethyl-3-methylimidazolium acetate as the solvent | Green Energy & Environment | 4(4) 432–8 |
| 2019 | 10.1038/s41467-019-13621-4 | Lian, J., C. Schultz, M. Cao, M. HamediRad and H. Zhao | Multi-functional genome-wide CRISPR system for high throughput genotype–phenotype mapping | Nature Communications | 10(1) |
| 2019 | 10.3389/fmicb.2019.02706 | Li, Z., Q. Yao, X. Guo, A. Crits-Christoph, M. A. Mayes, W. I. Hervey, S. L. Lebeis, J. F. Banfield, G. B. Hurst, R. L. Hettich and C. Pan | Genome-Resolved Proteomic Stable Isotope Probing of Soil Microbial Communities Using 13CO2 and 13C-Methanol | Frontiers in Microbiology | 10 2706 |
| 2019 | 10.1039/c9gc00986h | Li, Y. D., B. Demir, L. M. V. Ramos, M. J. Chen, J. A. Dumesice and O. Ralph | Kinetic and mechanistic insights into hydrogenolysis of lignin to monomers in a continuous flow reactor | Green Chemistry | 21(13) 3561–72 |
| 2019 | 10.1111/gcb.14628 | Li, Y., K. Guan, G. D. Schnitkey, E. DeLucia and B. Peng | Excessive rainfall leads to maize yield loss of a comparable magnitude to extreme drought in the United States | Global Change Biology | 25(7) 2325–37 |
| 2019 | 10.1126/sciadv.aav1848 | Li, X. C., D. Peris, C. T. Hittinger, E. A. Sia and J. C. Fay | Mitochondria-encoded genes contribute to evolution of heat and cold tolerance in yeast | Science Advances | 5(1) eaav1848 |
| 2019 | 10.3390/plants8040085 | Li, S., G. Courbet, A. Ourry and E. A. Ainsworth | Elevated Ozone Concentration Reduces Photosynthetic Carbon Gain but Does Not Alter Leaf Structural Traits, Nutrient Composition or Biomass in Switchgrass | Plants | 8(4) |
| 2019 | 10.1128/AEM.02931-18 | Li, Q., R. Guo, Y. Li, W. H. Hartman, S. Li, Z. Zhang, S. G. Tringe and H. Wang | Insight into the Bacterial Endophytic Communities of Peach Cultivars Related to Crown Gall Disease Resistance | Applied and Environmental Microbiology | 85(9) e02931-18 |
| 2019 | 10.1021/acs.jpcb.9b05882 | Li, P. N., J. Herrmann, S. Wakatsuki and H. van den Bedem | Transport Properties of Nanoporous, Chemically Forced Biological Lattices | J Phys Chem B | 123(49) 10331-10342 |
| 2019 | 10.1038/s42003-018-0265-6 | Li, M., C. G. Yoo, Y. Pu, A. K. Biswal, A. K. Tolbert, D. Mohnen and A. J. Ragauskas | Downregulation of pectin biosynthesis gene GAUT4 leads to reduced ferulate and lignin-carbohydrate cross-linking in switchgrass | Communications Biology | 2 22 |
| 2019 | 10.1111/gcb.14517 | Li, J., G. Wang, M. A. Mayes, S. D. Allison, S. D. Frey, Z. Shi, X. M. Hu, Y. Luo and J. M. Melillo | Reduced carbon use efficiency and increased microbial turnover with soil warming | Global Change Biology | 25(3) 900–10 |
| 2019 | 10.1038/s41396-019-0422-z | Li, J., R. L. Mau, P. Dijkstra, B. J. Koch, E. Schwartz, X. A. Liu, E. M. Morrissey, S. J. Blazewicz, J. Pett-Ridge, B. W. Stone, M. Hayer and B. A. Hungate | Predictive genomic traits for bacterial growth in culture versus actual growth in soil | The ISME Journal | 13(9) 2162–72 |
| 2019 | 10.1093/bib/bby022 | Li, G., H. Cao and Y. Xu | Structural and functional analyses of microbial metabolic networks reveal novel insights into genome-scale metabolic fluxes | Briefings in Bioinformatics | 20(4) 1590–603 |
| 2019 | 10.1038/s41540-019-0110-7 | Li, C. T., J. Yelsky, Y. Chen, C. Zuniga, R. Eng, L. Jiang, A. Shapiro, K. W. Huang, K. Zengler and M. J. Betenbaugh | Utilizing genome-scale models to optimize nutrient supply for sustained algal growth and lipid productivity | npj Systems Biology and Applications | 5 33 |
| 2019 | 10.1371/journal.pone.0210243 | Leynaud-Kieffer, L. M. C., S. C. Curran, I. Kim, J. K. Magnuson, J. M. Gladden, S. E. Baker and B. A. Simmons | A new approach to Cas9-based genome editing in Aspergillus niger that is precise, efficient and selectable | PLoS One | 14(1) e0210243 |
| 2019 | 10.1007/s00248-019-01324-8 | Lewis, R. W., A. Islam, L. Opdahl, J. R. Davenport and T. S. Sullivan | Comparative Genomics, Siderophore Production, and Iron Scavenging Potential of Root Zone Soil Bacteria Isolated from ‘Concord’ Grape Vineyards | Microbial Ecology | 78(3) 699–713 |
| 2019 | 10.3791/58882 | Levine, M. Z., N. E. Gregorio, M. C. Jewett, K. R. Watts and J. P. Oza | Escherichia coli-Based Cell-Free Protein Synthesis: Protocols for a robust, flexible, and accessible platform technology | Journal of Visualized Experiments | (144) |
| 2019 | 10.1002/prot.25805 | Lepore, R., A. Kryshtafovych, M. Alahuhta, H. A. Veraszto, Y. J. Bomble, et al. | Target highlights in CASP13: Experimental target structures through the eyes of their authors | Proteins | 87(12) 1037–57 |
| 2019 | 10.1016/j.aquaculture.2018.10.028 | Lee, Y.-H., K.-C. Tung, J.-F. Cheng, Z.-Y. Wu, S.-Y. Chen, Y.-K. Hong, Y.-T. Huang and P.-Y. Liu | Genomic characterization of carbapenem-resistant Shewanella algae isolated from Asian hard clam (Meretrix lusoria) | Aquaculture | 500 300-304 |
| 2019 | 10.1038/s41929-018-0212-4 | Lee, S. Y., H. U. Kim, T. U. Chae, J. S. Cho, J. W. Kim, J. H. Shin, D. I. Kim, Y.-S. Ko, W. D. Jang and Y.-S. Jang | A comprehensive metabolic map for production of bio-based chemicals | Nature Catalysis | 2(1) 18–33 |
| 2019 | 10.15252/embj.2019101948 | Lee, M. H., H. S. Jeon, S. H. Kim, J. H. Chung, D. Roppolo, H. J. Lee, H. J. Cho, Y. Tobimatsu, J. Ralph and O. K. Park | Lignin-based barrier restricts pathogens to the infection site and confers resistance in plants | The EMBO Journal | 38(23) e101948 |
| 2019 | 10.1111/1462-2920.14552 | Lee, M. D., N. A. Ahlgren, J. D. Kling, N. G. Walworth, G. Rocap, M. A. Saito, D. A. Hutchins and E. A. Webb | Marine Synechococcus isolates representing globally abundant genomic lineages demonstrate a unique evolutionary path of genome reduction without a decrease in GC content | Environmental Microbiology | 21(5) 1677-1686 |
| 2019 | 10.1128/AEM.01983-18 | Lee, L. L., W. S. Hart, V. V. Lunin, M. Alahuhta, Y. J. Bomble, M. E. Himmel, S. E. Blumer-Schuette, M. W. W. Adams and R. M. Kelly | Comparative Biochemical and Structural Analysis of Novel Cellulose Binding Proteins (Tāpirins) from Extremely Thermophilic Caldicellulosiruptor Species | Applied and Environmental Microbiology | 85(3) e01983-18 |
| 2019 | 10.1128/AEM.01983-18 | Lee, L. L., W. S. Hart, V. V. Lunin, M. Alahuhta, Y. J. Bomble, M. E. Himmel, S. E. Blumer-Schuette, M. W. W. Adams and R. M. Kelly | Comparative Biochemical and Structural Analysis of Novel Cellulose Binding Proteins (Tapirins) from Extremely Thermophilic Caldicellulosiruptor Species | Applied and Environmental Microbiology | 85(3) |
| 2019 | 10.3389/fpls.2019.01720 | Lee, J. H., M. Mazarei, A. C. Pfotenhauer, A. B. Dorrough, M. R. Poindexter, T. Hewezi, S. C. Lenaghan, D. E. Graham and C. N. Stewart, Jr. | Epigenetic Footprints of CRISPR/Cas9-Mediated Genome Editing in Plants | Frontiers in Plant Science | 10 1720 |
| 2019 | 10.1186/s13068-019-1563-z | Lee, J.-W. and C. T. Trinh | Microbial biosynthesis of lactate esters | Biotechnology for Biofuels | 12(1) 226 |
| 2019 | 10.1038/s41564-019-0423-8 | Lee, H. H., N. Ostrov, B. G. Wong, M. A. Gold, A. S. Khalil and G. M. Church | Functional genomics of the rapidly replicating bacterium Vibrio natriegens by CRISPRi | Nature Microbiology | 4(7) 1105–13 |
| 2019 | 10.1038/s41467-019-10258-1 | Lee, H. H., R. Kalhor, N. Goela, J. Bolot and G. M. Church | Terminator-free template-independent enzymatic DNA synthesis for digital information storage | Nature Communications | 10(1) 2383 |
| 2019 | 10.1146/annurev-arplant-042817-040305 | Leakey, A. D. B., J. N. Ferguson, C. P. Pignon, A. Wu, Z. Jin, G. L. Hammer and D. B. Lobell | Water Use Efficiency as a Constraint and Target for Improving the Resilience and Productivity of C3 and C4 Crops | Annual Review of Plant Biology | 70 781–808 |
| 2019 | 10.1038/s41579-019-0255-9 | Lawson, C. E., W. R. Harcombe, R. Hatzenpichler, S. R. Lindemann, F. E. Loffler, M. A. O'Malley, H. Garcia Martin, B. F. Pfleger, L. Raskin, O. S. Venturelli, D. G. Weissbrodt, D. R. Noguera and K. D. McMahon | Common principles and best practices for engineering microbiomes | Nature Reviews Microbiology | 17(12) 725–41 |
| 2019 | 10.1007/s00122-019-03357-6 | Larson, S., L. DeHaan, J. Poland, X. Zhang, K. Dorn, T. Kantarski, J. Anderson, J. Schmutz, J. Grimwood, J. Jenkins, S. Shu, J. Crain, M. Robbins and K. Jensen | Genome mapping of quantitative trait loci (QTL) controlling domestication traits of intermediate wheatgrass (Thinopyrum intermedium) | Theoretical and Applied Genetics | 132(8) 2325-2351 |
| 2019 | 10.1186/s12859-019-3103-z | LaPierre, N., R. Egan, W. Wang and Z. Wang | De novo Nanopore read quality improvement using deep learning | BMC Bioinformatics | 20(1) 552 |
| 2019 | 10.1021/acs.jafc.9b05840 | Lapierre, C., A. Voxeur, S. Boutet and J. Ralph | Arabinose Conjugates Diagnostic of Ferulate-Ferulate and Ferulate-Monolignol Cross-Coupling Are Released by Mild Acidolysis of Grass Cell Walls | Journal of Agricultural and Food Chemistry | 67(46) 12962–71 |
| 2019 | 10.3389/ffgc.2019.00008 | Lantz, A. T., C. Solomon, L. Gog, A. M. McClain, S. M. Weraduwage, J. A. Cruz and T. D. Sharkey | Isoprene Suppression by CO2 Is Not Due to Triose Phosphate Utilization (TPU) Limitation | Frontiers in Forests and Global Change | 2 |
| 2019 | 10.1111/pce.13629 | Lantz, A. T., J. Allman, S. M. Weraduwage and T. D. Sharkey | Isoprene: New insights into the control of emission and mediation of stress tolerance by gene expression | Plant, Cell & Environment | 42(10) 2808–26 |
| 2019 | 10.1128/mra.00432-19 | Langley, S., T. Eng, K. H. Wan, R. A. Herbert, A. P. Klein, Y. Yoshikuni, S. G. Tringe, J. B. Brown, S. E. Celniker, J. C. Mortimer and A. Mukhopadhyay | Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots | Microbiology Resource Announcements | 8(37) |
| 2019 | 10.1128/MRA.00432-19 | Langley, S., T. Eng, K. H. Wan, R. A. Herbert, A. P. Klein, Y. Yoshikuni, S. G. Tringe, J. B. Brown, S. E. Celniker, J. C. Mortimer and A. Mukhopadhyay | Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots | Microbiology Resource Announcements | 8(37) |
| 2019 | 10.1038/s41559-019-0998-8 | Langdon, Q. K., D. Peris, E. P. Baker, D. A. Opulente, H. V. Nguyen, U. Bond, P. Goncalves, J. P. Sampaio, D. Libkind and C. T. Hittinger | Fermentation innovation through complex hybridization of wild and domesticated yeasts | Nature Ecology & Evolution | 3(11) 1576–86 |
| 2019 | 10.1038/s41396-019-0455-3 | Landa, M., A. S. Burns, B. P. Durham, K. Esson, B. Nowinski, S. Sharma, A. Vorobev, T. Nielsen, R. P. Kiene and M. A. Moran | Sulfur metabolites that facilitate oceanic phytoplankton–bacteria carbon flux | The ISME Journal | 13(10) 2536-2550 |
| 2019 | Lan, W., J. Rencoret, J. C. del Rio and J. Ralph | Tricin in grass lignin: biosynthesis, characterization, and quantitation | Lignin: Biosynthesis, Functions and Economic Significance | 51–78 | |
| 2019 | 10.1038/s41598-019-47957-0 | Lam, P. Y., Y. Tobimatsu, N. Matsumoto, S. Suzuki, W. Lan, Y. Takeda, M. Yamamura, M. Sakamoto, J. Ralph, C. Lo and T. Umezawa | OsCAldOMT1 is a bifunctional O-methyltransferase involved in the biosynthesis of tricin-lignins in rice cell walls | Scientific Reports | 9(1) 11597 |
| 2019 | 10.3389/fmicb.2019.02216 | Lal, P. B., F. M. Wells, Y. Lyu, I. N. Ghosh, R. Landick and P. J. Kiley | A Markerless Method for Genome Engineering in Zymomonas mobilis ZM4 | Frontiers in Microbiology | 10 2216 |
| 2019 | 10.3389/fpls.2019.00165 | Lakusta, A. M., M. Kwon, E. G. Kwon, S. Stonebloom, H. V. Scheller and D. K. Ro | Molecular Studies of the Protein Complexes Involving Cis-Prenyltransferase in Guayule (Parthenium argentatum), an Alternative Rubber-Producing Plant | Frontiers in Plant Science | 10 165 |
| 2019 | 10.1016/j.tim.2019.03.003 | Ladau, J. and E. A. Eloe-Fadrosh | Spatial, Temporal, and Phylogenetic Scales of Microbial Ecology | Trends in Microbiology | 27(8) 662-669 |
| 2019 | 10.1371/journal.pgen.1008304 | LaBella, A. L., D. A. Opulente, J. L. Steenwyk, C. T. Hittinger and A. Rokas | Variation and selection on codon usage bias across an entire subphylum | PLoS Genetics | 15(7) e1008304 |
| 2019 | 10.1038/s41477-019-0469-x | Labbe, J., W. Muchero, O. Czarnecki, J. Wang, X. Wang, et al. | Mediation of plant-mycorrhizal interaction by a lectin receptor-like kinase | Nature Plants | 5(7) 676–80 |
| 2019 | 10.1038/s41477-019-0469-x | Labbé, J., W. Muchero, O. Czarnecki, J. Wang, X. Wang, et al. | Mediation of plant–mycorrhizal interaction by a lectin receptor-like kinase | Nature Plants | 5(7) 676-680 |
| 2019 | 10.1016/j.biotechadv.2018.12.003 | Kwak, S., J. H. Jo, E. J. Yun, Y. S. Jin and J. H. Seo | Production of biofuels and chemicals from xylose using native and engineered yeast strains | Biotechnology Advances | 37(2) 271–83 |
| 2019 | 10.1002/ecs2.2687 | Kuske, C. R., R. L. Sinsabaugh, L. Gallegos-Graves, M. B. N. Albright, R. Mueller and J. Dunbar | Simple measurements in a complex system: soil community responses to nitrogen amendment in a Pinus taeda forest | Ecosphere | 10(4) |
| 2019 | 10.3390/pr7090578 | Kurambhatti, C., D. Kumar and V. Singh | Impact of Fractionation Process on the Technical and Economic Viability of Corn Dry Grind Ethanol Process | Processes | 7(9) |
| 2019 | 10.1016/j.bbamem.2019.05.009 | Kumar, S. V., G. Taylor, S. Hasim, C. P. Collier, A. T. Farmer, S. R. Campagna, A. N. Bible, M. J. Doktycz and J. Morrell-Falvey | Loss of carotenoids from membranes of Pantoea sp. YR343 results in altered lipid composition and changes in membrane biophysical properties | Biochimica et Biophysica Acta (BBA) - Biomembranes | 1861(7) 1338–45 |
| 2019 | 10.1186/s12864-019-5680-7 | Kubicek, C. P., A. S. Steindorff, K. Chenthamara, G. Manganiello, B. Henrissat, et al. | Evolution and comparative genomics of the most common Trichoderma species | BMC Genomics | 20(1) 485 |
| 2019 | 10.1038/s41396-019-0476-y | Krüger, K., M. Chafee, T. Ben Francis, T. Glavina del Rio, D. Becher, T. Schweder, R. I. Amann and H. Teeling | In marine Bacteroidetes the bulk of glycan degradation during algae blooms is mediated by few clades using a restricted set of genes | The ISME Journal | 13(11) 2800-2816 |
| 2019 | 10.1073/pnas.1817822116 | Krizsán, K., É. Almási, Z. Merényi, N. Sahu, M. Virágh, et al. | Transcriptomic atlas of mushroom development reveals conserved genes behind complex multicellularity in fungi | Proceedings of the National Academy of Sciences | 116(15) 7409-7418 |
| 2019 | 10.1038/s41467-019-11057-4 | Kravchenko, A. N., A. K. Guber, B. S. Razavi, J. Koestel, M. Y. Quigley, G. P. Robertson and Y. Kuzyakov | Microbial spatial footprint as a driver of soil carbon stabilization | Nature Communications | 10(1) 3121 |
| 2019 | 10.1016/j.soilbio.2019.06.002 | Kravchenko, A. N., A. K. Guber, B. S. Razavi, J. Koestel, E. V. Blagodatskaya and Y. Kuzyakov | Spatial patterns of extracellular enzymes: Combining X-ray computed micro-tomography and 2D zymography | Soil Biology and Biochemistry | 135 411–19 |
| 2019 | 10.1016/j.cub.2019.06.056 | Krassowski, T., J. Kominek, X. X. Shen, D. A. Opulente, X. Zhou, A. Rokas, C. T. Hittinger and K. H. Wolfe | Multiple Reinventions of Mating-type Switching during Budding Yeast Evolution | Current Biology | 29(15) 2555–62.e8 |
| 2019 | 10.1080/08927014.2019.1646731 | Krantz, G. P., K. Lucas, E. L. Wunderlich, L. T. Hoang, R. Avci, G. Siuzdak and M. W. Fields | Bulk phase resource ratio alters carbon steel corrosion rates and endogenously produced extracellular electron transfer mediators in a sulfate-reducing biofilm | Biofouling | 35(6) 669–83 |
| 2019 | 10.3389/fbioe.2019.00229 | Kowalczyk, J. E., M. Peng, M. Pawlowski, A. Lipzen, V. Ng, V. Singan, M. Wang, I. V. Grigoriev and M. R. Mäkelä | The White-Rot Basidiomycete Dichomitus squalens Shows Highly Specific Transcriptional Response to Lignocellulose-Related Aromatic Compounds | Frontiers in Bioengineering and Biotechnology | 7 |
| 2019 | 10.1039/c9gc00262f | Kothari, N., S. Bhagia, M. Zaher, Y. Q. Pu, A. Mittal, C. G. Yoo, M. E. Himmel, A. J. Ragauskas, R. Kumar and C. E. Wyman | Cellulose hydrolysis by Clostridium thermocellum is agnostic to substrate structural properties in contrast to fungal cellulases | Green Chemistry | 21(10) 2810–22 |
| 2019 | 10.1128/mBio.02899-18 | Kothari, A., Y. W. Wu, J. M. Chandonia, M. Charrier, L. Rajeev, A. M. Rocha, D. C. Joyner, T. C. Hazen, S. W. Singer and A. Mukhopadhyay | Large Circular Plasmids from Groundwater Plasmidomes Span Multiple Incompatibility Groups and Are Enriched in Multimetal Resistance Genes | mBio | 10(1) |
| 2019 | 10.1128/mSystems.00588-19 | Kothari, A., D. Soneja, A. Tang, H. K. Carlson, A. M. Deutschbauer and A. Mukhopadhyay | Native Plasmid-Encoded Mercury Resistance Genes Are Functional and Demonstrate Natural Transformation in Environmental Bacterial Isolates | mSystems | 4(6) |
| 2019 | Korosh, T., D. Amador-Noguez, D. Olson, L. Tian, S. Hon and L. Lynd | Investigating the barriers to high ethanol titers in Clostriudium thermocellum | ACS Spring 2019 | ||
| 2019 | 10.1074/jbc.RA118.006548 | Kontur, W. S., C. N. Olmsted, L. M. Yusko, A. V. Niles, K. A. Walters, E. T. Beebe, K. A. Vander Meulen, S. D. Karlen, D. L. Gall, D. R. Noguera and T. J. Donohue | A heterodimeric glutathione S-transferase that stereospecifically breaks lignin's β(R)-aryl ether bond reveals the diversity of bacterial β-etherases | Journal of Biological Chemistry | 294(6) 1877–90 |
| 2019 | 10.1096/fasebj.2019.33.1_supplement.781.8 | Kontur, W. S., D. R. Noguera and T. J. Donohue | Bacterial Glutathione S‐Transferases (GSTs) Involved in Breaking the β‐Aryl Ether Bond of Lignin Reveal Novel Catalytic Abilities and Reaction Mechanisms within the GST Superfamily | The FASEB Journal | 33(S1) |
| 2019 | 10.1002/aic.16731 | Kong, L. X. and C. T. Maravelias | From graphical to model-based distillation column design: A McCabe-Thiele-inspired mathematical programming approach | AIChE Journal | 65(11) |
| 2019 | 10.1016/j.cell.2019.01.034 | Kominek, J., D. T. Doering, D. A. Opulente, X. X. Shen, X. Zhou, J. DeVirgilio, A. B. Hulfachor, M. Groenewald, M. A. McGee, S. D. Karlen, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Eukaryotic Acquisition of a Bacterial Operon | Cell | 176(6) 1356–66.e10 |
| 2019 | 10.1038/s41396-019-0472-2 | Kolody, B. C., J. P. McCrow, L. Z. Allen, F. O. Aylward, K. M. Fontanez, A. Moustafa, M. Moniruzzaman, F. P. Chavez, C. A. Scholin, E. E. Allen, A. Z. Worden, E. F. Delong and A. E. Allen | Diel transcriptional response of a California Current plankton microbiome to light, low iron, and enduring viral infection | The ISME Journal | 13(11) 2817–33 |
| 2019 | 10.1186/s12864-019-5522-7 | Kolbe, A. R., A. J. Studer, O. E. Cornejo and A. B. Cousins | Insights from transcriptome profiling on the non-photosynthetic and stomatal signaling response of maize carbonic anhydrase mutants to low CO2 | BMC Genomics | 20(1) 138 |
| 2019 | 10.1016/j.soilbio.2018.12.013 | Koechli, C., A. N. Campbell, C. Pepe-Ranney and D. H. Buckley | Assessing fungal contributions to cellulose degradation in soil by using high-throughput stable isotope probing | Soil Biology and Biochemistry | 130 150–8 |
| 2019 | 10.1038/s41598-018-38124-y | Knoot, C. J. and H. B. Pakrasi | Diverse hydrocarbon biosynthetic enzymes can substitute for olefin synthase in the cyanobacterium Synechococcus sp. PCC 7002 | Scientific Reports | 9(1) 1360 |
| 2019 | 10.1002/cssc.201901742 | Klinger, G. E., Y. Zhou, P. Hao, J. Robbins, J. M. Aquilina, J. E. Jackson and E. L. Hegg | Biomimetic Reductive Cleavage of Keto Aryl Ether Bonds by Small-Molecule Thiols | ChemSusChem | 12(21) 4775–9 |
| 2019 | 10.1007/s00122-019-03371-8 | King, K., H. Li, J. Kang and C. Lu | Mapping quantitative trait loci for seed traits in Camelina sativa | Theoretical and Applied Genetics | 132(9) 2567–77 |
| 2019 | 10.1016/j.algal.2019.101489 | Kimbrel, J. A., T. J. Samo, C. Ward, D. Nilson, M. P. Thelen, A. Siccardi, P. Zimba, T. W. Lane and X. Mayali | Host selection and stochastic effects influence bacterial community assembly on the microalgal phycosphere | Algal Research | 40 101489 |
| 2019 | 10.1038/s41598-019-54802-x | Kimball, J., Y. Cui, D. Chen, P. Brown, W. L. Rooney, G. Stacey and P. J. Balint-Kurti | Identification of QTL for Target Leaf Spot resistance in Sorghum bicolor and investigation of relationships between disease resistance and variation in the MAMP response | Scientific Reports | 9(1) 18285 |
| 2019 | 10.1002/ece3.5523 | Kim, T., S. Bartel and C. Gratton | Grassland harvesting alters ant community trophic structure: An isotopic study in tallgrass prairies | Ecology and Evolution | 9(17) 9815–26 |
| 2019 | 10.1007/s10295-019-02150-0 | Kim, S. K., D. Chung, M. E. Himmel, Y. J. Bomble and J. Westpheling | Heterologous co-expression of two β-glucanases and a cellobiose phosphorylase resulted in a significant increase in the cellulolytic activity of the Caldicellulosiruptor bescii exoproteome | Journal of Industrial Microbiology and Biotechnology | 46(5) 687–95 |
| 2019 | 10.1021/acs.est.8b02808 | Kim, S., B. E. Dale, X. Zhang, C. D. Jones, A. D. Reddy and R. C. Izaurralde | The Renewable Fuel Standard May Limit Overall Greenhouse Gas Savings by Corn Stover-Based Cellulosic Biofuels in the U.S. Midwest: Effects of the Regulatory Approach on Projected Emissions | Environmental Science & Technology | 53(5) 2288–94 |
| 2019 | 10.1111/gcbb.12613 | Kim, S., B. E. Dale, M. Jin, K. D. Thelen, X. Zhang, P. Meier, A. D. Reddy, C. D. Jones, R. C. Izaurralde, V. Balan, T. Runge and M. Sharara | Integration in a depot-based decentralized biorefinery system: Corn stover-based cellulosic biofuel | GCB Bioenergy | 11(7) 871–82 |
| 2019 | 10.1073/pnas.1904636116 | Kim, K. H., A. Eudes, K. Jeong, C. G. Yoo, C. S. Kim and A. Ragauskas | Integration of renewable deep eutectic solvents with engineered biomass to achieve a closed-loop biorefinery | Proceedings of the National Academy of Sciences of the United States of America | 116(28) 13816–24 |
| 2019 | 10.1002/biot.201800441 | Kim, J., M. Tremaine, J. A. Grass, H. M. Purdy, R. Landick, P. J. Kiley and J. L. Reed | Systems Metabolic Engineering of Escherichia coli Improves Coconversion of Lignocellulose-Derived Sugars | Biotechnology Journal | 14(9) 1800441 |
| 2019 | 10.1002/biot.201800441 | Kim, J., M. Tremaine, J. A. Grass, H. M. Purdy, R. Landick, P. J. Kiley and J. L. Reed | Systems Metabolic Engineering of Escherichia coli Improves Coconversion of Lignocellulose-Derived Sugars | Biotechnology Journal | 14(9) e1800441 |
| 2019 | 10.1186/s12864-019-6235-7 | Khosravi, C., J. E. Kowalczyk, T. Chroumpi, E. Battaglia, M.-V. Aguilar Pontes, M. Peng, A. Wiebenga, V. Ng, A. Lipzen, G. He, D. Bauer, I. V. Grigoriev and R. P. de Vries | Transcriptome analysis of Aspergillus niger xlnR and xkiA mutants grown on corn Stover and soybean hulls reveals a highly complex regulatory network | BMC Genomics | 20(1) 853 |
| 2019 | 10.3389/fpls.2019.01160 | Khokhar, W., M. A. Hassan, A. S. N. Reddy, S. Chaudhary, I. Jabre, L. J. Byrne and N. H. Syed | Genome-Wide Identification of Splicing Quantitative Trait Loci (sQTLs) in Diverse Ecotypes of Arabidopsis thaliana | Frontiers in Plant Science | 10 1160 |
| 2019 | 10.3389/fpls.2019.00366 | Khasanova, A., J. T. Lovell, J. Bonnette, X. Weng, J. Jenkins, Y. Yoshinaga, J. Schmutz and T. E. Juenger | The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass | Frontiers in Plant Science | 10 |
| 2019 | 10.3389/fpls.2019.00366 | Khasanova, A., J. T. Lovell, J. Bonnette, X. Weng, J. Jenkins, Y. Yoshinaga, J. Schmutz and T. E. Juenger | The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass | Frontiers in Plant Science | 10 366 |
| 2019 | 10.1128/mSphere.00435-19 | Khalili, B., C. Weihe, S. Kimball, K. T. Schmidt and J. B. H. Martiny | Optimization of a Method To Quantify Soil Bacterial Abundance by Flow Cytometry | mSphere | 4(5) |
| 2019 | 10.1016/j.biortech.2019.02.051 | Kellock, M., H. Maaheimo, K. Marjamaa, J. Rahikainen, H. Zhang, U. Holopainen-Mantila, J. Ralph, T. Tamminen, C. Felby and K. Kruus | Effect of hydrothermal pretreatment severity on lignin inhibition in enzymatic hydrolysis | Bioresource Technology | 280 303–12 |
| 2019 | 10.1128/MRA.01683-18 | Kee, H. L., I. V. Mikheyeva, R. L. Mickol, S. C. Dawson, D. K. Newman and J. R. Leadbetter | Draft Genome Sequence of the Iridescent Marine Bacterium Tenacibaculum discolor Strain IMLK18 | Microbiology Resource Announcements | 8(5) |
| 2019 | 10.1007/978-1-4939-9142-6_1 | Ke, J. and Y. Yoshikuni | Pathway and Gene Discovery from Natural Hosts and Organisms | Microbial Metabolic Engineering: Methods and Protocols | 45666 |
| 2019 | 10.1016/j.plantsci.2019.01.006 | Kausch, A. P., K. Nelson-Vasilchik, J. Hague, M. Mookkan, H. Quemada, S. Dellaporta, C. Fragoso and Z. J. Zhang | Edit at will: Genotype independent plant transformation in the era of advanced genomics and genome editing | Plant Science | 281 186–205 |
| 2019 | 10.3389/fpls.2019.01166 | Karunanithi, P. S. and P. Zerbe | Terpene Synthases as Metabolic Gatekeepers in the Evolution of Plant Terpenoid Chemical Diversity | Frontiers in Plant Science | 10 |
| 2019 | 10.3389/fpls.2019.01166 | Karunanithi, P. S. and P. Zerbe | Terpene Synthases as Metabolic Gatekeepers in the Evolution of Plant Terpenoid Chemical Diversity | Frontiers in Plant Science | 10 1166 |
| 2019 | 10.3389/fmicb.2019.00208 | Karp, P. D., N. Ivanova, M. Krummenacker, N. Kyrpides, M. Latendresse, P. Midford, W. K. Ong, S. Paley and R. Seshadri | A Comparison of Microbial Genome Web Portals | Frontiers in Microbiology | 10 |
| 2019 | 10.1093/synbio/ysz027 | Karim, A. S., B. J. Rasor and M. C. Jewett | Enhancing control of cell-free metabolism through pH modulation | Synthetic Biology | 5(1) |
| 2019 | 10.1111/gcbb.12632 | Kar, S., N. Zhang, T. Nakashima, A. Villanueva-Morales, J. R. Stewart, E. J. Sacks, Y. Terajima and T. Yamada | Saccharum × Miscanthus intergeneric hybrids (miscanes) exhibit greater chilling tolerance of C4 photosynthesis and postchilling recovery than sugarcane (Saccharum spp. hybrids) | GCB Bioenergy | 11(11) 1318-1333 |
| 2019 | 10.1007/s11627-019-09993-3 | Kannan, B., A. Altpeter, T. H. Nguyen, P. South, S. Long and F. Altpeter | Over-expression of Miscanthus Pyruvate Orthophosphate Dikinase (PPDK) in Energycane for Improving Cold Tolerance and Biomass Yield. | In Vitro Cellular & Developmental Biology-Plant | 55(4) 486 |
| 2019 | 10.1128/MRA.01562-18 | Kang, S., S. Denman and C. McSweeney | Draft Genome Sequence and Annotation of Oribacterium sp. Strain C9, Isolated from a Cattle Rumen | Microbiology Resource Announcements | 8(13) |
| 2019 | 10.7717/peerj.7359 | Kang, D. D., F. Li, E. Kirton, A. Thomas, R. Egan, H. An and Z. Wang | MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies | PeerJ | 7 e7359 |
| 2019 | 10.1016/j.ymben.2019.09.003 | Kang, A., D. Mendez-Perez, E. B. Goh, E. E. K. Baidoo, V. T. Benites, H. R. Beller, J. D. Keasling, P. D. Adams, A. Mukhopadhyay and T. S. Lee | Optimization of the IPP-bypass mevalonate pathway and fed-batch fermentation for the production of isoprenol in Escherichia coli | Metabolic Engineering | 56 85–96 |
| 2019 | 10.1111/nph.15887 | Kainer, D., A. Padovan, J. Degenhardt, S. Krause, P. Mondal, W. J. Foley and C. Kulheim | High marker density GWAS provides novel insights into the genomic architecture of terpene oil yield in Eucalyptus | New Phytologist | 223(3) 1489–504 |
| 2019 | 10.1186/s13068-019-1386-y | Kahn, A., S. Morais, A. P. Galanopoulou, D. Chung, N. S. Sarai, N. Hengge, D. G. Hatzinikolaou, M. E. Himmel, Y. J. Bomble and E. A. Bayer | Creation of a functional hyperthermostable designer cellulosome | Biotechnology for Biofuels | 12 44 |
| 2019 | 10.1111/ppa.13099 | Kabbage, M., J. S. Piotrowski, E. Thill, N. M. Westrick, J. Ralph, K. Hockemeyer and P. L. Koch | Poacic acid suppresses dollar spot and snow mould in amenity turfgrass | Plant Pathology | 69(1) 112–9 |
| 2019 | 10.1016/j.jconhyd.2019.04.006 | Jung, H. and C. Meile | Upscaling of microbially driven first-order reactions in heterogeneous porous media | Journal of Contaminant Hydrology | 224 103483 |
| 2019 | 10.1016/j.parco.2019.02.003 | Joubert, W., J. Nance, S. Climer, D. Weighill and D. Jacobson | Parallel accelerated Custom Correlation Coefficient calculations for genomics applications | Parallel Computing | 84 15–23 |
| 2019 | 10.1007/978-1-4939-8757-3_3 | Joshua, C. J. | Metabolomics: A Microbial Physiology and Metabolism Perspective | Microbial Metabolomics: Methods and Protocols | 1859 71–94 |
| 2019 | 10.3389/fpls.2019.00862 | Jones, P., B. J. Garcia, A. Furches, G. A. Tuskan and D. Jacobson | Plant Host-Associated Mechanisms for Microbial Selection | Frontiers in Plant Science | 10 862 |
| 2019 | 10.1021/acscentsci.9b00403 | Jones, C. G., M. Asay, L. J. Kim, J. F. Kleinsasser, A. Saha, T. J. Fulton, K. R. Berkley, D. Cascio, A. G. Malyutin, M. P. Conley, B. M. Stoltz, V. Lavallo, J. A. Rodríguez and H. M. Nelson | Characterization of Reactive Organometallic Species via MicroED | ACS Central Science | 5(9) 1507-1513 |
| 2019 | 10.1073/pnas.1901307116 | Johnston, E. R., J. K. Hatt, Z. He, L. Wu, X. Guo, Y. Luo, E. A. G. Schuur, J. M. Tiedje, J. Zhou and K. T. Konstantinidis | Responses of tundra soil microbial communities to half a decade of experimental warming at two critical depths | Proceedings of the National Academy of Sciences of the United States of America | 116(30) 15096–105 |
| 2019 | 10.1111/nph.15778 | Johnson, S. R., W. W. Bhat, R. Sadre, G. P. Miller, A. S. Garcia and B. Hamberger | Promiscuous terpene synthases from Prunella vulgaris highlight the importance of substrate and compartment switching in terpene synthase evolution | New Phytologist | 223(1) 323–35 |
| 2019 | 10.1074/jbc.RA118.006025 | Johnson, S. R., W. W. Bhat, J. Bibik, A. Turmo, B. Hamberger, C. Evolutionary Mint Genomics and B. Hamberger | A database-driven approach identifies additional diterpene synthase activities in the mint family (Lamiaceae) | Journal of Biological Chemistry | 294(4) 1349–62 |
| 2019 | 10.1364/optica.6.000424 | Johnson, S. C., E. A. Muller, O. Khatib, E. A. Bonnin, A. C. Gagnon and M. B. Raschke | Infrared nanospectroscopic imaging in the rotating frame | Optica | 6(4) |
| 2019 | 10.1016/j.joule.2019.05.011 | Johnson, C. W., D. Salvachua, N. A. Rorrer, B. A. Black, D. R. Vardon, et al. | Innovative Chemicals and Materials from Bacterial Aromatic Catabolic Pathways | Joule | 3(6) 1523–37 |
| 2019 | 10.1007/s00248-019-01368-w | Johansen, R., M. Albright, V. Gallegos-Graves, D. Lopez, A. Runde, T. Yoshida and J. Dunbar | Tracking Replicate Divergence in Microbial Community Composition and Function in Experimental Microcosms | Microbial Ecology | 78(4) 1035–9 |
| 2019 | 10.1093/femsec/fiz186 | Jiménez, D. J., Y. Wang, M. Chaib de Mares, L. Cortes-Tolalpa, J. A. Mertens, R. E. Hector, J. Lin, J. Johnson, A. Lipzen, K. Barry, S. J. Mondo, I. V. Grigoriev, N. N. Nichols and J. D. van Elsas | Defining the eco-enzymological role of the fungal strain Coniochaeta sp. 2T2.1 in a tripartite lignocellulolytic microbial consortium | FEMS Microbiology Ecology | 96(1) |
| 2019 | 10.1038/s41586-019-1449-z | Jiang, Z., X. Zhou, M. Tao, F. Yuan, L. Liu, et al. | Plant cell-surface GIPC sphingolipids sense salt to trigger Ca(2+) influx | Nature | 572(7769) 341-346 |
| 2019 | 10.1186/s12284-019-0308-8 | Jiang, L., G. Li, M. Chern, R. Jain, N. T. Pham, J. A. Martin, W. S. Schackwitz, J. Zhao, D. Ruan, R. Huang, J. Zheng and P. C. Ronald | Whole-Genome Sequencing Identifies a Rice Grain Shape Mutant, gs9–1 | Rice | 12(1) 52 |
| 2019 | 10.1002/cssc.201802016 | Jiang, H. J., S. Imberti, B. A. Simmons, R. Atkin and G. G. Warr | Structural Design of Ionic Liquids for Optimizing Aromatic Dissolution | ChemSusChem | 12(1) 270–4 |
| 2019 | 10.1038/s41598-019-45532-1 | Jia, Q., X. Chen, T. G. Kollner, J. Rinkel, J. Fu, J. Labbe, W. Xiong, J. S. Dickschat, J. Gershenzon and F. Chen | Terpene Synthase Genes Originated from Bacteria through Horizontal Gene Transfer Contribute to Terpenoid Diversity in Fungi | Scientific Reports | 9(1) 9223 |
| 2019 | 10.1021/acssynbio.8b00398 | Jervis, A. J., P. Carbonell, M. Vinaixa, M. S. Dunstan, K. A. Hollywood, et al. | Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli | ACS Synthetic Biology | 8(1) 127–36 |
| 2019 | 10.1186/s12864-019-6262-4 | Jain, R., J. Jenkins, S. Shu, M. Chern, J. A. Martin, et al. | Genome sequence of the model rice variety KitaakeX | BMC Genomics | 20(1) 905 |
| 2019 | 10.1186/s13068-019-1586-5 | Jagtap, S. S., A. A. Bedekar, J. J. Liu, Y. S. Jin and C. V. Rao | Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880 | Biotechnology for Biofuels | 12 250 |
| 2019 | 10.1016/j.ymben.2019.05.006 | Jacobson, T. B., P. A. Adamczyk, D. M. Stevenson, M. Regner, J. Ralph, J. L. Reed and D. Amador-Noguez | 2H and 13C metabolic flux analysis elucidates in vivo thermodynamics of the ED pathway in Zymomonas mobilis | Metabolic Engineering | 54 301–16 |
| 2019 | 10.1093/nar/gkz121 | Jabre, I., A. S. N. Reddy, M. Kalyna, S. Chaudhary, W. Khokhar, L. J. Byrne, C. M. Wilson and N. H. Syed | Does co-transcriptional regulation of alternative splicing mediate plant stress responses? | Nucleic Acids Research | 47(6) 2716–26 |
| 2019 | 10.1007/s00792-019-01092-w | Izrael-Živković, L., V. Beškoski, M. Rikalović, S. Kazazić, N. Shapiro, T. Woyke, G. Gojgić-Cvijović, M. M. Vrvić, N. Maksimović and I. Karadžić | High-quality draft genome sequence of Pseudomonas aeruginosa san ai, an environmental isolate resistant to heavy metals | Extremophiles | 23(4) 399-405 |
| 2019 | 10.1038/s41467-019-10390-y | Isobe, K., S. D. Allison, B. Khalili, A. C. Martiny and J. B. H. Martiny | Phylogenetic conservation of bacterial responses to soil nitrogen addition across continents | Nature Communications | 10(1) 2499 |
| 2019 | 10.1021/acs.analchem.9b01234 | Hutchins, P. D., J. D. Russell and J. J. Coon | Accelerating Lipidomic Method Development through in Silico Simulation | Analytical Chemistry | 91(15) 9698–706 |
| 2019 | 10.1007/s13361-018-02125-y | Hutchins, P. D., J. D. Russell and J. J. Coon | Mapping Lipid Fragmentation for Tailored Mass Spectral Libraries | Journal of the American Society for Mass Spectrometry | 30(4) 659–68 |
| 2019 | 10.1038/s41579-019-0178-5 | Hutchins, D. A., J. K. Jansson, J. V. Remais, V. I. Rich, B. K. Singh and P. Trivedi | Climate change microbiology — problems and perspectives | Nature Reviews Microbiology | 17(6) 391–96 |
| 2019 | 10.1021/acssynbio.8b00440 | Hussey, S. G., J. Grima-Pettenati, A. A. Myburg, E. Mizrachi, S. M. Brady, Y. Yoshikuni and S. Deutsch | A Standardized Synthetic Eucalyptus Transcription Factor and Promoter Panel for Re-engineering Secondary Cell Wall Regulation in Biomass and Bioenergy Crops | ACS Synthetic Biology | 8(2) 463-465 |
| 2019 | 10.1016/j.agwat.2019.02.049 | Hussain, M. Z., S. K. Hamilton, A. K. Bhardwaj, B. Basso, K. D. Thelen and G. P. Robertson | Evapotranspiration and water use efficiency of continuous maize and maize and soybean in rotation in the upper Midwest US | Agricultural Water Management | 221 92–8 |
| 2019 | 10.2134/jeq2019.04.0156 | Hussain, M. Z., A. K. Bhardwaj, B. Basso, G. P. Robertson and S. K. Hamilton | Nitrate Leaching from Continuous Corn, Perennial Grasses, and Poplar in the US Midwest | Journal of Environmental Quality | 48(6) 1849–55 |
| 2019 | 10.1021/acs.est.9b01834 | Huang, W., K. E. Hammel, J. Hao, A. Thompson, V. I. Timokhin and S. J. Hall | Enrichment of Lignin-Derived Carbon in Mineral-Associated Soil Organic Matter | Environmental Science & Technology | 53(13) 7522–31 |
| 2019 | 10.1038/s41396-019-0414-z | Huang, J., Z. Yu, J. Groom, J.-F. Cheng, A. Tarver, Y. Yoshikuni and L. Chistoserdova | Rare earth element alcohol dehydrogenases widely occur among globally distributed, numerically abundant and environmentally important microbes | The ISME Journal | 13(8) 2005-2017 |
| 2019 | 10.1111/tpj.14184 | Hoopes, G. M., J. P. Hamilton, J. C. Wood, E. Esteban, A. Pasha, B. Vaillancourt, N. J. Provart and C. R. Buell | An updated gene atlas for maize reveals organ-specific and stress-induced genes | The Plant Journal | 97(6) 1154–67 |
| 2019 | 10.1039/c9sc04773e | Hong, S., X. Zhang, R. J. Lake, G. T. Pawel, Z. Guo, R. Pei and Y. Lu | A photo-regulated aptamer sensor for spatiotemporally controlled monitoring of ATP in the mitochondria of living cells | Chemical Science | 11(3) 713–20 |
| 2019 | 10.1186/s13068-019-1353-7 | Holwerda, E. K., R. S. Worthen, N. Kothari, R. C. Lasky, B. H. Davison, et al. | Multiple levers for overcoming the recalcitrance of lignocellulosic biomass | Biotechnology for Biofuels | 12 15 |
| 2019 | 10.1038/s41597-019-0222-3 | Högfors-Rönnholm, E., M. Lopez-Fernandez, S. Christel, D. Brambilla, M. Huntemann, et al. | Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials | Scientific Data | 6(1) 207 |
| 2019 | 10.1038/s41396-019-0516-7 | Hoarfrost, A., S. Nayfach, J. Ladau, S. Yooseph, C. Arnosti, C. L. Dupont and K. S. Pollard | Global ecotypes in the ubiquitous marine clade SAR86 | The ISME Journal | 14(1) 178-188 |
| 2019 | 10.1128/jb.00069-19 | Higgins, D. A., J. M. Gladden, J. A. Kimbrel, B. A. Simmons, S. W. Singer and M. P. Thelen | Guanidine Riboswitch-Regulated Efflux Transporters Protect Bacteria against Ionic Liquid Toxicity | Journal of Bacteriology | 201(13) |
| 2019 | 10.1038/s42003-019-0481-8 | Hestrin, R., E. C. Hammer, C. W. Mueller and J. Lehmann | Synergies between mycorrhizal fungi and soil microbial communities increase plant nitrogen acquisition | Communications Biology | 2 233 |
| 2019 | 10.1038/s41598-019-50737-5 | Hermann, S. L., C. Blackledge, N. L. Haan, A. T. Myers and D. A. Landis | Predators of monarch butterfly eggs and neonate larvae are more diverse than previously recognised | Scientific Reports | 9(1) 14304 |
| 2019 | 10.1002/etc.4501 | Herbert, R. A., T. Eng, U. Martinez, B. Wang, S. Langley, K. Wan, V. Pidatala, E. Hoffman, J. C. Chen, M. J. Bissell, J. B. Brown, A. Mukhopadhyay and J. C. Mortimer | Rhizobacteria Mediate the Phytotoxicity of a Range of Biorefinery-Relevant Compounds | Environmental Toxicology and Chemistry | 38(9) 1911–22 |
| 2019 | 10.1002/ajb2.1373 | Henning, J. A., D. J. Weston, D. A. Pelletier, C. M. Timm, S. S. Jawdy and A. T. Classen | Relatively rare root endophytic bacteria drive plant resource allocation patterns and tissue nutrient concentration in unpredictable ways | American Journal of Botany | 106(11) 1423–34 |
| 2019 | 10.1104/pp.18.01357 | Hendry, J. I., S. Gopalakrishnan, J. Ungerer, H. B. Pakrasi, Y. J. J. Tang and C. D. Maranasa | Genome-Scale Fluxome of Synechococcus elongatus UTEX 2973 Using Transient 13C-Labeling Data | Plant Physiology | 179(2) 761–9 |
| 2019 | 10.1007/s10530-019-02011-y | Helms, J. A., S. E. Ijelu and N. M. Haddad | Range expansion in an introduced social parasite-host species pair | Biological Invasions | 21(8) 2751–9 |
| 2019 | 10.1186/s40168-019-0689-3 | Heinken, A., D. A. Ravcheev, F. Baldini, L. Heirendt, R. M. T. Fleming and I. Thiele | Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease | Microbiome | 7(1) 75 |
| 2019 | 10.1007/978-1-4939-8757-3_16 | Heinemann, J. | Cluster Analysis of Untargeted Metabolomic Experiments | Microbial Metabolomics: Methods and Protocols | 275–85 |
| 2019 | 10.1007/978-1-4939-8757-3_17 | Heinemann, J. | Machine Learning in Untargeted Metabolomics Experiments | Microbial Metabolomics: Methods and Protocols | 1859 287–99 |
| 2019 | 10.1111/1462-2920.14507 | He, X., G. Chadwick, C. Kempes, Y. Shi, S. McGlynn, V. Orphan and C. Meile | Microbial interactions in the anaerobic oxidation of methane: model simulations constrained by process rates and activity patterns | Environmental Microbiology | 21(2) 631–47 |
| 2019 | 10.1128/msphere.00436-18 | He, S., M. P. Lau, A. M. Linz, E. E. Roden and K. D. McMahon | Extracellular Electron Transfer May Be an Overlooked Contribution to Pelagic Respiration in Humic-Rich Freshwater Lakes | mSphere | 4(1) |
| 2019 | 10.1128/mbio.02189-18 | Hausmann, B., C. Pelikan, T. Rattei, A. Loy and M. Pester | Long-Term Transcriptional Activity at Zero Growth of a Cosmopolitan Rare Biosphere Member | mBio | 10(1) |
| 2019 | 10.1128/MRA.01430-18 | Hatmaker, E. A., D. M. Klingeman, K. B. O'Dell, L. A. Riley, B. Papanek and A. M. Guss | Complete Genome Sequences of Two Megasphaera elsdenii Strains, NCIMB 702410 and ATCC 25940 | Microbiology Resource Announcements | 8(3) |
| 2019 | 10.1128/MRA.00708-19 | Hatmaker, E. A., D. M. Klingeman, R. K. Martin, A. M. Guss and J. G. Elkins | Complete Genome Sequence of Caloramator sp. Strain E03, a Novel Ethanologenic, Thermophilic, Obligately Anaerobic Bacterium | Microbiology Resource Announcements | 8(32) |
| 2019 | 10.1093/femsec/fiz147 | Hashmi, I., C. Paul, A. Al-Dourobi, F. Sandoz, P. Deschamps, T. Junier, P. Junier and S. Bindschedler | Comparison of the plant growth-promotion performance of a consortium of Bacilli inoculated as endospores or as vegetative cells | FEMS Microbiology Ecology | 95(11) |
| 2019 | 10.1042/BCJ20180615 | Hartman, K. and S. G. Tringe | Interactions between plants and soil shaping the root microbiome under abiotic stress | Biochemical Journal | 476(19) 2705–2724 |
| 2019 | 10.3791/59517 | Harris, S. L., C. A. Pelaez and E. A. Shank | Monitoring Bacterial Colonization and Maintenance on Arabidopsis thaliana Roots in a Floating Hydroponic System | Journal of Visualized Experiments | (147) e59517 |
| 2019 | 10.1016/j.tibtech.2019.05.007 | Harfouche, A. L., D. A. Jacobson, D. Kainer, J. C. Romero, A. H. Harfouche, G. Scarascia Mugnozza, M. Moshelion, G. A. Tuskan, J. J. B. Keurentjes and A. Altman | Accelerating Climate Resilient Plant Breeding by Applying Next-Generation Artificial Intelligence | Trends in Biotechnology | 37(11) 1217–35 |
| 2019 | 10.1016/bs.abr.2018.11.008 | Harding, S. A. and C. J. Tsai | Cell wall pectins in tree growth and woody biomass utilization | Molecular Physiology and Biotechnology of Trees | 89 235–56 |
| 2019 | 10.1038/s41598-019-38483-0 | Handakumbura, P. P., B. Stanfill, A. Rivas-Ubach, D. Fortin, J. P. Vogel and C. Jansson | Metabotyping as a Stopover in Genome-to-Phenome Mapping | Scientific Reports | 9(1) 1858 |
| 2019 | 10.1093/nar/gkz642 | Hancock, S. P., D. Cascio and R. C. Johnson | Cooperative DNA binding by proteins through DNA shape complementarity | Nucleic Acids Research | 47(16) 8874–87 |
| 2019 | 10.1073/pnas.1905179116 | Hamm, J. N., S. Erdmann, E. A. Eloe-Fadrosh, A. Angeloni, L. Zhong, et al. | Unexpected host dependency of Antarctic Nanohaloarchaeota | Proceedings of the National Academy of Sciences | 116(29) 14661-14670 |
| 2019 | 10.1021/acssynbio.8b00480 | HamediRad, M., S. Weisberg, R. Chao, J. Lian and H. Zhao | Highly Efficient Single-Pot Scarless Golden Gate Assembly | Acs Synthetic Biology | 8(5) 1047–54 |
| 2019 | 10.1038/s41467-019-13189-z | HamediRad, M., R. Chao, S. Weisberg, J. Lian, S. Sinha and H. Zhao | Towards a fully automated algorithm driven platform for biosystems design | Nature Communications | 10(1) 5150 |
| 2019 | 10.1038/s41396-019-0485-x | Hale, L., W. Feng, H. Yin, X. Guo, X. Zhou, et al. | Tundra microbial community taxa and traits predict decomposition parameters of stable, old soil organic carbon | The ISME Journal | 13(12) 2901–15 |
| 2019 | 10.3389/fevo.2019.00191 | Haan, N. L. and D. A. Landis | The Importance of Shifting Disturbance Regimes in Monarch Butterfly Decline and Recovery | Frontiers in Ecology and Evolution | 7 |
| 2019 | 10.1016/j.biocon.2019.03.007 | Haan, N. L. and D. A. Landis | Grassland disturbance increases monarch butterfly oviposition and decreases arthropod predator abundance | Biological Conservation | 233 185–92 |
| 2019 | 10.1038/s41467-019-09377-6 | Guzman, M. S., K. Rengasamy, M. M. Binkley, C. Jones, T. O. Ranaivoarisoa, R. Singh, D. A. Fike, J. M. Meacham and A. Bose | Phototrophic extracellular electron uptake is linked to carbon dioxide fixation in the bacterium Rhodopseudomonas palustris | Nat Commun | 10(1) 1355 |
| 2019 | 10.3389/fmolb.2019.00115 | Gupta, V., B. Zhang, C. R. Penton, J. Yu and J. M. Tiedje | Diazotroph Diversity and Nitrogen Fixation in Summer Active Perennial Grasses in a Mediterranean Region Agricultural Soil | Frontiers in Molecular Biosciences | 6 115 |
| 2019 | 10.1074/jbc.RA119.007592 | Gupta, S., M. Sutter, S. G. Remesh, M. A. Dominguez-Martin, H. Bao, X. A. Feng, L.-J. G. Chan, C. J. Petzold, C. A. Kerfeld and C. Y. Ralston | X-ray radiolytic labeling reveals the molecular basis of orange carotenoid protein photoprotection and its interactions with fluorescence recovery protein | Journal of Biological Chemistry | 294(22) 8848–60 |
| 2019 | 10.1074/jbc.RA119.009239 | Gupta, S., C. Merriman, C. J. Petzold, C. Y. Ralston and D. Fu | Water molecules mediate zinc mobility in the bacterial zinc diffusion channel ZIPB | Journal of Biological Chemistry | 294(36) 13327–35 |
| 2019 | 10.1128/mra.00403-19 | Gupta, N., K. A. Skinner, Z. M. Summers, J. N. Edirisinghe, J. P. Faria, C. W. Marshall, A. Sharma, N. R. Gottel, J. A. Gilbert, C. S. Henry and E. J. O’Loughlin | Draft Genome Sequence of Rhodococcus sp. Strain ATCC 49988, a Quinoline-Degrading Bacterium | Microbiology Resource Announcements | 8(25) |
| 2019 | 10.1128/MRA.00301-19 | Gupta, N., K. A. Skinner, S. Khan, J. N. Edirisinghe and C. S. Henry | Draft Genome Sequence of Enterobacter sp. Strain A8, a Carbazole-Degrading Bacterium | Microbiology Resource Announcements | 8(18) |
| 2019 | 10.1038/s41559-019-0848-8 | Guo, X., X. Zhou, L. Hale, M. Yuan, D. Ning, et al. | Climate warming accelerates temporal scaling of grassland soil microbial biodiversity | Nature Ecology & Evolution | 3(4) 612–9 |
| 2019 | 10.3389/fgene.2019.00957 | Guo, J., J. F. Quensen, Y. Sun, Q. Wang, C. T. Brown, J. R. Cole and J. M. Tiedje | Review, Evaluation, and Directions for Gene-Targeted Assembly for Ecological Analyses of Metagenomes | Frontiers in Genetics | 10 957 |
| 2019 | 10.3390/e21060591 | Guo, H. B., Y. Ma, G. A. Tuskan, H. Qin, X. Yang and H. Guo | A Suggestion of Converting Protein Intrinsic Disorder to Structural Entropy Using Shannon's Information Theory | Entropy | 21(6) |
| 2019 | 10.1111/ejss.12744 | Guber, A. K., A. N. Kravchenko, B. S. Razavi, E. Blagodatskaya and Y. Kuzyakov | Calibration of 2-D soil zymography for correct analysis of enzyme distribution | European Journal of Soil Science | 70(4) 715–26 |
| 2019 | 10.1111/mpp.12861 | Guarnaccia, V., T. Gehrmann, G. J. Silva-Junior, P. H. Fourie, S. Haridas, D. Vu, J. Spatafora, F. M. Martin, V. Robert, I. V. Grigoriev, J. Z. Groenewald and P. W. Crous | Phyllosticta citricarpa and sister species of global importance to Citrus | Molecular Plant Pathology | 20(12) 1619-1635 |
| 2019 | 10.1016/j.fuel.2019.03.094 | Groendyk, M. and D. A. Rothamer | Optical investigation of mixing-controlled combustion using a novel transgenic plant oil | Fuel | 252 675–98 |
| 2019 | 10.1007/s13399-018-0346-2 | Graham, B. J. and R. T. Raines | Efficient metal-free conversion of glucose to 5-hydroxymethylfurfural using a boronic acid | Biomass Conversion and Biorefinery | 9(2) 471–7 |
| 2019 | 10.1038/s41467-019-11974-4 | Grady, K. L., J. W. Sorensen, N. Stopnisek, J. Guittar and A. Shade | Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops | Nature Communications | 10(1) 4135 |
| 2019 | 10.1016/j.plantsci.2019.02.004 | Grabber, J. H., C. Davidson, Y. Tobimatsu, H. Kim, F. Lu, Y. Zhu, M. Opietnik, N. Santoro, C. E. Foster, F. Yue, D. Ress, X. Pan and J. Ralph | Structural features of alternative lignin monomers associated with improved digestibility of artificially lignified maize cell walls | Plant Science | 287 110070 |
| 2019 | 10.1128/AEM.00048-19 | Govindaraju, A., J. B. McKinlay and B. LaSarre | Phototrophic Lactate Utilization by Rhodopseudomonas palustris Is Stimulated by Coutilization with Additional Substrates | Applied and Environmental Microbiology | 85(11) |
| 2019 | 10.1111/nph.15712 | Gou, J., C. Tang, N. Chen, H. Wang, S. Debnath, L. Sun, A. Flanagan, Y. Tang, Q. Jiang, R. D. Allen and Z. Y. Wang | SPL7 and SPL8 represent a novel flowering regulation mechanism in switchgrass | New Phytologist | 222(3) 1610–23 |
| 2019 | 10.1186/s12864-019-5828-5 | Gordon, S. P., J. J. Levy and J. P. Vogel | PolyCRACKER, a robust method for the unsupervised partitioning of polyploid subgenomes by signatures of repetitive DNA evolution | BMC Genomics | 20(1) 580 |
| 2019 | 10.1016/j.str.2019.08.011 | Goodsell, D. S., L. Autin and A. J. Olson | Illustrate: Software for Biomolecular Illustration | Structure | 27(11) 1716–20.e1 |
| 2019 | 10.3390/sym11091170 | Goodsell, D. S. | Symmetry at the Cellular Mesoscale | Symmetry | 11(9) |
| 2019 | 10.1007/978-3-030-17083-7_5 | Gong, B. and E. Purdom | MethCP: Differentially Methylated Region Detection with Change Point Models | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 11467 LNBI 68-84 |
| 2019 | 10.3389/fmicb.2019.01204 | Gómez-Consarnau, L., D. M. Needham, P. K. Weber, J. A. Fuhrman and X. Mayali | Influence of Light on Particulate Organic Matter Utilization by Attached and Free-Living Marine Bacteria | Frontiers in Microbiology | 10 |
| 2019 | 10.1128/mbio.02287-19 | Goethem, M. W. V., T. L. Swenson, G. Trubl, S. Roux and T. R. Northen | Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust | mBio | 10(6) |
| 2019 | 10.1042/ETLS20180177 | Glynn, C. and J. A. Rodriguez | Data-driven challenges and opportunities in crystallography | Emerging Topics in Life Sciences | 3(4) 423–32 |
| 2019 | 10.1016/j.jmb.2019.01.024 | Glasgow, E. M., K. A. Vander Meulen, T. E. Takasuka, C. M. Bianchetti, L. F. Bergeman, S. Deutsch and B. G. Fox | Extent and Origins of Functional Diversity in a Subfamily of Glycoside Hydrolases | Journal of Molecular Biology | 431(6) 1217–1233 |
| 2019 | 10.1039/c8gc03606c | Giummarella, N., Y. Q. Pu, A. J. Ragauskas and M. Lawoko | A critical review on the analysis of lignin carbohydrate bonds | Green Chemistry | 21(7) 1573–95 |
| 2019 | 10.1021/acssynbio.9b00271 | Gilmore, S. P., T. S. Lankiewicz, S. E. Wilken, J. L. Brown, J. A. Sexton, J. K. Henske, M. K. Theodorou, D. L. Valentine and M. A. O'Malley | Top-Down Enrichment Guides in Formation of Synthetic Microbial Consortia for Biomass Degradation | ACS Synthetic Biology | 8(9) 2174–85 |
| 2019 | 10.1016/j.ymben.2018.12.008 | Ghosh, I. N., J. Martien, A. S. Hebert, Y. Zhang, J. J. Coon, D. Amador-Noguez and R. Landick | OptSSeq explores enzyme expression and function landscapes to maximize isobutanol production rate | Metabolic Engineering | 52 324–40 |
| 2019 | 10.1016/j.soilbio.2018.09.036 | Geyer, K. M., P. Dijkstra, R. Sinsabaugh and S. D. Frey | Clarifying the interpretation of carbon use efficiency in soil through methods comparison | Soil Biology and Biochemistry | 128 79–88 |
| 2019 | Germer, S., E. Alexopoulou, I. V. Concha, P. Grundmann, H. R. Van, R. Janssen, C. Khawaja, F. Kiourtsis, A. Monti, K. Sailer, O. Tryboi, M. Wagner and W. Zegada-Lizarazu | Innovative lignocellulosic cropping systems in Europe: Combining knowledge from several eu-projects | European Biomass Conference and Exhibition Proceedings | 84-89 | |
| 2019 | 10.1111/1462-2920.14435 | Ge, X., B. J. Vaccaro, M. P. Thorgersen, F. L. Poole II, E. L. Majumder, et al. | Iron- and aluminium-induced depletion of molybdenum in acidic environments impedes the nitrogen cycle | Environmental Microbiology | 21(1) 152–63 |
| 2019 | 10.1021/acssuschemeng.9b00019 | Garedew, M., D. Young-Farhat, J. E. Jackson and C. M. Saffron | Electrocatalytic Upgrading of Phenolic Compounds Observed after Lignin Pyrolysis | ACS Sustainable Chemistry & Engineering | 7(9) 8375–86 |
| 2019 | 10.1038/s41598-019-53188-0 | Gardner, J. J., B. S. Hodge and N. R. Boyle | Multiscale Multiobjective Systems Analysis (MiMoSA): an advanced metabolic modeling framework for complex systems | Scientific Reports | 9(1) 16948 |
| 2019 | 10.3389/fmicb.2019.02083 | García-López, M., J. P. Meier-Kolthoff, B. J. Tindall, S. Gronow, T. Woyke, N. C. Kyrpides, R. L. Hahnke and M. Göker | Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes | Frontiers in Microbiology | 10 |
| 2019 | 10.3390/pr7060361 | Garcia, S. and C. T. Trinh | Comparison of Multi-Objective Evolutionary Algorithms to Solve the Modular Cell Design Problem for Novel Biocatalysis | Processes | 7(6) |
| 2019 | 10.1016/j.ymben.2018.09.003 | Garcia, S. and C. T. Trinh | Multiobjective strain design: A framework for modular cell engineering | Metabolic Engineering | 51 110–20 |
| 2019 | 10.1016/j.biotechadv.2019.06.002 | Garcia, S. and C. T. Trinh | Modular design: Implementing proven engineering principles in biotechnology | Biotechnology Advances | 37(7) 107403 |
| 2019 | 10.1021/acschembio.9b00725 | Garcia, D. C., X. Cheng, M. L. Land, R. F. Standaert, J. L. Morrell-Falvey and M. J. Doktycz | Computationally Guided Discovery and Experimental Validation of Indole-3-acetic Acid Synthesis Pathways | ACS Chemical Biology | 14(12) 2867–75 |
| 2019 | 10.1128/MRA.01077-19 | Garcia, C. A., J. A. Narrett and J. G. Gardner | Complete Genome Sequences of Cellvibrio japonicus Strains with Improved Growth When Using α-Diglucosides | Microbiology Resource Announcements | 8(44) |
| 2019 | 10.2174/1574893614666190204151746 | Gao, Y. B., F. H. Xi, H. X. Zhang, X. Q. Liu, H. Y. Wang, L. Z. Zhao, A. S. N. Reddy and L. F. Gu | Single-Molecule Real-Time (SMRT) Isoform Sequencing (Iso-Seq) in Plants: The Status of the Bioinformatics Tools to Unravel the Transcriptome Complexity | Current Bioinformatics | 14(7) 566–73 |
| 2019 | 10.1016/j.watres.2019.02.020 | Gao, H., Y. Mao, X. Zhao, W. T. Liu, T. Zhang and G. Wells | Genome-centric metagenomics resolves microbial diversity and prevalent truncated denitrification pathways in a denitrifying PAO-enriched bioprocess | Water Research | 155 275–87 |
| 2019 | 10.1038/s41396-018-0264-0 | Gao, C., L. Montoya, L. Xu, M. Madera, J. Hollingsworth, E. Purdom, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Strong succession in arbuscular mycorrhizal fungal communities | The ISME Journal | 13(1) 214–26 |
| 2019 | 10.1038/s42003-018-0263-8 | Gallagher-Jones, M., C. Ophus, K. C. Bustillo, D. R. Boyer, O. Panova, C. Glynn, C. T. Zee, J. Ciston, K. C. Mancia, A. M. Minor and J. A. Rodriguez | Nanoscale mosaicity revealed in peptide microcrystals by scanning electron nanodiffraction | Communications Biology | 2 26 |
| 2019 | 10.1016/j.algal.2019.101598 | Gaidarenko, O., C. Sathoff, K. Staub, M. H. Huesemann, M. Vernet and M. Hildebrand | Timing is everything: Diel metabolic and physiological changes in the diatom Cyclotella cryptica grown in simulated outdoor conditions | Algal Research | 42 |
| 2019 | 10.3835/plantgenome2018.09.0069 | Gage, J. L., B. Vaillancourt, J. P. Hamilton, N. C. Manrique-Carpintero, T. J. Gustafson, K. Barry, A. Lipzen, W. F. Tracy, M. A. Mikel, S. M. Kaeppler, C. R. Buell and N. de Leon | Multiple Maize Reference Genomes Impact the Identification of Variants by Genome-Wide Association Study in a Diverse Inbred Panel | Plant Genome | 12(2) |
| 2019 | 10.3389/fpls.2019.01249 | Furches, A., D. Kainer, D. Weighill, A. Large, P. Jones, et al. | Finding New Cell Wall Regulatory Genes in Populus trichocarpa Using Multiple Lines of Evidence | Frontiers in Plant Science | 10 |
| 2019 | 10.3389/fpls.2019.01249 | Furches, A., D. Kainer, D. Weighill, A. Large, P. Jones, et al. | Finding New Cell Wall Regulatory Genes in Populus trichocarpa Using Multiple Lines of Evidence | Frontiers in Plant Science | 10 1249 |
| 2019 | 10.1371/journal.pone.0218279 | Frausto, R. F., D. D. Chung, P. M. Boere, V. S. Swamy, H. N. V. Duong, et al. | ZEB1 insufficiency causes corneal endothelial cell state transition and altered cellular processing | PLoS One | 14(6) e0218279 |
| 2019 | 10.1074/jbc.RA119.009223 | Frandsen, K. E. H., M. Tovborg, C. I. Jørgensen, N. Spodsberg, M.-N. Rosso, et al. | Insights into an unusual Auxiliary Activity 9 family member lacking the histidine brace motif of lytic polysaccharide monooxygenases | Journal of Biological Chemistry | 294(45) 17117-17130 |
| 2019 | 10.1016/j.syapm.2018.08.007 | Francis, T. B., K. Krüger, B. M. Fuchs, H. Teeling and R. I. Amann | Candidatus Prosiliicoccus vernus, a spring phytoplankton bloom associated member of the Flavobacteriaceae | Systematic and Applied Microbiology | 42(1) 41-53 |
| 2019 | 10.1371/journal.pcbi.1007319 | Foster, C. J., S. Gopalakrishnan, M. R. Antoniewicz and C. D. Maranas | From Escherichia coli mutant 13C labeling data to a core kinetic model: A kinetic model parameterization pipeline | PLoS Computational Biology | 15(9) e1007319 |
| 2019 | 10.1021/jacs.8b11521 | Fleming, S. R., T. E. Bartges, A. A. Vinogradov, C. L. Kirkpatrick, Y. Goto, H. Suga, L. M. Hicks and A. A. Bowers | Flexizyme-Enabled Benchtop Biosynthesis of Thiopeptides | Journal of the American Chemical Society | 141(2) 758-762 |
| 2019 | 10.1016/j.algal.2019.101500 | Fisher, C. L., C. S. Ward, P. D. Lane, J. A. Kimbrel, K. L. Sale, R. K. Stuart, X. Mayali and T. W. Lane | Bacterial communities protect the alga Microchloropsis salina from grazing by the rotifer Brachionus plicatilis | Algal Research | 40 |
| 2019 | 10.1021/acscentsci.9b00835 | Fisher, B. F., H. M. Snodgrass, K. A. Jones, M. C. Andorfer and J. C. Lewis | Site-Selective C–H Halogenation Using Flavin-Dependent Halogenases Identified via Family-Wide Activity Profiling | ACS Central Science | 5(11) 1844-1856 |
| 2019 | 10.1007/978-1-4939-9721-3_11 | Finley, B. K., M. Hayer, R. L. Mau, A. M. Purcell, B. J. Koch, N. C. van Gestel, E. Schwartz and B. A. Hungate | Microbial Taxon-Specific Isotope Incorporation with DNA Quantitative Stable Isotope Probing | Methods in Molecular Biology | 2046 137–49 |
| 2019 | 10.1111/jam.14258 | Fernández‐Bayo, J. D., K. V. Hestmark, J. T. Claypool, D. R. Harrold, T. E. Randall, Y. Achmon, J. J. Stapleton, C. W. Simmons and J. S. VanderGheynst | The initial soil microbiota impacts the potential for lignocellulose degradation during soil solarization | Journal of Applied Microbiology | 126(6) 1729-1741 |
| 2019 | 10.1128/mBio.02521-18 | Feng, J., C. R. Penton, Z. He, J. D. Van Nostrand, M. M. Yuan, et al. | Long-Term Warming in Alaska Enlarges the Diazotrophic Community in Deep Soils | mBio | 10(1) |
| 2019 | 10.3389/fmicb.2019.02270 | Felczak, M. M., T. B. Jacobson, W. K. Ong, D. Amador-Noguez and M. A. TerAvest | Expression of Phosphofructokinase Is Not Sufficient to Enable Embden-Meyerhof-Parnas Glycolysis in Zymomonas mobilis ZM4 | Frontiers in Microbiology | 10 |
| 2019 | 10.3389/fmicb.2019.02270 | Felczak, M. M., T. B. Jacobson, W. K. Ong, D. Amador-Noguez and M. A. TerAvest | Expression of Phosphofructokinase Is Not Sufficient to Enable Embden-Meyerhof-Parnas Glycolysis in Zymomonas mobilis ZM4 | Frontiers in Microbiology | 10 2270 |
| 2019 | 10.1021/acscatal.9b02737 | Fasan, R., S. B. Jennifer Kan and H. Zhao | A Continuing Career in Biocatalysis: Frances H. Arnold | ACS Catalysis | 9(11) 9775–88 |
| 2019 | 10.1016/j.apenergy.2019.01.143 | Fasahati, P., J. J. Liu, J. B. Ohlrogge and C. M. Saffron | Process design and economics for production of advanced biofuels from genetically modified lipid-producing sorghum | Applied Energy | 239 1459–70 |
| 2019 | 10.1103/RevModPhys.91.045004 | Fang, X., K. Kruse, T. Lu and J. Wang | Nonequilibrium physics in biology | Reviews of Modern Physics | 91(4) |
| 2019 | 10.1073/pnas.1920065116 | Fan, L.-M., W. Zhang, J.-G. Chen, J. P. Taylor, A. M. Jones and S. M. Assmann | Correction for Fan et al., Abscisic acid regulation of guard-cell K+ and anion channels in Gβ- and RGS-deficient Arabidopsis lines | Proceedings of the National Academy of Sciences | 116(52) 27160–61 |
| 2019 | 10.3390/plants8070229 | Fan, J., C. Zhou, L. Yu, P. Li, J. Shanklin and C. Xu | Diversion of Carbon Flux from Sugars to Lipids Improves the Growth of an Arabidopsis Starchless Mutant | Plants | 8(7) |
| 2019 | 10.1128/MRA.00849-19 | Faleye, T. O. C., O. M. Adewumi, O. T. Olayinka and J. A. Adeniji | Genomic Characterization of a Coxsackievirus A20 Strain Recovered from a Child with Acute Flaccid Paralysis in Nigeria | Microbiology Resource Announcements | 8(42) |
| 2019 | 10.7185/geochemlet.1922 | Fahnestock, M. F., J. G. Bryce, C. K. McCalley, M. Montesdeoca, S. Bai, Y. Li, C. T. Driscoll, P. M. Crill, V. I. Rich and R. K. Varner | Mercury reallocation in thawing subarctic peatlands | Geochemical Perspectives Letters | 11 33–8 |
| 2019 | 10.1038/s41579-018-0136-7 | Evans, P. N., J. A. Boyd, A. O. Leu, B. J. Woodcroft, D. H. Parks, P. Hugenholtz and G. W. Tyson | An evolving view of methane metabolism in the Archaea | Nature Reviews Microbiology | 17(4) 219–32 |
| 2019 | 10.1007/s00425-019-03097-3 | Evans, B. R., M. Foston, H. M. O'Neill, D. Reeves, C. Rempe, K. McGrath, A. J. Ragauskas and B. H. Davison | Production of deuterated biomass by cultivation of Lemna minor (duckweed) in D2O | Planta | 249(5) 1465–75 |
| 2019 | 10.1002/ece3.5670 | Escalas, A., L. Hale, J. W. Voordeckers, Y. Yang, M. K. Firestone, L. Alvarez-Cohen and J. Zhou | Microbial functional diversity: From concepts to applications | Ecology and Evolution | 9(20) 12000–16 |
| 2019 | 10.1021/acschembio.8b01107 | Erbilgin, O., O. Rübel, K. B. Louie, M. Trinh, M. d. Raad, T. Wildish, D. Udwary, C. Hoover, S. Deutsch, T. R. Northen and B. P. Bowen | MAGI: A Method for Metabolite Annotation and Gene Integration | ACS Chemical Biology | 14(4) 704-714 |
| 2019 | 10.1021/acschembio.8b01107 | Erbilgin, O., O. Rubel, K. B. Louie, M. Trinh, M. Raad, T. Wildish, D. Udwary, C. Hoover, S. Deutsch, T. R. Northen and B. P. Bowen | MAGI: A Method for Metabolite Annotation and Gene Integration | ACS Chemical Biology | 14(4) 704–14 |
| 2019 | 10.1002/bit.26847 | Emerson, D. F., B. M. Woolston, N. Liu, M. Donnelly, D. H. Currie and G. Stephanopoulos | Enhancing hydrogen-dependent growth of and carbon dioxide fixation by Clostridium ljungdahlii through nitrate supplementation | Biotechnology and Bioengineering | 116(2) 294–306 |
| 2019 | 10.1038/s41564-019-0511-9 | Eloe-Fadrosh, E. A. | Towards a genome-based virus taxonomy | Nature Microbiology | 4(8) 1249-1250 |
| 2019 | 10.1038/s41579-019-0248-8 | Eloe-Fadrosh, E. A. | Genome gazing in ammonia-oxidizing archaea | Nature Reviews Microbiology | 17(9) 531 |
| 2019 | 10.1016/j.phytochem.2019.04.003 | Elder, T., J. Carlos Del Rio, J. Ralph, J. Rencoret, H. Kim and G. T. Beckham | Radical coupling reactions of piceatannol and monolignols: A density functional theory study | Phytochemistry | 164 12–23 |
| 2019 | 10.1021/acssynbio.9b00230 | Eiben, C. B., T. de Rond, C. Bloszies, J. Gin, J. Chiniquy, E. E. K. Baidoo, C. J. Petzold, N. J. Hillson, O. Fiehn and J. D. Keasling | Mevalonate Pathway Promiscuity Enables Noncanonical Terpene Production | ACS Synthetic Biology | 8(10) 2238–47 |
| 2019 | 10.1093/nar/gkz085 | Egbert, R. G., H. S. Rishi, B. A. Adler, D. M. McCormick, E. Toro, R. T. Gill and A. P. Arkin | A versatile platform strain for high-fidelity multiplex genome editing | Nucleic Acids Research | 47(6) 3244–56 |
| 2019 | 10.1186/s12915-019-0661-5 | Dunivin, T. K., S. Y. Yeh and A. Shade | A global survey of arsenic-related genes in soil microbiomes | BMC Biology | 17(1) 45 |
| 2019 | 10.1128/mSystems.00349-18 | Dunivin, T. K., J. Choi, A. Howe and A. Shade | RefSoil+: a Reference Database for Genes and Traits of Soil Plasmids | mSystems | 4(1) |
| 2019 | 10.1111/gcbb.12572 | Duncan, D. S., L. G. Oates, I. Gelfand, N. Millar, G. P. Robertson and R. D. Jackson | Environmental factors function as constraints on soil nitrous oxide fluxes in bioenergy feedstock cropping systems | GCB Bioenergy | 11(2) 416–26 |
| 2019 | 10.1016/j.biombioe.2019.01.026 | Dulys-Nusbaum, E., S. S. H. Klammer and S. M. Swinton | How willing are different types of landowner to supply hardwood timber residues for bioenergy? | Biomass and Bioenergy | 122 45–52 |
| 2019 | 10.1002/ecm.1367 | Duhamel, M., J. Wan, L. M. Bogar, R. M. Segnitz, N. C. Duncritts and K. G. Peay | Plant selection initiates alternative successional trajectories in the soil microbial community after disturbance | Ecological Monographs | 89(3) |
| 2019 | 10.1186/s12934-019-1080-6 | Duell, E. R., P. M. D’Agostino, N. Shapiro, T. Woyke, T. M. Fuchs and T. A. M. Gulder | Direct pathway cloning of the sodorifen biosynthetic gene cluster and recombinant generation of its product in E. coli | Microbial Cell Factories | 18(1) 32 |
| 2019 | 10.1093/synbio/ysz003 | Dudley, Q. M., C. J. Nash and M. C. Jewett | Cell-free biosynthesis of limonene using enzyme-enriched Escherichia coli lysates | Synthetic Biology | 4(1) |
| 2019 | 10.1093/synbio/ysz003 | Dudley, Q. M., C. J. Nash and M. C. Jewett | Cell-free biosynthesis of limonene using enzyme-enriched Escherichia coli lysates | Synthetic Biology | 4(1) |
| 2019 | 10.7554/eLife.47815 | Du, Z. Y., K. Zienkiewicz, N. Vande Pol, N. E. Ostrom, C. Benning and G. M. Bonito | Algal-fungal symbiosis leads to photosynthetic mycelium | eLife | 8 |
| 2019 | 10.1038/s41396-019-0557-y | Doud, D. F. R., R. M. Bowers, F. Schulz, M. De Raad, K. Deng, et al. | Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere | The ISME Journal | 14(3) 659-675 |
| 2019 | 10.1016/j.indcrop.2018.11.033 | Dou, J., H. Bian, D. J. Yelle, M. Ago, K. Vajanto, T. Vuorinen and J. Zhu | Lignin containing cellulose nanofibril production from willow bark at 80 °C using a highly recyclable acid hydrotrope | Industrial Crops and Products | 129 15–23 |
| 2019 | 10.1111/mmi.14280 | Donohue, T. J. | Shedding light on a Group IV (ECF11) alternative σ factor | Molecular Microbiology | 112(2) 374–84 |
| 2019 | 10.1002/bit.26995 | Dong, J., Y. Chen, V. T. Benites, E. E. K. Baidoo, C. J. Petzold, H. R. Beller, A. Eudes, H. V. Scheller, P. D. Adams, A. Mukhopadhyay, B. A. Simmons and S. W. Singer | Methyl ketone production by Pseudomonas putida is enhanced by plant-derived amino acids | Biotechnology and Bioengineering | 116(8) 1909–22 |
| 2019 | 10.1111/gcbb.12587 | Dong, H. X., S. Y. Liu, L. V. Clark, S. Sharma, J. M. Gifford, J. A. Juvik, A. E. Lipka and E. J. Sacks | Winter hardiness of Miscanthus (II): Genetic mapping for overwintering ability and adaptation traits in three interconnected Miscanthus populations | GCB Bioenergy | 11(5) 706–26 |
| 2019 | 10.1111/gcbb.12588 | Dong, H. X., S. V. Green, A. Nishiwaki, T. Yamada, J. R. Stewart, M. Deuter and E. J. Sacks | Winter hardiness of Miscanthus (I): Overwintering ability and yield of new Miscanthus x giganteus genotypes in Illinois and Arkansas | GCB Bioenergy | 11(5) 691–705 |
| 2019 | 10.1111/gcbb.12615 | Dong, H. X., L. V. Clark, A. E. Lipka, J. E. Brummer, K. Glowacka, et al. | Winter hardiness of Miscanthus (III): Genome-wide association and genomic prediction for overwintering ability in Miscanthus sinensis | GCB Bioenergy | 11(8) 930–55 |
| 2019 | 10.1021/acs.analchem.8b03126 | Domingo-Almenara, X., J. R. Montenegro-Burke, C. Guijas, E. L. Majumder, H. P. Benton and G. Siuzdak | Autonomous METLIN-Guided In-source Fragment Annotation for Untargeted Metabolomics | Analytical Chemistry | 91(5) 3246–53 |
| 2019 | 10.1128/MRA.01464-18 | Domeignoz-Horta, L. A., K. M. DeAngelis and G. Pold | Draft Genome Sequence of Acidobacteria Group 1 Acidipila sp. Strain EB88, Isolated from Forest Soil | Microbiology Resource Announcements | 8(1) |
| 2019 | 10.1021/acs.langmuir.9b00184 | Do, H., S. R. Kwon, K. Fu, N. Morales-Soto, J. D. Shrout and P. W. Bohn | Electrochemical Surface-Enhanced Raman Spectroscopy of Pyocyanin Secreted by Pseudomonas aeruginosa Communities | Langmuir | 35(21) 7043-7049 |
| 2019 | 10.1098/rsob.190215 | Dixon, R. A. and J. Barros | Lignin biosynthesis: old roads revisited and new roads explored | Open Biology | 9(12) 190215 |
| 2019 | 10.1016/j.mec.2019.e00101 | Dinh, H. V., P. F. Suthers, S. H. J. Chan, Y. Shen, T. Xiao, A. Deewan, S. S. Jagtap, H. Zhao, C. V. Rao, J. D. Rabinowitz and C. D. Maranas | A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data | Metabolic Engineering Communications | 9 e00101 |
| 2019 | 10.1038/s41477-019-0509-6 | Ding, Y., K. M. Murphy, E. Poretsky, S. Mafu, B. Yang, et al. | Multiple genes recruited from hormone pathways partition maize diterpenoid defences | Nature Plants | 5(10) 1043-1056 |
| 2019 | 10.1039/c9gc00252a | Ding, J. H., C. G. Yoo, Y. Q. Pu, X. Z. Meng, S. Bhagia, C. W. Yu and A. J. Ragauskas | Cellulolytic enzyme-aided extraction of hemicellulose from switchgrass and its characteristics | Green Chemistry | 21(14) 3902–10 |
| 2019 | 10.1021/acssynbio.8b00432 | diCenzo, G. C., A. Mengoni and M. Fondi | Tn-Core: A Toolbox for Integrating Tn-seq Gene Essentiality Data and Constraint-Based Metabolic Modeling | ACS Synthetic Biology | 8(1) 158–69 |
| 2019 | 10.1038/s41564-019-0449-y | Diamond, S., P. F. Andeer, Z. Li, A. Crits-Christoph, D. Burstein, K. Anantharaman, K. R. Lane, B. C. Thomas, C. Pan, T. R. Northen and J. F. Banfield | Mediterranean grassland soil C–N compound turnover is dependent on rainfall and depth, and is mediated by genomically divergent microorganisms | Nature Microbiology | 4(8) 1356-1367 |
| 2019 | 10.1021/acs.est.9b03273 | DeRose, K., F. Liu, R. W. Davis, B. A. Simmons and J. C. Quinn | Conversion of Distiller’s Grains to Renewable Fuels and High Value Protein: Integrated Techno-Economic and Life Cycle Assessment | Environmental Science & Technology | 53(17) 10525–33 |
| 2019 | 10.1002/jpln.201800301 | Denis, E. H., P. D. Ilhardt, A. E. Tucker, N. L. Huggett, J. J. Rosnow and J. J. Moran | Spatially tracking carbon through the root-rhizosphere-soil system using laser ablation-IRMS | Journal of Plant Nutrition and Soil Science | 182(3) 401–10 |
| 2019 | 10.3389/fmolb.2019.00064 | Demerdash, O., U. R. Shrestha, L. Petridis, J. C. Smith, J. C. Mitchell and A. Ramanathan | Using Small-Angle Scattering Data and Parametric Machine Learning to Optimize Force Field Parameters for Intrinsically Disordered Proteins | Frontiers in Molecular Biosciences | 6 64 |
| 2019 | 10.1002/ecs2.2773 | DeLucia, E. H., S. Chen, K. Guan, B. Peng, Y. Li, N. Gomez-Casanovas, I. B. Kantola, C. J. Bernacchi, Y. Huang, S. P. Long and D. R. Ort | Are we approaching a water ceiling to maize yields in the United States? | Ecosphere | 10(6) e02773 |
| 2019 | 10.1021/acssynbio.9b00213 | DeLorenzo, D. M. and T. S. Moon | Construction of Genetic Logic Gates Based on the T7 RNA Polymerase Expression System in Rhodococcus opacus PD630 | ACS Synthetic Biology | 8(8) 1921–30 |
| 2019 | 10.3389/fmicb.2019.02682 | Dekas, A. E., A. E. Parada, X. Mayali, J. A. Fuhrman, J. Wollard, P. K. Weber and J. Pett-Ridge | Characterizing Chemoautotrophy and Heterotrophy in Marine Archaea and Bacteria With Single-Cell Multi-isotope NanoSIP | Frontiers in Microbiology | 10 |
| 2019 | 10.1093/aepp/ppz023 | Debnath, D., M. Khanna, D. Rajagopal and D. Zilberman | The Future of Biofuels in an Electrifying Global Transportation Sector: Imperative, Prospects and Challenges | Applied Economic Perspectives and Policy | 41(4) 563–82 |
| 2019 | 10.1016/j.funbio.2019.09.006 | Deaver, N. R., C. Hesse, C. R. Kuske and A. Porras-Alfaro | Presence and distribution of insect-associated and entomopathogenic fungi in a temperate pine forest soil: An integrated approach | Fungal Biology | 123(12) 864–74 |
| 2019 | 10.1002/anie.201901782 | de Rond, T., J. Gao, A. Zargar, M. de Raad, J. Cunha, T. R. Northen and J. D. Keasling | A High-Throughput Mass Spectrometric Enzyme Activity Assay Enabling the Discovery of Cytochrome P450 Biocatalysts | Angewandte Chemie International Edition | 58(30) 10114–19 |
| 2019 | 10.1007/s00425-019-03288-y | de O. Buanafina, M. M., M. Fernanda Buanafina, T. Laremore, E. A. Shearer and H. W. Fescemyer | Characterization of feruloyl esterases in maize pollen | Planta | 250(6) 2063–82 |
| 2019 | 10.1039/c9gc00564a | De bruyn, M., C. Sener, D. D. Petrolini, D. J. McClelland, J. He, M. R. Ball, Y. Liu, L. Martins, J. A. Dumesic, G. W. Huber and B. M. Weckhuysen | Catalytic hydrogenation of dihydrolevoglucosenone to levoglucosanol with a hydrotalcite/mixed oxide copper catalyst | Green Chemistry | 21(18) 5000–7 |
| 2019 | 10.1128/MRA.00456-19 | Day, L. A., K. B. De Leon, M. L. Kempher, J. Zhou and J. D. Wall | Complete Genome Sequence of Desulfovibrio desulfuricans IC1, a Sulfonate-Respiring Anaerobe | Microbiology Resource Announcements | 8(31) |
| 2019 | 10.1016/j.ympev.2019.01.006 | Davis, W. J., K. R. Amses, G. L. Benny, D. Carter-House, Y. Chang, I. Grigoriev, M. E. Smith, J. W. Spatafora, J. E. Stajich and T. Y. James | Genome-scale phylogenetics reveals a monophyletic Zoopagales (Zoopagomycota, Fungi) | Molecular Phylogenetics and Evolution | 133 152-163 |
| 2019 | 10.1093/jxb/erz223 | Davis, S. C., J. Simpson, K. D. C. Gil-Vega, N. A. Niechayev, E. V. Van Tongerlo, N. H. Castano, L. V. Dever and A. Búrquez | Undervalued potential of crassulacean acid metabolism for current and future agricultural production | Journal of Experimental Botany | 70(22) 6521-6537 |
| 2019 | 10.3389/fmicb.2019.02081 | Davenport, E. J., M. J. Neudeck, P. G. Matson, G. S. Bullerjahn, T. W. Davis, et al. | Metatranscriptomic Analyses of Diel Metabolic Functions During a Microcystis Bloom in Western Lake Erie (United States) | Frontiers in Microbiology | 10 |
| 2019 | 10.1016/j.ymben.2019.06.006 | Dash, S., D. G. Olson, S. H. Joshua Chan, D. Amador-Noguez, L. R. Lynd and C. D. Maranas | Thermodynamic analysis of the pathway for ethanol production from cellobiose in Clostridium thermocellum | Metabolic Engineering | 55 161–9 |
| 2019 | 10.1186/s12864-019-5591-7 | Das, P., P. Babaei and J. Nielsen | Metagenomic analysis of microbe-mediated vitamin metabolism in the human gut microbiome | BMC Genomics | 20(1) 208 |
| 2019 | 10.1038/s41564-018-0312-6 | Daly, R. A., S. Roux, M. A. Borton, D. M. Morgan, M. D. Johnston, et al. | Viruses control dominant bacteria colonizing the terrestrial deep biosphere after hydraulic fracturing | Nature Microbiology | 4(2) 352-361 |
| 2019 | 10.1128/AEM.01828-19 | Daly, P., M. Peng, M. D. Falco, A. Lipzen, M. Wang, V. Ng, I. V. Grigoriev, A. Tsang, M. R. Mäkelä and R. P. d. Vries | Glucose-Mediated Repression of Plant Biomass Utilization in the White-Rot Fungus Dichomitus squalens | Applied and Environmental Microbiology | 85(23) e01828-19 |
| 2019 | 10.1111/pbi.13001 | Daly, P., C. McClellan, M. Maluk, H. Oakey, C. Lapierre, et al. | RNAi-suppression of barley caffeic acid O-methyltransferase modifies lignin despite redundancy in the gene family | Plant Biotechnology Journal | 17(3) 594–607 |
| 2019 | 10.1063/1.5080158 | Daloglu, M. U., A. Ray, M. J. Collazo, C. Brown, D. Tseng, B. Chocarro-Ruiz, L. M. Lechuga, D. Cascio and A. Ozcan | Low-cost and portable UV holographic microscope for high-contrast protein crystal imaging | APL Photonics | 4(3) |
| 2019 | 10.3390/insects10040087 | da Costa, R. R., H. Hu, H. Li and M. Poulsen | Symbiotic Plant Biomass Decomposition in Fungus-Growing Termites | Insects | 10(4) |
| 2019 | 10.1186/s13068-019-1426-7 | da Costa, R. M. F., S. Pattathil, U. Avci, A. Winters, M. G. Hahn and M. Bosch | Desirable plant cell wall traits for higher-quality miscanthus lignocellulosic biomass | Biotechnology for Biofuels | 12 85 |
| 2019 | 10.1016/j.ymben.2018.09.006 | Cui, J., D. G. Olson and L. R. Lynd | Characterization of the Clostridium thermocellum AdhE, NfnAB, ferredoxin and Pfor proteins for their ability to support high titer ethanol production in Thermoanaerobacterium saccharolyticum | Metabolic Engineering | 51 32-42 |
| 2019 | 10.1016/j.ymben.2018.09.006 | Cui, J., D. G. Olson and L. R. Lynd | Characterization of the Clostridium thermocellum AdhE, NfnAB, ferredoxin and Pfor proteins for their ability to support high titer ethanol production in Thermoanaerobacterium saccharolyticum | Metabolic Engineering | 51 32–42 |
| 2019 | Cui, J., L. R. Lynd and D. G. Olson | A cell-free extract (CFE) system in Clostridium thermocellum for ethanol production and metabolomics analysis | SIMB Annual Meeting and Exhibition | ||
| 2019 | 10.1534/g3.119.400350 | Cuevas, H. E., L. K. Prom and C. M. Cruet-Burgos | Genome-Wide Association Mapping of Anthracnose (Colletotrichum sublineolum) Resistance in NPGS Ethiopian Sorghum Germplasm | G3 Genes|Genomes|Genetics | 9(9) 2879–85 |
| 2019 | 10.1104/pp.19.00817 | Crisp, P. A., R. Hammond, P. Zhou, B. Vaillancourt, A. Lipzen, C. Daum, K. Barry, N. de Leon, C. R. Buell, S. M. Kaeppler, B. C. Meyers, C. N. Hirsch and N. M. Springer | Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids | Plant Physiology | 182(1) 318-331 |
| 2019 | 10.1021/acsami.8b19977 | Crawford, B. M., P. Strobbia, H. N. Wang, R. Zentella, M. I. Boyanov, Z. M. Pei, T. P. Sun, K. M. Kemner and T. Vo-Dinh | Plasmonic Nanoprobes for in Vivo Multimodal Sensing and Bioimaging of MicroRNA within Plants | ACS Appl Mater Interfaces | 11(8) 7743-7754 |
| 2019 | 10.1094/Pbiomes-12-18-0058-P | Craven, K. D. and P. Ray | More than Serendipity: The Potential to Manage Soil Carbon and Emissions While Promoting Low-Input Agriculture with Serendipitoid Mycorrhizae | Phytobiomes Journal | 3(3) 161–4 |
| 2019 | 10.1038/s41467-019-10542-0 | Couradeau, E., J. Sasse, D. Goudeau, N. Nath, T. C. Hazen, B. P. Bowen, R. Chakraborty, R. R. Malmstrom and T. R. Northen | Probing the active fraction of soil microbiomes using BONCAT-FACS | Nature Communications | 10(1) 2770 |
| 2019 | 10.1038/s41598-018-37025-4 | Corts, A. D., L. C. Thomason, R. T. Gill and J. A. Gralnick | A new recombineering system for precise genome-editing in Shewanella oneidensis strain MR-1 using single-stranded oligonucleotides | Scientific Reports | 9(1) 39 |
| 2019 | 10.1105/tpc.18.00676 | Cope, K. R., A. Bascaules, T. B. Irving, M. Venkateshwaran, J. Maeda, et al. | The Ectomycorrhizal Fungus Laccaria bicolor Produces Lipochitooligosaccharides and Uses the Common Symbiosis Pathway to Colonize Populus Roots | The Plant Cell | 31(10) 2386–410 |
| 2019 | 10.1186/s12864-019-5734-x | Cooper, E. A., Z. W. Brenton, B. S. Flinn, J. Jenkins, S. Shu, et al. | A new reference genome for Sorghum bicolor reveals high levels of sequence similarity between sweet and grain genotypes: implications for the genetics of sugar metabolism | BMC Genomics | 20(1) 420 |
| 2019 | 10.1186/s12864-019-5734-x | Cooper, E. A., Z. W. Brenton, B. S. Flinn, J. Jenkins, S. Shu, et al. | A new reference genome for Sorghum bicolor reveals high levels of sequence similarity between sweet and grain genotypes: implications for the genetics of sugar metabolism | BMC Genomics | 20(1) 420 |
| 2019 | 10.1186/s12918-019-0683-1 | Contador, C. A., V. Rodríguez, B. A. Andrews and J. A. Asenjo | Use of genome-scale models to get new insights into the marine actinomycete genus Salinispora | BMC Systems Biology | 13(1) 11 |
| 2019 | 10.3389/fpls.2019.00412 | Conde, D., M. Perales, A. Sreedasyam, G. A. Tuskan, A. Lloret, M. L. Badenes, P. Gonzalez-Melendi, G. Rios and I. Allona | Engineering Tree Seasonal Cycles of Growth Through Chromatin Modification | Frontiers in Plant Science | 10 412 |
| 2019 | 10.1038/s41467-019-10650-x | Comerci, C. J., J. Herrmann, J. Yoon, F. Jabbarpour, X. Zhou, J. F. Nomellini, J. Smit, L. Shapiro, S. Wakatsuki and W. E. Moerner | Topologically-guided continuous protein crystallization controls bacterial surface layer self-assembly | Nat Commun | 10(1) 2731 |
| 2019 | 10.1104/pp.19.00920 | Cocuron, J. C., M. Koubaa, R. Kimmelfield, Z. Ross and A. P. Alonso | A Combined Metabolomics and Fluxomics Analysis Identifies Steps Limiting Oil Synthesis in Maize Embryos | Plant Physiology | 181(3) 961–75 |
| 2019 | 10.1016/j.chroma.2018.12.059 | Cocuron, J. C., M. I. Casas, F. Yang, E. Grotewold and A. P. Alonso | Beyond the wall: High-throughput quantification of plant soluble and cell-wall bound phenolics by liquid chromatography tandem mass spectrometry | Journal of Chromatography A | 1589 93–104 |
| 2019 | 10.1073/pnas.1907234116 | Coale, T. H., M. Moosburner, A. Horák, M. Oborník, K. A. Barbeau and A. E. Allen | Reduction-dependent siderophore assimilation in a model pennate diatom | Proceedings of the National Academy of Sciences of the United States of America | 116(47) 23609-23617 |
| 2019 | 10.1111/mmi.14393 | Close, D. M., C. J. Cooper, X. Wang, P. Chirania, M. Gupta, J. R. Ossyra, R. J. Giannone, N. Engle, T. J. Tschaplinski, J. C. Smith, L. Hedstrom, J. M. Parks and J. K. Michener | Horizontal transfer of a pathway for coumarate catabolism unexpectedly inhibits purine nucleotide biosynthesis | Molecular Microbiology | 112(6) 1784–1797 |
| 2019 | 10.1111/gcbb.12566 | Clifton-Brown, J., A. Harfouche, M. D. Casler, H. Dylan Jones, W. J. Macalpine, et al. | Breeding progress and preparedness for mass-scale deployment of perennial lignocellulosic biomass crops switchgrass, miscanthus, willow and poplar | GCB Bioenergy | 11(1) 118–51 |
| 2019 | 10.3390/genes10120996 | Cliff, A., J. Romero, D. Kainer, A. Walker, A. Furches and D. Jacobson | A High-Performance Computing Implementation of Iterative Random Forest for the Creation of Predictive Expression Networks | Genes | 10(12) |
| 2019 | 10.1093/aob/mcy161 | Clark, L. V., X. Jin, K. K. Petersen, K. G. Anzoua, L. Bagmet, et al. | Population structure of Miscanthus sacchariflorus reveals two major polyploidization events, tetraploid-mediated unidirectional introgression from diploid M. sinensis, and diversity centred around the Yellow Sea | Annals of Botany | 124(4) 731–48 |
| 2019 | 10.1111/gcbb.12620 | Clark, L. V., M. S. Dwiyanti, K. G. Anzoua, J. E. Brummer, B. K. Ghimire, et al. | Genome-wide association and genomic prediction for biomass yield in a genetically diverse Miscanthus sinensis germplasm panel phenotyped at five locations in Asia and North America | GCB Bioenergy | 11(8) 988–1007 |
| 2019 | 10.1111/gcbb.12606 | Clark, L. V., M. S. Dwiyanti, K. G. Anzoua, J. E. Brummer, B. K. Ghimire, et al. | Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential | GCB Bioenergy | 11(10) 1125–45 |
| 2019 | 10.1021/acssuschemeng.8b05049 | Chung, D., N. S. Sarai, B. C. Knott, N. Hengge, J. F. Russell, et al. | Glycosylation Is Vital for Industrial Performance of Hyperactive Cellulases | ACS Sustainable Chemistry & Engineering | 7(5) 4792–800 |
| 2019 | 10.1021/bk-2019-1338.ch005 | Chundawat, S. P. S. and U. P. Agarwal | Swelling by hydrochloric acid partially retains cellulose-I type allomorphic ultrastructure but enhances susceptibility toward cellulase hydrolysis such as highly amorphous cellulose | ACS Symposium Series | 1338 69-88 |
| 2019 | 10.1021/acs.est.8b06389 | Christensen, G. A., C. M. Gionfriddo, A. J. King, J. G. Moberly, C. L. Miller, et al. | Determining the Reliability of Measuring Mercury Cycling Gene Abundance with Correlations with Mercury and Methylmercury Concentrations | Environmental Science & Technology | 53(15) 8649–63 |
| 2019 | 10.1128/msystems.00061-19 | Chowdhury, T. R., J.-Y. Lee, E. M. Bottos, C. J. Brislawn, R. A. White, et al. | Metaphenomic Responses of a Native Prairie Soil Microbiome to Moisture Perturbations | mSystems | 4(4) |
| 2019 | 10.1094/MPMI-09-18-0247-R | Chowda-Reddy, R. V., N. Palmer, S. Edme, G. Sarath, F. Kovacs, G. Yuen, R. Mitchell and S. Tatineni | A Two-Amino Acid Difference in the Coat Protein of Satellite panicum mosaic virus Isolates Is Responsible for Differential Synergistic Interactions with Panicum mosaic virus | Molecular Plant-Microbe Interactions | 32(4) 479–90 |
| 2019 | 10.1111/tpj.14497 | Chiniquy, D., W. Underwood, J. Corwin, A. Ryan, H. Szemenyei, C. C. Lim, S. H. Stonebloom, D. S. Birdseye, J. Vogel, D. Kliebenstein, H. V. Scheller and S. Somerville | PMR5, an acetylation protein at the intersection of pectin biosynthesis and defense against fungal pathogens | The Plant Journal | 100(5) 1022–1035 |
| 2019 | 10.1111/nph.15777 | Chhetri, H. B., D. Macaya-Sanz, D. Kainer, A. K. Biswal, L. M. Evans, et al. | Multitrait genome-wide association analysis of Populus trichocarpa identifies key polymorphisms controlling morphological and physiological traits | New Phytologist | 223(1) 293–309 |
| 2019 | 10.1111/nph.15777 | Chhetri, H. B., D. Macaya-Sanz, D. Kainer, A. K. Biswal, L. M. Evans, et al. | Multitrait genome-wide association analysis of Populus trichocarpa identifies key polymorphisms controlling morphological and physiological traits | New Phytologist | 223(1) 293-309 |
| 2019 | 10.3389/fmicb.2019.02170 | Chevrette, M. G., C. Carlos-Shanley, K. B. Louie, B. P. Bowen, T. R. Northen and C. R. Currie | Taxonomic and Metabolic Incongruence in the Ancient Genus Streptomyces | Frontiers in Microbiology | 10 |
| 2019 | 10.3389/fmicb.2019.02170 | Chevrette, M. G., C. Carlos-Shanley, K. B. Louie, B. P. Bowen, T. R. Northen and C. R. Currie | Taxonomic and Metabolic Incongruence in the Ancient Genus Streptomyces | Frontiers in Microbiology | 10 2170 |
| 2019 | 10.1016/j.molcel.2018.10.037 | Cheung, R., K. D. Insigne, D. Yao, C. P. Burghard, J. Wang, Y. E. Hsiao, E. M. Jones, D. B. Goodman, X. Xiao and S. Kosuri | A Multiplexed Assay for Exon Recognition Reveals that an Unappreciated Fraction of Rare Genetic Variants Cause Large-Effect Splicing Disruptions | Molecular Cell | 73(1) 183–94.e8 |
| 2019 | 10.1016/j.ecolmodel.2019.05.007 | Cheng, Y. W., N. J. Bouskill and E. L. Brodie | Model exploration of interactions between algal functional diversity and productivity in chemostats to represent open ponds systems across climate gradients | Ecological Modelling | 406 121–32 |
| 2019 | 10.1021/acs.chemrev.8b00439 | Cheng, X. and J. C. Smith | Biological Membrane Organization and Cellular Signaling | Chemical Reviews | 119(9) 5849–80 |
| 2019 | 10.3390/pr7100642 | Cheng, M. H., Z. Q. Wang, B. S. Dien, P. J. W. Slininger and V. Singh | Economic Analysis of Cellulosic Ethanol Production from Sugarcane Bagasse Using a Sequential Deacetylation, Hot Water and Disk-Refining Pretreatment | Processes | 7(10) |
| 2019 | 10.1002/bbb.1976 | Cheng, M. H., H. B. Huang, B. S. Dien and V. Singh | The costs of sugar production from different feedstocks and processing technologies | Biofuels, Bioproducts and Biorefining | 13(3) 723–39 |
| 2019 | 10.1016/j.bcab.2019.101056 | Cheng, M. H., B. S. Dien and V. Singh | Economics of plant oil recovery: A review | Biocatalysis and Agricultural Biotechnology | 18 |
| 2019 | 10.1016/j.biortech.2019.121663 | Cheng, M. H., B. S. Dien, D. K. Lee and V. Singh | Sugar production from bioenergy sorghum by using pilot scale continuous hydrothermal pretreatment combined with disk refining | Bioresource Technology | 289 121663 |
| 2019 | 10.1371/journal.pone.0211582 | Chen, Y., J. Vu, M. G. Thompson, W. A. Sharpless, L. J. G. Chan, J. W. Gin, J. D. Keasling, P. D. Adams and C. J. Petzold | A rapid methods development workflow for high-throughput quantitative proteomic applications | PLoS One | 14(2) e0211582 |
| 2019 | 10.1021/acs.jproteome.9b00455 | Chen, Y., J. M. Guenther, J. W. Gin, L. J. G. Chan, Z. Costello, T. L. Ogorzalek, H. M. Tran, J. M. Blake-Hedges, J. D. Keasling, P. D. Adams, H. García Martín, N. J. Hillson and C. J. Petzold | Automated “Cells-To-Peptides” Sample Preparation Workflow for High-Throughput, Quantitative Proteomic Assays of Microbes | Journal of Proteome Research | 18(10) 3752–61 |
| 2019 | 10.1002/jbio.201800185 | Chen, S. J., N. Sinsuebphon, A. Rudkouskaya, M. Barroso, X. Intes and X. Michalet | In vitro and in vivo phasor analysis of stoichiometry and pharmacokinetics using short-lifetime near-infrared dyes and time-gated imaging | Journal of Biophotonics | 12(3) e201800185 |
| 2019 | 10.1002/ecs2.2889 | Chen, M., W. J. Parton, M. D. Hartman, S. J. Del Grosso, W. K. Smith, A. K. Knapp, S. Lutz, J. D. Derner, C. J. Tucker, D. S. Ojima, J. D. Volesky, M. B. Stephenson, W. H. Schacht and W. Gao | Assessing precipitation, evapotranspiration, and NDVI as controls of U.S. Great Plains plant production | Ecosphere | 10(10) |
| 2019 | 10.1038/s42255-019-0043-x | Chen, L., Z. Zhang, A. Hoshino, H. D. Zheng, M. Morley, Z. Arany and J. D. Rabinowitz | NADPH production by the oxidative pentose-phosphate pathway supports folate metabolism | Nature Metabolism | 1(3) 404–15 |
| 2019 | 10.1007/s10980-019-00928-2 | Chen, J. Q., P. Sciusco, Z. T. Ouyang, R. Zhang, G. M. Henebry, R. John and D. P. Roy | Linear downscaling from MODIS to landsat: connecting landscape composition with ecosystem functions | Landscape Ecology | 34(12) 2917–34 |
| 2019 | 10.1002/cppb.20088 | Chen, F., Q. Liu, J. P. Vogel and J. Wu | Agrobacterium-Mediated Transformation of Brachypodium distachyon | Current Protocols in Plant Biology | 4(2) e20088 |
| 2019 | Chen, F. | Lignin Biosynthesis and Control of Lignin Composition | Lignin: Biosynthesis, Functions and Economic Significance | ||
| 2019 | 10.3390/pr7040230 | Chaves, J. E., G. N. Presley and J. K. Michener | Modular Engineering of Biomass Degradation Pathways | Processes | 7(4) |
| 2019 | 10.3389/fpls.2019.00708 | Chaudhary, S., W. Khokhar, I. Jabre, A. S. N. Reddy, L. J. Byrne, C. M. Wilson and N. H. Syed | Alternative Splicing and Protein Diversity: Plants Versus Animals | Frontiers in Plant Science | 10 708 |
| 2019 | 10.1128/mBio.02361-19 | Chase, A. B., P. Arevalo, E. L. Brodie, M. F. Polz, U. Karaoz and J. B. H. Martiny | Maintenance of Sympatric and Allopatric Populations in Free-Living Terrestrial Bacteria | mBio | 10(5) |
| 2019 | 10.1128/mra.00409-19 | Chaput, G., J. Ford, L. DeDiego, A. Narayanan, W. Y. Tam, et al. | Complete Genome Sequence of Serratia quinivorans Strain 124R, a Facultative Anaerobe Isolated on Organosolv Lignin as a Sole Carbon Source | Microbiology Resource Announcements | 8(18) |
| 2019 | 10.1042/BCJ20180021 | Chapman, K. D., M. Aziz, J. M. Dyer and R. T. Mullen | Mechanisms of lipid droplet biogenesis | Biochemical Journal | 476(13) 1929–42 |
| 2019 | 10.1111/nph.15613 | Chang, Y., A. Desirò, H. Na, L. Sandor, A. Lipzen, A. Clum, K. Barry, I. V. Grigoriev, F. M. Martin, J. E. Stajich, M. E. Smith, G. Bonito and J. W. Spatafora | Phylogenomics of Endogonaceae and evolution of mycorrhizas within Mucoromycota | New Phytologist | 222(1) 511-525 |
| 2019 | 10.5194/tc-13-647-2019 | Chang, K. Y., W. J. Riley, P. M. Crill, R. F. Grant, V. I. Rich and S. R. Saleska | Large carbon cycle sensitivities to climate across a permafrost thaw gradient in subarctic Sweden | Cryosphere | 13(2) 647–63 |
| 2019 | 10.1029/2019jg005355 | Chang, K. Y., W. J. Riley, E. L. Brodie, C. K. McCalley, P. M. Crill and R. F. Grant | Methane Production Pathway Regulated Proximally by Substrate Availability and Distally by Temperature in a High-Latitude Mire Complex | Journal of Geophysical Research: Biogeosciences | 124(10) 3057–74 |
| 2019 | 10.1039/c9gc01859j | Chang, H., A. H. Motagamwala, G. W. Huber and J. A. Dumesic | Synthesis of biomass-derived feedstocks for the polymers and fuels industries from 5-(hydroxymethyl)furfural (HMF) and acetone | Green Chemistry | 21(20) 5532–40 |
| 2019 | 10.1093/database/baz061 | Chandran, A. K. N., S. Moon, Y.-H. Yoo, Y.-S. Gho, P. Cao, R. Sharma, M. K. Sharma, P. C. Ronald and K.-H. Jung | A web-based tool for the prediction of rice transcription factor function | Database | 2019 baz061 |
| 2019 | 10.3390/pr7070394 | Chan, S. H. J., E. S. Friedman, G. D. Wu and C. D. Maranas | Predicting the Longitudinally and Radially Varying Gut Microbiota Composition using Multi-Scale Microbial Metabolic Modeling | Processes | 7(7) |
| 2019 | 10.1186/s12864-019-6358-x | Challacombe, J. F., C. N. Hesse, L. M. Bramer, L. A. McCue, M. Lipton, S. Purvine, C. Nicora, V. Gallegos-Graves, A. Porras-Alfaro and C. R. Kuske | Genomes and secretomes of Ascomycota fungi reveal diverse functions in plant biomass decomposition and pathogenesis | BMC Genomics | 20(1) 976 |
| 2019 | 10.1073/pnas.1912498116 | Chadwick, G. L., F. Jimenez Otero, J. A. Gralnick, D. R. Bond and V. J. Orphan | NanoSIMS imaging reveals metabolic stratification within current-producing biofilms | Proceedings of the National Academy of Sciences of the United States of America | 116(41) 20716–24 |
| 2019 | 10.1038/s41564-019-0384-y | Ceja-Navarro, J. A., U. Karaoz, M. Bill, Z. Hao, R. A. White, 3rd, et al. | Gut anatomical properties and microbial functional assembly promote lignocellulose deconstruction and colony subsistence of a wood-feeding beetle | Nature Microbiology | 4(5) 864–75 |
| 2019 | 10.1094/MPMI-07-18-0185-R | Cecchini, N. M., S. Roychoudhry, D. J. Speed, K. Steffes, A. Tambe, K. Zodrow, K. Konstantinoff, H. W. Jung, N. L. Engle, T. J. Tschaplinski and J. T. Greenberg | Underground Azelaic Acid-Conferred Resistance to Pseudomonas syringae in Arabidopsis | Molecular Plant-Microbe Interactions | 32(1) 86–94 |
| 2019 | 10.1038/s41579-019-0222-5 | Cavicchioli, R., W. J. Ripple, K. N. Timmis, F. Azam, L. R. Bakken, et al. | Scientists' warning to humanity: microorganisms and climate change | Nature Reviews Microbiology | 17(9) 569–86 |
| 2019 | 10.2134/agronj2018.01.0045 | Cates, A. M. and R. D. Jackson | Cover Crop Effects on Net Ecosystem Carbon Balance in Grain and Silage Maize | Agronomy Journal | 111(1) 30–38 |
| 2019 | 10.1016/j.biortech.2019.122214 | Carrozza, C. F., G. Papa, A. Citterio, R. Sebastiano, B. A. Simmons and S. Singh | One-pot bio-derived ionic liquid conversion followed by hydrogenolysis reaction for biomass valorization: A promising approach affecting the morphology and quality of lignin of switchgrass and poplar | Bioresource Technology | 294 122214 |
| 2019 | 10.1111/gcb.14715 | Carrell, A. A., M. Kolton, J. B. Glass, D. A. Pelletier, M. J. Warren, J. E. Kostka, C. M. Iversen, P. J. Hanson and D. J. Weston | Experimental warming alters the community composition, diversity, and N2 fixation activity of peat moss (Sphagnum fallax) microbiomes | Global Change Biology | 25(9) 2993–3004 |
| 2019 | 10.1038/s41396-019-0352-9 | Carr, S. A., S. P. Jungbluth, E. A. Eloe-Fadrosh, R. Stepanauskas, T. Woyke, M. S. Rappé and B. N. Orcutt | Carboxydotrophy potential of uncultivated Hydrothermarchaeota from the subseafloor crustal biosphere | The ISME Journal | 13(6) 1457-1468 |
| 2019 | 10.1038/s41396-018-0328-1 | Carlson, H. K., M. N. Price, M. Callaghan, A. Aaring, R. Chakraborty, H. Liu, J. V. Kuehl, A. P. Arkin and A. M. Deutschbauer | The selective pressures on the microbial community in a metal-contaminated aquifer | The ISME Journal | 13(4) 937–49 |
| 2019 | 10.1093/aob/mcz047 | Carlson, C. H., F. E. Gouker, C. R. Crowell, L. Evans, S. P. DiFazio, C. D. Smart and L. B. Smart | Joint linkage and association mapping of complex traits in shrub willow (Salix purpurea L.) | Annals of Botany | 124(4) 701–16 |
| 2019 | 10.1021/acssynbio.8b00540 | Carbonell, P., T. Radivojevic and H. García Martín | Opportunities at the Intersection of Synthetic Biology, Machine Learning, and Automation | ACS Synthetic Biology | 8(7) 1474–77 |
| 2019 | 10.1038/s41594-019-0248-4 | Cao, Q., D. R. Boyer, M. R. Sawaya, P. Ge and D. S. Eisenberg | Cryo-EM structures of four polymorphic TDP-43 amyloid cores | Nature Structural & Molecular Biology | 26(7) 619–27 |
| 2019 | 10.7554/eLife.50747 | Cao, P., S. J. Kim, A. Xing, C. A. Schenck, L. Liu, N. Jiang, J. Wang, R. L. Last and F. Brandizzi | Homeostasis of branched-chain amino acids is critical for the activity of TOR signaling in Arabidopsis | eLife | 8 |
| 2019 | 10.1093/bib/bbx088 | Cao, H., Q. Ma, X. Chen and Y. Xu | DOOR: a prokaryotic operon database for genome analyses and functional inference | Briefings in Bioinformatics | 20(4) 1568–77 |
| 2019 | 10.1007/s11627-019-09993-3 | Cano, S., S. Parajuli, B. Kannan, H. Liu, E. Garcia-Ruiz, H. M. Zhao, J. Shanklin and F. Altpeter | Environmental Impacts on Triacyl Glycerol Accumulation in Vegetative Tissues of Oilcane. | In Vitro Cellular & Developmental Biology-Plant | 55(4) 494 |
| 2019 | 10.1016/j.sbi.2019.03.008 | Cannon, K. A., J. M. Ochoa and T. O. Yeates | High-symmetry protein assemblies: patterns and emerging applications | Current Opinion in Structural Biology | 55 77–84 |
| 2019 | 10.1021/acs.analchem.9b00062 | Campuzano, I. D. G., J. H. Robinson, J. O. Hui, S. D. H. Shi, C. Netirojjanakul, M. Nshanian, P. F. Egea, J. L. Lippens, D. Bagal, J. A. Loo and M. Bern | Native and denaturing ms protein deconvolution for biopharma: monoclonal antibodies and antibody-drug conjugates to polydisperse membrane proteins and beyond | Analytical Chemistry | 91(15) 9472-9480 |
| 2019 | 10.1002/yea.3359 | Camiolo, S., M. Toome-Heller, M. C. Aime, S. Haridas, I. V. Grigoriev, A. Porceddu and I. Mannazzu | An analysis of codon bias in six red yeast species | Yeast | 36(1) 53-64 |
| 2019 | 10.1038/s41597-019-0141-3 | Camargo, A. P., R. S. C. de Souza, P. de Britto Costa, I. R. Gerhardt, R. A. Dante, et al. | Microbiomes of Velloziaceae from phosphorus-impoverished soils of the campos rupestres, a biodiversity hotspot | Scientific Data | 6(1) 140 |
| 2019 | 10.1038/s41579-019-0274-6 | Calhoun, S., S. J. Mondo and I. V. Grigoriev | Yeasts and how they came to be | Nature Reviews Microbiology | 17(11) 649 |
| 2019 | 10.1093/nar/gky1309 | Caldwell, B. J., E. Zakharova, G. T. Filsinger, T. M. Wannier, J. P. Hempfling, L. Chun-Der, D. Pei, G. M. Church and C. E. Bell | Crystal structure of the Redβ C-terminal domain in complex with λ Exonuclease reveals an unexpected homology with λ Orf and an interaction with Escherichia coli single stranded DNA binding protein | Nucleic Acids Research | 47(4) 1950–63 |
| 2019 | 10.1371/journal.pone.0210792 | Cadez, N., N. Bellora, R. Ulloa, C. T. Hittinger and D. Libkind | Genomic content of a novel yeast species Hanseniaspora gamundiae sp. nov. from fungal stromata (Cyttaria) associated with a unique fermented beverage in Andean Patagonia, Argentina | PLoS One | 14(1) e0210792 |
| 2019 | 10.1128/mra.01024-19 | Bushman, T. J., D. M. Akob, T. Bohu, A. Beyer, T. Woyke, N. Shapiro, A. Lapidus, H.-P. Klenk and K. Küsel | Draft Genome Sequence of Mn(II)-Oxidizing Bacterium Oxalobacteraceae sp. Strain AB_14 | Microbiology Resource Announcements | 8(43) |
| 2019 | 10.1029/2018jg004786 | Burke, S. A., M. Wik, A. Lang, A. R. Contosta, M. Palace, M. Crill and R. K. Varner | Long-Term Measurements of Methane Ebullition From Thaw Ponds | Journal of Geophysical Research: Biogeosciences | 124(7) 2208–21 |
| 2019 | 10.1099/ijsem.0.003715 | Buhl, M., C. Dunlap and M. Marschal | Prevotella brunnea sp. nov., isolated from a wound of a patient | International Journal of Systematic and Evolutionary Microbiology | 69(12) 3933–8 |
| 2019 | 10.1021/acs.biochem.8b00915 | Budin, I. and J. D. Keasling | Synthetic Biology for Fundamental Biochemical Discovery | Biochemistry | 58(11) 1464–9 |
| 2019 | 10.1128/mra.01701-18 | Brzoska, R. M., M. Huntemann, A. Clum, A. Chen, N. Kyrpides, et al. | Complete Genome Sequence for Asinibacterium sp. Strain OR53 and Draft Genome Sequence for Asinibacterium sp. Strain OR43, Two Bacteria Tolerant to Uranium | Microbiology Resource Announcements | 8(14) |
| 2019 | 10.1080/00275514.2019.1657354 | Bruns, T. D., M. L. Hale and N. H. Nguyen | Rhizopogon olivaceotinctus increases its inoculum potential in heated soil independent of competitive release from other ectomycorrhizal fungi | Mycologia | 111(6) 936–41 |
| 2019 | 10.1016/j.funeco.2018.12.009 | Bruns, T. D. | The developing relationship between the study of fungal communities and community ecology theory | Fungal Ecology | 39 393–402 |
| 2019 | 10.1128/jb.00784-18 | Bruckbauer, S. T., J. D. Trimarco, J. Martin, B. Bushnell, K. A. Senn, W. Schackwitz, A. Lipzen, M. Blow, E. A. Wood, W. S. Culberson, C. Pennacchio and M. M. Cox | Experimental Evolution of Extreme Resistance to Ionizing Radiation in Escherichia coli after 50 Cycles of Selection | Journal of Bacteriology | 201(8) |
| 2019 | 10.1016/j.ymben.2018.11.001 | Broddrick, J. T., D. G. Welkie, D. Jallet, S. S. Golden, G. Peers and B. O. Palsson | Predicting the metabolic capabilities of Synechococcus elongatus PCC 7942 adapted to different light regimes | New Phytologist | 52 42–56 |
| 2019 | 10.1111/nph.15685 | Broddrick, J. T., N. Du, S. R. Smith, Y. Tsuji, D. Jallet, M. A. Ware, G. Peers, Y. Matsuda, C. L. Dupont, B. G. Mitchell, B. O. Palsson and A. E. Allen | Cross-compartment metabolic coupling enables flexible photoprotective mechanisms in the diatom Phaeodactylum tricornutum | New Phytologist | 222(3) 1364–79 |
| 2019 | 10.1038/s41598-019-52148-y | Brisson, V. L., J. E. Schmidt, T. R. Northen, J. P. Vogel and A. C. M. Gaudin | Impacts of Maize Domestication and Breeding on Rhizosphere Microbial Community Recruitment from a Nutrient Depleted Agricultural Soil | Scientific Reports | 9(1) 15611 |
| 2019 | 10.3389/fmicb.2019.00585 | Brisson, V., J. Schmidt, T. R. Northen, J. P. Vogel and A. Gaudin | A New Method to Correct for Habitat Filtering in Microbial Correlation Networks | Frontiers in Microbiology | 10 |
| 2019 | 10.1038/s41396-019-0396-x | Brislawn, C. J., E. B. Graham, K. Dana, P. Ihardt, S. J. Fansler, W. B. Chrisler, J. B. Cliff, J. C. Stegen, J. J. Moran and H. C. Bernstein | Forfeiting the priority effect: turnover defines biofilm community succession | The ISME Journal | 13(7) 1865–77 |
| 2019 | 10.1021/acs.est.9b03763 | Breunig, H. M., J. Amirebrahimi, S. Smith and C. D. Scown | Role of Digestate and Biochar in Carbon-Negative Bioenergy | Environmental Science & Technology | 53(22) 12989–98 |
| 2019 | 10.1111/mmi.14380 | Brenac, L., E. E. K. Baidoo, J. D. Keasling and I. Budin | Distinct functional roles for hopanoid composition in the chemical tolerance of Zymomonas mobilis | Vaccine | 112(5) 1564–75 |
| 2019 | 10.1128/mSystems.00170-18 | Bradley, P. H., P. A. Gibney, D. Botstein, O. G. Troyanskaya and J. D. Rabinowitz | Minor Isozymes Tailor Yeast Metabolism to Carbon Availability | mSystems | 4(1) |
| 2019 | 10.1074/mcp.TIR118.001209 | Brademan, D. R., N. M. Riley, N. W. Kwiecien and J. J. Coon | Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications | Molecular & Cellular Proteomics | 18(8 Supplement 1) S193–201 |
| 2019 | 10.1038/s41594-019-0322-y | Boyer, D. R., B. Li, C. Sun, W. Fan, M. R. Sawaya, L. Jiang and D. S. Eisenberg | Structures of fibrils formed by α-synuclein hereditary disease mutant H50Q reveal new polymorphs | Nature Structural and Molecular Biology | 26(11) 1044–52 |
| 2019 | 10.1038/s41396-018-0343-2 | Boyd, J. A., S. P. Jungbluth, A. O. Leu, P. N. Evans, B. J. Woodcroft, G. L. Chadwick, V. J. Orphan, J. P. Amend, M. S. Rappe and G. W. Tyson | Divergent methyl-coenzyme M reductase genes in a deep-subseafloor Archaeoglobi | The ISME Journal | 13(5) 1269–1279 |
| 2019 | 10.1128/mSystems.00003-19 | Bowsher, A. W., P. J. Kearns and A. Shade | 16S rRNA/rRNA Gene Ratios and Cell Activity Staining Reveal Consistent Patterns of Microbial Activity in Plant-Associated Soil | mSystems | 4(2) |
| 2019 | 10.1111/lam.13190 | Bouchez, P., V. Teixeira Benites, E. E. K. Baidoo, J. C. Mortimer, M. L. Sullivan, H. V. Scheller and A. Eudes | Production of clovamide and its analogues in Saccharomyces cerevisiae and Lactococcus lactis | Letters in Applied Microbiology | 69(3) 181–89 |
| 2019 | 10.1099/ijsem.0.003140 | Bortniak, V. L., D. A. Pelletier and J. D. Newman | Chryseobacterium populi sp. nov., isolated from Populus deltoides endosphere | International Journal of Systematic and Evolutionary Microbiology | 69(2) 356–62 |
| 2019 | 10.1038/s41564-019-0363-3 | Borrel, G., P. S. Adam, L. J. McKay, L.-X. Chen, I. N. Sierra-García, et al. | Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea | Nature Microbiology | 4(4) 603-613 |
| 2019 | 10.1177/0022034519831671 | Bor, B., J. K. Bedree, W. Shi, J. S. McLean and X. He | Saccharibacteria (TM7) in the Human Oral Microbiome | Journal of Dental Research | 98(5) 500–9 |
| 2019 | 10.1038/s41467-019-08486-6 | Boock, J. T., A. J. E. Freedman, G. A. Tompsett, S. K. Muse, A. J. Allen, L. A. Jackson, B. Castro-Dominguez, M. T. Timko, K. L. J. Prather and J. R. Thompson | Engineered microbial biofuel production and recovery under supercritical carbon dioxide | Nature Communications | 10(1) 587 |
| 2019 | 10.3389/fmicb.2019.00481 | Bonito, G., G. M. N. Benucci, K. Hameed, D. Weighill, P. Jones, K. H. Chen, D. Jacobson, C. Schadt and R. Vilgalys | Fungal-Bacterial Networks in the Populus Rhizobiome Are Impacted by Soil Properties and Host Genotype | Frontiers in Microbiology | 10 481 |
| 2019 | 10.1126/science.aav5477 | Blazejewski, T., H.-I. Ho and H. H. Wang | Synthetic sequence entanglement augments stability and containment of genetic information in cells | Science | 365(6453) 595–98 |
| 2019 | 10.1016/j.scitotenv.2019.07.127 | Bladon, K. D., S. Bywater-Reyes, J. M. LeBoldus, S. Kerio, C. Segura, G. Ritokova and D. C. Shaw | Increased streamflow in catchments affected by a forest disease epidemic | Science of the Total Environment | 691 112–23 |
| 2019 | 10.1146/annurev-arplant-050718-095841 | Blaby-Haas, C. E. and S. S. Merchant | Comparative and Functional Algal Genomics | Annual Review of Plant Biology | 70 605–38 |
| 2019 | 10.1038/s41587-019-0100-8 | Bin Jang, H., B. Bolduc, O. Zablocki, J. H. Kuhn, S. Roux, E. M. Adriaenssens, J. R. Brister, A. M. Kropinski, M. Krupovic, R. Lavigne, D. Turner and M. B. Sullivan | Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks | Nature Biotechnology | 37(6) 632–639 |
| 2019 | 10.1021/acs.jpcc.9b07811 | Bhattarai, A., I. V. Novikova and P. Z. El-Khoury | Tip-Enhanced Raman Nanographs of Plasmonic Silver Nanoparticles | The Journal of Physical Chemistry C | 123(45) 27765-27769 |
| 2019 | 10.1021/acs.jpcc.9b00867 | Bhattarai, A., A. G. Joly, A. Krayev and P. Z. El-Khoury | Taking the Plunge: Nanoscale Chemical Imaging of Functionalized Gold Triangles in H2O via TERS | The Journal of Physical Chemistry C | 123(12) 7376-7380 |
| 2019 | 10.1021/acs.jpclett.9b00935 | Bhattarai, A. and P. Z. El-Khoury | Nanoscale Chemical Reaction Imaging at the Solid-Liquid Interface via TERS | J Phys Chem Lett | 10(11) 2817-2822 |
| 2019 | 10.1186/s13068-019-1546-0 | Bhalla, A., C. M. Cai, F. Xu, S. K. Singh, N. Bansal, T. Phongpreecha, T. Dutta, C. E. Foster, R. Kumar, B. A. Simmons, S. Singh, C. E. Wyman, E. L. Hegg and D. B. Hodge | Performance of three delignifying pretreatments on hardwoods: hydrolysis yields, comprehensive mass balances, and lignin properties | Biotechnology for Biofuels | 12 213 |
| 2019 | 10.1186/s13068-019-1439-2 | Bhagia, S., C. E. Wyman and R. Kumar | Impacts of cellulase deactivation at the moving air-liquid interface on cellulose conversions at low enzyme loadings | Biotechnology for Biofuels | 12 96 |
| 2019 | 10.1007/430_2019_45 | Bhagi-Damodaran, A. and Y. Lu | The Periodic Table’s Impact on Bioinorganic Chemistry and Biology’s Selective Use of Metal Ions | The Periodic Table II: Catalytic, Materials, Biological and Medical Applications | 153–73 |
| 2019 | 10.1038/s41559-019-0810-9 | Bewick, A. J., B. T. Hofmeister, R. A. Powers, S. J. Mondo, I. V. Grigoriev, T. Y. James, J. E. Stajich and R. J. Schmitz | Diversity of cytosine methylation across the fungal tree of life | Nature Ecology & Evolution | 3(3) 479-490 |
| 2019 | 10.1038/s41588-019-0405-z | Bertioli, D. J., J. Jenkins, J. Clevenger, O. Dudchenko, D. Gao, et al. | The genome sequence of segmental allotetraploid peanut Arachis hypogaea | Nature Genetics | 51(5) 877-884 |
| 2019 | 10.7554/eLife.39733 | Bernstein, D. B., F. E. Dewhirst and D. Segre | Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome | eLife | 8 |
| 2019 | 10.1021/jacs.9b03431 | Bernhardsgrütter, I., K. Schell, D. M. Peter, F. Borjian, D. A. Saez, E. Vöhringer-Martinez and T. J. Erb | Awakening the Sleeping Carboxylase Function of Enzymes: Engineering the Natural CO2-Binding Potential of Reductases | Journal of the American Chemical Society | 141(25) 9778-9782 |
| 2019 | 10.1073/pnas.1815631116 | Berghuis, B. A., F. B. Yu, F. Schulz, P. C. Blainey, T. Woyke and S. R. Quake | Hydrogenotrophic methanogenesis in archaeal phylum Verstraetearchaeota reveals the shared ancestry of all methanogens | Proceedings of the National Academy of Sciences | 116(11) 5037-5044 |
| 2019 | 10.3389/fmicb.2019.00160 | Berben, T., L. Overmars, D. Y. Sorokin and G. Muyzer | Diversity and Distribution of Sulfur Oxidation-Related Genes in Thioalkalivibrio, a Genus of Chemolithoautotrophic and Haloalkaliphilic Sulfur-Oxidizing Bacteria | Frontiers in Microbiology | 10 |
| 2019 | 10.1128/mra.00857-19 | Benucci, G. M. N., S. Haridas, K. Labutti, G. Marozzi, L. Antonielli, et al. | Draft Genome Sequence of the Ectomycorrhizal Ascomycete Sphaerosporella brunnea | Microbiology Resource Announcements | 8(50) |
| 2019 | 10.1128/MRA.00857-19 | Benucci, G. M. N., S. Haridas, K. Labutti, G. Marozzi, L. Antonielli, et al. | Draft Genome Sequence of the Ectomycorrhizal Ascomycete Sphaerosporella brunnea | Microbiology Resource Announcements | 8(50) |
| 2019 | 10.1002/biot.201800185 | Benocci, T., P. Daly, M. V. Aguilar-Pontes, K. Lail, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev and R. P. de Vries | Enzymatic Adaptation of Podospora anserina to Different Plant Biomass Provides Leads to Optimized Commercial Enzyme Cocktails | Biotechnology Journal | 14(4) 1800185 |
| 2019 | 10.1186/s13068-019-1422-y | Benocci, T., M. V. Aguilar-Pontes, R. S. Kun, R. J. M. Lubbers, K. Lail, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev, B. Seiboth, P. Daly and R. P. de Vries | Deletion of either the regulatory gene ara1 or metabolic gene xki1 in Trichoderma reesei leads to increased CAZyme gene expression on crude plant biomass | Biotechnology for Biofuels | 12(1) 81 |
| 2019 | 10.1007/s11295-019-1399-5 | Bdeir, R., W. Muchero, Y. Yordanov, G. A. Tuskan, V. Busov, J. Zhang and O. Gailing | Correction to: Genome-wide association studies of bark texture in Populus trichocarpa | Tree Genetics & Genomes | 15(6) |
| 2019 | 10.1007/s11295-019-1320-2 | Bdeir, R., W. Muchero, Y. Yordanov, G. A. Tuskan, V. Busov and O. Gailing | Genome-wide association studies of bark texture in Populus trichocarpa | Tree Genetics & Genomes | 15(1) 14 |
| 2019 | 10.1073/pnas.1904154116 | Batista, C. E., J. Ye, I. O. Ribeiro, P. C. Guimaraes, A. S. S. Medeiros, et al. | Intermediate-scale horizontal isoprene concentrations in the near-canopy forest atmosphere and implications for emission heterogeneity | Proceedings of the National Academy of Sciences of the United States of America | 116(39) 19318–23 |
| 2019 | 10.1073/pnas.1903229116 | Bastiaanse, H., M. Zinkgraf, C. Canning, H. Tsai, M. Lieberman, L. Comai, I. Henry and A. Groover | A comprehensive genomic scan reveals gene dosage balance impacts on quantitative traits in Populus trees | Proceedings of the National Academy of Sciences of the United States of America | 116(27) 13690–9 |
| 2019 | 10.1038/s41598-019-42271-1 | Basso, B., G. Shuai, J. Zhang and G. P. Robertson | Yield stability analysis reveals sources of large-scale nitrogen loss from the US Midwest | Scientific Reports | 9(1) 5774 |
| 2019 | 10.1016/j.copbio.2018.09.003 | Barros, J., S. Temple and R. A. Dixon | Development and commercialization of reduced lignin alfalfa | Current Opinion in Biotechnology | 56 48–54 |
| 2019 | 10.1038/s41467-019-10082-7 | Barros, J., L. Escamilla-Trevino, L. Song, X. Rao, J. C. Serrani-Yarce, M. D. Palacios, N. Engle, F. K. Choudhury, T. J. Tschaplinski, B. J. Venables, R. Mittler and R. A. Dixon | 4-Coumarate 3-hydroxylase in the lignin biosynthesis pathway is a cytosolic ascorbate peroxidase | Nature Communications | 10(1) 1994 |
| 2019 | 10.1089/crispr.2019.29076.rba | Barrangou, R. | Partnering with bioRxiv | The CRISPR Journal | 2(6) 342 |
| 2019 | 10.1111/jbi.13641 | Barge, E. G., D. R. Leopold, K. G. Peay, G. Newcombe and P. E. Busby | Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa | Journal of Biogeography | 46(9) 2001–11 |
| 2019 | 10.4324/9780429354335-11 | Barbu, D. | FEELING JEWISH: Emotions, identity, and the Jews’ inverted Christmas | Feeling Exclusion: Religious Conflict, Exile and Emotions in Early Modern Europe | 185-206 |
| 2019 | 10.1021/acssuschemeng.9b01229 | Baral, N. R., E. R. Sundstrom, L. Das, J. Gladden, A. Eudes, J. C. Mortimer, S. W. Singer, A. Mukhopadhyay and C. D. Scown | Approaches for More Efficient Biological Conversion of Lignocellulosic Feedstocks to Biofuels and Bioproducts | ACS Sustainable Chemistry & Engineering | 7(10) 9062–79 |
| 2019 | 10.1021/acssuschemeng.9b02928 | Baral, N. R., O. Kavvada, D. M. Perez, A. Mukhopadhyay, T. S. Lee, B. A. Simmons and C. D. Scown | Greenhouse Gas Footprint, Water-Intensity, and Production Cost of Bio-Based Isopentenol as a Renewable Transportation Fuel | ACS Sustainable Chemistry & Engineering | 7(18) 15434–44 |
| 2019 | 10.1039/c8ee03266a | Baral, N. R., O. Kavvada, D. Mendez-Perez, A. Mukhopadhyay, T. S. Lee, B. A. Simmons and C. D. Scown | Techno-economic analysis and life-cycle greenhouse gas mitigation cost of five routes to bio-jet fuel blendstocks | Energy & Environmental Science | 12(3) 807–24 |
| 2019 | 10.1002/bbb.1975 | Baral, N. R., R. Davis and T. H. Bradley | Supply and value chain analysis of mixed biomass feedstock supply system for lignocellulosic sugar production | Biofuels, Bioproducts and Biorefining | 13(3) 635–59 |
| 2019 | 10.1128/jmbe.v20i2.1723 | Barajas, J. F., M. Wehrs, M. To, L. Cruickshanks, R. Urban, et al. | Isolation and Characterization of Bacterial Cellulase Producers for Biomass Deconstruction: A Microbiology Laboratory Course | Journal of Microbiology & Biology Education | 20(2) |
| 2019 | 10.1007/s10295-019-02189-z | Barajas, J. F., R. P. McAndrew, M. G. Thompson, T. W. H. Backman, B. Pang, T. de Rond, J. H. Pereira, V. T. Benites, H. G. Martín, E. E. K. Baidoo, N. J. Hillson, P. D. Adams and J. D. Keasling | Structural insights into dehydratase substrate selection for the borrelidin and fluvirucin polyketide synthases | Journal of Industrial Microbiology and Biotechnology | 46(8) 1225–35 |
| 2019 | 10.1093/bioinformatics/btz021 | Banf, M., K. Zhao and S. Y. Rhee | METACLUSTER-an R package for context-specific expression analysis of metabolic gene clusters | Bioinformatics | 35(17) 3178–80 |
| 2019 | 10.1109/ICORT46471.2019.9069641 | Banerjee, A., N. Nayak, D. Giri and K. Bandha | Effect of Gun Barrel Wear on Muzzle Velocity of a typical Artillery Shell | 1st International Conference on Range Technology, ICORT 2019 | |
| 2019 | 10.1007/s00425-018-3053-0 | Banerjee, A., J. A. Arnesen, D. Moser, B. B. Motsa, S. R. Johnson and B. Hamberger | Engineering modular diterpene biosynthetic pathways in Physcomitrella patens | Planta | 249(1) 221–33 |
| 2019 | 10.1126/sciadv.aav1869 | Baker, E. P., D. Peris, R. V. Moriarty, X. C. Li, J. C. Fay and C. T. Hittinger | Mitochondrial DNA and temperature tolerance in lager yeasts | Science Advances | 5(1) eaav1869 |
| 2019 | 10.1371/journal.pgen.1007786 | Baker, E. P. and C. T. Hittinger | Evolution of a novel chimeric maltotriose transporter in Saccharomyces eubayanus from parent proteins unable to perform this function | PLoS Genetics | 15(4) e1007786 |
| 2019 | 10.1007/978-1-4939-8757-3_2 | Baidoo, E. E. K. and V. Teixeira Benites | Mass Spectrometry-Based Microbial Metabolomics: Techniques, Analysis, and Applications | Microbial Metabolomics: Methods and Protocols | 1859 11–69 |
| 2019 | 10.1007/978-1-4939-8757-3_1 | Baidoo, E. E. K. | Microbial Metabolomics: A General Overview | Microbial Metabolomics: Methods and Protocols | 1859 1–8 |
| 2019 | 10.1186/s13068-019-1424-9 | Bai, W., W. Geng, S. Wang and F. Zhang | Biosynthesis, regulation, and engineering of microbially produced branched biofuels | Biotechnology for Biofuels | 12 84 |
| 2019 | 10.1016/j.ifacol.2019.06.179 | Badr, K., M. Hilliard, N. Roberts, Q. P. He and J. Wang | Photoautotroph-Methanotroph Coculture - A Flexible Platform for Efficient Biological CO2-CH4 Co-utilization | IFAC-PapersOnLine | 52(1) 916–21 |
| 2019 | 10.1128/MRA.00455-19 | Babalola, O. O., A. S. Ayangbenro and O. S. Olanrewaju | Draft Genome Sequences of Three Rhizospheric Plant Growth-Promoting Bacteria | Microbiology Resource Announcements | 8(26) |
| 2019 | 10.1128/MRA.01706-18 | Babalola, O. O., B. R. Aremu and A. S. Ayangbenro | Draft Genome Sequence of Heavy Metal-Resistant Bacillus cereus NWUAB01 | Microbiology Resource Announcements | 8(7) |
| 2019 | 10.1534/g3.119.400498 | Azodi, C. B., E. Bolger, A. McCarren, M. Roantree, G. de Los Campos and S. H. Shiu | Benchmarking Parametric and Machine Learning Models for Genomic Prediction of Complex Traits | G3 Genes|Genomes|Genetics | 9(11) 3691–702 |
| 2019 | 10.1016/j.syapm.2019.03.006 | Avontuur, J. R., M. Palmer, C. W. Beukes, W. Y. Chan, M. P. A. Coetzee, J. Blom, T. Stępkowski, N. C. Kyrpides, T. Woyke, N. Shapiro, W. B. Whitman, S. N. Venter and E. T. Steenkamp | Genome-informed Bradyrhizobium taxonomy: where to from here? | Systematic and Applied Microbiology | 42(4) 427-439 |
| 2019 | 10.3389/fenrg.2019.00085 | Avci, U., X. Zhou, S. Pattathil, L. da Costa Sousa, M. G. Hahn, B. Dale, Y. Xu and V. Balan | Effects of Extractive Ammonia Pretreatment on the Ultrastructure and Glycan Composition of Corn Stover | Frontiers in Energy Research | 7 |
| 2019 | 10.1371/journal.pone.0218316 | Aufrecht, J. A., J. D. Fowlkes, A. N. Bible, J. Morrell-Falvey, M. J. Doktycz and S. T. Retterer | Pore-scale hydrodynamics influence the spatial evolution of bacterial biofilms in a microfluidic porous network | PLoS One | 14(6) e0218316 |
| 2019 | 10.1016/j.cmet.2019.05.010 | Arrojo, E. D. R., V. Lev-Ram, S. Tyagi, R. Ramachandra, T. Deerinck, E. Bushong, S. Phan, V. Orphan, C. Lechene, M. H. Ellisman and M. W. Hetzer | Age Mosaicism across Multiple Scales in Adult Tissues | Cell Metabolism | 30(2) 343–51.e3 |
| 2019 | 10.1016/j.soilbio.2018.12.010 | Aronson, E. L., M. L. Goulden and S. D. Allison | Greenhouse gas fluxes under drought and nitrogen addition in a Southern California grassland | Soil Biology and Biochemistry | 131 19-27 |
| 2019 | 10.1021/acscatal.8b05179 | Armstrong, Z., F. Liu, H.-M. Chen, S. J. Hallam and S. G. Withers | Systematic Screening of Synthetic Gene-Encoded Enzymes for Synthesis of Modified Glycosides | ACS Catalysis | 9(4) 3219-3227 |
| 2019 | 10.1186/s40168-018-0604-3 | Armstrong, H., M. Alipour, R. Valcheva, M. Bording-Jorgensen, J. Jovel, et al. | Host immunoglobulin G selectively identifies pathobionts in pediatric inflammatory bowel diseases | Microbiome | 7(1) 1 |
| 2019 | 10.1186/s12864-019-5629-x | Armaleo, D., O. Müller, F. Lutzoni, Ó. S. Andrésson, G. Blanc, et al. | The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata | BMC Genomics | 20(1) 605 |
| 2019 | 10.1186/s12864-019-5629-x | Armaleo, D., O. Muller, F. Lutzoni, O. S. Andresson, G. Blanc, et al. | The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata | BMC Genomics | 20(1) 605 |
| 2019 | 10.1128/MRA.00136-19 | Aremu, B. R., C. Prigent-Combaret and O. O. Babalola | Draft Genome Sequence of Bacillus velezensis Strain ZeaDK315Endo16 | Microbiology Resource Announcements | 8(46) |
| 2019 | 10.1186/s13068-019-1535-3 | Anthony, W. E., R. R. Carr, D. M. DeLorenzo, T. P. Campbell, Z. Shang, M. Foston, T. S. Moon and G. Dantas | Development of Rhodococcus opacus as a chassis for lignin valorization and bioproduction of high-value compounds | Biotechnology for Biofuels | 12 192 |
| 2019 | 10.1021/acssuschemeng.9b04981 | Ando, D. and J. Ralph | Method to Regioselectively Iodine-Tag Free-Phenolic Aromatic End-Groups in Lignin for 1</sup<H–13C-HSQC NMR Analysis | ACS Sustainable Chemistry & Engineering | 7(22) 18624–9 |
| 2019 | 10.1007/978-1-4939-8757-3_19 | Ando, D. and H. García Martín | Genome-Scale 13C Fluxomics Modeling for Metabolic Engineering of Saccharomyces cerevisiae | Microbial Metabolomics: Methods and Protocols | 317–45 |
| 2019 | 10.1104/pp.19.00480 | Andersson, B., C. Shen, M. Cantrell, D. S. Dandy and G. Peers | The Fluctuating Cell-Specific Light Environment and Its Effects on Cyanobacterial Physiology | Plant Physiology | 181(2) 547–64 |
| 2019 | 10.1038/s41467-019-09986-1 | Anderson, E. M., M. L. Stone, R. Katahira, M. Reed, W. Muchero, K. J. Ramirez, G. T. Beckham and Y. Roman-Leshkov | Differences in S/G ratio in natural poplar variants do not predict catalytic depolymerization monomer yields | Nature Communications | 10(1) 2033 |
| 2019 | 10.1111/1462-2920.14596 | Anasontzis, G. E., M.-H. Lebrun, M. Haon, C. Champion, A. Kohler, N. Lenfant, F. Martin, R. J. O'Connell, R. Riley, I. V. Grigoriev, B. Henrissat, J.-G. Berrin and M.-N. Rosso | Broad-specificity GH131 β-glucanases are a hallmark of fungi and oomycetes that colonize plants | Environmental Microbiology | 21(8) 2724-2739 |
| 2019 | 10.1111/agec.12501 | Anand, M., R. Miao and M. Khanna | Adopting bioenergy crops: Does farmers’ attitude toward loss matter? | Agricultural Economics | 50(4) 435–50 |
| 2019 | 10.3389/fpls.2019.00915 | Amos, R. A. and D. Mohnen | Critical Review of Plant Cell Wall Matrix Polysaccharide Glycosyltransferase Activities Verified by Heterologous Protein Expression | Frontiers in Plant Science | 10 915 |
| 2019 | 10.3389/fpls.2019.00129 | Amin, A. B., K. N. Rathnayake, W. C. Yim, T. M. Garcia, B. Wone, J. C. Cushman and B. W. M. Wone | Crassulacean Acid Metabolism Abiotic Stress-Responsive Transcription Factors: A Potential Genetic Engineering Approach for Improving Crop Tolerance to Abiotic Stress | Frontiers in Plant Science | 10 129 |
| 2019 | 10.1126/science.aaw1280 | Amann, R. I., S. Baichoo, B. J. Blencowe, P. Bork, M. Borodovsky, et al. | Toward unrestricted use of public genomic data | Science | 363(6425) 350–2 |
| 2019 | 10.1186/s12915-019-0702-0 | Álvarez-Escribano, I., C. Sasse, J. W. Bok, H. Na, M. Amirebrahimi, et al. | Genome sequencing of evolved aspergilli populations reveals robust genomes, transversions in A. flavus, and sexual aberrancy in non-homologous end-joining mutants | BMC Biology | 17(1) 88 |
| 2019 | 10.1093/femsec/fiz049 | Altshuler, I., J. Ronholm, A. Layton, T. C. Onstott, W. G. C and L. G. Whyte | Denitrifiers, nitrogen-fixing bacteria and N2O soil gas flux in high Arctic ice-wedge polygon cryosols | FEMS Microbiology Ecology | 95(5) |
| 2019 | 10.1007/s11626-019-00354-3 | Altpeter, F., S. Parajuli, B. Kannan, G. B. Luo, R. Karan, H. Liu, E. Garcia-Ruiz, H. M. Zhao and J. Shanklin | Converting Sugarcane into Oilcane by Metabolic Engineering | In Vitro Cellular & Developmental Biology-Animal | 55 S16 |
| 2019 | 10.1007/s11627-019-09993-3 | Altpeter, F., T. M. Oz, A. Altpeter, R. Karan and A. Merotto | Precision Nucleotide Editing in Sugarcane Following Homology Directed Repair of Targeted DNA Breaks | In Vitro Cellular & Developmental Biology-Plant | 55(4) 485 |
| 2019 | 10.1111/nph.16032 | Almási, É., N. Sahu, K. Krizsán, B. Bálint, G. M. Kovács, et al. | Comparative genomics reveals unique wood-decay strategies and fruiting body development in the Schizophyllaceae | New Phytologist | 224(2) 902-915 |
| 2019 | 10.1038/s41477-018-0322-7 | Allen, J. M., R. A. Folk, P. S. Soltis, D. E. Soltis and R. P. Guralnick | Biodiversity synthesis across the green branches of the tree of life | Nature Plants | 5(1) 11–3 |
| 2019 | 10.1111/gcbb.12592 | Ali, S., D. D. Serba, J. Jenkins, S. Kwon, J. Schmutz and M. C. Saha | High-density linkage map reveals QTL underlying growth traits in AP13×VS16 biparental population of switchgrass | GCB Bioenergy | 11(5) 672–690 |
| 2019 | 10.1007/s00248-018-1239-4 | Albright, M. B. N., B. Timalsina, J. B. H. Martiny and J. Dunbar | Comparative Genomics of Nitrogen Cycling Pathways in Bacteria and Archaea | Microbial Ecology | 77(3) 597–606 |
| 2019 | 10.3389/fevo.2019.00367 | Albright, M. B. N., R. C. Mueller, L. V. Gallegos-Graves, J. Belnap, S. C. Reed and C. R. Kuske | Interactions of Microhabitat and Time Control Grassland Bacterial and Fungal Composition | Frontiers in Ecology and Evolution | 7 |
| 2019 | 10.1099/ijsem.0.003319 | Albert, R. A., M. McGuine, S. C. Pavlons, J. Roecker, J. Bruess, et al. | Bosea psychrotolerans sp. nov., a psychrotrophic alphaproteobacterium isolated from Lake Michigan water | International Journal of Systematic and Evolutionary Microbiology | 69(5) 1376-1383 |
| 2019 | 10.1128/MRA.00362-19 | Alayande, K. A., O. A. Aiyegoro and C. N. Ateba | Whole-Genome Sequence of Lactobacillus acidophilus PNW3, Isolated from Weaned Piglets of the Indigenous South African Windsnyer Pig Breed | Microbiology Resource Announcements | 8(25) |
| 2019 | 10.1094/MPMI-06-19-0174-R | Agtuca, B. J., S. A. Stopka, T. R. Tuleski, F. P. do Amaral, S. Evans, Y. Liu, D. Xu, R. A. Monteiro, D. W. Koppenaal, L. Paša-Tolić, C. R. Anderton, A. Vertes and G. Stacey | In-Situ Metabolomic Analysis of Setaria viridis Roots Colonized by Beneficial Endophytic Bacteria | Molecular Plant-Microbe Interactions® | 33(2) 272-283 |
| 2019 | 10.1021/acs.jafc.8b06707 | Agarwal, U. P., S. A. Ralph, D. Padmakshan, S. Liu and C. E. Foster | Estimation of Syringyl Units in Wood Lignins by FT-Raman Spectroscopy | Journal of Agricultural and Food Chemistry | 67(15) 4367–74 |
| 2019 | 10.1007/s00253-019-09710-5 | Adeniji, A. A., D. T. Loots and O. O. Babalola | Bacillus velezensis: phylogeny, useful applications, and avenues for exploitation | Applied Microbiology and Biotechnology | 103(9) 3669–82 |
| 2019 | 10.1128/MRA.00595-19 | Adeniji, A. A. and O. O. Babalola | Genome Sequence of Lipopeptide- and Antioxidant-Producing Strain Bacillus velezensis NWUMFkBS10.5 | Microbiology Resource Announcements | 8(28) |
| 2019 | 10.1002/mbo3.742 | Adeniji, A. A., O. S. Aremu and O. O. Babalola | Selecting lipopeptide-producing, Fusarium-suppressing Bacillus spp.: Metabolomic and genomic probing of Bacillus velezensis NWUMFkBS10.5 | MicrobiologyOpen | 8(6) e00742 |
| 2019 | 10.1094/PHYTO-03-19-0105-R | Abraham, N., P. Chitrampalam, B. Nelson, Jr., R. Sharma Poudel, K. Chittem, P. Borowicz, R. Brueggeman, S. Jain and J. M. LeBoldus | Microscopic, Biochemical, and Molecular Comparisons of Moderately Resistant and Susceptible Populus Genotypes Inoculated with Sphaerulina musiva | Phytopathology | 109(12) 2074–86 |
| 2019 | 10.1088/1748-9326/aafc10 | Abraha, M., I. Gelfand, S. K. Hamilton, J. Q. Chen and G. P. Robertson | Carbon debt of field-scale conservation reserve program grasslands converted to annual and perennial bioenergy crops | Environmental Research Letters | 14(2) |
| 2019 | 10.1002/aic.16367 | Abernathy, M. H., Y. C. Zhang, W. D. Hollinshead, G. Wang, E. E. K. Baidoo, T. G. Liu and Y. J. J. Tang | Comparative studies of glycolytic pathways and channeling under in vitro and in vivo modes | AIChE Journal | 65(2) 483–90 |
| 2020 | 10.1038/s41467-020-17612-8 | Zuñiga, C., T. Li, M. T. Guarnieri, J. P. Jenkins, C. T. Li, K. Bingol, Y. M. Kim, M. J. Betenbaugh and K. Zengler | Synthetic microbial communities of heterotrophs and phototrophs facilitate sustainable growth | Nature Communications | 11(1) |
| 2020 | 10.1104/pp.19.00854 | Zienkiewicz, A., K. Zienkiewicz, E. Poliner, J. A. Pulman, Z. Y. Du, G. Stefano, C. H. Tsai, P. Horn, I. Feussner, E. M. Farre, K. L. Childs, F. Brandizzi and C. Benning | The Microalga Nannochloropsis during Transition from Quiescence to Autotrophy in Response to Nitrogen Availability | Plant Physiology | 182(2) 819–39 |
| 2020 | 10.3390/app10124345 | Zhuang, J., M. Li, Y. Pu, A. J. Ragauskas and C. G. Yoo | Observation of Potential Contaminants in Processed Biomass Using Fourier Transform Infrared Spectroscopy | Applied Sciences | 10(12) 4345 |
| 2020 | 10.3389/fmicb.2020.01389 | Zhu, Y., N. Plaza, Y. Kojima, M. Yoshida, J. Zhang, J. Jellison, S. V. Pingali, H. O’Neill and B. Goodell | Nanostructural Analysis of Enzymatic and Non-enzymatic Brown Rot Fungal Deconstruction of the Lignocellulose Cell Wall† | Frontiers in Microbiology | 11 |
| 2020 | 10.1111/gcb.15319 | Zhu, X., R. D. Jackson, E. H. DeLucia, J. M. Tiedje and C. Liang | The soil microbial carbon pump: From conceptual insights to empirical assessments | Global Change Biology | 26(11) 6032–9 |
| 2020 | 10.1186/s40168-019-0780-9 | Zhu, X., S. Campanaro, L. Treu, R. Seshadri, N. Ivanova, P. G. Kougias, N. Kyrpides and I. Angelidaki | Metabolic dependencies govern microbial syntrophies during methanogenesis in an anaerobic digestion ecosystem | Microbiome | 8(1) 22 |
| 2020 | 10.1038/s41467-020-15830-8 | Zhu, P., X. H. Yu, C. Wang, Q. Zhang, W. Liu, S. McSweeney, J. Shanklin, E. Lam and Q. Liu | Structural basis for Ca2+-dependent activation of a plant metacaspase | Nature Communications | 11(1) 2249 |
| 2020 | 10.1021/jacs.0c00199 | Zhou, Y., G. E. Klinger, E. L. Hegg, C. M. Saffron and J. E. Jackson | Multiple Mechanisms Mapped in Aryl Alkyl Ether Cleavage via Aqueous Electrocatalytic Hydrogenation over Skeletal Nickel | Journal of the American Chemical Society | 142(8) 4037–50 |
| 2020 | 10.3390/genes11080843 | Zhou, R., D. Macaya-Sanz, J. Schmutz, J. W. Jenkins, G. A. Tuskan and S. P. DiFazio | Sequencing and Analysis of the Sex Determination Region of Populus trichocarpa | Genes | 11(8) |
| 2020 | 10.1186/s13059-020-1952-4 | Zhou, R., D. Macaya-Sanz, C. H. Carlson, J. Schmutz, J. W. Jenkins, et al. | A willow sex chromosome reveals convergent evolution of complex palindromic repeats | Genome Biology | 21(1) 38 |
| 2020 | 10.1016/j.ymeth.2019.10.007 | Zhou, M., N. Malhan, A. H. Ahkami, K. Engbrecht, G. Myers, J. Dahlberg, J. Hollingsworth, J. A. Sievert, R. Hutmacher, M. Madera, P. G. Lemaux, K. K. Hixson, C. Jansson and L. Paša-Tolić | Top-down mass spectrometry of histone modifications in sorghum reveals potential epigenetic markers for drought acclimation | Methods | 184 29-39 |
| 2020 | 10.1039/d0sc04392c | Zhou, M., C. Lantz, K. A. Brown, Y. Ge, L. Paša-Tolić, J. A. Loo and F. Lermyte | Higher-order structural characterisation of native proteins and complexes by top-down mass spectrometry | Chemical Science | 11(48) 12918-12936 |
| 2020 | 10.3390/molecules25092108 | Zheng, Y., A. Pierce, W. L. Wagner, H. V. Scheller, D. Mohnen, M. Ackermann and S. J. Mentzer | Water-Dependent Blending of Pectin Films: The Mechanics of Conjoined Biopolymers | Molecules | 25(9) |
| 2020 | 10.1021/acs.est.0c01028 | Zheng, H., K. Kim, A. Kravchenko, M. Rivers and A. Guber | Testing Os Staining Approach for Visualizing Soil Organic Matter Patterns in Intact Samples via X-ray Dual-Energy Tomography Scanning | Environmental Science & Technology | 54(14) 8980–9 |
| 2020 | 10.1002/cssc.202001401 | Zhao, Z. M., Z. H. Liu, Y. Pu, X. Meng, J. Xu, J. S. Yuan and A. J. Ragauskas | Emerging Strategies for Modifying Lignin Chemistry to Enhance Biological Lignin Valorization | ChemSusChem | 13(20) 5423–32 |
| 2020 | 10.1016/j.rser.2020.110265 | Zhao, Q., X. Cai, W. Mischo and L. Ma | How do the research and public communities view biofuel development? | Renewable and Sustainable Energy Reviews | 133 |
| 2020 | 10.1061/(ASCE)WR.1943-5452.0001197 | Zhao, Q., X. Cai and Y. Li | Algorithm Design Based on Derived Operation Rules for a System of Reservoirs in Parallel | Journal of Water Resources Planning and Management | 146(5) |
| 2020 | 10.3390/microorganisms8040608 | Zhao, J., X. Zhao, J. Wang, Q. Gong, X. Zhang and G. Zhang | Isolation, Identification and Characterization of Endophytic Bacterium Rhizobium oryzihabitans sp. nov., from Rice Root with Biotechnological Potential in Agriculture | Microorganisms | 8(4) |
| 2020 | 10.1021/acssynbio.0c00305 | Zhao, E. M., M. A. Lalwani, R. J. Lovelett, S. A. Garciá-Echauri, S. M. Hoffman, C. L. Gonzalez, J. E. Toettcher, I. G. Kevrekidis and J. L. Avalos | Design and Characterization of Rapid Optogenetic Circuits for Dynamic Control in Yeast Metabolic Engineering | ACS Synthetic Biology | 9(12) 3254-3266 |
| 2020 | 10.1128/AEM.01036-20 | Zhang, Y. Z., W. X. Zhang and X. L. Chen | Mechanisms for induction of microbial extracellular proteases in response to exterior proteins | Applied and Environmental Microbiology | 86(19) |
| 2020 | 10.1016/j.agee.2020.107085 | Zhang, Y. J., N. L. Haan and D. A. Landis | Landscape composition and configuration have scale-dependent effects on agricultural pest suppression | Agriculture, Ecosystems & Environment | 302 |
| 2020 | 10.1016/j.biteb.2020.100517 | Zhang, Y., J. Serate, D. Xie, S. Gajbhiye, P. Kulzer, G. Sanford, J. D. Russell, M. McGee, C. Foster, J. J. Coon, R. Landick and T. K. Sato | Production of hydrolysates from unmilled AFEX-pretreated switchgrass and comparative fermentation with Zymomonas mobilis | Bioresource Technology Reports | 11 |
| 2020 | 10.1186/s12870-020-2275-z | Zhang, X., S. B. Fernandes, C. Kaiser, P. Adhikari, P. J. Brown, S. X. Mideros and T. M. Jamann | Conserved defense responses between maize and sorghum to Exserohilum turcicum | BMC Plant Biology | 20(1) 67 |
| 2020 | 10.1111/pbi.13254 | Zhang, J., M. Xie, M. Li, J. Ding, Y. Pu, et al. | Overexpression of a Prefoldin β subunit gene reduces biomass recalcitrance in the bioenergy crop Populus | Plant Biotechnology Journal | 18(3) 859–71 |
| 2020 | 10.1111/pbi.13254 | Zhang, J., M. Xie, M. Li, J. Ding, Y. Pu, et al. | Overexpression of a Prefoldin β subunit gene reduces biomass recalcitrance in the bioenergy crop Populus | Plant Biotechnology Journal | 18(3) 859-871 |
| 2020 | 10.3389/fpls.2020.00652 | Zhang, J., G. A. Tuskan, T. J. Tschaplinski, W. Muchero and J. G. Chen | Transcriptional and Post-transcriptional Regulation of Lignin Biosynthesis Pathway Genes in Populus | Frontiers in Plant Science | 11 652 |
| 2020 | 10.1038/s41467-020-17910-1 | Zhang, J., S. D. Petersen, T. Radivojevic, A. Ramirez, A. Pérez-Manríquez, E. Abeliuk, B. J. Sánchez, Z. Costello, Y. Chen, M. J. Fero, H. G. Martin, J. Nielsen, J. D. Keasling and M. K. Jensen | Combining mechanistic and machine learning models for predictive engineering and optimization of tryptophan metabolism | Nature Communications | 11(1) 4880 |
| 2020 | 10.1093/gigascience/giaa018 | Zhang, J., R. Hu, A. Sreedasyam, T. M. Garcia, A. Lipzen, et al. | Light-responsive expression atlas reveals the effects of light quality and intensity in Kalanchoë fedtschenkoi, a plant with crassulacean acid metabolism | GigaScience | 9(3) |
| 2020 | 10.1093/gigascience/giaa018 | Zhang, J., R. Hu, A. Sreedasyam, T. M. Garcia, A. Lipzen, et al. | Light-responsive expression atlas reveals the effects of light quality and intensity in Kalanchoë fedtschenkoi, a plant with crassulacean acid metabolism | GigaScience | 9(3) giaa018 |
| 2020 | 10.3389/fpls.2020.621380 | Zhang, J., J. Barros-Rios and M. Lu | Editorial: Biofuels and Bioenergy | Frontiers in Plant Science | 11 |
| 2020 | 10.1111/gcb.14994 | Zhang, H., D. S. Goll, Y. P. Wang, P. Ciais, W. R. Wieder, R. Abramoff, Y. Huang, B. Guenet, A. K. Prescher, R. A. Viscarra Rossel, P. Barré, C. Chenu, G. Zhou and X. Tang | Microbial dynamics and soil physicochemical properties explain large-scale variations in soil organic carbon | Global Change Biology | 26(4) 2668-2685 |
| 2020 | 10.1111/gcbb.12728 | Zeri, M., W. H. Yang, G. Cunha-Zeri, C. D. Gibson and C. J. Bernacchi | Nitrous oxide fluxes over establishing biofuel crops: Characterization of temporal variability using the cross-wavelet analysis | GCB Bioenergy | 12(9) 756–70 |
| 2020 | 10.1021/jasms.0c00160 | Zenaidee, M. A., C. Lantz, T. Perkins, W. Jung, R. R. O. Loo and J. A. Loo | Internal Fragments Generated by Electron Ionization Dissociation Enhance Protein Top-Down Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 31(9) 1896-1902 |
| 2020 | 10.1016/j.ymben.2020.07.001 | Zargar, A., L. Valencia, J. Wang, R. Lal, S. Chang, M. Werts, A. R. Wong, A. C. Hernández, V. Benites, E. E. K. Baidoo, L. Katz and J. D. Keasling | A bimodular PKS platform that expands the biological design space | Metabolic Engineering | 61 389–96 |
| 2020 | 10.1021/jacs.0c02549 | Zargar, A., R. Lal, L. Valencia, J. Wang, T. W. H. Backman, et al. | Chemoinformatic-Guided Engineering of Polyketide Synthases | Journal of the American Chemical Society | 142(22) 9896–901 |
| 2020 | 10.3389/fmicb.2020.610455 | Zane, G. M., J. D. Wall and K. B. De León | Novel Mode of Molybdate Inhibition of Desulfovibrio vulgaris Hildenborough | Frontiers in Microbiology | 11 |
| 2020 | 10.1128/MMBR.00030-17 | Zamora, M., C. A. Ziegler, P. L. Freddolino and A. J. Wolfe | A thermosensitive, phase-variable epigenetic switch: Pap revisited | Microbiology and Molecular Biology Reviews | 84(3) |
| 2020 | 10.1016/j.funbio.2019.10.001 | Yuan, Z., I. S. Druzhinina, X. Wang, X. Zhang, L. Peng and J. Labbé | Insight into a highly polymorphic endophyte isolated from the roots of the halophytic seepweed Suaeda salsa: Laburnicola rhizohalophila sp. nov. (Didymosphaeriaceae, Pleosporales) | Fungal Biology | 124(5) 327–37 |
| 2020 | 10.34133/2020/3686791 | Yuan, G., M. Hassan, D. Liu, S. D. Lim, W. C. Yim, J. C. Cushman, K. Markel, P. M. Shih, H. Lu, D. J. Weston, J. G. Chen, T. J. Tschaplinski, G. A. Tuskan and X. Yang | Biosystems Design to Accelerate C3-to-CAM Progression | BioDesign Research | 2020 |
| 2020 | 10.1074/jbc.H120.014701 | Yu, X.-H. and J. Shanklin | Solving a furan fatty acid biosynthesis puzzle | Journal of Biological Chemistry | 295(29) 9802–3 |
| 2020 | 10.1002/rcm.8858 | Yu, L., E. Harris, D. Lewicka-Szczebak, M. Barthel, M. R. A. Blomberg, et al. | What can we learn from N2O isotope data? – Analytics, processes and modelling | Rapid Communications in Mass Spectrometry | 34(20) |
| 2020 | 10.1038/s41586-020-2468-5 | Yu, H. and J. R. Leadbetter | Bacterial chemolithoautotrophy via manganese oxidation | Nature | 583(7816) 453–8 |
| 2020 | 10.1007/s00138-020-01088-z | Yu, G. H., A. Zare, H. D. Y. Sheng, R. Matamala, J. Reyes-Cabrera, F. B. Fritschi and T. E. Juenger | Root identification in minirhizotron imagery with multiple instance learning | Machine Vision and Applications | 31(6) |
| 2020 | 10.1007/978-3-030-65414-6_30 | Yu, G., A. Zare, W. Xu, R. Matamala, J. Reyes-Cabrera, F. B. Fritschi and T. E. Juenger | Weakly supervised minirhizotron image segmentation with MIL-CAM | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 12540 LNCS 433-449 |
| 2020 | 10.1016/j.jpdc.2019.07.008 | Young, M. T., J. D. Hinkle, R. Kannan and A. Ramanathan | Distributed Bayesian optimization of deep reinforcement learning algorithms | Journal of Parallel and Distributed Computing | 139 43–52 |
| 2020 | 10.1007/978-1-0716-0195-2_9 | Yoo, C. G., Y. Pu and A. J. Ragauskas | Measuring Biomass-Derived Products in Biological Conversion and Metabolic Process | Metabolic Pathway Engineering | 113–24 |
| 2020 | 10.1016/j.biortech.2020.122784 | Yoo, C. G., X. Meng, Y. Pu and A. J. Ragauskas | The critical role of lignin in lignocellulosic biomass conversion and recent pretreatment strategies: A comprehensive review | Bioresource Technology | 301 122784 |
| 2020 | 10.1016/j.bpj.2020.04.009 | Yin, S., M. Tien and H. Yang | Prior-Apprised Unsupervised Learning of Subpixel Curvilinear Features in Low Signal/Noise Images | Biophysical Journal | 118(10) 2458–2469 |
| 2020 | 10.1098/rsta.2019.0394 | Yelick, K., A. Buluç, M. Awan, A. Azad, B. Brock, R. Egan, S. Ekanayake, M. Ellis, E. Georganas, G. Guidi, S. Hofmeyr, O. Selvitopi, C. Teodoropol and L. Oliker | The parallelism motifs of genomic data analysis | Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences | 378(2166) 20190394 |
| 2020 | 10.3389/fpls.2020.572137 | Yao, T., J. Zhang, M. Xie, G. Yuan, T. J. Tschaplinski, W. Muchero and J. G. Chen | Transcriptional Regulation of Drought Response in Arabidopsis and Woody Plants | Frontiers in Plant Science | 11 572137 |
| 2020 | 10.34133/2020/8051764 | Yang, X., J. I. Medford, K. Markel, P. M. Shih, H. C. De Paoli, et al. | Plant Biosystems Design Research Roadmap 1.0 | BioDesign Research | 2020 8051764 |
| 2020 | 10.1002/tpg2.20006 | Yang, X., Z. Luo, J. Todd, S. Sood and J. Wang | Genome-wide association study of multiple yield traits in a diversity panel of polyploid sugarcane (Saccharum spp.) | Plant Genome | 13(1) |
| 2020 | 10.3389/fpls.2020.00394 | Yang, X., J. C. Cushman, A. M. Borland and Q. Liu | Editorial: Systems Biology and Synthetic Biology in Relation to Drought Tolerance or Avoidance in Plants | Frontiers in Plant Science | 11 |
| 2020 | 10.1088/1748-9326/ab865f | Yang, P., Q. K. Zhao and X. M. Cai | Machine learning based estimation of land productivity in the contiguous US using biophysical predictors | Environmental Research Letters | 15(7) |
| 2020 | 10.1073/pnas.2000053117 | Yang, M., N. R. Baral, B. A. Simmons, J. C. Mortimer, P. M. Shih and C. D. Scown | Accumulation of high-value bioproducts in planta can improve the economics of advanced biofuels | Proceedings of the National Academy of Sciences of the United States of America | 117(15) 8639–48 |
| 2020 | 10.1021/acs.est.0c02816 | Yang, M., N. R. Baral, A. Anastasopoulou, H. M. Breunig and C. D. Scown | Cost and Life-Cycle Greenhouse Gas Implications of Integrating Biogas Upgrading and Carbon Capture Technologies in Cellulosic Biorefineries | Environmental Science & Technology | 54(20) 12810–19 |
| 2020 | 10.1016/j.biortech.2019.122240 | Yang, H., C. G. Yoo, X. Meng, Y. Pu, W. Muchero, G. A. Tuskan, T. J. Tschaplinski, A. J. Ragauskas and L. Yao | Structural changes of lignins in natural Populus variants during different pretreatments | Bioresource Technology | 295 122240 |
| 2020 | 10.1016/j.ymben.2020.05.008 | Yan, Q., T. R. Simmons, W. T. Cordell, N. J. Hernández Lozada, C. J. Breckner, X. Chen, M. A. Jindra and B. F. Pfleger | Metabolic engineering of β-oxidation to leverage thioesterases for production of 2-heptanone, 2-nonanone and 2-undecanone | Metabolic Engineering | 61 335-343 |
| 2020 | 10.1016/j.ymben.2019.04.009 | Yan, Q. and B. F. Pfleger | Revisiting metabolic engineering strategies for microbial synthesis of oleochemicals | Metabolic Engineering | 58 35–46 |
| 2020 | 10.1104/pp.19.01467 | Yamamoto, M., H. Tomiyama, A. Koyama, H. Okuizumi, S. Liu, et al. | A Century-Old Mystery Unveiled: Sekizaisou is a Natural Lignin Mutant | Plant Physiology | 182(4) 1821–8 |
| 2020 | 10.1093/femsec/fiaa057 | Xue, Y., I. Jonassen, L. Øvreås and N. Taş | Metagenome-assembled genome distribution and key functionality highlight importance of aerobic metabolism in Svalbard permafrost | FEMS Microbiology Ecology | 96(5) fiaa057 |
| 2020 | 10.1016/bs.mie.2020.04.054 | Xue, P., T. Si and H. Zhao | Optically guided mass spectrometry to screen microbial colonies for directed enzyme evolution | Methods in Enzymology | 644 255–73 |
| 2020 | 10.1002/bit.27343 | Xue, P., T. Si, S. Mishra, L. Zhang, K. Choe, J. V. Sweedler and H. Zhao | A mass spectrometry-based high-throughput screening method for engineering fatty acid synthases with improved production of medium-chain fatty acids | Biotechnology and Bioengineering | 117(7) 2131–8 |
| 2020 | 10.1038/s41592-020-0942-5 | Xue, J., C. Guijas, H. P. Benton, B. Warth and G. Siuzdak | METLIN MS2 molecular standards database: a broad chemical and biological resource | Nature Methods | 17(10) 953–54 |
| 2020 | 10.1016/j.compag.2020.105466 | Xu, W. H., G. H. Yu, A. Zare, B. Zurweller, D. Rowland, J. Reyes-Cabrera, F. B. Fritschi, R. Matamala and T. E. Juenger | Overcoming small minirhizotron datasets using transfer learning | Computers and Electronics in Agriculture | 175 |
| 2020 | 10.1093/nar/gkaa131 | Xu, P., C. Modavi, B. Demaree, F. Twigg, B. Liang, C. Sun, W. Zhang and A. R. Abate | Microfluidic automated plasmid library enrichment for biosynthetic gene cluster discovery | Nucleic Acids Research | 48(8) e48 |
| 2020 | 10.1021/acschembio.0c00019 | Xu, J. H., J. Eberhardt, B. Hill-Payne, G. E. González-Paéz, J. O. Castellón, B. F. Cravatt, S. Forli, D. W. Wolan and K. M. Backus | Integrative X-ray Structure and Molecular Modeling for the Rationalization of Procaspase-8 Inhibitor Potency and Selectivity | ACS Chemical Biology | 15(2) 575-586 |
| 2020 | 10.1016/j.soilbio.2020.107986 | Xu, J., S. S. Roley, M. M. Tfaily, R. K. Chu and J. M. Tiedje | Organic amendments change soil organic C structure and microbial community but not total organic matter on sub-decadal scales | Soil Biology and Biochemistry | 150 |
| 2020 | 10.1016/j.plipres.2020.101069 | Xu, C., J. Fan and J. Shanklin | Metabolic and functional connections between cytoplasmic and chloroplast triacylglycerol storage | Progress in Lipid Research | 80 101069 |
| 2020 | 10.1111/nph.16826 | Xie, M., J. Zhang, T. Yao, A. C. Bryan, Y. Pu, et al. | Arabidopsis C-terminal binding protein ANGUSTIFOLIA modulates transcriptional co-regulation of MYB46 and WRKY33 | New Phytologist | 228(5) 1627–39 |
| 2020 | 10.1002/pld3.178 | Xie, M., J. Zhang, V. R. Singan, M. J. McGranahan, P. R. LaFayette, et al. | Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect | Plant Direct | 4(1) e00178 |
| 2020 | 10.1002/pld3.178 | Xie, M., J. Zhang, V. R. Singan, M. J. McGranahan, P. R. LaFayette, et al. | Identification of functional single nucleotide polymorphism of Populus trichocarpa PtrEPSP-TF and determination of its transcriptional effect | Plant Direct | 4(1) e00178 |
| 2020 | 10.1016/j.biombioe.2020.105473 | Xiao, Y., C. Poovaiah, F. Unda, L. Ritchie, M. Dombrov, C. Phalen, A. Argyros and H. Coleman | Expression of the Trichoderma reesei expansin-like protein, swollenin, in poplar results in biomass with improved sugar release by enzymatic hydrolysis | Biomass and Bioenergy | 134 |
| 2020 | 10.1016/j.cbpa.2020.05.003 | Wu, Y., Z. Yang and Y. Lu | Photocaged functional nucleic acids for spatiotemporal imaging in biology | Current Opinion in Chemical Biology | 57 95–104 |
| 2020 | 10.1002/bbb.2083 | Wu, X. Y., J. H. Jiang, C. M. Wang, J. Liu, Y. Q. Pu, A. Ragauskas, S. M. Li and B. Yang | Lignin-derived electrochemical energy materials and systems | Biofuels, Bioproducts and Biorefining | 14(3) 650–72 |
| 2020 | 10.3389/fmicb.2020.610001 | Wu, X., S. Spencer, S. Gushgari-Doyle, M. O. Yee, J. Voriskova, Y. Li, E. J. Alm and R. Chakraborty | Culturing of “Unculturable” Subsurface Microbes: Natural Organic Carbon Source Fuels the Growth of Diverse and Distinct Bacteria From Groundwater | Frontiers in Microbiology | 11 |
| 2020 | 10.1073/pnas.1915611117 | Wu, V. W., N. Thieme, L. B. Huberman, A. Dietschmann, D. J. Kowbel, et al. | The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus | Proceedings of the National Academy of Sciences | 117(11) 6003-6013 |
| 2020 | 10.1038/s41396-020-0635-1 | Wu, R., B. Chai, J. R. Cole, S. K. Gunturu, X. Guo, R. Tian, J. D. Gu, J. Zhou and J. M. Tiedje | Targeted assemblies of cas1 suggest CRISPR-Cas’s response to soil warming | ISME Journal | 14(7) 1651-1662 |
| 2020 | 10.1021/acssuschemeng.9b07226 | Wu, J., R. P. Chandra, K. H. Kim, C. S. Kim, Y. Q. Pu, A. J. Ragauskas and J. N. Saddler | Enhancing Enzyme-Mediated Hydrolysis of Mechanical Pulps by Deacetylation and Delignification | ACS Sustainable Chemistry & Engineering | 8(15) 5847–55 |
| 2020 | 10.1088/1748-9326/ab65cc | Wu, G., K. Guan, C. Jiang, B. Peng, H. Kimm, M. Chen, X. Yang, S. Wang, A. E. Suyker, C. J. Bernacchi, C. E. Moore, Y. Zeng, J. A. Berry and M. P. Cendrero-Mateo | Radiance-based NIRv as a proxy for GPP of corn and soybean | Environmental Research Letters | 15(3) 034009 |
| 2020 | 10.1038/s41396-020-00753-5 | Wu, B., F. Liu, A. Zhou, J. Li, L. Shu, et al. | Experimental evolution reveals nitrate tolerance mechanisms in Desulfovibrio vulgaris | The ISME Journal | 14(11) 2862–76 |
| 2020 | 10.1016/j.soilbio.2019.107678 | Woolet, J. and T. Whitman | Pyrogenic organic matter effects on soil bacterial community composition | Soil Biology and Biochemistry | 141 |
| 2020 | 10.1111/nph.16546 | Woods, D. P., Y. Dong, F. Bouché, K. Mayer, L. Varner, T. S. Ream, N. Thrower, C. Wilkerson, A. Cartwright, R. Sibout, D. Laudencia-Chingcuanco, J. Vogel and R. M. Amasino | Mutations in the predicted DNA polymerase subunit POLD3 result in more rapid flowering of Brachypodium distachyon | New Phytologist | 227(6) 1725-1735 |
| 2020 | 10.1111/nph.16546 | Woods, D. P., Y. Dong, F. Bouché, K. Mayer, L. Varner, T. S. Ream, N. Thrower, C. Wilkerson, A. Cartwright, R. Sibout, D. Laudencia-Chingcuanco, J. Vogel and R. M. Amasino | Mutations in the predicted DNA polymerase subunit POLD3 result in more rapid flowering of Brachypodium distachyon | New Phytologist | 227(6) 1725-1735 |
| 2020 | 10.1038/s41579-020-0377-0 | Wood-Charlson, E. M., Anubhav, D. Auberry, H. Blanco, M. I. Borkum, et al. | The National Microbiome Data Collaborative: enabling microbiome science | Nature Reviews Microbiology | 18(6) 313–14 |
| 2020 | 10.1371/journal.pone.0232437 | Wilpiszeski, R. L., C. M. Gionfriddo, A. M. Wymore, J. W. Moon, K. A. Lowe, et al. | In-field bioreactors demonstrate dynamic shifts in microbial communities in response to geochemical perturbations | PLoS One | 15(9) e0232437 |
| 2020 | 10.1016/j.mec.2019.e00107 | Wilken, S. E., S. Seppälä, T. S. Lankiewicz, M. Saxena, J. K. Henske, A. A. Salamov, I. V. Grigoriev and M. A. O’Malley | Genomic and proteomic biases inform metabolic engineering strategies for anaerobic fungi | Metabolic Engineering Communications | 10 e00107 |
| 2020 | 10.1016/j.mec.2019.e00107 | Wilken, S. E., S. Seppälä, T. S. Lankiewicz, M. Saxena, J. K. Henske, A. A. Salamov, I. V. Grigoriev and M. A. O'Malley | Genomic and proteomic biases inform metabolic engineering strategies for anaerobic fungi | Metabolic Engineering Communications | 10 |
| 2020 | 10.1002/aic.16540 | Wilken, S. E., P. A. Leggieri, C. Kerdman-Andrade, M. Reilly, M. K. Theodorou and M. A. O'Malley | An Arduino based automatic pressure evaluation system to quantify growth of non-model anaerobes in culture | AIChE Journal | 66(12) e16540 |
| 2020 | 10.1111/jpy.12920 | Wilken, S., C. J. Choi and A. Z. Worden | Contrasting Mixotrophic Lifestyles Reveal Different Ecological Niches in Two Closely Related Marine Protists | Journal of Phycology | 56(1) 52–67 |
| 2020 | 10.1099/ijsem.0.004029 | Wilhelm, R. C., S. J. L. Murphy, N. M. Feriancek, D. C. Karasz, C. M. DeRito, J. D. Newman and D. H. Buckley | Paraburkholderia madseniana sp. nov., a phenolic acid-degrading bacterium isolated from acidic forest soil | International Journal of Systematic and Evolutionary Microbiology | 70(3) 2137–46 |
| 2020 | 10.1099/ijsem.0.004387 | Wilhelm, R. C., K. T. Cyle, C. E. Martinez, D. C. Karasz, J. D. Newman and D. H. Buckley | Paraburkholderia solitsugae sp. nov. and Paraburkholderia elongata sp. nov., phenolic acid-degrading bacteria isolated from forest soil and emended description of Paraburkholderia madseniana | International Journal of Systematic and Evolutionary Microbiology | 70(9) 5093–105 |
| 2020 | 10.1029/2019JG005601 | Wik, M., B. F. Thornton, R. K. Varner, C. McCalley and P. M. Crill | Stable Methane Isotopologues From Northern Lakes Suggest That Ebullition Is Dominated by Sub-Lake Scale Processes | Journal of Geophysical Research: Biogeosciences | 125(10) |
| 2020 | 10.1007/s00203-019-01791-0 | Wiese, J., J. F. Imhoff, H. Horn, E. Borchert, N. C. Kyrpides, M. Göker, H.-P. Klenk, T. Woyke and U. Hentschel | Genome analysis of the marine bacterium Kiloniella laminariae and first insights into comparative genomics with related Kiloniella species | Archives of Microbiology | 202(4) 815-824 |
| 2020 | 10.1002/bit.27364 | Whitehead, T. A., S. Banta, W. E. Bentley, M. J. Betenbaugh, C. Chan, et al. | The importance and future of biochemical engineering | Biotechnology and Bioengineering | 117(8) 2305–18 |
| 2020 | 10.1016/j.bpj.2020.08.009 | Wheatley, P., S. Gupta, A. Pandini, Y. Chen, C. J. Petzold, C. Y. Ralston, D. F. Blair and S. Khan | Allosteric Priming of E. coli CheY by the Flagellar Motor Protein FliM | Biophysical Journal | 119(6) 1108–22 |
| 2020 | 10.1016/j.drudis.2020.02.002 | Westbrook, J. D., R. Soskind, B. P. Hudson and S. K. Burley | Impact of the Protein Data Bank on antineoplastic approvals | Drug Discovery Today | 25(5) 837–50 |
| 2020 | 10.1111/tpj.14949 | Weiss, T., C. Wang, X. Kang, H. Zhao, M. Elena Gamo, C. G. Starker, P. A. Crisp, P. Zhou, N. M. Springer, D. F. Voytas and F. Zhang | Optimization of multiplexed CRISPR/Cas9 system for highly efficient genome editing in Setaria viridis | The Plant Journal | 104(3) 828–38 |
| 2020 | 10.1186/s12934-020-01423-z | Wehrs, M., M. G. Thompson, D. Banerjee, J.-P. Prahl, N. M. Morella, C. A. Barcelos, J. Moon, Z. Costello, J. D. Keasling, P. M. Shih, D. Tanjore and A. Mukhopadhyay | Investigation of Bar-seq as a method to study population dynamics of Saccharomyces cerevisiae deletion library during bioreactor cultivation | Microbial Cell Factories | 19(1) 167 |
| 2020 | 10.1111/gcb.15365 | Waring, B. G., B. N. Sulman, S. Reed, A. P. Smith, C. Averill, et al. | From pools to flow: The PROMISE framework for new insights on soil carbon cycling in a changing world | Global Change Biology | 26(12) 6631–43 |
| 2020 | 10.1073/pnas.2001588117 | Wannier, T. M., A. Nyerges, H. M. Kuchwara, M. Czikkely, D. Balogh, G. T. Filsinger, N. C. Borders, C. J. Gregg, M. J. Lajoie, X. Rios, C. Pál and G. M. Church | Improved bacterial recombineering by parallelized protein discovery | Proceedings of the National Academy of Sciences of the United States of America | 117(24) 13689-13698 |
| 2020 | 10.3389/fenrg.2020.00149 | Wang, Y. Y., P. Sengupta, B. Scheidemantle, Y. Q. Pu, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Effects of CELF Pretreatment Severity on Lignin Structure and the Lignin-Based Polyurethane Properties | Frontiers in Energy Research | 8 |
| 2020 | 10.3390/polym12102277 | Wang, Y. Y., X. Meng, Y. Pu and A. J. Ragauskas | Recent Advances in the Application of Functionalized Lignin in Value-Added Polymeric Materials | Polymers (Basel) | 12(10) |
| 2020 | 10.1021/acscatal.0c02489 | Wang, Y. J., X. Q. Huang, J. S. Hui, L. T. Vo and H. M. Zhao | Stereoconvergent Reduction of Activated Alkenes by a Nicotinamide Free Synergistic Photobiocatalytic System | ACS Catalysis | 10(16) 9431–7 |
| 2020 | 10.1021/acssuschemeng.0c03533 | Wang, Y., X. Meng, K. Jeong, S. Li, G. Leem, K. H. Kim, Y. Pu, A. J. Ragauskas and C. G. Yoo | Investigation of a Lignin-Based Deep Eutectic Solvent Using p-Hydroxybenzoic Acid for Efficient Woody Biomass Conversion | ACS Sustainable Chemistry & Engineering | 8(33) 12542–53 |
| 2020 | 10.1105/tpc.20.00598 | Wang, X., C. Zhuo, X. Xiao, X. Wang, M. Docampo-Palacios, F. Chen and R. A. Dixon | Substrate Specificity of LACCASE8 Facilitates Polymerization of Caffeyl Alcohol for C-Lignin Biosynthesis in the Seed Coat of Cleome hassleriana | The Plant Cell | 32(12) 3825–45 |
| 2020 | 10.1016/j.jhydrol.2020.124777 | Wang, G. S., W. J. Huang, G. Y. Zhou, M. A. Mayes and J. Z. Zhou | Modeling the processes of soil moisture in regulating microbial and carbon-nitrogen cycling | Journal of Hydrology | 585 |
| 2020 | 10.1021/acs.accounts.9b00544 | Wang, F. and S. S. Stahl | Electrochemical Oxidation of Organic Molecules at Lower Overpotential: Accessing Broader Functional Group Compatibility with Electron-Proton Transfer Mediators | Accounts of Chemical Research | 53(3) 561–74 |
| 2020 | 10.1364/AOMS.2020.OF2B.4 | Wang, D., L. A. Poyneer, P. K. Weber, D. C. Chen, S. Ly, T. A. Laurence, J. Lee, S. M. Ammons, E. E. Nuccio and J. Pett-Ridge | Adaptive optics multiphoton microscope for imaging microbial processes in highly scattering soil and roots | Imaging and Applied Optics Congress | OF2B.4 |
| 2020 | 10.1021/acs.jpclett.0c01006 | Wang, C. F., B. T. O'Callahan, D. Kurouski, A. Krayev and P. Z. El-Khoury | The Prevalence of Anions at Plasmonic Nanojunctions: A Closer Look at p-Nitrothiophenol | J Phys Chem Lett | 11(10) 3809-3814 |
| 2020 | 10.1021/acs.jpclett.0c01413 | Wang, C.-F., B. T. O’Callahan, D. Kurouski, A. Krayev, Z. D. Schultz and P. Z. El-Khoury | Suppressing Molecular Charging, Nanochemistry, and Optical Rectification in the Tip-Enhanced Raman Geometry | The Journal of Physical Chemistry Letters | 11(15) 5890-5895 |
| 2020 | 10.1021/acs.jpclett.0c00559 | Wang, C.-F., Z. Cheng, B. T. O’Callahan, K. T. Crampton, M. R. Jones and P. Z. El-Khoury | Tip-Enhanced Multipolar Raman Scattering | The Journal of Physical Chemistry Letters | 11(7) 2464-2469 |
| 2020 | 10.1021/acssynbio.0c00280 | Wang, B., Z. Zhao, L. K. Jabusch, D. M. Chiniquy, K. Ono, J. M. Conway, Z. Zhang, G. Wang, D. Robinson, J.-F. Cheng, J. L. Dangl, T. R. Northen and Y. Yoshikuni | CRAGE-Duet Facilitates Modular Assembly of Biological Systems for Studying Plant–Microbe Interactions | ACS Synthetic Biology | 9(9) 2610–15 |
| 2020 | 10.1016/j.synbio.2020.01.002 | Wang, B. and H. Zhao | Unleashing the power of energy storage: Engineering β-oxidation pathways for polyketide production | Synthetic and Systems Biotechnology | 5(1) 21–2 |
| 2020 | 10.1515/jib-2020-0005 | Waltemath, D., M. Golebiewski, M. L. Blinov, P. Gleeson, H. Hermjakob, et al. | The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE) | Journal of Integrative Bioinformatics | 17(45691) |
| 2020 | 10.1021/acssuschemeng.0c01538 | Walker, T. W., N. Kuch, K. A. Vander Meulen, C. F. M. Clewett, G. W. Huber, B. G. Fox and J. A. Dumesic | Solid-state NMR studies of solvent-mediated, acid-catalyzed woody biomass pre-treatment for enzymatic conversion of residual cellulose | ACS Sustainable Chemistry & Engineering | 8(16) 6551–63 |
| 2020 | 10.1126/sciadv.aba7599 | Walker, T. W., N. Frelka, Z. Shen, A. K. Chew, J. Banick, S. Grey, M. S. Kim, J. A. Dumesic, R. C. Van Lehn and G. W. Huber | Recycling of multilayer plastic packaging materials by solvent-targeted recovery and precipitation | Science Advances | 6(47) |
| 2020 | 10.1007/s11244-020-01260-9 | Walker, T. W., A. K. Chew, R. C. Van Lehn, J. A. Dumesic and G. W. Huber | Rational Design of Mixed Solvent Systems for Acid-Catalyzed Biomass Conversion Processes Using a Combined Experimental, Molecular Dynamics and Machine Learning Approach | Topics in Catalysis | 63(45846) 649–63 |
| 2020 | 10.1016/j.mec.2019.e00116 | Walker, J. E., A. A. Lanahan, T. Zheng, C. Toruno, L. R. Lynd, J. C. Cameron, D. G. Olson and C. A. Eckert | Development of both type I–B and type II CRISPR/Cas genome editing systems in the cellulolytic bacterium Clostridium thermocellum | Metabolic Engineering Communications | 10 e00116 |
| 2020 | 10.1128/mra.01356-19 | Walker, C., S. Ryu, S. Haridas, H. Na, M. Zane, K. LaButti, K. Barry, I. V. Grigoriev and C. T. Trinh | Draft Genome Assemblies of Ionic Liquid-Resistant Yarrowia lipolytica PO1f and Its Superior Evolved Strain, YlCW001 | Microbiology Resource Announcements | 9(9) |
| 2020 | 10.1128/MRA.01356-19 | Walker, C., S. Ryu, S. Haridas, H. Na, M. Zane, K. LaButti, K. Barry, I. V. Grigoriev and C. T. Trinh | Draft Genome Assemblies of Ionic Liquid-Resistant Yarrowia lipolytica PO1f and Its Superior Evolved Strain, YlCW001 | Microbiology Resource Announcements | 9(9) |
| 2020 | 10.1128/AEM.02299-19 | Walker, C., S. Ryu, R. J. Giannone, S. Garcia and C. T. Trinh | Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast Yarrowia lipolytica | Applied and Environmental Microbiology | 86(3) |
| 2020 | 10.3390/biology9060136 | Wakung’oli, M., A. E. Amoo, B. J. Enagbonma and O. O. Babalola | Termite Societies Promote the Taxonomic and Functional Diversity of Archaeal Communities in Mound Soils | Biology | 9(6) 136 |
| 2020 | 10.1039/D0GC00630K | Vural, D., J. C. Smith and L. Petridis | Polymer principles behind solubilizing lignin with organic cosolvents for bioenergy | Green Chemistry | 22(13) 4331–40 |
| 2020 | 10.1111/gcb.15124 | von Haden, A. C., W. H. Yang and E. H. DeLucia | Soils' dirty little secret: Depth-based comparisons can be inadequate for quantifying changes in soil organic carbon and other mineral soil properties | Global Change Biology | 26(7) 3759–70 |
| 2020 | 10.1021/acssynbio.0c00129 | Volk, M. J., I. Lourentzou, S. Mishra, L. T. Vo, C. Zhai and H. Zhao | Biosystems Design by Machine Learning | ACS Synthetic Biology | 9(7) 1514–33 |
| 2020 | 10.1016/j.indcrop.2020.112906 | Viswanathan, M. B., K. Park, M. H. Cheng, E. B. Cahoon, I. Dweikat, T. Clemente and V. Singh | Variability in structural carbohydrates, lipid composition, and cellulosic sugar production from industrial hemp varieties | Industrial Crops and Products | 157 |
| 2020 | 10.1093/femsec/fiaa229 | Vishnivetskaya, T. A., A. L. Almatari, E. V. Spirina, X. Wu, D. E. Williams, S. M. Pfiffner and E. M. Rivkina | Insights into community of photosynthetic microorganisms from permafrost | FEMS Microbiology Ecology | 96(12) |
| 2020 | 10.1094/MPMI-04-20-0082-TA | Villalobos Solis, M. I., S. Poudel, C. Bonnot, H. K. Shrestha, R. L. Hettich, C. Veneault-Fourrey, F. Martin and P. E. Abraham | A Viable New Strategy for the Discovery of Peptide Proteolytic Cleavage Products in Plant-Microbe Interactions | Molecular Plant-Microbe Interactions | 33(10) 1177–88 |
| 2020 | 10.1002/lno.11467 | Villa, J. A., Y. Ju, T. Stephen, C. Rey-Sanchez, K. C. Wrighton and G. Bohrer | Plant-mediated methane transport in emergent and floating-leaved species of a temperate freshwater mineral-soil wetland | Limnology and Oceanography | 65(7) 1635-1650 |
| 2020 | 10.1038/s41598-020-71672-w | Vijaya Kumar, S., P. E. Abraham, G. B. Hurst, K. Chourey, A. N. Bible, R. L. Hettich, M. J. Doktycz and J. L. Morrell-Falvey | A carotenoid-deficient mutant of the plant-associated microbe Pantoea sp. YR343 displays an altered membrane proteome | Scientific Reports | 10(1) 14985 |
| 2020 | 10.1021/acssuschemeng.0c07156 | Vermaas, J. V., M. F. Crowley and G. T. Beckham | Molecular Lignin Solubility and Structure in Organic Solvents | ACS Sustainable Chemistry & Engineering | 8(48) 17839–50 |
| 2020 | 10.1128/mSystems.00250-20 | Vera, J. M., I. N. Ghosh, Y. Zhang, A. S. Hebert, J. J. Coon and R. Landick | Genome-Scale Transcription-Translation Mapping Reveals Features of Zymomonas mobilis Transcription Units and Promoters | mSystems | 5(4) |
| 2020 | 10.1111/1462-2920.14827 | Venice, F., S. Ghignone, A. Salvioli di Fossalunga, J. Amselem, M. Novero, X. Xianan, K. Sędzielewska Toro, E. Morin, A. Lipzen, I. V. Grigoriev, B. Henrissat, F. M. Martin and P. Bonfante | At the nexus of three kingdoms: the genome of the mycorrhizal fungus Gigaspora margarita provides insights into plant, endobacterial and fungal interactions | Environmental Microbiology | 22(1) 122-141 |
| 2020 | 10.1002/jms.4363 | Veličković, D., R. K. Chu, G. L. Myers, A. H. Ahkami and C. R. Anderton | An approach for visualizing the spatial metabolome of an entire plant root system inspired by the Swiss-rolling technique | Journal of Mass Spectrometry | 55(4) e4363 |
| 2020 | 10.1038/s41477-020-00798-6 | Vejlupkova, Z., C. Warman, R. Sharma, H. V. Scheller, J. C. Mortimer and J. E. Fowler | No evidence for transient transformation via pollen magnetofection in several monocot species | Nature Plants | 6(11) 1323–24 |
| 2020 | 10.1128/mSystems.00092-20 | Veach, A. M., H. Chen, Z. K. Yang, A. D. Labbe, N. L. Engle, T. J. Tschaplinski, C. W. Schadt and M. A. Cregger | Plant Hosts Modify Belowground Microbial Community Response to Extreme Drought | mSystems | 5(3) |
| 2020 | 10.1111/nph.16555 | VanWallendael, A., J. Bonnette, T. E. Juenger, F. B. Fritschi, P. A. Fay, R. B. Mitchell, J. Lloyd-Reilley, F. M. Rouquette, Jr., G. C. Bergstrom and D. B. Lowry | Geographic variation in the genetic basis of resistance to leaf rust between locally adapted ecotypes of the biofuel crop switchgrass (Panicum virgatum) | New Phytologist | 227(6) 1696–708 |
| 2020 | 10.1038/s41467-020-14724-z | VanBuren, R., C. Man Wai, X. Wang, J. Pardo, A. E. Yocca, et al. | Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff | Nature Communications | 11(1) 884 |
| 2020 | 10.1186/s13068-020-01702-2 | van Munster, J. M., P. Daly, M. J. Blythe, R. Ibbett, M. Kokolski, et al. | Succession of physiological stages hallmarks the transcriptomic response of the fungus Aspergillus niger to lignocellulose | Biotechnology for Biofuels | 13(1) 69 |
| 2020 | 10.1111/nph.16729 | Valverde-Barrantes, O. J., H. Maherali, C. Baraloto and C. B. Blackwood | Independent evolutionary changes in fine-root traits among main clades during the diversification of seed plants | New Phytologist | 228(2) 541-553 |
| 2020 | 10.1038/s41589-020-0631-9 | Valliere, M. A., T. P. Korman, M. A. Arbing and J. U. Bowie | A bio-inspired cell-free system for cannabinoid production from inexpensive inputs | Nature Chemical Biology | 16(12) 1427-1433 |
| 2020 | 10.1007/978-1-0716-0195-2_8 | Utturkar, S., A. Dassanayake, S. Nagaraju and S. D. Brown | Bacterial Differential Expression Analysis Methods | Methods in Molecular Biology | 2096 89–112 |
| 2020 | 10.1128/mSphere.00898-20 | Urtecho, G., D. E. Campbell, D. M. Hershey, F. A. Hussain, R. J. Whitaker and G. A. O'Toole | Discovering the Molecular Determinants of Phaeobacter inhibens Susceptibility to Phaeobacter Phage MD18 | mSphere | 5(6) 45670 |
| 2020 | 10.1029/2020JG005825 | Turner, J. C., C. J. Moorberg, A. Wong, K. Shea, M. P. Waldrop, M. R. Turetsky and R. B. Neumann | Getting to the Root of Plant-Mediated Methane Emissions and Oxidation in a Thermokarst Bog | Journal of Geophysical Research: Biogeosciences | 125(11) e2020JG005825 |
| 2020 | 10.1094/MPMI-06-19-0154-R | Tuleski, T. R., J. Kimball, F. P. do Amaral, T. P. Pereira, M. Z. Tadra-Sfeir, F. de Oliveira Pedrosa, E. Maltempi de Souza, P. Balint-Kurti, R. A. Monteiro and G. Stacey | Herbaspirillum rubrisubalbicans as a Phytopathogenic Model to Study the Immune System of Sorghum bicolor | Molecular Plant-Microbe Interactions | 33(2) 235–46 |
| 2020 | 10.1093/jxb/eraa060 | Tsogtbaatar, E., J. C. Cocuron and A. P. Alonso | Non-conventional pathways enable pennycress (Thlaspi arvense L.) embryos to achieve high efficiency of oil biosynthesis | Journal of Experimental Botany | 71(10) 3037–51 |
| 2020 | 10.54203/scil.2020.wvj57 | Tshipamba, M. E., N. Lubanza and M. Mwanza | Genome Analysis of Antimicrobial Resistance Genes and Virulence Factors in Multidrug-Resistant Campylobacter fetus Subspecies Isolated from Sheath Wash | World's Veterinary Journal | 10(4) 465–80 |
| 2020 | 10.1128/MRA.00852-20 | Tshipamba, M. E., K. A. Alayande, N. Lubanza and M. Mwanza | Whole-Genome Sequencing of Multidrug-Resistant Campylobacter fetus subsp. fetus NWU_ED24, Isolated from a Bovine Sheath Wash Sample | Microbiology Resource Announcements | 9(40) |
| 2020 | 10.1128/MRA.00854-20 | Tshipamba, M. E., S. A. Akinola, L. Ngoma and M. Mwanza | Genome Sequence of Campylobacter fetus subsp. venerealis NW_ED23, Isolated from Bovine Sheath Wash | Microbiology Resource Announcements | 9(40) |
| 2020 | 10.1104/pp.19.01550 | Tsai, C. J., P. Xu, L. J. Xue, H. Hu, B. Nyamdari, et al. | Compensatory Guaiacyl Lignin Biosynthesis at the Expense of Syringyl Lignin in 4CL1-Knockout Poplar | Plant Physiology | 183(1) 123–36 |
| 2020 | 10.1038/s41598-020-61081-4 | Toubiana, D., N. Sade, L. Liu, M. M. Rubio Wilhelmi, Y. Brotman, U. Luzarowska, J. P. Vogel and E. Blumwald | Correlation-based network analysis combined with machine learning techniques highlight the role of the GABA shunt in Brachypodium sylvaticum freezing tolerance | Scientific Reports | 10(1) |
| 2020 | 10.1038/s41598-020-61081-4 | Toubiana, D., N. Sade, L. Liu, M. d. M. Rubio Wilhelmi, Y. Brotman, U. Luzarowska, J. P. Vogel and E. Blumwald | Correlation-based network analysis combined with machine learning techniques highlight the role of the GABA shunt in Brachypodium sylvaticum freezing tolerance | Scientific Reports | 10(1) 4489 |
| 2020 | 10.1073/pnas.2020204117 | Todor, H., H. Osadnik, E. A. Campbell, K. S. Myers, H. Li, T. J. Donohue and C. A. Gross | Rewiring the specificity of extracytoplasmic function sigma factors | Proceedings of the National Academy of Sciences of the United States of America | 117(52) 33496–506 |
| 2020 | 10.1021/acssuschemeng.0c05651 | Timokhin, V. I., M. Regner, A. H. Motagamwala, C. Sener, S. D. Karlen, J. A. Dumesic and J. Ralph | Production of p-Coumaric Acid from Corn GVL-Lignin | ACS Sustainable Chemistry & Engineering | 8(47) 17427–38 |
| 2020 | 10.1558/wap.20355 | Tigchelaar, M. | ‘I do the peer review by myself’: A Chinese international student’s approach to process writing | Writing and Pedagogy | 12(45691) 395-422 |
| 2020 | 10.1093/synbio/ysaa005 | Tiedge, K., A. Muchlinski and P. Zerbe | Genomics-enabled analysis of specialized metabolism in bioenergy crops: current progress and challenges | Synthetic Biology | 5(1) ysaa005 |
| 2020 | 10.1186/s40168-020-00825-w | Tian, R., D. Ning, Z. He, P. Zhang, S. J. Spencer, et al. | Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity | Microbiome | 8(1) 51 |
| 2020 | 10.1038/s41589-019-0452-x | Thorwall, S., C. Schwartz, J. W. Chartron and I. Wheeldon | Stress-tolerant non-conventional microbes enable next-generation chemical biosynthesis | Nature Chemical Biology | 16(2) 113–21 |
| 2020 | 10.1021/acssynbio.9b00292 | Thompson, M. G., A. N. Pearson, J. F. Barajas, P. Cruz-Morales, N. Sedaghatian, Z. Costello, M. E. Garber, M. R. Incha, L. E. Valencia, E. E. K. Baidoo, H. G. Martin, A. Mukhopadhyay and J. D. Keasling | Identification, Characterization, and Application of a Highly Sensitive Lactam Biosensor from Pseudomonas putida | ACS Synthetic Biology | 9(1) 53–62 |
| 2020 | 10.1128/AEM.01665-20 | Thompson, M. G., M. R. Incha, A. N. Pearson, M. Schmidt, W. A. Sharpless, et al. | Fatty Acid and Alcohol Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing | Applied and Environmental Microbiology | 86(21) e01665-20 |
| 2020 | 10.1128/mra.00506-20 | Thompson, M. G., P. Cruz-Morales, W. M. Moore, A. N. Pearson, J. D. Keasling, H. V. Scheller and P. M. Shih | Draft Genome Sequence of Agrobacterium fabrum ARqua1 | Microbiology Resource Announcements | 9(27) |
| 2020 | 10.1038/s41467-020-16815-3 | Thompson, M. G., J. M. Blake-Hedges, J. H. Pereira, J. A. Hangasky, M. S. Belcher, et al. | An iron (II) dependent oxygenase performs the last missing step of plant lysine catabolism | Nature Communications | 11(1) 2931 |
| 2020 | 10.1002/saj2.20010 | Thies, S., D. R. Joshi, S. A. Bruggeman, S. A. Clay, U. Mishra, J. Morile-Miller and D. E. Clay | Fertilizer timing affects nitrous oxide, carbon dioxide, and ammonia emissions from soil | Soil Science Society of America Journal | 84(1) 115–30 |
| 2020 | 10.1038/s41598-020-73446-w | Tessler, M., J. P. Gaffney, A. G. Oliveira, A. Guarnaccia, K. C. Dobi, N. A. Gujarati, M. Galbraith, J. D. Mirza, J. S. Sparks, V. A. Pieribone, R. J. Wood and D. F. Gruber | A putative chordate luciferase from a cosmopolitan tunicate indicates convergent bioluminescence evolution across phyla | Scientific Reports | 10(1) 17724 |
| 2020 | 10.1002/csc2.20083 | Taylor, M., X. W. Zhao, M. D. Casler and Y. W. Jiang | Transcriptome profiling reveals differentially expressed genes associated with flowering time in contrasting switchgrass genotypes | Crop Science | 60(3) 1472–87 |
| 2020 | 10.1101/2020.07.28.225219 | Tay, J. W. and J. C. Cameron | CyAN: A cyanobacterial imaging and data analysis platform | bioRxiv | |
| 2020 | 10.1186/s40168-020-00838-5 | Tao, X., J. Feng, Y. Yang, G. Wang, R. Tian, et al. | Winter warming in Alaska accelerates lignin decomposition contributed by Proteobacteria | Microbiome | 8(1) |
| 2020 | 10.1016/j.ijepes.2020.106279 | Tang, Z., J. Liu, Y. Liu and L. Xu | Stochastic reserve scheduling of energy storage system in energy and reserve markets | International Journal of Electrical Power and Energy Systems | 123 |
| 2020 | 10.3390/biology9070155 | Tan, M. H., S. R. Smith, K. K. Hixson, J. Tan, J. K. McCarthy, A. B. Kustka and A. E. Allen | The importance of protein phosphorylation for signaling and metabolism in response to diel light cycling and nutrient availability in a marine diatom | Biology | 9(7) 45682 |
| 2020 | 10.1105/tpc.19.00628 | Takeuchi, T., B. B. Sears, C. Lindeboom, Y. T. Lin, N. Fekaris, K. Zienkiewicz, A. Zienkiewicz, E. Poliner and C. Benning | Chlamydomonas CHT7 Is Required for an Effective Quiescent State by Regulating Nutrient-Responsive Cell Cycle Gene Expression | The Plant Cell | 32(4) 1240–69 |
| 2020 | 10.1104/pp.20.00864 | Takeuchi, T., Y. T. Lin, N. Fekaris, J. Umen, B. B. Sears and C. Benning | Modulation of CHT7 Complexes during Light/Dark- and Nitrogen-Mediated Life Cycle Transitions of Chlamydomonas | Plant Physiology | 184(4) 1762–74 |
| 2020 | 10.1016/j.compchemeng.2020.107126 | Taifan, G. S. P. and C. T. Maravelias | Integration of graphical approaches into optimization-based design of multistage liquid extraction | Computers & Chemical Engineering | 143 |
| 2020 | 10.1002/aic.16235 | Suthers, P. F. and C. D. Maranas | Challenges of cultivated meat production and applications of genome-scale metabolic modeling | Vaccine | 66(6) |
| 2020 | 10.1016/j.mec.2020.e00148 | Suthers, P. F., H. V. Dinh, Z. Fatma, Y. Shen, S. H. J. Chan, J. D. Rabinowitz, H. Zhao and C. D. Maranas | Genome-scale metabolic reconstruction of the non-model yeast Issatchenkia orientalis SD108 and its application to organic acids production | Metabolic Engineering Communications | 11 e00148 |
| 2020 | 10.3389/fpls.2020.596301 | Sun, Y., Z. Qiao, W. Muchero and J. G. Chen | Lectin Receptor-Like Kinases: The Sensor and Mediator at the Plant Cell Surface | Frontiers in Plant Science | 11 596301 |
| 2020 | 10.1016/j.mec.2020.e00124 | Sun, W., A. Vila-Santa, N. Liu, T. Prozorov, D. Xie, N. T. Faria, F. C. Ferreira, N. P. Mira and Z. Shao | Metabolic engineering of an acid-tolerant yeast strain Pichia kudriavzevii for itaconic acid production | Metab Eng Commun | 10 e00124 |
| 2020 | 10.1038/s41467-020-17116-5 | Sun, M., R. A. Folk, M. A. Gitzendanner, P. S. Soltis, Z. Chen, D. E. Soltis and R. P. Guralnick | Recent accelerated diversification in rosids occurred outside the tropics | Nature Communications | 11(1) 3333 |
| 2020 | 10.1002/ajb2.1479 | Sun, M., R. A. Folk, M. A. Gitzendanner, P. S. Soltis, Z. Chen, D. E. Soltis and R. P. Guralnick | Estimating rates and patterns of diversification with incomplete sampling: a case study in the rosids | American Journal of Botany | 107(6) 895–909 |
| 2020 | 10.1002/bit.27508 | Sun, L., C. A. Atkinson, Y. G. Lee and Y. S. Jin | High-level β-carotene production from xylose by engineered Saccharomyces cerevisiae without overexpression of a truncated HMG1 (tHMG1) | Biotechnology and Bioengineering | 117(11) 3522–32 |
| 2020 | 10.1128/MRA.00326-20 | Sun, E. W. H., S. Hajirezaie, M. Dooner, T. A. Vishnivetskaya, A. Layton, A. Chauhan, S. M. Pfiffner, L. G. Whyte, T. C. Onstott and M. C. Y. Laue | Thaumarchaea genome sequences from a high Arctic active layer | Microbiology Resource Announcements | 9(21) |
| 2020 | 10.1021/acs.bioconjchem.0c00163 | Sue, C. K., S. A. McConnell, K. Ellis-Guardiola, J. M. Muroski, R. A. McAllister, J. Yu, A. I. Alvarez, C. Chang, R. R. Ogorzalek Loo, J. A. Loo, H. Ton-That and R. T. Clubb | Kinetics and Optimization of the Lysine-Isopeptide Bond Forming Sortase Enzyme from Corynebacterium diphtheriae | Bioconjugate Chemistry | 31(6) 1624-1634 |
| 2020 | 10.1088/1361-6420/ab649c | Subramanian, S., K. Scheufele, M. Mehl and G. Biros | Where Did the Tumor Start? An Inverse Solver with Sparse Localization for Tumor Growth Models | Inverse Problems | 36(4) |
| 2020 | 10.1038/s41598-020-76730-x | Subedi, N. R., P. S. Jung, E. L. Bredeweg, S. Nemati, S. E. Baker, D. N. Christodoulides and A. E. Vasdekis | Integrative quantitative-phase and airy light-sheet imaging | Inverse Problems | 10(1) 20150 |
| 2020 | 10.1094/PHYTO-04-20-0132-RVW | Stutts, L. R. and W. Vermerris | Elucidating anthracnose resistance mechanisms in sorghum-a review | Phytopathology | 110(12) 1863-1876 |
| 2020 | 10.3390/jof6040190 | Štursová, M., P. Kohout, Z. R. Human and P. Baldrian | Production of Fungal Mycelia in a Temperate Coniferous Forest Shows Distinct Seasonal Patterns | Journal of Fungi | 6(4) 190 |
| 2020 | 10.1038/s41396-020-00738-4 | Stuart, R. K., E. R. A. Pederson, P. D. Weyman, P. K. Weber, U. Rassmussen and C. L. Dupont | Bidirectional C and N transfer and a potential role for sulfur in an epiphytic diazotrophic mutualism | The ISME Journal | 14(12) 3068–78 |
| 2020 | 10.1007/s00216-020-02544-5 | Strobbia, P., R. A. Odion, M. Maiwald, B. Sumpf and T. Vo-Dinh | Direct SERDS sensing of molecular biomarkers in plants under field conditions | Analytical and Bioanalytical Chemistry | 412(14) 3457–66 |
| 2020 | 10.1186/s12864-019-6410-x | Strepis, N., H. D. Naranjo, J. Meier-Kolthoff, M. Göker, N. Shapiro, N. Kyrpides, H.-P. Klenk, P. J. Schaap, A. J. M. Stams and D. Z. Sousa | Genome-guided analysis allows the identification of novel physiological traits in Trichococcus species | BMC Genomics | 21(1) 24 |
| 2020 | 10.1016/j.copbio.2020.01.010 | Streich, J., J. Romero, J. Gazolla, D. Kainer, A. Cliff, E. T. Prates, J. B. Brown, S. Khoury, G. A. Tuskan, M. Garvin, D. Jacobson and A. L. Harfouche | Can exascale computing and explainable artificial intelligence applied to plant biology deliver on the United Nations sustainable development goals? | Current Opinion in Biotechnology | 61 217–25 |
| 2020 | 10.1186/s13068-020-01675-2 | Straub, C. T., R. G. Bing, J. P. Wang, V. L. Chiang, M. W. W. Adams and R. M. Kelly | Use of the lignocellulose-degrading bacterium Caldicellulosiruptor bescii to assess recalcitrance and conversion of wild-type and transgenic poplar | Biotechnology for Biofuels | 13 43 |
| 2020 | 10.1002/bit.27529 | Straub, C. T., R. G. Bing, J. K. Otten, L. M. Keller, B. M. Zeldes, M. W. W. Adams and R. M. Kelly | Metabolically engineered Caldicellulosiruptor bescii as a platform for producing acetone and hydrogen from lignocellulose | Biotechnology and Bioengineering | 117(12) 3799–808 |
| 2020 | 10.1038/s41438-020-0277-5 | Stover, E., F. G. Gmitter, J. Grosser, E. Baldwin, G. A. Wu, J. Bai, Y. Wang, P. Chaires and J. C. Motamayor | Rationale for reconsidering current regulations restricting use of hybrids in orange juice | Horticulture Research | 7(1) 38 |
| 2020 | 10.1534/g3.120.401498 | Stoneman, H. R., R. L. Wrobel, M. Place, M. Graham, D. J. Krause, M. De Chiara, G. Liti, J. Schacherer, R. Landick, A. P. Gasch, T. K. Sato and C. T. Hittinger | CRISpy-Pop: A Web Tool for Designing CRISPR/Cas9-Driven Genetic Modifications in Diverse Populations | G3 Genes|Genomes|Genetics | 10(11) 4287–94 |
| 2020 | 10.1016/j.bej.2020.107707 | Stone, K., M. Hilliard, K. Badr, A. Bradford, Q. P. He and J. Wang | Comparative study of oxygen-limited and methane-limited growth phenotypes of Methylomicrobium buryatense 5GB1 | Biochemical Engineering Journal | 161 |
| 2020 | 10.3389/fmars.2020.00718 | Steen, A. D., S. Kusch, H. A. Abdulla, N. Cakić, S. Coffinet, et al. | Analytical and Computational Advances, Opportunities, and Challenges in Marine Organic Biogeochemistry in an Era of “Omics” | Frontiers in Marine Science | 7 |
| 2020 | 10.1016/j.agee.2020.106980 | Stahlheber, K. A., J. Lindquist, P. D. Drogosh, D. Pennington and K. L. Gross | Predicting productivity: A trait-based analysis of variability in biomass yield among switchgrass feedstock cultivars | Agriculture, Ecosystems & Environment | 300 106980 |
| 2020 | 10.1002/cbic.201900611 | Stadlmeier, M., L. S. Runtsch, F. Streshnev, M. Wuhr and T. Carell | A Click-Chemistry-Based Enrichable Crosslinker for Structural and Protein Interaction Analysis by Mass Spectrometry | ChemBioChem | 21(1–2) 103–7 |
| 2020 | 10.1093/femsec/fiaa050 | St. James, A. R. and R. E. Richardson | Ecogenomics reveals community interactions in a long-term methanogenic bioreactor and a rapid switch to sulfate-reducing conditions | FEMS Microbiology Ecology | 96(5) fiaa050 |
| 2020 | 10.1016/j.jbiotec.2019.12.002 | Srivastava, P. A., E. L. Hegg, B. G. Fox and R. M. Yennamalli | PreDSLpmo: A neural network-based prediction tool for functional annotation of lytic polysaccharide monooxygenases | Journal of Biotechnology | 308 148–55 |
| 2020 | 10.1016/j.micpath.2019.103856 | Srivastava, N., S. Tiwari, K. Bhandari, A. K. Biswal and A. K. S. Rawat | Novel derivatives of plant monomeric phenolics: act as inhibitors of bacterial cell-to-cell communication | Microbial Pathogenesis | 141 103856 |
| 2020 | 10.1002/ael2.20030 | Sprunger, C. D., T. Martin and M. Mann | Systems with greater perenniality and crop diversity enhance soil biological health | Agricultural & Environmental Letters | 5(1) |
| 2020 | 10.3390/land9120479 | Spiesman, B., B. Iuliano and C. Gratton | Temporal resource continuity increases predator abundance in a metapopulation model: Insights for conservation and biocontrol | Land | 9(12) 45673 |
| 2020 | 10.1038/s41396-020-0650-2 | Spasov, E., J. M. Tsuji, L. A. Hug, A. C. Doxey, L. A. Sauder, W. J. Parker and J. D. Neufeld | High functional diversity among Nitrospira populations that dominate rotating biological contactor microbial communities in a municipal wastewater treatment plant | The ISME Journal | 14(7) 1857-1872 |
| 2020 | 10.1093/nar/gkaa264 | Song, Q., J. Lee, S. Akter, M. Rogers, R. Grene and S. Li | Prediction of condition-specific regulatory genes using machine learning | Nucleic Acids Research | 48(11) e62 |
| 2020 | 10.3389/fpls.2020.00479 | Song, B., S. Zhao, W. Shen, C. Collings and S. Y. Ding | Direct Measurement of Plant Cellulose Microfibril and Bundles in Native Cell Walls | Frontiers in Plant Science | 11 479 |
| 2020 | 10.1094/pdis-03-20-0494-pdn | Søndreli, K. L., S. Keriö, K. Frost, W. Muchero, J.-G. Chen, K. Haiby, C. Gantz, G. Tuskan and J. M. LeBoldus | Outbreak of Septoria Canker Caused by Sphaerulina musiva on Populus trichocarpa in Eastern Oregon | Plant Disease | 104(12) 3266 |
| 2020 | 10.1111/tpj.14849 | Sonawane, B. V. and A. B. Cousins | Mesophyll CO2 conductance and leakiness are not responsive to short- and long-term soil water limitations in the C4 plant Sorghum bicolor | The Plant Journal | 103(4) 1590–602 |
| 2020 | 10.1021/acssuschemeng.0c03622 | Smith, P. J., M. E. Ortiz-Soto, C. Roth, W. J. Barnes, J. Seibel, B. R. Urbanowicz and F. Pfrengle | Enzymatic Synthesis of Artificial Polysaccharides | ACS Sustainable Chemistry & Engineering | 8(32) 11853–71 |
| 2020 | 10.1177/2472630320912692 | Smith, P. J., M. A. O’Neill, J. Backe, W. S. York, M. J. Peña and B. R. Urbanowicz | Analytical Techniques for Determining the Role of Domain of Unknown Function 579 Proteins in the Synthesis of O-Methylated Plant Polysaccharides | SLAS TECHNOLOGY: Translating Life Sciences Innovation | 25(4) 345–55 |
| 2020 | 10.1016/j.chemphyslip.2020.104980 | Smith, M. D. and J. C. Smith | Effects of sodium and calcium chloride ionic stresses on model yeast membranes revealed by molecular dynamics simulation | Chemistry and Physics of Lipids | 233 104980 |
| 2020 | 10.1039/D0GC01865A | Smith, M. D., S. V. Pingali, J. G. Elkins, D. Bolmatov, R. F. Standaert, J. D. Nickels, V. S. Urban, J. Katsaras, B. H. Davison, J. C. Smith and L. Petridis | Solvent-induced membrane stress in biofuel production: molecular insights from small-angle scattering and all-atom molecular dynamics simulations | Green Chemistry | 22(23) 8278–88 |
| 2020 | 10.1111/nph.16432 | Smith, G. R. and K. G. Peay | Stepping forward from relevance in mycorrhizal ecology | New Phytologist | 226(2) 292–4 |
| 2020 | 10.1093/femsec/fiaa208 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Impacts of nitrogen addition on switchgrass root-associated diazotrophic community structure and function | FEMS Microbiology Ecology | 96(12) |
| 2020 | 10.1111/gcbb.12729 | Slessarev, E. W., E. E. Nuccio, K. J. McFarlane, C. E. Ramon, M. Saha, M. K. Firestone and J. Pett‐Ridge | Quantifying the effects of switchgrass Panicum virgatum on deep organic C stocks using natural abundance 14C in three marginal soils | GCB Bioenergy | 12(10) 834–47 |
| 2020 | 10.1007/s12010-020-03293-y | Sitepu, I., L. Enriquez, V. Nguyen, R. Fry, B. Simmons, S. Singer, C. Simmons and K. L. Boundy-Mills | Ionic Liquid Tolerance of Yeasts in Family Dipodascaceae and Genus Wickerhamomyces | Applied Biochemistry and Biotechnology | 191(4) 1580–93 |
| 2020 | 10.1007/978-3-030-59762-7_10 | Sinha, U., M. Cashman and M. B. Cohen | Using a Genetic Algorithm to Optimize Configurations in a Data-Driven Application | Search-Based Software Engineering | 12420 137–52 |
| 2020 | 10.1021/acs.jpca.0c02396 | Singh, A. K., K. Santra, X. Song, J. W. Petrich and E. A. Smith | Spectral Narrowing Accompanies Enhanced Spatial Resolution in Saturated Coherent Anti-Stokes Raman Scattering (CARS): Comparisons of Experiment and Theory | J Phys Chem A | 124(21) 4305-4313 |
| 2020 | 10.1002/ece3.6266 | Simon, S. J., T. J. Tschaplinski, J. M. LeBoldus, K. Keefover-Ring, M. Azeem, J. G. Chen, D. Macaya-Sanz, W. L. MacDonald, W. Muchero and S. P. DiFazio | Host plant genetic control of associated fungal and insect species in a Populus hybrid cross | Ecology and Evolution | 10(11) 5119–34 |
| 2020 | 10.3389/fpls.2020.00599 | Simmons, T., A. B. Styer, G. Pierroz, A. P. Gonçalves, R. Pasricha, A. B. Hazra, P. Bubner and D. Coleman-Derr | Drought Drives Spatial Variation in the Millet Root Microbiome | Frontiers in Plant Science | 11 |
| 2020 | 10.1038/s41559-020-1156-z | Simakov, O., F. Marlétaz, J.-X. Yue, B. O’Connell, J. Jenkins, et al. | Deeply conserved synteny resolves early events in vertebrate evolution | Nature Ecology & Evolution | 4(6) 820-830 |
| 2020 | 10.1038/s41576-019-0186-3 | Silverman, A. D., A. S. Karim and M. C. Jewett | Cell-free gene expression: an expanded repertoire of applications | Nature Reviews Genetics | 21(3) 151-170 |
| 2020 | 10.1016/j.scitotenv.2020.136646 | Sierra-Garcia, I. N., D. R. B. Belgini, A. Torres-Ballesteros, D. Paez-Espino, R. Capilla, E. V. Santos Neto, N. Gray and V. M. de Oliveira | In depth metagenomic analysis in contrasting oil wells reveals syntrophic bacterial and archaeal associations for oil biodegradation in petroleum reservoirs | Science of The Total Environment | 715 136646 |
| 2020 | 10.1128/mSystems.00151-20 | Sieradzki, E. T., B. J. Koch, A. Greenlon, R. Sachdeva, R. R. Malmstrom, R. L. Mau, S. J. Blazewicz, M. K. Firestone, K. S. Hofmockel, E. Schwartz, B. A. Hungate and J. Pett-Ridge | Measurement Error and Resolution in Quantitative Stable Isotope Probing: Implications for Experimental Design | mSystems | 5(4) |
| 2020 | 10.1093/nar/gkaa600 | Sidore, A. M., C. Plesa, J. A. Samson, N. B. Lubock and S. Kosuri | DropSynth 2.0: High-fidelity multiplexed gene synthesis in emulsions | Nucleic Acids Research | 48(16) E95 |
| 2020 | 10.1107/S1600577520012308 | Siddons, D. P., A. J. Kuczewski, A. K. Rumaiz, R. Tappero, M. Idir, K. Nakhoda, J. Khanfri, V. Singh, E. R. Farquhar, M. Sullivan, D. Abel, D. J. Brady and X. Yuan | A coded aperture microscope for X-ray fluorescence full-field imaging | J Synchrotron Radiat | 27(Pt 6) 1703-1706 |
| 2020 | 10.1038/s41598-020-64921-5 | Sickle, J. J., C. Ni, D. Shen, Z. Wang, M. Jin and T. Lu | Integrative Circuit-Host Modeling of a Genetic Switch in Varying Environments | Scientific Reports | 10(1) 8383 |
| 2020 | 10.1038/s41564-020-0720-2 | Sichert, A., C. H. Corzett, M. S. Schechter, F. Unfried, S. Markert, D. Becher, A. Fernandez-Guerra, M. Liebeke, T. Schweder, M. F. Polz and J. H. Hehemann | Verrucomicrobia use hundreds of enzymes to digest the algal polysaccharide fucoidan | Nature Microbiology | 5(8) 1026-1039 |
| 2020 | 10.1117/12.2567752 | Shuhui, Y., M. J. Amin, T. E. Nyssa and Y. Haw | Three-dimensional super line-localization in low signal-to-noise microscope images via prior-apprised unsupervised learning (PAUL) | Proceedings of the SPIE | |
| 2020 | 10.1021/acssuschemeng.0c05998 | Shi, R. and J. S. Guest | BioSTEAM-LCA: An Integrated Modeling Framework for Agile Life Cycle Assessment of Biorefineries under Uncertainty | ACS Sustainable Chemistry & Engineering | 8(51) 18903–14 |
| 2020 | 10.1038/s41467-020-18124-1 | Sherkhanov, S., T. P. Korman, S. Chan, S. Faham, H. Liu, M. R. Sawaya, W. T. Hsu, E. Vikram, T. Cheng and J. U. Bowie | Isobutanol production freed from biological limits using synthetic biochemistry | Nature Communications | 11(1) |
| 2020 | 10.1111/1462-2920.15054 | Sheremet, A., G. M. Jones, J. Jarett, R. M. Bowers, I. Bedard, C. Culham, E. A. Eloe-Fadrosh, N. Ivanova, R. R. Malmstrom, S. E. Grasby, T. Woyke and P. F. Dunfield | Ecological and genomic analyses of candidate phylum WPS-2 bacteria in an unvegetated soil | Environmental Microbiology | 22(8) 3143-3157 |
| 2020 | 10.1016/j.soilbio.2020.107742 | Sher, Y., N. R. Baker, D. Herman, C. Fossum, L. Hale, X. Zhang, E. Nuccio, M. Saha, J. Zhou, J. Pett-Ridge and M. Firestone | Microbial extracellular polysaccharide production and aggregate stability controlled by switchgrass (Panicum virgatum) root biomass and soil water potential | Soil Biology and Biochemistry | 143 |
| 2020 | 10.1021/acs.iecr.9b06086 | Shen, Z. Z. and R. C. Van Lehn | Solvent Selection for the Separation of Lignin-Derived Monomers Using the Conductor-like Screening Model for Real Solvents | Industrial & Engineering Chemistry Research | 59(16) 7755–64 |
| 2020 | 10.1126/sciadv.abd0079 | Shen, X. X., J. L. Steenwyk, A. L. LaBella, D. A. Opulente, X. Zhou, J. Kominek, Y. Li, M. Groenewald, C. T. Hittinger and A. Rokas | Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota | Science Advances | 6(45) |
| 2020 | 10.1038/s41467-020-20005-6 | Shen, X. X., Y. Li, C. T. Hittinger, X. X. Chen and A. Rokas | An investigation of irreproducibility in maximum likelihood phylogenetic inference | Nature Communications | 11(1) 6096 |
| 2020 | Shen, A., S. Sakai and D. Rothamer | Parameters for screening SI engine alternative fuels for spray and mixture formation behavior: Application to 2-methyl-3-buten-2-ol (methyl butenol, MBO) | Spring Technical Meeting of the Central States Section of the Combustion Institute | ||
| 2020 | 10.1111/nph.16089 | Sheehan, H., T. Feng, N. Walker-Hale, S. Lopez-Nieves, B. Pucker, et al. | Evolution of l-DOPA 4,5-dioxygenase activity allows for recurrent specialisation to betalain pigmentation in Caryophyllales | New Phytologist | 227(3) 914–29 |
| 2020 | 10.3389/fmicb.2020.572131 | Shaw, C., C. Brooke, E. Hawley, M. P. Connolly, J. A. Garcia, M. Harmon-Smith, N. Shapiro, M. Barton, S. G. Tringe, T. Glavina del Rio, D. E. Culley, R. Castenholz and M. Hess | Phototrophic Co-cultures From Extreme Environments: Community Structure and Potential Value for Fundamental and Applied Research | Frontiers in Microbiology | 11 |
| 2020 | 10.1186/s13104-020-04968-9 | Sharma, R., Y. Liang, M. Y. Lee, V. R. Pidatala, J. C. Mortimer and H. V. Scheller | Agrobacterium-mediated transient transformation of sorghum leaves for accelerating functional genomics and genome editing studies | BMC Research Notes | 13(1) |
| 2020 | 10.7554/eLife.56275 | Sharma, K., M. Palatinszky, G. Nikolov, D. Berry and E. A. Shank | Transparent soil microcosms for live-cell imaging and non-destructive stable isotope probing of soil microorganisms | eLife | 9 |
| 2020 | 10.1042/BCJ20200480 | Sharkey, T. D., A. L. Preiser, S. M. Weraduwage and L. Gog | Source of 12C in Calvin-Benson cycle intermediates and isoprene emitted from plant leaves fed with 13CO2 | Biochemical Journal | 477(17) 3237-3252 |
| 2020 | 10.1016/j.biortech.2020.122896 | Sharara, M. A., K. Sahoo, A. D. Reddy, S. Kim, X. S. Zhang, B. Dale, C. D. Jones, R. C. Izaurralde and T. M. Runge | Sustainable feedstock for bioethanol production: Impact of spatial resolution on the design of a sustainable biomass supply-chain | Bioresource Technology | 302 |
| 2020 | 10.1186/s13007-020-00641-1 | Shao, W., R. Sharma, M. H. Clausen and H. V. Scheller | Microscale thermophoresis as a powerful tool for screening glycosyltransferases involved in cell wall biosynthesis | Plant Methods | 16(1) 99 |
| 2020 | 10.1186/s13059-020-02195-w | Shaiber, A., A. D. Willis, T. O. Delmont, S. Roux, L.-X. Chen, et al. | Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome | Genome Biology | 21(1) 292 |
| 2020 | 10.1021/acssuschemeng.0c05251 | Shah, R., S. Bhagia, J. K. Keum, S. V. Pingali, A. J. Ragauskas, B. H. Davison and H. O’Neill | Structural Insights into Low and High Recalcitrance Natural Poplar Variants Using Neutron and X-ray Scattering | ACS Sustainable Chemistry & Engineering | 8(36) 13838–49 |
| 2020 | 10.1093/nar/gkaa621 | Shaffer, M., M. A. Borton, B. B. McGivern, A. A. Zayed, S. L. La Rosa, et al. | DRAM for distilling microbial metabolism to automate the curation of microbiome function | Nucleic Acids Research | 48(16) 8883-8900 |
| 2020 | 10.1038/s41579-020-0333-z | Seshadri, R. | A bacterial toolkit for plants | Nature Reviews Microbiology | 18(3) 124 |
| 2020 | 10.3389/fcell.2020.566702 | Sertbas, M. and K. O. Ulgen | Genome-Scale Metabolic Modeling for Unraveling Molecular Mechanisms of High Threat Pathogens | Frontiers in Cell and Developmental Biology | 8 |
| 2020 | 10.1134/S1021443720020144 | Seong, E. S., M. R. Jeon, J. H. Choi, J. H. Yoo, J. G. Lee, J. K. Na, N. Y. Kim and C. Y. Yu | Overexpression of S-Adenosylmethionine Synthetase Enhances Tolerance to Cold Stress in Tobacco | Russian Journal of Plant Physiology | 67(2) 242–9 |
| 2020 | 10.1002/bit.27360 | Seo, H., P. N. Nicely and C. T. Trinh | Endogenous carbohydrate esterases of Clostridium thermocellum are identified and disrupted for enhanced isobutyl acetate production from cellulose | Biotechnology and Bioengineering | 117(7) 2223–36 |
| 2020 | 10.3390/metabo10060250 | Sengupta, A., P. Pritam, D. Jaiswal, A. Bandyopadhyay, H. B. Pakrasi and P. P. Wangikar | Photosynthetic Co-Production of Succinate and Ethylene in A Fast-Growing Cyanobacterium, Synechococcus elongatus PCC 11801 | Metabolites | 10(6) |
| 2020 | 10.1093/femsle/fnaa045 | Semrau, J. D., A. A. DiSpirito, P. K. Obulisamy and C. S. Kang-Yun | Methanobactin from methanotrophs: genetics, structure, function and potential applications | FEMS Microbiology Letters | 367(5) |
| 2020 | 10.3390/life10120362 | Selbmann, L., Z. Benkő, C. Coleine, S. de Hoog, C. Donati, et al. | Shed Light in the DaRk LineagES of the Fungal Tree of Life—STRES | Life | 10(12) 362 |
| 2020 | 10.1039/C9MT00314B | Selamoglu, N., Ö. Önder, Y. Öztürk, B. Khalfaoui-Hassani, C. E. Blaby-Haas, B. A. Garcia, H.-G. Koch and F. Daldal | Comparative differential cuproproteomes of Rhodobacter capsulatus reveal novel copper homeostasis related proteins | Metallomics | 12(4) 572–91 |
| 2020 | 10.1093/nar/gkaa746 | Seaver, S. M. D., F. Liu, Q. Zhang, J. Jeffryes, J. P. Faria, et al. | The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes | Nucleic Acids Research | 49(D1) D575–D588 |
| 2020 | 10.1007/s10980-020-01022-8 | Sciusco, P., J. Q. Chen, M. Abraha, C. Lei, G. P. Robertson, R. Lafortezza, G. Shirkey, Z. T. Ouyang, R. Zhang and R. John | Spatiotemporal variations of albedo in managed agricultural landscapes: inferences to global warming impacts (GWI) | Landscape Ecology | 35(6) 1385–402 |
| 2020 | 10.1104/pp.19.00760 | Schwarz, B., C. B. Azodi, S. H. Shiu and P. Bauer | Putative cis-Regulatory Elements Predict Iron Deficiency Responses in Arabidopsis Roots | Plant Physiology | 182(3) 1420–39 |
| 2020 | 10.1038/s41586-020-1957-x | Schulz, F., S. Roux, D. Paez-Espino, S. Jungbluth, D. A. Walsh, V. J. Denef, K. D. McMahon, K. T. Konstantinidis, E. A. Eloe-Fadrosh, N. C. Kyrpides and T. Woyke | Giant virus diversity and host interactions through global metagenomics | Nature | 578(7795) 432-436 |
| 2020 | 10.1128/msystems.00048-20 | Schulz, F., J. Andreani, R. Francis, H. Boudjemaa, J. Y. B. Khalil, J. Lee, B. L. Scola and T. Woyke | Advantages and Limits of Metagenomic Assembly and Binning of a Giant Virus | mSystems | 5(3) |
| 2020 | 10.1038/s41597-020-0524-5 | Schriml, L. M., M. Chuvochina, N. Davies, E. A. Eloe-Fadrosh, R. D. Finn, et al. | COVID-19 pandemic reveals the peril of ignoring metadata standards | Scientific Data | 7(1) 188 |
| 2020 | 10.1016/j.soilbio.2020.107794 | Schmidt, J. E., J. L. Mazza Rodrigues, V. L. Brisson, A. Kent and A. C. M. Gaudin | Impacts of directed evolution and soil management legacy on the maize rhizobiome | Soil Biology and Biochemistry | 145 107794 |
| 2020 | 10.3389/fpls.2020.614933 | Scheller, H. V., N. Patron and P. E. Jensen | Editorial: Proceedings of ICPSBBB 2018 - 2nd International Conference on Plant Synthetic Biology, Bioengineering and Biotechnology | Frontiers in Plant Science | 11 |
| 2020 | 10.1128/AEM.02242-19 | Scarborough, M. J., K. S. Myers, T. J. Donohue and D. R. Noguera | Medium-Chain Fatty Acid Synthesis by “Candidatus Weimeria bifida” gen. nov., sp. nov., and “Candidatus Pseudoramibacter fermentans” sp. nov | Applied and Environmental Microbiology | 86(3) e02242-19 |
| 2020 | 10.1128/mSystems.00755-20 | Scarborough, M. J., J. J. Hamilton, E. A. Erb, T. J. Donohue and D. R. Noguera | Diagnosing and Predicting Mixed-Culture Fermentations with Unicellular and Guild-Based Metabolic Models | mSystems | 5(5) |
| 2020 | 10.1002/pld3.207 | Sasse, J., S. M. Kosina, M. de Raad, J. S. Jordan, K. Whiting, K. Zhalnina and T. R. Northen | Root morphology and exudate availability are shaped by particle size and chemistry in Brachypodium distachyon | Plant Direct | 4(7) e00207 |
| 2020 | 10.1111/tpj.14746 | Sarkar, D. and C. D. Maranas | SNPeffect: identifying functional roles of SNPs using metabolic networks | The Plant Journal | 103(2) 512–31 |
| 2020 | 10.1186/s13068-020-01690-3 | Sander, K. B., D. Chung, D. M. Klingeman, R. J. Giannone, M. Rodriguez, Jr., J. Whitham, R. L. Hettich, B. H. Davison, J. Westpheling and S. D. Brown | Gene targets for engineering osmotolerance in Caldicellulosiruptor bescii | Biotechnology for Biofuels | 13 50 |
| 2020 | 10.1038/s41598-020-77684-w | Samira, R., J. A. Kimball, L. F. Samayoa, J. B. Holland, T. M. Jamann, P. J. Brown, G. Stacey and P. J. Balint-Kurti | Genome-wide association analysis of the strength of the MAMP-elicited defense response and resistance to target leaf spot in sorghum | Scientific Reports | 10(1) 20817 |
| 2020 | 10.1021/acs.analchem.0c00939 | Samarah, L. Z., T. H. Tran, G. Stacey and A. Vertes | In Vivo Chemical Analysis of Plant Sap from the Xylem and Single Parenchymal Cells by Capillary Microsampling Electrospray Ionization Mass Spectrometry | Analytical Chemistry | 92(10) 7299-7306 |
| 2020 | 10.1021/acs.analchem.0c00936 | Samarah, L. Z., R. Khattar, T. H. Tran, S. A. Stopka, C. A. Brantner, P. Parlanti, D. Veličković, J. B. Shaw, B. J. Agtuca, G. Stacey, L. Paša-Tolić, N. Tolić, C. R. Anderton and A. Vertes | Single-Cell Metabolic Profiling: Metabolite Formulas from Isotopic Fine Structures in Heterogeneous Plant Cell Populations | Analytical Chemistry | 92(10) 7289-7298 |
| 2020 | 10.1073/pnas.1921073117 | Salvachúa, D., A. Z. Werner, I. Pardo, M. Michalska, B. A. Black, et al. | Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440 | Proceedings of the National Academy of Sciences | 117(17) 9302–10 |
| 2020 | 10.1016/j.joule.2020.08.010 | Salimijazi, F., J. Kim, A. M. Schmitz, R. Grenville, A. Bocarsly and B. Barstow | Constraints on the Efficiency of Engineered Electromicrobial Production | Joule | 4(10) 2101-2130 |
| 2020 | 10.1016/j.cub.2020.05.043 | Salem, H., R. Kirsch, Y. Pauchet, A. Berasategui, K. Fukumori, M. Moriyama, M. Cripps, D. Windsor, T. Fukatsu and N. M. Gerardo | Symbiont Digestive Range Reflects Host Plant Breadth in Herbivorous Beetles | Current Biology | 30(15) 2875–86.e4 |
| 2020 | 10.1038/s41561-020-0565-6 | Saito, M. A., M. R. McIlvin, D. M. Moran, A. E. Santoro, C. L. Dupont, P. A. Rafter, J. K. Saunders, D. Kaul, C. H. Lamborg, M. Westley, F. Valois and J. B. Waterbury | Abundant nitrite-oxidizing metalloenzymes in the mesopelagic zone of the tropical Pacific Ocean | Nature Geoscience | 13(5) 355-362 |
| 2020 | 10.3390/microorganisms8081137 | Saint-Vincent, P. M., M. Ridout, N. L. Engle, T. J. Lawrence, M. L. Yeary, T. J. Tschaplinski, G. Newcombe and D. A. Pelletier | Isolation, Characterization, and Pathogenicity of Two Pseudomonas syringae Pathovars from Populus trichocarpa Seeds | Microorganisms | 8(8) |
| 2020 | 10.1099/ijsem.0.004465 | Saini, M. K., W. ChihChe, N. Soulier, A. Sebastian, I. Albert, V. Thiel, D. A. Bryant, S. Hanada and M. Tank | Caldichromatium japonicum gen. nov., sp. nov., a novel thermophilic phototrophic purple sulphur bacterium of the Chromatiaceae isolated from Nakabusa hot springs, Japan | International Journal of Systematic and Evolutionary Microbiology | 70(11) 5701–10 |
| 2020 | 10.1104/pp.20.01008 | Sahu, A., S. Banerjee, A. S. Raju, T. J. Chiou, L. R. Garcia and W. K. Versaw | Spatial Profiles of Phosphate in Roots Indicate Developmental Control of Uptake, Recycling, and Sequestration | Plant Physiol | 184(4) 2064-2077 |
| 2020 | 10.3390/polym12051134 | Sadeghifar, H. and A. Ragauskas | Lignin as a UV Light Blocker—A Review | Polymers | 12(5) 1134 |
| 2020 | 10.1021/acssuschemeng.0c01348 | Sadeghifar, H. and A. Ragauskas | Perspective on Technical Lignin Fractionation | ACS Sustainable Chemistry & Engineering | 8(22) 8086–101 |
| 2020 | 10.3390/plants9101383 | Sade, N., F. Weng, H. Tajima, Y. Zeron, L. Zhang, M. M. R. Wilhelmi, G. Day, Z. Peleg and E. Blumwald | A cytoplasmic receptor-like kinase contributes to salinity tolerance | Plants | 9(10) 45669 |
| 2020 | 10.1111/1462-2920.15006 | Sabuda, M. C., W. J. Brazelton, L. I. Putman, T. M. McCollom, T. M. Hoehler, M. D. Y. Kubo, D. Cardace and M. O. Schrenk | A dynamic microbial sulfur cycle in a serpentinizing continental ophiolite | Environmental Microbiology | 22(6) 2329-2345 |
| 2020 | 10.1016/j.compchemeng.2020.107072 | Ryu, J. and C. T. Maravelias | Computationally efficient optimization models for preliminary distillation column design and separation energy targeting | Computers & Chemical Engineering | 143 |
| 2020 | 10.1002/aic.16994 | Ryu, J. and C. T. Maravelias | Efficient generalized shortcut distillation model with improved accuracy for superstructure-based process synthesis | AIChE Journal | 66(11) |
| 2020 | 10.1016/j.compchemeng.2019.106653 | Ryu, J., L. X. Kong, A. E. P. de Lima and C. T. Maravelias | A generalized superstructure-based framework for process synthesis | Computers & Chemical Engineering | 133 |
| 2020 | 10.1128/AEM.00909-20 | Russell, J. F., M. L. Russo, X. Wang, N. Hengge, D. Chung, L. Wells, Y. J. Bomble and J. Westpheling | Deletion of a Peptidylprolyl Isomerase Gene Results in the Inability of Caldicellulosiruptor bescii To Grow on Crystalline Cellulose without Affecting Protein Glycosylation or Growth on Soluble Substrates | Applied and Environmental Microbiology | 86(20) |
| 2020 | 10.3390/f11020213 | Russell, A. E. and W. J. Parton | Modeling the Effects of Global Change on Ecosystem Processes in a Tropical Rainforest | Forests | 11(2) |
| 2020 | 10.1038/s41467-020-17615-5 | Rush, T. A., V. Puech-Pagès, A. Bascaules, P. Jargeat, F. Maillet, et al. | Lipo-chitooligosaccharides as regulatory signals of fungal growth and development | Nature Communications | 11(1) 3897 |
| 2020 | 10.1002/anie.202003105 | Ruprecht, C., M. P. Bartetzko, D. Senf, A. Lakhina, P. J. Smith, et al. | A Glycan Array-Based Assay for the Identification and Characterization of Plant Glycosyltransferases | Angewandte Chemie International Edition | 59(30) 12493–8 |
| 2020 | 10.1002/anie.202003105 | Ruprecht, C., M. P. Bartetzko, D. Senf, A. Lakhina, P. J. Smith, et al. | A Glycan Array-Based Assay for the Identification and Characterization of Plant Glycosyltransferases | Angewandte Chemie International Edition | 59(30) 12493-12498 |
| 2020 | 10.1093/molbev/msaa301 | Ruiz-Dueñas, F. J., J. M. Barrasa, M. Sánchez-García, S. Camarero, S. Miyauchi, et al. | Genomic Analysis Enlightens Agaricales Lifestyle Evolution and Increasing Peroxidase Diversity | Molecular Biology and Evolution | 38(4) 1428-1446 |
| 2020 | 10.1007/s10295-020-02299-z | Rubinstein, G. M., G. L. Lipscomb, A. M. Williams-Rhaesa, G. J. Schut, R. M. Kelly and M. W. W. Adams | Engineering the cellulolytic extreme thermophile Caldicellulosiruptor bescii to reduce carboxylic acids to alcohols using plant biomass as the energy source | Journal of Industrial Microbiology and Biotechnology | 47(8) 585–97 |
| 2020 | 10.1002/saj2.20082 | Ruan, L. L. and G. P. Robertson | No-till establishment improves the climate benefit of bioenergy crops on marginal grasslands | Soil Science Society of America Journal | 84(4) 1280–95 |
| 2020 | 10.1093/nar/gkaa946 | Roux, S., D. Páez-Espino, I.-M. A. Chen, K. Palaniappan, A. Ratner, et al. | IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses | Nucleic Acids Research | 49(D1) D764-D775 |
| 2020 | 10.1038/s41598-020-60850-5 | Romero Victorica, M., M. A. Soria, R. A. Batista-García, J. A. Ceja-Navarro, S. Vikram, et al. | Neotropical termite microbiomes as sources of novel plant cell wall degrading enzymes | Scientific Reports | 10(1) 3864 |
| 2020 | 10.1099/ijsem.0.004362 | Roldán, D. M., N. Kyrpides, T. Woyke, N. Shapiro, W. B. Whitman, S. Králová, I. Sedláček, H.-J. Busse and R. J. Menes | Hymenobacter artigasi sp. nov., isolated from air sampling in maritime Antarctica | International Journal of Systematic and Evolutionary Microbiology | 70(9) 4935–41 |
| 2020 | 10.1002/cbic.201900560 | Rodrigues, A. V., D. J. Tantillo, A. Mukhopadhyay, J. D. Keasling and H. R. Beller | Insight into the Mechanism of Phenylacetate Decarboxylase (PhdB), a Toluene-Producing Glycyl Radical Enzyme | ChemBioChem | 21(5) 663–71 |
| 2020 | 10.1016/j.jgar.2020.07.020 | Rocha, D. J. P., V. Azevedo, B. Brenig, A. Silva, J. Blom, R. T. Ramos, E. R. G. Aguiar, I. Chapartegui-González, M. Fernández-Martínez, L. Martínez-Martínez, L. G. C. Pacheco and J. Navas | Whole-genome sequencing reveals misidentification of a multidrug-resistant urine clinical isolate as Corynebacterium urealyticum | Journal of Global Antimicrobial Resistance | 23 16–19 |
| 2020 | 10.1534/g3.120.401489 | Robinson, A. J., D. O. Natvig and P. S. G. Chain | Genomic Analysis of Diverse Members of the Fungal Genus Monosporascus Reveals Novel Lineages, Unique Genome Content and a Potential Bacterial Associate | G3 Genes|Genomes|Genetics | 10(8) 2573–83 |
| 2020 | 10.3389/fenrg.2020.563352 | Roberts, N., M. Hilliard, Q. P. He and J. Wang | A Microalgae-Methanotroph Coculture is a Promising Platform for Fuels and Chemical Production From Wastewater | Frontiers in Energy Research | 8 |
| 2020 | 10.1021/acssuschemeng.9b04451 | Rigual, V., G. Papa, A. Rodriguez, M. Wehrs, K. H. Kim, M. Oliet, M. V. Alonso, J. M. Gladden, A. Mukhopadhyay, B. A. Simmons and S. Singh | Evaluating Protic Ionic Liquid for Woody Biomass One-Pot Pretreatment + Saccharification, Followed by Rhodosporidium toruloides Cultivation | ACS Sustainable Chemistry & Engineering | 8(2) 782–91 |
| 2020 | 10.1107/S2059798320008049 | Richards, L. S., C. Millan, J. Miao, M. W. Martynowycz, M. R. Sawaya, T. Gonen, R. J. Borges, I. Usonb and J. A. Rodriguez | Fragment-based determination of a proteinase K structure from MicroED data using ARCiMBOLDO_SHREDDER | Acta Crystallographica Section D: Structural Biology | 76 703–12 |
| 2020 | 10.1073/pnas.1912434117 | Ribeiro, C. L., D. Conde, K. M. Balmant, C. Dervinis, M. G. Johnson, et al. | The uncharacterized gene EVE contributes to vessel element dimensions in Populus | Proceedings of the National Academy of Sciences of the United States of America | 117(9) 5059–66 |
| 2020 | 10.1128/MRA.00770-20 | Reyes, S. M., E. Bolettieri, D. Allen and A. G. Hay | Genome Sequences of Four Strains of Acinetobacter bereziniae Isolated from Human Milk Pumped with a Personal Breast Pump and Hand-Washed Milk Collection Supplies | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.7554/eLife.62669 | Renganaath, K., R. Cheung, L. Day, S. Kosuri, L. Kruglyak and F. W. Albert | Systematic identification of cis-regulatory variants that cause gene expression differences in a yeast cross | eLife | 9 12785 |
| 2020 | 10.1016/j.isci.2019.100795 | Ren, H., C. Shi and H. Zhao | Computational Tools for Discovering and Engineering Natural Product Biosynthetic Pathways | iScience | 23(1) 100795 |
| 2020 | 10.3389/fmicb.2020.01075 | Reji, L., B. B. Tolar, F. P. Chavez and C. A. Francis | Depth-Differentiation and Seasonality of Planktonic Microbial Assemblages in the Monterey Bay Upwelling System | Frontiers in Microbiology | 11 |
| 2020 | 10.1038/s41467-020-16687-7 | Reis, F., R. Kirsch, Y. Pauchet, E. Bauer, L. C. Bilz, K. Fukumori, T. Fukatsu, G. Kölsch and M. Kaltenpoth | Bacterial symbionts support larval sap feeding and adult folivory in (semi-)aquatic reed beetles | Nature Communications | 11(1) 2964 |
| 2020 | 10.1021/acssynbio.0c00394 | Reis, A. C. and H. M. Salis | An Automated Model Test System for Systematic Development and Improvement of Gene Expression Models | ACS Synthetic Biology | 9(11) 3145–56 |
| 2020 | 10.3390/plants9111558 | Reem, N. T., L. Chambers, N. Zhang, S. F. Abdullah, Y. Chen, G. Feng, S. Gao, J. Soto-Burgos, G. Pogorelko, D. C. Bassham, C. T. Anderson, J. W. Walley and O. A. Zabotina | Post-Synthetic Reduction of Pectin Methylesterification Causes Morphological Abnormalities and Alterations to Stress Response in Arabidopsis thaliana | Plants (Basel) | 9(11) |
| 2020 | 10.1007/s10021-019-00407-4 | Reed, D. E., J. Chen, M. Abraha, G. P. Robertson and K. M. Dahlin | The Shifting Role of mRUE for Regulating Ecosystem Production | Ecosystems | 23(2) 359–69 |
| 2020 | 10.1042/BST20190492 | Reddy, A. S. N., J. Huang, N. H. Syed, A. Ben-Hur, S. Dong and L. Gu | Decoding co-/post-transcriptional complexities of plant transcriptomes and epitranscriptome using next-generation sequencing technologies | Biochemical Society Transactions | 48(6) 2399-2414 |
| 2020 | 10.3389/fmicb.2020.622926 | Ray, P., V. Lakshmanan, J. L. Labbe and K. D. Craven | Microbe to Microbiome: A Paradigm Shift in the Application of Microorganisms for Sustainable Agriculture | Frontiers in Microbiology | 11 622926 |
| 2020 | 10.1111/pbi.13309 | Rauschendorfer, J., Y. Yordanov, P. Dobrev, R. Vankova, R. Sykes, C. Külheim and V. Busov | Overexpression of a developing xylem cDNA library in transgenic poplar generates high mutation rate specific to wood formation | Plant Biotechnology Journal | 18(6) 1434-1443 |
| 2020 | 10.1016/j.copbio.2020.10.001 | Rapp, K. M., J. P. Jenkins and M. J. Betenbaugh | Partners for life: building microbial consortia for the future | Current Opinion in Biotechnology | 66 292–300 |
| 2020 | 10.1099/ijsem.0.004388 | Rapoport, D., M. Sagova-Mareckova, I. Sedláček, J. Provaznik, S. Králová, D. Pavlinic, V. Benes and J. Kopecky | Trebonia kvetii gen. nov., sp. nov., an acidophilic actinobacterium, and proposal of the new actinobacterial family Treboniaceae fam. nov | International Journal of Systematic and Evolutionary Microbiology | 70(9) 5106–14 |
| 2020 | 10.1073/pnas.2014294117 | Ramundo, S., Y. Asakura, P. A. Salomé, D. Strenkert, M. Boone, et al. | Coexpressed subunits of dual genetic origin define a conserved supercomplex mediating essential protein import into chloroplasts | Proceedings of the National Academy of Sciences of the United States of America | 117(51) 32739-32749 |
| 2020 | 10.1111/nph.16827 | Ralph, J. | Tricin and tricin-lignins in Medicago versus in monocots | New Phytologist | 228(1) 11–4 |
| 2020 | 10.1111/1758-2229.12838 | Rajeev, L., M. E. Garber and A. Mukhopadhyay | Tools to map target genes of bacterial two-component system response regulators | Environmental Microbiology Reports | 12(3) 267–76 |
| 2020 | 10.1021/acssuschemeng.0c04433 | Ragauskas, A. and X. Z. Meng | ACS Sustainable Chemistry & Engineering Virtual Special Issue on Recent Advances in Biomass Characterization and Modeling | ACS Sustainable Chemistry & Engineering | 8(28) 10321–2 |
| 2020 | 10.1038/s41467-020-18008-4 | Radivojević, T., Z. Costello, K. Workman and H. Garcia Martin | A machine learning Automated Recommendation Tool for synthetic biology | Nature Communications | 11(1) 4879 |
| 2020 | 10.1186/s12870-020-02714-8 | R, M. R. and A. Missaoui | QTL mapping of winter dormancy and associated traits in two switchgrass pseudo-F1 populations: lowland x lowland and lowland x upland | BMC Plant Biology | 20(1) 537 |
| 2020 | 10.1002/saj2.20159 | Purcell, A. M., P. Dijkstra, B. Finley, M. Hayer, B. J. Koch, R. L. Mau, E. Morrissey, K. Papp, E. Schwartz, B. W. Stone and B. A. Hungate | Quantitative stable isotope probing with H2<sup18O to measure taxon-specific microbial growth | Soil Science Society of America Journal | 84(5) 1503–18 |
| 2020 | 10.1128/AEM.00140-20 | Props, R. and V. J. Denef | Temperature and Nutrient Levels Correspond with Lineage-Specific Microdiversification in the Ubiquitous and Abundant Freshwater Genus Limnohabitans | Applied and Environmental Microbiology | 86(10) e00140-20 |
| 2020 | 10.1038/s41396-020-0624-4 | Probst, A. J., F. J. Elling, C. J. Castelle, Q. Zhu, M. Elvert, G. Birarda, H.-Y. N. Holman, K. R. Lane, B. Ladd, M. C. Ryan, T. Woyke, K.-U. Hinrichs and J. F. Banfield | Lipid analysis of CO2-rich subsurface aquifers suggests an autotrophy-based deep biosphere with lysolipids enriched in CPR bacteria | The ISME Journal | 14(6) 1547-1560 |
| 2020 | 10.1128/mSystems.00291-20 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | GapMind: Automated Annotation of Amino Acid Biosynthesis | mSystems | 5(3) |
| 2020 | 10.3389/fmicb.2020.01646 | Presley, G. N., J. Zhang, S. O. Purvine and J. S. Schilling | Functional Genomics, Transcriptomics, and Proteomics Reveal Distinct Combat Strategies Between Lineages of Wood-Degrading Fungi With Redundant Wood Decay Mechanisms | Frontiers in Microbiology | 11 |
| 2020 | 10.1016/bs.mcb.2020.05.002 | Prabhakar, P. K., H.-T. Wang, P. J. Smith, J.-Y. Yang, W. J. Barnes, M. J. Peña, K. W. Moremen and B. R. Urbanowicz | Chapter 8 - Heterologous expression of plant glycosyltransferases for biochemistry and structural biology | Methods in Cell Biology | 160 145–65 |
| 2020 | 10.1016/j.algal.2020.101953 | Polle, J. E. W., R. Roth, A. Ben-Amotz and U. Goodenough | Ultrastructure of the green alga Dunaliella salina strain CCAP19/18 (Chlorophyta) as investigated by quick-freeze deep-etch electron microscopy | Algal Research | 49 |
| 2020 | 10.3389/ffgc.2020.00097 | Policelli, N., T. R. Horton, A. T. Hudon, T. R. Patterson and J. M. Bhatnagar | Back to Roots: The Role of Ectomycorrhizal Fungi in Boreal and Temperate Forest Restoration | Frontiers in Forests and Global Change | 3 |
| 2020 | 10.1128/mBio.02293-19 | Pold, G., L. A. Domeignoz-Horta, E. W. Morrison, S. D. Frey, S. A. Sistla and K. M. DeAngelis | Carbon Use Efficiency and Its Temperature Sensitivity Covary in Soil Bacteria | mBio | 11(1) |
| 2020 | 10.1525/elementa.069 | Pold, G., L. A. Domeignoz-Horta and K. M. DeAngelis | Heavy and wet: The consequences of violating assumptions of measuring soil microbial growth efficiency using the 18O water method | Elementa | 8(1) |
| 2020 | 10.1016/j.agrformet.2020.108188 | Poe, J., D. E. Reed, M. Abraha, J. Q. Chen, K. M. Dahlin and A. R. Desai | Geospatial coherence of surface-atmosphere fluxes in the upper Great Lakes region | Agricultural and Forest Meteorology | 295 |
| 2020 | 10.1128/MRA.00644-20 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of Starkeya sp. Strain ORNL1, a Soil Alphaproteobacterium Isolated from the Rhizosphere of Populus deltoides | Microbiology Resource Announcements | 9(27) |
| 2020 | 10.1128/MRA.00617-20 | Podar, M., J. Turner, L. H. Burdick and D. A. Pelletier | Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere | Microbiology Resource Announcements | 9(27) |
| 2020 | 10.1111/nph.16322 | Plett, K. L., V. R. Singan, M. Wang, V. Ng, I. V. Grigoriev, F. Martin, J. M. Plett and I. C. Anderson | Inorganic nitrogen availability alters Eucalyptus grandis receptivity to the ectomycorrhizal fungus Pisolithus albus but not symbiotic nitrogen transfer | New Phytologist | 226(1) 221-231 |
| 2020 | 10.1111/nph.16759 | Plett, J. M., K. L. Plett, J. Wong-Bajracharya, M. de Freitas Pereira, M. D. Costa, A. Kohler, F. Martin and I. C. Anderson | Mycorrhizal effector PaMiSSP10b alters polyamine biosynthesis in Eucalyptus root cells and promotes root colonization | New Phytologist | 228(2) 712–27 |
| 2020 | 10.1073/pnas.1922883117 | Pingali, S. V., M. D. Smith, S.-H. Liu, T. B. Rawal, Y. Pu, R. Shah, B. R. Evans, V. S. Urban, B. H. Davison, C. M. Cai, A. J. Ragauskas, H. M. O’Neill, J. C. Smith and L. Petridis | Deconstruction of biomass enabled by local demixing of cosolvents at cellulose and lignin surfaces | Proceedings of the National Academy of Sciences | 117(29) 16776–81 |
| 2020 | 10.1002/jbm.a.36811 | Pierce, A., Y. Zheng, W. L. Wagner, H. V. Scheller, D. Mohnen, A. Tsuda, M. Ackermann and S. J. Mentzer | Pectin biopolymer mechanics and microstructure associated with polysaccharide phase transitions | Journal of Biomedical Materials Research Part A | 108(2) 246–53 |
| 2020 | 10.1016/j.carbpol.2020.116618 | Pierce, A., Y. Zheng, W. L. Wagner, H. V. Scheller, D. Mohnen, M. Ackermann and S. J. Mentzer | Visualizing pectin polymer-polymer entanglement produced by interfacial water movement | Carbohydrate Polymers | 246 116618 |
| 2020 | 10.1016/j.ympev.2020.106904 | Piatkowski, B. T., K. Imwattana, E. A. Tripp, D. J. Weston, A. Healey, J. Schmutz and A. J. Shaw | Phylogenomics reveals convergent evolution of red-violet coloration in land plants and the origins of the anthocyanin biosynthetic pathway | Molecular Phylogenetics and Evolution | 151 106904 |
| 2020 | 10.1086/706198 | Petipas, R. H., A. W. Bowsher, C. S. Bekkering, C. N. Jack, E. E. McLachlan, R. A. White, B. S. Younginger, L. K. Tiemann, S. E. Evans and M. L. Friesen | Interactive Effects of Microbes and Nitrogen on Panicum virgatum Root Functional Traits and Patterns of Phenotypic Selection | International Journal of Plant Sciences | 181(1) 20–32 |
| 2020 | 10.1029/2019JG005526 | Perryman, C. R., C. K. Mccalley, A. Malhotra, M. F. Fahnestock, N. N. Kashi, J. G. Bryce, R. Giesler and R. K. Varner | Thaw Transitions and Redox Conditions Drive Methane Oxidation in a Permafrost Peatland | Journal of Geophysical Research: Biogeosciences | 125(3) |
| 2020 | 10.1038/s41467-020-15559-4 | Peris, D., W. G. Alexander, K. J. Fisher, R. V. Moriarty, M. G. Basuino, E. J. Ubbelohde, R. L. Wrobel and C. T. Hittinger | Synthetic hybrids of six yeast species | Nature Communications | 11(1) 2085 |
| 2020 | 10.1039/D0RA04031B | Pérez-Pimienta, J. A., G. Papa, J. M. Gladden, B. A. Simmons and A. Sanchez | The effect of continuous tubular reactor technologies on the pretreatment of lignocellulosic biomass at pilot-scale for bioethanol production | RSC Advances | 10(31) 18147–59 |
| 2020 | 10.1128/mra.00882-20 | Peralta, A. L., R. B. Bledsoe, M. E. Muscarella, M. Huntemann, A. Clum, et al. | Metagenomes from Experimental Hydrologic Manipulation of Restored Coastal Plain Wetland Soils (Tyrell County, North Carolina) | Microbiology Resource Announcements | 9(41) |
| 2020 | 10.1111/tpj.14993 | Peng, Z., J. V. Bredeson, G. A. Wu, S. Shu, N. Rawat, D. Du, S. Parajuli, Q. Yu, Q. You, D. S. Rokhsar, F. G. Gmitter Jr and Z. Deng | A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus | The Plant Journal | 104(5) 1215-1232 |
| 2020 | 10.1128/mra.00736-20 | Pelletier, D. A., Z. Li, T.-Y. S. Lu, L. Zhang, Z. Hu, G. P. Morris, T. G. d. Rio, D. Wang, J.-G. Chen and C. Pan | Genome Sequences of 42 Bacteria Isolated from Sorghum bicolor Roots | Microbiology Resource Announcements | 9(37) |
| 2020 | 10.1128/MRA.00159-20 | Pelletier, D. A., L. H. Burdick, M. Podar, C. W. Schadt and U. C. Kalluri | Draft Genome Sequence of Larkinella sp. Strain BK230, Isolated from Populus deltoides Roots | Microbiology Resource Announcements | 9(12) |
| 2020 | 10.1111/1462-2920.14862 | Paver, S. F., R. J. Newton and M. L. Coleman | Microbial communities of the Laurentian Great Lakes reflect connectivity and local biogeochemistry | Environmental Microbiology | 22(1) 433-446 |
| 2020 | 10.3389/fmicb.2020.00093 | Paudel, D., F. Liu, L. Wang, M. Crook, S. Maya, Z. Peng, K. Kelley, J.-M. Ané and J. Wang | Isolation, Characterization, and Complete Genome Sequence of a Bradyrhizobium Strain Lb8 From Nodules of Peanut Utilizing Crack Entry Infection | Frontiers in Microbiology | 11 |
| 2020 | 10.3389/fgene.2020.00317 | Paterson, A. H., W. Kong, R. M. Johnston, P. Nabukalu, G. Wu, et al. | The Evolution of an Invasive Plant, Sorghum halepense L. (‘Johnsongrass’) | Frontiers in Genetics | 11 |
| 2020 | 10.1017/s143192762002190x | Parrell, D., K. Lemmer, T. Donohue and E. Wright | Deletion of the ntrYX Two Component System in Rhodobacter sphaeroides Causes the Generation of Diverse Extracellular Membrane Structures | Microscopy and Microanalysis | 26(S2) 2522–3 |
| 2020 | 10.1007/s10822-020-00289-y | Parks, C. D., Z. Gaieb, M. Chiu, H. Yang, C. Shao, et al. | D3R grand challenge 4: blind prediction of protein–ligand poses, affinity rankings, and relative binding free energies | Journal of Computer-Aided Molecular Design | 34(2) 99-119 |
| 2020 | 10.15252/msb.20209584 | Park, Y., A. Espah Borujeni, T. E. Gorochowski, J. Shin and C. A. Voigt | Precision design of stable genetic circuits carried in highly-insulated E. coli genomic landing pads | Molecular Systems Biology | 16(8) |
| 2020 | 10.1111/tpj.14870 | Park, S. and S. Y. Ding | The N-terminal zinc finger of CELLULOSE SYNTHASE6 is critical in defining its functional properties by determining the level of homodimerization in Arabidopsis | The Plant Journal | 103(5) 1826–38 |
| 2020 | 10.1002/cssc.202000268 | Park, M. R., Y. Chen, M. Thompson, V. T. Benites, B. Fong, C. J. Petzold, E. E. K. Baidoo, J. M. Gladden, P. D. Adams, J. D. Keasling, B. A. Simmons and S. W. Singer | Response of Pseudomonas putida to Complex, Aromatic-Rich Fractions from Biomass | ChemSusChem | 13(17) 4455–67 |
| 2020 | 10.1111/gcbb.12684 | Parajuli, S., B. Kannan, R. Karan, G. Sanahuja, H. Liu, E. Garcia-Ruiz, D. Kumar, V. Singh, H. M. Zhao, S. Long, J. Shanklin and F. Altpeter | Towards oilcane: Engineering hyperaccumulation of triacylglycerol into sugarcane stems | GCB Bioenergy | 12(7) 476–90 |
| 2020 | 10.1002/ecy.2887 | Papp, K., B. A. Hungate and E. Schwartz | Glucose triggers strong taxon-specific responses in microbial growth and activity: insights from DNA and RNA qSIP | Ecology | 101(1) e02887 |
| 2020 | 10.1007/978-981-10-6739-6_49-1 | Papa, G., B. A. Simmons and N. Sun | Scale-Up of the Ionic Liquid-Based Biomass Conversion Processes | Encyclopedia of Ionic Liquids | 1–8 |
| 2020 | 10.1021/jacs.0c04328 | Pang, B., Y. Chen, F. Gan, C. Yan, L. Jin, J. W. Gin, C. J. Petzold and J. D. Keasling | Investigation of Indigoidine Synthetase Reveals a Conserved Active-Site Base Residue of Nonribosomal Peptide Synthetase Oxidases | Journal of the American Chemical Society | 142(25) 10931–35 |
| 2020 | 10.1186/s12864-020-6554-8 | Panchy, N. L., J. P. Lloyd and S. H. Shiu | Improved recovery of cell-cycle gene expression in Saccharomyces cerevisiae from regulatory interactions in multiple omics data | BMC Genomics | 21(1) 159 |
| 2020 | 10.3389/fmicb.2020.583361 | Palmer, M., B. P. Hedlund, S. Roux, P. K. Tsourkas, R. K. Doss, C. Stamereilers, A. Mehta, J. A. Dodsworth, M. Lodes, S. Monsma, T. Glavina del Rio, T. W. Schoenfeld, E. A. Eloe-Fadrosh and D. A. Mead | Diversity and Distribution of a Novel Genus of Hyperthermophilic Aquificae Viruses Encoding a Proof-Reading Family-A DNA Polymerase | Frontiers in Microbiology | 11 |
| 2020 | 10.1128/AEM.02278-19 | Ouyang, Y. and J. M. Norton | Short-Term Nitrogen Fertilization Affects Microbial Community Composition and Nitrogen Mineralization Functions in an Agricultural Soil | Applied and Environmental Microbiology | 86(5) e02278-19 |
| 2020 | 10.1016/j.coisb.2020.09.007 | Ostrov, N., A. Nyerges, A. Chiappino-Pepe, A. Rudolph, M. Baas-Thomas and G. M. Church | Synthetic genomes with altered genetic codes | Current Opinion in Systems Biology | 24 32–40 |
| 2020 | 10.1128/AEM.01888-19 | Oshlag, J. Z., Y. Ma, K. Morse, B. T. Burger, R. A. Lemke, S. D. Karlen, K. S. Myers, T. J. Donohue and D. R. Noguera | Anaerobic Degradation of Syringic Acid by an Adapted Strain of Rhodopseudomonas palustris | Applied and Environmental Microbiology | 86(3) e01888-19 |
| 2020 | 10.1128/AEM.01888-19 | Oshlag, J. Z., Y. Ma, K. Morse, B. T. Burger, R. A. Lemke, S. D. Karlen, K. S. Myers, T. J. Donohue and D. R. Noguera | Anaerobic Degradation of Syringic Acid by an Adapted Strain of Rhodopseudomonas palustris | Applied and Environmental Microbiology | 86(3) |
| 2020 | 10.1016/j.fgb.2019.103281 | Oshiquiri, L. H., K. R. A. dos Santos, S. A. Ferreira Junior, A. S. Steindorff, J. R. Barbosa Filho, T. M. Mota, C. J. Ulhoa and R. C. Georg | Trichoderma harzianum transcriptome in response to cadmium exposure | Fungal Genetics and Biology | 134 103281 |
| 2020 | 10.1371/journal.pone.0231083 | Ortiz, Y., C. Restrepo, B. Vilanova-Cuevas, E. Santiago-Valentin, S. G. Tringe and F. Godoy-Vitorino | Geology and climate influence rhizobiome composition of the phenotypically diverse tropical tree Tabebuia heterophylla | PLOS ONE | 15(4) e0231083 |
| 2020 | 10.1094/Pbiomes-05-20-0044-R | Onufrak, A. J., G. M. Williams, W. E. Klingeman, M. A. Cregger, D. M. Klingeman, J. M. DeBruyn, M. D. Ginzel and D. Hadziabdic | Regional Differences in the Structure of Juglans nigra Phytobiome Reflect Geographical Differences in Thousand Cankers Disease Severity | Phytobiomes Journal | 4(4) 388–404 |
| 2020 | 10.1371/journal.pcbi.1008137 | Ong, W. K., D. K. Courtney, S. Pan, R. B. Andrade, P. J. Kiley, B. F. Pfleger and J. L. Reed | Model-driven analysis of mutant fitness experiments improves genome-scale metabolic models of Zymomonas mobilis ZM4 | PLoS Computational Biology | 16(8) e1008137 |
| 2020 | 10.1016/j.jag.2020.102205 | Oliveira, J., E. E. Campbell, R. A. C. Lamparelli, G. K. D. A. Figueiredo, J. R. Soares, D. Jaiswal, L. A. Monteiro, M. S. Vianna, L. R. Lynd and J. J. Sheehan | Choosing pasture maps: An assessment of pasture land classification definitions and a case study of Brazil | International Journal of Applied Earth Observation and Geoinformation | 93 102205 |
| 2020 | 10.1080/15321819.2020.1804933 | Olayinka, A., I. M. Ifeorah, O. Omotosho, T. O. C. Faleye, O. Odukaye, O. Bolaji, I. Ibitoye, O. Ope-Ewe, M. O. Adewumi and J. A. Adeniji | A possible risk of environmental exposure to HEV in Ibadan, Oyo State, Nigeria | Journal of Immunoassay and Immunochemistry | 41(5) 875–84 |
| 2020 | 10.1534/g3.120.401402 | Olatoye, M. O., L. V. Clark, N. R. Labonte, H. Dong, M. S. Dwiyanti, et al. | Training Population Optimization for Genomic Selection in Miscanthus | G3 Genes|Genomes|Genetics | 10(7) 2465–76 |
| 2020 | 10.1007/s12155-019-10079-6 | Ohlsson, J. A., A. E. Harman-Ware, M. Sandgren and A. Schnürer | Biomass Recalcitrance in Willow Under Two Biological Conversion Paradigms: Enzymatic Hydrolysis and Anaerobic Digestion | BioEnergy Research | 13(1) 260–70 |
| 2020 | 10.1021/acssynbio.0c00159 | Oh, E. J., R. Liu, L. Liang, E. F. Freed, C. A. Eckert and R. T. Gill | Multiplex Evolution of Antibody Fragments Utilizing a Yeast Surface Display Platform | ACS Synthetic Biology | 9(8) 2197–202 |
| 2020 | 10.1093/femsyr/foz089 | Oh, E. J. and Y. S. Jin | Engineering of Saccharomyces cerevisiae for efficient fermentation of cellulose | FEMS Yeast Research | 20(1) |
| 2020 | 10.3390/ijms21249706 | Ogden, A. J., S. Abdali, K. M. Engbrecht, M. Zhou and P. P. Handakumbura | Distinct Preflowering Drought Tolerance Strategies of Sorghum bicolor Genotype RTx430 Revealed by Subcellular Protein Profiling | International Journal of Molecular Sciences | 21(24) |
| 2020 | 10.1007/978-1-0716-0908-8_1 | Oberortner, E., R. Evans, X. Meng, S. Nath, H. Plahar, L. Simirenko, A. Tarver, S. Deutsch, N. J. Hillson and J.-F. Cheng | An Integrated Computer-Aided Design and Manufacturing Workflow for Synthetic Biology | DNA Cloning and Assembly: Methods and Protocols | 3–18 |
| 2020 | 10.1021/acs.jpcc.0c05396 | O’Callahan, B. T., A. Bhattarai, Z. D. Schultz and P. Z. El-Khoury | Power-Dependent Dual Analyte Tip-Enhanced Raman Spectral Imaging | The Journal of Physical Chemistry C | 124(28) 15454-15459 |
| 2020 | 10.1021/acs.nanolett.0c01291 | O'Callahan, B. T., K. D. Park, I. V. Novikova, T. Jian, C. L. Chen, E. A. Muller, P. Z. El-Khoury, M. B. Raschke and A. S. Lea | In Liquid Infrared Scattering Scanning Near-Field Optical Microscopy for Chemical and Biological Nanoimaging | Nano Lett | 20(6) 4497-4504 |
| 2020 | 10.1038/s41396-019-0582-x | Nuccio, E. E., E. Starr, U. Karaoz, E. L. Brodie, J. Zhou, S. G. Tringe, R. R. Malmstrom, T. Woyke, J. F. Banfield, M. K. Firestone and J. Pett-Ridge | Niche differentiation is spatially and temporally regulated in the rhizosphere | The ISME Journal | 14(4) 999–1014 |
| 2020 | 10.1002/agj2.20184 | Novak, J. M., D. W. Watts, P. J. Bauer, D. L. Karlen, P. G. Hunt and U. Mishra | Loamy sand soil approaches organic carbon saturation after 37 years of conservation tillage | Agronomy Journal | 112(4) 3152–62 |
| 2020 | 10.1111/mmi.14459 | North, J. A., J. A. Wildenthal, T. J. Erb, B. S. Evans, K. M. Byerly, J. A. Gerlt and F. R. Tabita | A bifunctional salvage pathway for two distinct S-adenosylmethionine by-products that is widespread in bacteria, including pathogenic Escherichia coli | Molecular Microbiology | 113(5) 923–37 |
| 2020 | 10.1126/science.abb6310 | North, J. A., A. B. Narrowe, W. Xiong, K. M. Byerly, G. Zhao, S. J. Young, S. Murali, J. A. Wildenthal, W. R. Cannon, K. C. Wrighton, R. L. Hettich and F. R. Tabita | A nitrogenase-like enzyme system catalyzes methionine, ethylene, and methane biogenesis | Science | 369(6507) 1094–8 |
| 2020 | 10.1093/jxb/eraa294 | Noronha, H., A. Silva, N. Mitani-Ueno, C. Conde, F. Sabir, C. Prista, G. Soveral, P. Isenring, J. F. Ma, R. R. Bélanger and H. Gerós | The grapevine NIP2;1 aquaporin is a silicon channel | Journal of Experimental Botany | 71(21) 6789–98 |
| 2020 | 10.1016/j.soilbio.2020.107952 | Norman, J. S., D. N. Smercina, J. T. Hileman, L. K. Tiemann and M. L. Friesen | Soil aminopeptidase induction is unaffected by inorganic nitrogen availability | Soil Biology and Biochemistry | 149 |
| 2020 | 10.1021/acs.est.0c00364 | Nordahl, S. L., J. P. Devkota, J. Amirebrahimi, S. J. Smith, H. M. Breunig, C. V. Preble, A. J. Satchwell, L. Jin, N. J. Brown, T. W. Kirchstetter and C. D. Scown | Life-Cycle Greenhouse Gas Emissions and Human Health Trade-Offs of Organic Waste Management Strategies | Environmental Science & Technology | 54(15) 9200–09 |
| 2020 | 10.3389/fpls.2020.00408 | Noirot-Gros, M. F., S. V. Shinde, C. Akins, J. L. Johnson, S. Zerbs, R. Wilton, K. M. Kemner, P. Noirot and G. Babnigg | Functional Imaging of Microbial Interactions With Tree Roots Using a Microfluidics Setup | Front Plant Sci | 11 408 |
| 2020 | 10.1093/femsyr/foaa056 | Nizovoy, P., N. Bellora, S. Haridas, H. Sun, C. Daum, K. Barry, I. V. Grigoriev, D. Libkind, L. B. Connell and M. Moliné | Unique genomic traits for cold adaptation in Naganishia vishniacii, a polyextremophile yeast isolated from Antarctica | FEMS Yeast Research | 21(1) |
| 2020 | 10.1038/s41467-020-18560-z | Ning, D., M. Yuan, L. Wu, Y. Zhang, X. Guo, X. Zhou, Y. Yang, A. P. Arkin, M. K. Firestone and J. Zhou | A quantitative framework reveals ecological drivers of grassland microbial community assembly in response to warming | Nature Communications | 11(1) 4717 |
| 2020 | 10.1021/acssuschemeng.0c00779 | Nill, J. D. and T. Jeoh | The Role of Evolving Interfacial Substrate Properties on Heterogeneous Cellulose Hydrolysis Kinetics | ACS Sustainable Chemistry & Engineering | 8(17) 6722–33 |
| 2020 | 10.3390/genes11060625 | Nikolaou, E., A. T. M. Hubbard, J. Botelho, T. A. M. Marschall, D. M. Ferreira and A. P. Roberts | Antibiotic Resistance Is Associated with Integrative and Conjugative Elements and Genomic Islands in Naturally Circulating Streptococcus pneumoniae Isolates from Adults in Liverpool, UK | Genes | 11(6) |
| 2020 | 10.1128/AEM.03038-19 | Nies, S. C., R. Dinger, Y. Chen, G. G. Wordofa, M. Kristensen, K. Schneider, J. Büchs, C. J. Petzold, J. D. Keasling, L. M. Blank and B. E. Ebert | Systems Analysis of NADH Dehydrogenase Mutants Reveals Flexibility and Limits of Pseudomonas taiwanensis VLB120’s Metabolism | Applied and Environmental Microbiology | 86(11) e03038-19 |
| 2020 | 10.1016/j.ymben.2020.08.003 | Nies, S. C., T. B. Alter, S. Nölting, S. Thiery, A. N. T. Phan, N. Drummen, J. D. Keasling, L. M. Blank and B. E. Ebert | High titer methyl ketone production with tailored Pseudomonas taiwanensis VLB120 | Metabolic Engineering | 62 84–94 |
| 2020 | 10.3389/fmicb.2020.00914 | Nickels, J. D., S. Poudel, S. Chatterjee, A. Farmer, D. Cordner, S. R. Campagna, R. J. Giannone, R. L. Hettich, D. A. A. Myles, R. F. Standaert, J. Katsaras and J. G. Elkins | Impact of Fatty-Acid Labeling of Bacillus subtilis Membranes on the Cellular Lipidome and Proteome | Frontiers in Microbiology | 11 |
| 2020 | 10.1016/j.bej.2020.107496 | Nichols, T. M., N. W. Kennedy and D. Tullman-Ercek | A genomic integration platform for heterologous cargo encapsulation in 1,2-propanediol utilization bacterial microcompartments | Biochemical Engineering Journal | 156 |
| 2020 | 10.1038/s41467-020-19983-4 | Neupert, J., S. D. Gallaher, Y. Lu, D. Strenkert, N. Segal, R. Barahimipour, S. T. Fitz-Gibbon, M. Schroda, S. S. Merchant and R. Bock | An epigenetic gene silencing pathway selectively acting on transgenic DNA in the green alga Chlamydomonas | Nature Communications | 11(1) |
| 2020 | 10.7717/peerj.10119 | Nelson, W. C., B. J. Tully and J. M. Mobberley | Biases in genome reconstruction from metagenomic data | PeerJ | 8 e10119 |
| 2020 | 10.1128/MRA.00718-20 | Nelson, W. C., L. N. Anderson, R. Wu, J. E. McDermott, S. L. Bell, A. Jumpponen, S. J. Fansler, K. J. Tyrrell, Y. Farris, K. S. Hofmockel and J. K. Jansson | Terabase Metagenome Sequencing of Grassland Soil Microbiomes | Microbiology Resource Announcements | 9(32) |
| 2020 | 10.1038/s41579-020-00451-1 | Neches, R. Y., M. D. McGee and N. C. Kyrpides | Recombination should not be an afterthought | Nature Reviews Microbiology | 18(11) 606 |
| 2020 | 10.1146/annurev-environ-012320-082720 | Naylor, D., N. Sadler, A. Bhattacharjee, E. B. Graham, C. R. Anderton, R. McClure, M. Lipton, K. S. Hofmockel and J. K. Jansson | Soil Microbiomes Under Climate Change and Implications for Carbon Cycling | Annual Review of Environment and Resources | 45 29–59 |
| 2020 | 10.1128/mBio.01349-20 | Naylor, D., S. Fansler, C. Brislawn, W. C. Nelson, K. S. Hofmockel, J. K. Jansson and R. McClure | Deconstructing the Soil Microbiome into Reduced-Complexity Functional Modules | mBio | 11(4) |
| 2020 | 10.1007/s11104-020-04616-y | Nash, J., R. Laushman and C. Schadt | Ectomycorrhizal fungal diversity interacts with soil nutrients to predict plant growth despite weak plant-soil feedbacks | Plant and Soil | 453(45659) 445–58 |
| 2020 | 10.1021/acssuschemeng.9b06556 | Nandiwale, K. Y., A. M. Danby, A. Ramanathan, R. V. Chaudhari, A. H. Motagamwala, J. A. Dumesic and B. Subramaniam | Enhanced Acid-Catalyzed Lignin Depolymerization in a Continuous Reactor with Stable Activity | ACS Sustainable Chemistry & Engineering | 8(10) 4096–106 |
| 2020 | 10.1038/s41598-020-73253-3 | Nanda, P., P. Patra, M. Das and A. Ghosh | Reconstruction and analysis of genome-scale metabolic model of weak Crabtree positive yeast Lachancea kluyveri | Scientific Reports | 10(1) 16314 |
| 2020 | 10.1128/MRA.00880-20 | Myers, K. S., J. M. Vera, K. C. Lemmer, A. M. Linz, R. Landick, D. R. Noguera and T. J. Donohue | Genome-Wide Identification of Transcription Start Sites in Two Alphaproteobacteria, Rhodobacter sphaeroides 2.4.1 and Novosphingobium aromaticivorans DSM 12444 | Microbiology Resource Announcements | 9(36) |
| 2020 | 10.1128/MRA.00587-20 | Myers, K. S., M. Place, D. R. Noguera and T. J. Donohue | COnTORT: COmprehensive Transcriptomic ORganizational Tool for Simultaneously Retrieving and Organizing Numerous Gene Expression Data Sets from the NCBI Gene Expression Omnibus Database | Microbiology Resource Announcements | 9(25) |
| 2020 | 10.1007/s10841-020-00248-w | Myers, A. T., N. L. Haan and D. A. Landis | Video surveillance reveals a community of largely nocturnal Danaus plexippus (L.) egg predators | Journal of Insect Conservation | 24(4) 731–7 |
| 2020 | 10.1371/journal.pbio.3000877 | Mutalik, V. K., B. A. Adler, H. S. Rishi, D. Piya, C. Zhong, B. Koskella, E. M. Kutter, R. Calendar, P. S. Novichkov, M. N. Price, A. M. Deutschbauer and A. P. Arkin | High-throughput mapping of the phage resistance landscape in E. coli | PLoS Biology | 18(10) e3000877 |
| 2020 | 10.1111/mpp.12999 | Murphree, C., S. B. Kim, S. Karre, R. Samira and P. Balint-Kurti | Use of virus-induced gene silencing to characterize genes involved in modulating hypersensitive cell death in maize | Molecular Plant Pathology | 21(12) 1662-1676 |
| 2020 | 10.1099/ijsem.0.004360 | Muramatsu, S., M. Kanamuro, Y. Sato-Takabe, S. Hirose, Y. Muramatsu, S. Takaichi and S. Hanada | Roseobacter cerasinus sp. nov., isolated from a fish farm | International Journal of Systematic and Evolutionary Microbiology | 70(9) 4920–6 |
| 2020 | 10.1002/pro.3974 | Mulligan, V. K., C. S. Kang, M. R. Sawaya, S. Rettie, X. Li, I. Antselovich, T. W. Craven, A. M. Watkins, J. W. Labonte, F. DiMaio, T. O. Yeates and D. Baker | Computational design of mixed chirality peptide macrocycles with internal symmetry | Protein Science | 29(12) 2433-2445 |
| 2020 | 10.1104/pp.20.00997 | Müller, L. M., L. Campos-Soriano, V. Levesque-Tremblay, A. Bravo, D. A. Daniels, S. Pathak, H. J. Park and M. J. Harrison | Constitutive overexpression of RAM1 leads to an increase in arbuscule density in brachypodium distachyon | Plant Physiology | 184(3) 1263-1272 |
| 2020 | 10.1093/nar/gkaa983 | Mukherjee, S., D. Stamatis, J. Bertsch, G. Ovchinnikova, Jagadish C. Sundaramurthi, J. Lee, M. Kandimalla, I.-M. A. Chen, N. C. Kyrpides and T. B. K. Reddy | Genomes OnLine Database (GOLD) v.8: overview and updates | Nucleic Acids Research | 49(D1) D723-D733 |
| 2020 | 10.1016/j.rser.2020.109764 | Mousavi-Avval, S. H. and A. Shah | Techno-economic analysis of pennycress production, harvest and post-harvest logistics for renewable jet fuel | Renewable and Sustainable Energy Reviews | 123 |
| 2020 | 10.1016/j.tplants.2020.03.007 | Mortimer, J. C. and H. V. Scheller | Synthesis and Function of Complex Sphingolipid Glycosylation | Trends in Plant Science | 25(6) 522–24 |
| 2020 | 10.1128/mra.00956-20 | Morrow, M. A., G. Pold and K. M. DeAngelis | Draft Genome Sequence of a Terrestrial Planctomycete, Singulisphaera sp. Strain GP187, Isolated from Forest Soil | Microbiology Resource Announcements | 9(50) |
| 2020 | 10.1128/MRA.00956-20 | Morrow, M. A., G. Pold and K. M. DeAngelis | Draft Genome Sequence of a Terrestrial Planctomycete, Singulisphaera sp. Strain GP187, Isolated from Forest Soil | Microbiology Resource Announcements | 9(50) |
| 2020 | 10.1038/s41893-019-0456-2 | Moreira, M. M. R., J. E. A. Seabra, L. R. Lynd, S. M. Arantes, M. P. Cunha and J. J. M. Guilhoto | Socio-environmental and land-use impacts of double-cropped maize ethanol in Brazil | Nature Sustainability | 3(3) 209–16 |
| 2020 | 10.3389/fmicb.2020.00005 | Moosburner, M. A., P. Gholami, J. K. McCarthy, M. Tan, V. A. Bielinski and A. E. Allen | Multiplexed Knockouts in the Model Diatom Phaeodactylum by Episomal Delivery of a Selectable Cas9 | Frontiers in Microbiology | 11 5 |
| 2020 | 10.1111/gcbb.12743 | Moore, C. E., D. M. Berardi, E. Blanc-Betes, E. C. Dracup, S. Egenriether, et al. | The carbon and nitrogen cycle impacts of reverting perennial bioenergy switchgrass to an annual maize crop rotation | GCB Bioenergy | 12(11) 941–54 |
| 2020 | 10.1093/insilicoplants/diaa005 | Moore, B. M., P. Wang, P. Fan, A. Lee, B. Leong, Y. R. Lou, C. A. Schenck, K. Sugimoto, R. Last, M. D. Lehti-Shiu, C. S. Barry and S. H. Shiu | Within- and cross-species predictions of plant specialized metabolism genes using transfer learning | In Silico Plants | 2(1) diaa005 |
| 2020 | 10.1016/j.chemosphere.2020.126951 | Moon, J. W., C. J. Paradis, D. C. Joyner, F. von Netzer, E. L. Majumder, et al. | Characterization of subsurface media from locations up- and down-gradient of a uranium-contaminated aquifer | Chemosphere | 255 126951 |
| 2020 | 10.1111/gcb.14925 | Monteiro, L. A., A. M. Allee, E. E. Campbell, L. R. Lynd, J. R. Soares, et al. | Assessment of yield gaps on global grazed-only permanent pasture using climate binning | Global Change Biology | 26(3) 1820–32 |
| 2020 | 10.1007/s00253-020-10469-3 | Monge, E. C., M. Levi, J. N. Forbin, M. D. Legesse, B. A. Udo, T. N. deCarvalho and J. G. Gardner | High-throughput screening of environmental polysaccharide-degrading bacteria using biomass containment and complex insoluble substrates | Applied Microbiology and Biotechnology | 104(8) 3379–89 |
| 2020 | 10.1021/acssynbio.9b00524 | Mohr, B., R. J. Giannone, R. L. Hettich and M. J. Doktycz | Targeted Growth Medium Dropouts Promote Aromatic Compound Synthesis in Crude E. coli Cell-Free Systems | ACS Synthetic Biology | 9(11) 2986–97 |
| 2020 | 10.1016/j.mec.2020.e00143 | Mohamed, E. T., A. Z. Werner, D. Salvachúa, C. A. Singer, K. Szostkiewicz, M. Rafael Jiménez-Díaz, T. Eng, M. S. Radi, B. A. Simmons, A. Mukhopadhyay, M. J. Herrgård, S. W. Singer, G. T. Beckham and A. M. Feist | Adaptive laboratory evolution of Pseudomonas putida KT2440 improves p-coumaric and ferulic acid catabolism and tolerance | Metabolic Engineering Communications | 11 e00143 |
| 2020 | 10.1039/C9NP00028C | Mnich, E., N. Bjarnholt, A. Eudes, J. Harholt, C. Holland, et al. | Phenolic cross-links: building and de-constructing the plant cell wall | Natural Product Reports | 37(7) 919–61 |
| 2020 | 10.1038/s41467-020-18795-w | Miyauchi, S., E. Kiss, A. Kuo, E. Drula, A. Kohler, et al. | Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits | Nature Communications | 11(1) 5125 |
| 2020 | 10.1093/dnares/dsaa011 | Miyauchi, S., H. Hage, E. Drula, L. Lesage-Meessen, J.-G. Berrin, et al. | Conserved white-rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus | DNA Research | 27(2) |
| 2020 | 10.1038/s41467-020-18923-6 | Mitros, T., A. M. Session, B. T. James, G. A. Wu, M. B. Belaffif, et al. | Genome biology of the paleotetraploid perennial biomass crop Miscanthus | Nature Communications | 11(1) 5442 |
| 2020 | 10.1038/s41467-020-18923-6 | Mitros, T., A. M. Session, B. T. James, G. A. Wu, M. B. Belaffif, et al. | Genome biology of the paleotetraploid perennial biomass crop Miscanthus | Nature Communications | 11(1) 5442 |
| 2020 | 10.1111/tpj.14957 | Miller, G. P., W. W. Bhat, E. R. Lanier, S. R. Johnson, D. T. Mathieu and B. Hamberger | The biosynthesis of the anti-microbial diterpenoid leubethanol in Leucophyllum frutescens proceeds via an all-cis prenyl intermediate | The Plant Journal | 104(3) 693–705 |
| 2020 | 10.1128/mra.00104-20 | Meyers, D. J., B. A. Leigh, M. Huntemann, A. Clum, S. Ritter, et al. | Draft Genome Sequence of Yokenella regensburgei Strain WCD67, Isolated from the Boxelder Bug | Microbiology Resource Announcements | 9(15) |
| 2020 | 10.1016/j.algal.2020.101967 | Metcalf, A. J., A. Nagygyor and N. R. Boyle | Rapid Annotation of Photosynthetic Systems (RAPS): automated algorithm to generate genome-scale metabolic networks from algal genomes | Algal Research | 50 |
| 2020 | 10.1016/j.bbamcr.2020.118822 | Merchant, S. S., S. Schmollinger, D. Strenkert, J. L. Moseley and C. E. Blaby-Haas | From economy to luxury: Copper homeostasis in Chlamydomonas and other algae | Biochimica et Biophysica Acta (BBA) - Molecular Cell Research | 1867(11) 118822 |
| 2020 | 10.1039/d0gc00661k | Meng, X. Z., Y. Q. Pu, M. Li and A. J. Ragauskas | A biomass pretreatment using cellulose-derived solvent Cyrene | Green Chemistry | 22(9) 2862–72 |
| 2020 | 10.1016/j.indcrop.2020.112144 | Meng, X., S. Bhagia, Y. Wang, Y. Zhou, Y. Pu, J. R. Dunlap, L. Shuai, A. J. Ragauskas and C. G. Yoo | Effects of the advanced organosolv pretreatment strategies on structural properties of woody biomass | Industrial Crops and Products | 146 112144 |
| 2020 | 10.3389/fmicb.2020.593006 | Mei, R., M. K. Nobu, T. Narihiro and W.-T. Liu | Metagenomic and Metatranscriptomic Analyses Revealed Uncultured Bacteroidales Populations as the Dominant Proteolytic Amino Acid Degraders in Anaerobic Digesters | Frontiers in Microbiology | 11 |
| 2020 | 10.1107/S2052252520007241 | McSweeney, D. M., S. M. McSweeney and Q. Liu | A self-supervised workflow for particle picking in cryo-EM | IUCrJ | 7(Part 4) 719–27 |
| 2020 | 10.1021/acssynbio.9b00407 | McConnell, S. A., K. A. Cannon, C. Morgan, R. McAllister, B. R. Amer, R. T. Clubb and T. O. Yeates | Designed Protein Cages as Scaffolds for Building Multienzyme Materials | ACS Synthetic Biology | 9(2) 381–91 |
| 2020 | 10.1038/s41598-020-67878-7 | McClure, R. S., J. Y. Lee, T. R. Chowdhury, E. M. Bottos, R. A. White, 3rd, Y. M. Kim, C. D. Nicora, T. O. Metz, K. S. Hofmockel, J. K. Jansson and H. S. Song | Integrated network modeling approach defines key metabolic responses of soil microbiomes to perturbations | Scientific Reports | 10(1) 10882 |
| 2020 | 10.3389/fmicb.2020.01987 | McClure, R., D. Naylor, Y. Farris, M. Davison, S. J. Fansler, K. S. Hofmockel and J. K. Jansson | Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome | Frontiers in Microbiology | 11 1987 |
| 2020 | 10.1128/mBio.01519-19 | McClelland, H. L. O., C. Jones, L. M. Chubiz, D. A. Fike and A. S. Bradley | Direct Observation of the Dynamics of Single-Cell Metabolic Activity during Microbial Diauxic Growth | mBio | 11(2) |
| 2020 | 10.1016/j.enzmictec.2020.109645 | Mazzoli, R., D. G. Olson and L. R. Lynd | Construction of lactic acid overproducing Clostridium thermocellum through enhancement of lactate dehydrogenase expression | Enzyme and Microbial Technology | 141 109645 |
| 2020 | 10.1016/bs.aambs.2020.07.004 | Mazzoli, R. and D. G. Olson | Chapter Three - Clostridium thermocellum: A microbial platform for high-value chemical production from lignocellulose | Advances in Applied Microbiology | 113 111–61 |
| 2020 | 10.1038/s41540-019-0122-3 | Mazharul Islam, M., V. C. Thomas, M. Van Beek, J. S. Ahn, A. A. Alqarzaee, C. Zhou, P. D. Fey, K. W. Bayles and R. Saha | An integrated computational and experimental study to investigate Staphylococcus aureus metabolism | npj Systems Biology and Applications | 6(1) 3 |
| 2020 | 10.3389/fpls.2020.00843 | Mazarei, M., H. L. Baxter, A. Srivastava, G. Li, H. Xie, et al. | Silencing Folylpolyglutamate Synthetase1 (FPGS1) in Switchgrass (Panicum virgatum L.) Improves Lignocellulosic Biofuel Production | Frontiers in Plant Science | 11 843 |
| 2020 | 10.1146/annurev-marine-010419-010714 | Mayali, X. | NanoSIMS: Microscale Quantification of Biogeochemical Activity with Large-Scale Impacts | Annual Review of Marine Science | 12 449–67 |
| 2020 | 10.1021/acs.analchem.9b05718 | May, J. C., R. Knochenmuss, J. C. Fjeldsted and J. A. McLean | Resolution of Isomeric Mixtures in Ion Mobility Using a Combined Demultiplexing and Peak Deconvolution Technique | Analytical Chemistry | 92(14) 9482–92 |
| 2020 | 10.1016/j.fm.2019.103392 | Mataragas, M. | Investigation of genomic characteristics and carbohydrates’ metabolic activity of Lactococcus lactis subsp. lactis during ripening of a Swiss-type cheese | Food Microbiology | 87 103392 |
| 2020 | 10.1038/s41564-019-0644-x | Martiny, J. B. H., K. L. Whiteson, B. J. M. Bohannan, L. A. David, N. A. Hynson, et al. | The emergence of microbiome centres | Nature Microbiology | 5(1) 2–3 |
| 2020 | 10.1038/s41598-020-59494-2 | Martinez-Feria, R. A. and B. Basso | Unstable crop yields reveal opportunities for site-specific adaptations to climate variability | Scientific Reports | 10(1) 2885 |
| 2020 | 10.1111/gcbb.12726 | Martinez-Feria, R. and B. Basso | Predicting soil carbon changes in switchgrass grown on marginal lands under climate change and adaptation strategies | GCB Bioenergy | 12(9) 742-755 |
| 2020 | 10.3389/fevo.2020.00092 | Martinez, N. D. | Allometric Trophic Networks From Individuals to Socio-Ecosystems: Consumer–Resource Theory of the Ecological Elephant in the Room | Frontiers in Ecology and Evolution | 8 |
| 2020 | 10.1016/j.enzmictec.2020.109623 | Marques, W. L., L. A. Anderson, L. Sandoval, M. A. Hicks and K. L. J. Prather | Sequence-based bioprospecting of myo-inositol oxygenase (Miox) reveals new homologues that increase glucaric acid production in Saccharomyces cerevisiae | Enzyme and Microbial Technology | 140 109623 |
| 2020 | 10.1128/mra.00127-20 | Marques, M., N. Borges, S. G. Silva, U. N. d. Rocha, A. Lago-Lestón, T. Keller-Costa and R. Costa | Metagenome-Assembled Genome Sequences of Three Uncultured Planktomarina sp. Strains from the Northeast Atlantic Ocean | Microbiology Resource Announcements | 9(12) |
| 2020 | 10.1016/j.copbio.2019.11.014 | Markel, K., M. S. Belcher and P. M. Shih | Defining and engineering bioenergy plant feedstock ideotypes | Current Opinion in Biotechnology | 62 196–201 |
| 2020 | 10.1101/2020.06.17.157016 | Marchand, J. A., M. D. Pierson Smela, T. H. H. Jordan, K. Narasimhan and G. M. Church | TBDB – A database of structurally annotated T-box riboswitch:tRNA pairs | AIChE Annual Meeting, Conference Proceedings | 2020-November |
| 2020 | 10.1094/pbiomes-08-19-0042-r | Mangeot-Peter, L., T. J. Tschaplinski, N. L. Engle, C. Veneault-Fourrey, F. Martin and A. Deveau | Impacts of Soil Microbiome Variations on Root Colonization by Fungi and Bacteria and on the Metabolome of Populus tremula × alba | Phytobiomes Journal | 4(2) 142–55 |
| 2020 | 10.1146/annurev-bioeng-062117-121105 | Mang, A., S. Bakas, S. Subramanian, C. Davatzikos and G. Biros | Integrated Biophysical Modeling and Image Analysis: Application to Neuro-Oncology | Annual Review of Biomedical Engineering | 22 309–41 |
| 2020 | 10.1038/s41587-020-0681-2 | Mamidi, S., A. Healey, P. Huang, J. Grimwood, J. Jenkins, et al. | A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci | Nature Biotechnology | 38(10) 1203-1210 |
| 2020 | 10.1038/s41587-020-0681-2 | Mamidi, S., A. Healey, P. Huang, J. Grimwood, J. Jenkins, et al. | A genome resource for green millet Setaria viridis enables discovery of agronomically valuable loci | Nature Biotechnology | 38(10) 1203-1210 |
| 2020 | 10.1038/s41396-020-0683-6 | Malik, A. A., T. Swenson, C. Weihe, E. W. Morrison, J. B. H. Martiny, E. L. Brodie, T. R. Northen and S. D. Allison | Drought and plant litter chemistry alter microbial gene expression and metabolite production | ISME Journal | 14(9) 2236-2247 |
| 2020 | 10.1038/s41396-019-0510-0 | Malik, A. A., J. B. H. Martiny, E. L. Brodie, A. C. Martiny, K. K. Treseder and S. D. Allison | Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change | The ISME Journal | 14(1) 1–9 |
| 2020 | 10.1021/acs.biochem.0c00665 | Mak, W. S., X. Wang, R. Arenas, Y. Cui, S. Bertolani, W. Q. Deng, I. Tagkopoulos, D. K. Wilson and J. B. Siegel | Discovery, Design, and Structural Characterization of Alkane-Producing Enzymes across the Ferritin-like Superfamily | Biochemistry | 59(40) 3834-3843 |
| 2020 | 10.3390/plants9010097 | Mahmud, K., S. Makaju, R. Ibrahim and A. Missaoui | Current Progress in Nitrogen Fixing Plants and Microbiome Research | Plants | 9(1) |
| 2020 | 10.1111/1365-2745.13366 | Magnoli, S. M. and J. A. Lau | Novel plant–microbe interactions: Rapid evolution of a legume–rhizobium mutualism in restored prairies | Journal of Ecology | 108(4) 1241–49 |
| 2020 | 10.1002/ecy.3120 | Magnoli, S. M. and J. A. Lau | Evolution in novel environments: Do restored prairie populations experience strong selection? | Ecology | 101(10) e03120 |
| 2020 | 10.1111/eva.12959 | Magnoli, S. M. | Rapid adaptation (or not) in restored plant populations | Evolutionary Applications | 13(8) 2030–37 |
| 2020 | 10.1038/s41597-020-0497-4 | Madin, J. S., D. A. Nielsen, M. Brbic, R. Corkrey, D. Danko, et al. | A synthesis of bacterial and archaeal phenotypic trait data | Scientific Data | 7(1) 170 |
| 2020 | 10.1007/s10482-020-01468-5 | Madhaiyan, M., V. S. Saravanan, J. S. Wirth, T. H. H. Alex, S.-J. Kim, H.-Y. Weon, S.-W. Kwon, W. B. Whitman and L. Ji | Sphingomonas palmae sp. nov. and Sphingomonas gellani sp. nov., endophytically associated phyllosphere bacteria isolated from economically important crop plants | Antonie van Leeuwenhoek | 113(11) 1617-1632 |
| 2020 | 10.1534/genetics.120.303038 | MacQueen, A. H., J. W. White, R. Lee, J. M. Osorno, J. Schmutz, P. N. Miklas, J. Myers, P. E. McClean and T. E. Juenger | Genetic Associations in Four Decades of Multienvironment Trials Reveal Agronomic Trait Evolution in Common Bean | Genetics | 215(1) 267-284 |
| 2020 | 10.1111/nph.16507 | MacKinnon, K. J. M., B. J. Cole, C. Yu, J. H. Coomey, N. T. Hartwick, M. S. Remigereau, T. Duffy, T. P. Michael, S. A. Kay and S. P. Hazen | Changes in ambient temperature are the prevailing cue in determining Brachypodium distachyon diurnal gene regulation | New Phytologist | 227(6) 1709-1724 |
| 2020 | 10.1111/nph.16507 | MacKinnon, K. J.-M., B. J. Cole, C. Yu, J. H. Coomey, N. T. Hartwick, M.-S. Remigereau, T. Duffy, T. P. Michael, S. A. Kay and S. P. Hazen | Changes in ambient temperature are the prevailing cue in determining Brachypodium distachyon diurnal gene regulation | New Phytologist | 227(6) 1709-1724 |
| 2020 | 10.1021/acs.jproteome.0c00253 | MacGilvray, M. E., E. Shishkova, M. Place, E. R. Wagner, J. J. Coon and A. P. Gasch | Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses | Journal of Proteome Research | 19(8) 3405–17 |
| 2020 | 10.1093/bioinformatics/btz592 | Ma, F. and M. Pellegrini | ACTINN: automated identification of cell types in single cell RNA sequencing | Bioinformatics | 36(2) 533–8 |
| 2020 | Lynd, L. R., E. K. Holwerda, D. G. Olson, S. Hon, C. D. Herring, M. Kubis, S. Ghosh, G. Moynihan, C. Foster, C. Maranas, T. B. Jacobson and D. Amador-Noguez | Lignocellulose-to-Ethanol via Consolidated Bioprocessing with Cotreatment | Symposium on Biomaterials, Fuels and Chemicals | ||
| 2020 | 10.1016/j.ymben.2020.07.010 | Luo, Z., N. Liu, Z. Lazar, A. Chatzivasileiou, V. Ward, J. Chen, J. Zhou and G. Stephanopoulos | Enhancing isoprenoid synthesis in Yarrowia lipolytica by expressing the isopentenol utilization pathway and modulating intracellular hydrophobicity | Metabolic Engineering | 61 344–51 |
| 2020 | 10.3390/rs12193209 | Luo, Y., K. Guan, J. Peng, S. Wang and Y. Huang | STAIR 2.0: A Generic and Automatic Algorithm to Fuse Modis, Landsat, and Sentinel-2 to Generate 10 m, Daily, and Cloud-/Gap-Free Surface Reflectance Product | Remote Sensing | 12(19) 3209 |
| 2020 | 10.1002/anie.201914703 | Luo, X., Y. Li, N. K. Gupta, B. Sels, J. Ralph and L. Shuai | Protection Strategies Enable Selective Conversion of Biomass | Angewandte Chemie International Edition | 59(29) 11704–16 |
| 2020 | 10.1105/tpc.20.00028 | Lunin, V. V., H.-T. Wang, V. S. Bharadwaj, M. Alahuhta, M. J. Peña, J.-Y. Yang, S. A. Archer-Hartmann, P. Azadi, M. E. Himmel, K. W. Moremen, W. S. York, Y. J. Bomble and B. R. Urbanowicz | Molecular Mechanism of Polysaccharide Acetylation by the Arabidopsis Xylan O-acetyltransferase XOAT1 | The Plant Cell | 32(7) 2367–82 |
| 2020 | 10.3389/fpls.2020.585774 | Lund, C. H., A. Stenbæk, M. A. Atmodjo, R. E. Rasmussen, I. E. Moller, S. M. Erstad, A. K. Biswal, D. Mohnen, J. Mravec and Y. Sakuragi | Pectin Synthesis and Pollen Tube Growth in Arabidopsis Involves Three GAUT1 Golgi-Anchoring Proteins: GAUT5, GAUT6, and GAUT7 | Frontiers in Plant Science | 11 |
| 2020 | 10.1371/journal.pcbi.1007673 | Lugagne, J. B., H. Lin and M. J. Dunlop | DeLTA: Automated cell segmentation, tracking, and lineage reconstruction using deep learning | PLoS Computational Biology | 16(4) e1007673 |
| 2020 | 10.1021/acs.analchem.0c00985 | Lu, W., X. Xing, L. Wang, L. Chen, S. Zhang, M. R. McReynolds and J. D. Rabinowitz | Improved Annotation of Untargeted Metabolomics Data through Buffer Modifications That Shift Adduct Mass and Intensity | Analytical Chemistry | 92(17) 11573–81 |
| 2020 | 10.34133/2020/9078303 | Lu, H., G. Yuan, S. H. Strauss, T. J. Tschaplinski, G. A. Tuskan, J.-G. Chen and X. Yang | Reconfiguring Plant Metabolism for Biodegradable Plastic Production | BioDesign Research | 2020 |
| 2020 | 10.1038/s41598-020-63372-2 | Lu, H., M. I. Gordon, V. Amarasinghe and S. H. Strauss | Extensive transcriptome changes during seasonal leaf senescence in field-grown black cottonwood (Populus trichocarpa Nisqually-1) | Scientific Reports | 10(1) 6581 |
| 2020 | 10.3390/microorganisms8121888 | Low, K. E., X. Xing, P. E. Moote, G. D. Inglis, S. Venketachalam, M. G. Hahn, M. L. King, C. Y. Tetard-Jones, D. R. Jones, W. G. T. Willats, B. A. Slominski and D. W. Abbott | Combinatorial Glycomic Analyses to Direct CAZyme Discovery for the Tailored Degradation of Canola Meal Non-Starch Dietary Polysaccharides | Microorganisms | 8(12) |
| 2020 | 10.1016/B978-0-12-409547-2.14834-6 | Louie, K. B., S. M. Kosina, Y. Hu, H. Otani, M. de Raad, A. N. Kuftin, N. J. Mouncey, B. P. Bowen and T. R. Northen | Mass Spectrometry for Natural Product Discovery | Comprehensive Natural Products III | 263–306 |
| 2020 | Lo, J., A. M. Guss, J. P. V. Dijken, A. J. S. IV, D. G. Olson, C. D. Herring, D. A. Argyros and N. Caiazza | Engineering an increase in ethanol production by altering cofactor specificity | |||
| 2020 | 10.1021/acsomega.9b04498 | Liyanapathiranage, A., M. J. Peña, S. Sharma and S. Minko | Nanocellulose-Based Sustainable Dyeing of Cotton Textiles with Minimized Water Pollution | ACS Omega | 5(16) 9196–203 |
| 2020 | 10.1128/mSystems.00651-19 | Liu, Y. F., J. Chen, L. S. Zaramela, L. Y. Wang, S. M. Mbadinga, Z. W. Hou, X. L. Wu, J. D. Gu, K. Zengler and B. Z. Mu | Genomic and Transcriptomic Evidence Supports Methane Metabolism in Archaeoglobi | mSystems | 5(2) |
| 2020 | 10.1016/j.ymben.2020.06.005 | Liu, Y., I. N. Ghosh, J. Martien, Y. Zhang, D. Amador-Noguez and R. Landick | Regulated redirection of central carbon flux enhances anaerobic production of bioproducts in Zymomonas mobilis | Metabolic Engineering | 61 261–74 |
| 2020 | 10.1021/acs.analchem.0c02124 | Liu, X., R. Zhu, T. Chen, P. Song, F. Lu, F. Xu, J. Ralph and X. Zhang | Mild Acetylation and Solubilization of Ground Whole Plant Cell Walls in EmimAc: A Method for Solution-State NMR in DMSO-d6 | Analytical Chemistry | 92(19) 13101–9 |
| 2020 | 10.1073/pnas.2004091117 | Liu, W. Y., H. H. Lin, C. P. Yu, C. K. Chang, H. J. Chen, J. J. Lin, M. Y. J. Lu, S. L. Tu, S. H. Shiu, S. H. Wu, M. S. B. Ku and W. H. Li | Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth | Proceedings of the National Academy of Sciences of the United States of America | 117(35) 21747-21756 |
| 2020 | 10.1073/pnas.2012245117 | Liu, W. Y., H. H. Lin, C. P. Yu, C. K. Chang, H. J. Chen, J. J. Lin, M. J. Lu, S. L. Tu, S. H. Shiu, S. H. Wu, M. S. B. Ku and W. H. Li | Maize ANT1 modulates vascular development, chloroplast development, photosynthesis, and plant growth | Proceedings of the National Academy of Sciences of the United States of America | 117(35) 21747–56 |
| 2020 | 10.1002/bit.27541 | Liu, W. Q., C. Wu, M. C. Jewett and J. Li | Cell-free protein synthesis enables one-pot cascade biotransformation in an aqueous-organic biphasic system | Biotechnology and Bioengineering | 117(12) 4001–8 |
| 2020 | 10.1007/s00299-019-02488-w | Liu, W., M. R. Rudis, M. H. Cheplick, R. J. Millwood, J. P. Yang, C. A. Ondzighi-Assoume, G. A. Montgomery, K. P. Burris, M. Mazarei, J. D. Chesnut and C. N. Stewart, Jr. | Lipofection-mediated genome editing using DNA-free delivery of the Cas9/gRNA ribonucleoprotein into plant cells | Plant Cell Reports | 39(2) 245–57 |
| 2020 | 10.1146/annurev-bioeng-060418-052203 | Liu, S., H. Huh, S. H. Lee and F. Huang | Three-Dimensional Single-Molecule Localization Microscopy in Whole-Cell and Tissue Specimens | Annual Review of Biomedical Engineering | 22 155–84 |
| 2020 | 10.1038/s41467-020-17721-4 | Liu, R., L. Liang, E. F. Freed, A. Choudhury, C. A. Eckert and R. T. Gill | Engineering regulatory networks for complex phenotypes in E. coli | Nature Communications | 11(1) 4050 |
| 2020 | 10.1016/j.copbio.2019.07.003 | Liu, N., S. Santala and G. Stephanopoulos | Mixed carbon substrates: a necessary nuisance or a missed opportunity? | Current Opinion in Biotechnology | 62 15–21 |
| 2020 | 10.1371/journal.pone.0241867 | Liu, H., D. S. Robinson, Z.-Y. Wu, R. Kuo, Y. Yoshikuni, I. K. Blaby and J.-F. Cheng | Bacterial genome editing by coupling Cre-lox and CRISPR-Cas9 systems | PLOS ONE | 15(11) e0241867 |
| 2020 | 10.1038/s41467-019-13986-6 | Liu, F., J. Mao, W. Kong, Q. Hua, Y. Feng, R. Bashir and T. Lu | Interaction variability shapes succession of synthetic microbial ecosystems | Nature Communications | 11(1) 309 |
| 2020 | 10.1002/lno.11306 | Linz, A. M., F. O. Aylward, S. Bertilsson and K. D. McMahon | Time-series metatranscriptomes reveal conserved patterns between phototrophic and heterotrophic microbes in diverse freshwater systems | Limnology and Oceanography | 65(S1) S101-S112 |
| 2020 | 10.1038/s41598-019-57319-5 | Lin, P. C., F. Zhang and H. B. Pakrasi | Enhanced production of sucrose in the fast-growing cyanobacterium Synechococcus elongatus UTEX 2973 | Scientific Reports | 10(1) |
| 2020 | 10.1534/g3.120.401122 | Lin, F., E. Z. Lazarus and S. Y. Rhee | QTG-Finder2: A Generalized Machine-Learning Algorithm for Prioritizing QTL Causal Genes in Plants | G3 Genes|Genomes|Genetics | 10(7) 2411–21 |
| 2020 | 10.1186/s13068-020-01707-x | Lin, C. Y. and A. Eudes | Strategies for the production of biochemicals in bioenergy crops | Biotechnology for Biofuels | 13 71 |
| 2020 | 10.1111/tpj.14783 | Lim, S. D., J. A. Mayer, W. C. Yim and J. C. Cushman | Plant tissue succulence engineering improves water-use efficiency, water-deficit stress attenuation and salinity tolerance in Arabidopsis | Plant Journal | 103(3) 1049-1072 |
| 2020 | 10.1039/D0GC01663B | Lim, H. G., B. Fong, G. Alarcon, H. D. Magurudeniya, T. Eng, R. Szubin, C. A. Olson, B. O. Palsson, J. M. Gladden, B. A. Simmons, A. Mukhopadhyay, S. W. Singer and A. M. Feist | Generation of ionic liquid tolerant Pseudomonas putida KT2440 strains via adaptive laboratory evolution | Green Chemistry | 22(17) 5677–90 |
| 2020 | 10.1093/femsyr/foaa008 | Libkind, D., D. Peris, F. A. Cubillos, J. L. Steenwyk, D. A. Opulente, Q. K. Langdon, A. Rokas and C. T. Hittinger | Into the wild: new yeast genomes from natural environments and new tools for their analysis | FEMS Yeast Research | 20(2) |
| 2020 | 10.1093/femsyr/foaa042 | Libkind, D., N. Čadež, D. A. Opulente, Q. K. Langdon, C. A. Rosa, J. P. Sampaio, P. Gonçalves, C. T. Hittinger and M. A. Lachance | Towards yeast taxogenomics: lessons from novel species descriptions based on complete genome sequences | FEMS Yeast Research | 20(6) foaa042 |
| 2020 | 10.3389/fbioe.2020.00710 | Liang, L., R. Liu, E. F. Freed and C. A. Eckert | Synthetic Biology and Metabolic Engineering Employing Escherichia coli for C2–C6 Bioalcohol Production | Frontiers in Bioengineering and Biotechnology | 8 |
| 2020 | 10.1016/j.ymben.2019.09.007 | Liang, L., R. Liu, K. E. O. Foster, AlakshChoudhury, S. Cook, J. C. Cameron, W. V. Srubar and R. T. Gill | Genome engineering of E. coli for improved styrene production | Metabolic Engineering | 57 74-84 |
| 2020 | 10.3389/fmicb.2020.568588 | Liang, D., Y. Ouyang, L. Tiemann and G. P. Robertson | Niche Differentiation of Bacterial Versus Archaeal Soil Nitrifiers Induced by Ammonium Inhibition Along a Management Gradient | Frontiers in Microbiology | 11 568588 |
| 2020 | 10.1021/jacs.0c07657 | Li, Y. L., C. T. Zee, J. B. Lin, V. M. Basile, M. Muni, M. D. Flores, J. Munárriz, R. B. Kaner, A. N. Alexandrova, K. N. Houk, S. H. Tolbert and Y. Rubin | Fjord-Edge Graphene Nanoribbons with Site-Specific Nitrogen Substitution | Journal of the American Chemical Society | 142(42) 18093-18102 |
| 2020 | 10.1002/cssc.202000753 | Li, Y., S. D. Karlen, B. Demir, H. Kim, J. Luterbacher, J. A. Dumesic, S. S. Stahl and J. Ralph | Mechanistic Study of Diaryl Ether Bond Cleavage during Palladium-Catalyzed Lignin Hydrogenolysis | ChemSusChem | 13(17) 4487–94 |
| 2020 | 10.1021/acssuschemeng.9b05696 | Li, X., M. Li, Y. Pu, A. J. Ragauskas and Y. Zheng | Black Liquor Valorization by Using Marine Protist Thraustochytrium striatum and the Preliminary Metabolic Mechanism Study | ACS Sustainable Chemistry & Engineering | 8(4) 1786–96 |
| 2020 | 10.1021/acssuschemeng.0c03423 | Li, W. Q., N. Wanninayake, X. Gao, M. Li, Y. Q. Pu, D. Y. Kim, A. J. Ragauskas and J. Shi | Mechanistic Insight into Lignin Slow Pyrolysis by Linking Pyrolysis Chemistry and Carbon Material Properties | ACS Sustainable Chemistry & Engineering | 8(42) 15843–54 |
| 2020 | 10.1016/j.algal.2019.101755 | Li, T. T., L. Q. Jiang, Y. F. Hu, J. T. Paul, C. Zuniga, K. Zengler and M. J. Betenbaugh | Creating a synthetic lichen: Mutualistic co-culture of fungi and extracellular polysaccharide-secreting cyanobacterium Nostoc PCC 7413 | Algal Research | 45 |
| 2020 | 10.1088/2040-8986/abbeca | Li, P.-N., S. Wakatsuki, P. A. Pianetta and Y. Liu | Hybrid real- and reciprocal-space full-field imaging with coherent illumination | Journal of Optics | 22(11) |
| 2020 | 10.7717/peerj.8966 | Li, K., Y. Lu, L. Deng, L. Wang, L. Shi and Z. Wang | Deconvolute individual genomes from metagenome sequences through short read clustering | PeerJ | 8 e8966 |
| 2020 | 10.1105/tpc.19.00300 | Li, H. M., D. Schnell and S. M. Theg | Protein Import Motors in Chloroplasts: On the Role of Chaperones | The Plant Cell | 32(3) 536–42 |
| 2020 | 10.1038/s41467-020-19566-3 | Li, H., C. Y. Sun, Y. Fang, C. M. Carlson, H. Xu, A. Ješovnik, J. Sosa-Calvo, R. Zarnowski, H. A. Bechtel, J. H. Fournelle, D. R. Andes, T. R. Schultz, P. U. P. A. Gilbert and C. R. Currie | Biomineral armor in leaf-cutter ants | Nature Communications | 11(1) |
| 2020 | 10.3389/fpls.2020.574073 | Li, F., C. Piasecki, R. J. Millwood, B. Wolfe, M. Mazarei and C. N. Stewart | High-Throughput Switchgrass Phenotyping and Biomass Modeling by UAV | Frontiers in Plant Science | 11 |
| 2020 | 10.1128/mBio.01325-20 | Leu, A. O., S. J. McIlroy, J. Ye, D. H. Parks, V. J. Orphan and G. W. Tyson | Lateral Gene Transfer Drives Metabolic Flexibility in the Anaerobic Methane-Oxidizing Archaeal Family Methanoperedenaceae | mBio | 11(3) |
| 2020 | 10.1038/s41396-020-0590-x | Leu, A. O., C. Cai, S. J. McIlroy, G. Southam, V. J. Orphan, Z. Yuan, S. Hu and G. W. Tyson | Anaerobic methane oxidation coupled to manganese reduction by members of the Methanoperedenaceae | The ISME Journal | 14(4) 1030–41 |
| 2020 | 10.1016/j.cub.2020.06.011 | Leopold, D. R. and P. E. Busby | Host Genotype and Colonist Arrival Order Jointly Govern Plant Microbiome Composition and Function | Current Biology | 30(16) 3260–6.e5 |
| 2020 | 10.1128/mBio.00957-20 | Lemmer, K. C., F. Alberge, K. S. Myers, A. C. Dohnalkova, R. E. Schaub, J. D. Lenz, S. Imam, J. P. Dillard, D. R. Noguera and T. J. Donohue | The NtrYX Two-Component System Regulates the Bacterial Cell Envelope | mBio | 11(3) |
| 2020 | 10.1074/jbc.RA120.013697 | Lemke, R. A. S., S. M. Olson, K. Morse, S. D. Karlen, A. Higbee, E. T. Beebe, J. Ralph, J. J. Coon, B. G. Fox and T. J. Donohue | A bacterial biosynthetic pathway for methylated furan fatty acids | Journal of Biological Chemistry | 295(29) 9786–801 |
| 2020 | 10.1016/j.jgar.2020.09.012 | Leite, E. L., W. J. Araújo, T. R. Vieira, K. S. Zenato, P. C. Vasconcelos, S. Cibulski, P. E. N. Givisiez, M. R. I. Cardoso and C. J. B. Oliveira | First reported genome of an mcr-9-mediated colistin-resistant Salmonella Typhimurium isolate from Brazilian livestock | Journal of Global Antimicrobial Resistance | 23 394–97 |
| 2020 | 10.1038/s41561-020-0612-3 | Lehmann, J., C. M. Hansel, C. Kaiser, M. Kleber, K. Maher, S. Manzoni, N. Nunan, M. Reichstein, J. P. Schimel, M. S. Torn, W. R. Wieder and I. Kögel-Knabner | Persistence of soil organic carbon caused by functional complexity | Nature Geoscience | 13(8) 529-534 |
| 2020 | 10.1007/s00792-019-01116-5 | Lee, L. L., J. R. Crosby, G. M. Rubinstein, T. Laemthong, R. G. Bing, C. T. Straub, M. W. W. Adams and R. M. Kelly | The biology and biotechnology of the genus Caldicellulosiruptor: recent developments in ‘Caldi World’ | Extremophiles | 24(1) |
| 2020 | 10.1016/j.csbj.2020.05.023 | Lee, J. Y., N. C. Sadler, R. G. Egbert, C. R. Anderton, K. S. Hofmockel, J. K. Jansson and H. S. Song | Deep learning predicts microbial interactions from self-organized spatiotemporal patterns | Computational and Structural Biotechnology Journal | 18 1259–69 |
| 2020 | 10.1016/j.copbio.2019.12.017 | Lee, J. W. and C. T. Trinh | Towards renewable flavors, fragrances, and beyond | Current Opinion in Biotechnology | 61 168–80 |
| 2020 | 10.1016/j.ymben.2020.10.003 | Lee, J. W., S. Kwak, J. J. Liu, S. Yu, E. J. Yun, D. H. Kim, C. Liu, K. H. Kim and Y. S. Jin | Enhanced 2'-Fucosyllactose production by engineered Saccharomyces cerevisiae using xylose as a co-substrate | Metabolic Engineering | 62 322–9 |
| 2020 | 10.3389/fmicb.2019.03049 | Lee, J.-Y., S. Haruta, S. Kato, H. C. Bernstein, S. R. Lindemann, D.-Y. Lee, J. K. Fredrickson and H.-S. Song | Prediction of Neighbor-Dependent Microbial Interactions From Limited Population Data | Frontiers in Microbiology | 10 |
| 2020 | 10.1016/j.ifacol.2020.12.542 | Lee, J., J. Wang, J. Flores-Cerrillo and Q. P. He | Improving featured-based soft sensing through feature selection | IFAC-PapersOnLine | 53 11338-11343 |
| 2020 | 10.1021/acs.iecr.9b06049 | Lee, J., J. Flores-Cerrillo, J. Wang and Q. P. He | Consistency-Enhanced Evolution for Variable Selection Can Identify Key Chemical Information from Spectroscopic Data | Industrial & Engineering Chemistry Research | 59(8) 3446–57 |
| 2020 | 10.1093/bioinformatics/btaa917 | Lawrence, T. J., D. L. Carper, M. K. Spangler, A. A. Carrell, T. A. Rush, S. J. Minter, D. J. Weston and J. L. Labbé | amPEPpy 1.0: a portable and accurate antimicrobial peptide prediction tool | Bioinformatics | 37(14) 2058–60 |
| 2020 | 10.5194/essd-12-61-2020 | Lawrence, C. R., J. Beem-Miller, A. M. Hoyt, G. Monroe, C. A. Sierra, et al. | An open-source database for the synthesis of soil radiocarbon data: International Soil Radiocarbon Database (ISRaD) version 1.0 | Earth System Science Data | 12(1) 61–76 |
| 2020 | 10.7717/peerj.8822 | Laviad-Shitrit, S., I. Izhaki, W. B. Whitman, N. Shapiro, T. Woyke, N. C. Kyrpides and M. Halpern | Draft genome of Rosenbergiella nectarea strain 8N4T provides insights into the potential role of this species in its plant host | PeerJ | 8 e8822 |
| 2020 | 10.1038/s41467-020-18045-z | Lark, T. J., S. A. Spawn, M. Bougie and H. K. Gibbs | Cropland expansion in the United States produces marginal yields at high costs to wildlife | Nature Communications | 11(1) 4295 |
| 2020 | 10.1016/j.landusepol.2020.104727 | Lark, T. J. | Protecting our prairies: Research and policy actions for conserving America's grasslands | Land Use Policy | 97 |
| 2020 | 10.1364/AO.384674 | Larimer, C. J., E. H. Denis, J. D. Suter and J. J. Moran | Optical coherence tomography imaging of plant root growth in soil | Applied Optics | 59(8) 2474–81 |
| 2020 | 10.15389/agrobiology.2020.4.816eng | Laptev, G. Y. | Genomic and Phenotypical Potential of Antimicrobial Activity of a Bacillus Strain Bacillus megaterium В-4801 | Sel'skokhozyaistvennaya Biologiya [Agricultural Biology] | 55(4) 816–29 |
| 2020 | 10.1371/journal.pgen.1008680 | Langdon, Q. K., D. Peris, J. I. Eizaguirre, D. A. Opulente, K. V. Buh, K. Sylvester, M. Jarzyna, M. E. Rodríguez, C. A. Lopes, D. Libkind and C. Todd Hittinger | Postglacial migration shaped the genomic diversity and global distribution of the wild ancestor of lager-brewing hybrids | PLoS Genetics | 16(4) |
| 2020 | 10.1016/j.mec.2020.e00145 | Lang, X., P. B. Besada-Lombana, M. Li, N. A. Da Silva and I. Wheeldon | Developing a broad-range promoter set for metabolic engineering in the thermotolerant yeast Kluyveromyces marxianus | Metabolic Engineering Communications | 11 e00145 |
| 2020 | 10.1002/bit.27202 | Lane, S., Y. Zhang, E. J. Yun, L. Ziolkowski, G. Zhang, Y. S. Jin and J. L. Avalos | Xylose assimilation enhances the production of isobutanol in engineered Saccharomyces cerevisiae | Biotechnology and Bioengineering | 117(2) 372–81 |
| 2020 | 10.1021/acs.energyfuels.0c03131 | Landucci, L., R. A. Smith, S. Liu, S. D. Karlen and J. Ralph | Eudicot Nutshells: Cell-Wall Composition and Biofuel Feedstock Potential | Energy & Fuels | 34(12) 16274–83 |
| 2020 | 10.3390/life10110299 | Lacerda, M. P., E. J. Oh and C. Eckert | The Model System Saccharomyces cerevisiae Versus Emerging Non-Model Yeasts for the Production of Biofuels | Life | 10(11) |
| 2020 | 10.5194/gmd-13-4413-2020 | Kyker-Snowman, E., W. R. Wieder, S. D. Frey and A. S. Grandy | Stoichiometrically coupled carbon and nitrogen cycling in the MIcrobial-MIneral Carbon Stabilization model version 1.0 (MIMICS-CN v1.0) | Geoscientific Model Development | 13(9) 4413–34 |
| 2020 | 10.1002/biot.201900173 | Kwak, S., E. J. Yun, S. Lane, E. J. Oh, K. H. Kim and Y. S. Jin | Redirection of the Glycolytic Flux Enhances Isoprenoid Production in Saccharomyces cerevisiae | Biotechnology Journal | 15(2) e1900173 |
| 2020 | 10.3390/ijms21010283 | Kushkevych, I., J. Cejnar, M. Vítězová, T. Vítěz, D. Dordević and Y. J. Bomble | Occurrence of Thermophilic Microorganisms in Different Full Scale Biogas Plants | International Journal of Molecular Sciences | 21(1) 283 |
| 2020 | 10.1371/journal.pone.0226235 | Kurumbang, N. P., J. M. Vera, A. S. Hebert, J. J. Coon and R. Landick | Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose | PLoS One | 15(8) e0226235 |
| 2020 | 10.1021/acschembio.0c00055 | Kuru, E., R. M. Määttälä, K. Noguera, D. A. Stork, K. Narasimhan, J. Rittichier, D. Wiegand and G. M. Church | Release factor inhibiting antimicrobial peptides improve nonstandard amino acid incorporation in wild-type bacterial cells | ACS Chemical Biology | 15(7) 1852-1861 |
| 2020 | 10.3390/microorganisms8071002 | Kulyashov, M., S. E. Peltek and I. R. Akberdin | A Genome-Scale Metabolic Model of 2,3-Butanediol Production by Thermophilic Bacteria Geobacillus icigianus | Microorganisms | 8(7) |
| 2020 | 10.1016/j.ymben.2020.06.004 | Krüger, A., A. P. Mueller, G. A. Rybnicky, N. L. Engle, Z. K. Yang, T. J. Tschaplinski, S. D. Simpson, M. Köpke and M. C. Jewett | Development of a clostridia-based cell-free system for prototyping genetic parts and metabolic pathways | Metabolic Engineering | 62 95-105 |
| 2020 | 10.1038/s41396-020-00804-x | Kroeger, M. E., L. K. Meredith, K. M. Meyer, K. D. Webster, P. B. de Camargo, L. F. de Souza, S. M. Tsai, J. van Haren, S. Saleska, B. J. M. Bohannan, J. L. M. Rodrigues, E. Berenguer, J. Barlow and K. Nüsslein | Rainforest-to-pasture conversion stimulates soil methanogenesis across the Brazilian Amazon | The ISME Journal | 15(3) 658-672 |
| 2020 | 10.1021/acs.jpcc.0c01298 | Krayev, A., S. Krylyuk, R. Ilic, A. R. Hight Walker, A. Bhattarai, A. G. Joly, M. Velický, A. V. Davydov and P. Z. El-Khoury | Comparable Enhancement of TERS Signals from WSe2 on Chromium and Gold | The Journal of Physical Chemistry C | 124(16) 8971-8977 |
| 2020 | 10.1111/ejss.13001 | Kravchenko, A., A. Guber, A. Gunina, M. Dippold and Y. Kuzyakov | Pore‐scale view of microbial turnover: Combining 14 C imaging, μCT and zymography after adding soluble carbon to soil pores of specific sizes | European Journal of Soil Science | 72(2) 593–607 |
| 2020 | 10.1134/S002626172003008X | Koziaeva, V. V., L. M. Alekseeva, M. M. Uzun, P. Leão, M. V. Sukhacheva, E. O. Patutina, T. V. Kolganova and D. S. Grouzdev | Biodiversity of Magnetotactic Bacteria in the Freshwater Lake Beloe Bordukovskoe, Russia | Microbiology | 89(3) 348-358 |
| 2020 | 10.3389/fbioe.2020.00034 | Koutrouli, M., E. Karatzas, D. Paez-Espino and G. A. Pavlopoulos | A Guide to Conquer the Biological Network Era Using Graph Theory | Frontiers in Bioengineering and Biotechnology | 8 |
| 2020 | 10.1039/D0GC02546A | Kothari, N., S. Bhagia, Y. Pu, C. G. Yoo, M. Li, S. Venketachalam, S. Pattathil, R. Kumar, C. M. Cai, M. G. Hahn, A. J. Ragauskas and C. E. Wyman | The effect of switchgrass plant cell wall properties on its deconstruction by thermochemical pretreatments coupled with fungal enzymatic hydrolysis or Clostridium thermocellum consolidated bioprocessing | Green Chemistry | 22(22) 7924–45 |
| 2020 | 10.1128/mra.00220-20 | Köstlbacher, S., S. Michels, A. Siegl, F. Schulz, D. Domman, S. Jongwutiwes, C. Putaporntip, M. Horn and A. Collingro | Draft Genome Sequences of Chlamydiales Bacterium STE3 and Neochlamydia sp. Strain AcF84, Endosymbionts of Acanthamoeba spp | Microbiology Resource Announcements | 9(20) |
| 2020 | 10.1016/j.copbio.2020.02.017 | Köpke, M. and S. D. Simpson | Pollution to products: recycling of ‘above ground’ carbon by gas fermentation | Current Opinion in Biotechnology | 65 180-189 |
| 2020 | 10.1104/pp.20.00547 | Kong, Q., S. K. Singh, J. J. Mantyla, S. Pattanaik, L. Guo, L. Yuan, C. Benning and W. Ma | Teosinte branched1/cycloidea/ proliferating cell factor4 interacts with wrinkled1 to mediate seed oil biosynthesis | Plant Physiology | 184(2) 658-665 |
| 2020 | 10.1016/j.compchemeng.2019.106650 | Kong, L. and C. T. Maravelias | Expanding the scope of distillation network synthesis using superstructure-based methods | Computers and Chemical Engineering | 133 |
| 2020 | 10.1074/jbc.RA119.011239 | Koendjbiharie, J. G., S. Hon, M. Pabst, R. Hooftman, D. M. Stevenson, J. Cui, D. Amador-Noguez, L. R. Lynd, D. G. Olson and R. van Kranenburg | The pentose phosphate pathway of cellulolytic clostridia relies on 6-phosphofructokinase instead of transaldolase | Journal of Biological Chemistry | 295(7) 1867–78 |
| 2020 | 10.1111/tpj.14940 | Ko, D. K. and F. Brandizzi | Network-based approaches for understanding gene regulation and function in plants | The Plant Journal | 104(2) 302–17 |
| 2020 | 10.1371/journal.pbio.3001026 | Kloosterman, A. M., P. Cimermancic, S. S. Elsayed, C. Du, M. Hadjithomas, M. S. Donia, M. A. Fischbach, G. P. van Wezel and M. H. Medema | Expansion of RiPP biosynthetic space through integration of pan-genomics and machine learning uncovers a novel class of lanthipeptides | PLOS Biology | 18(12) e3001026 |
| 2020 | 10.1186/s12864-020-6623-z | Klonowska, A., L. Moulin, J. K. Ardley, F. Braun, M. M. Gollagher, et al. | Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil | BMC Genomics | 21(1) 214 |
| 2020 | 10.1002/cssc.202001238 | Klinger, G. E., Y. Zhou, J. A. Foote, A. M. Wester, Y. Cui, M. Alherech, S. S. Stahl, J. E. Jackson and E. L. Hegg | Nucleophilic Thiols Reductively Cleave Ether Linkages in Lignin Model Polymers and Lignin | ChemSusChem | 13(17) 4394–9 |
| 2020 | 10.1186/s40168-020-00935-5 | Kleiner, M., B. Bushnell, K. E. Sanderson, L. V. Hooper and B. A. Duerkop | Transductomics: sequencing-based detection and analysis of transduced DNA in pure cultures and microbial communities | Microbiome | 8(1) 158 |
| 2020 | 10.1038/s41467-019-14051-y | Kjærbølling, I., T. Vesth, J. C. Frisvad, J. L. Nybo, S. Theobald, et al. | A comparative genomics study of 23 Aspergillus species from section Flavi | Nature Communications | 11(1) 1106 |
| 2020 | 10.3390/agronomy10121860 | Kiniry, J. R., C. E. Arthur, K. M. Banick, F. B. Fritschi, Y. Wu and C. V. Hawkes | Effects of Plant-Soil Feedback on Switchgrass Productivity Related to Microbial Origin | Agronomy | 10(12) 1860 |
| 2020 | 10.1111/tpj.14897 | Kim, S. Y., D. J. Stessman, D. A. Wright, M. H. Spalding, S. C. Huber and D. R. Ort | Arabidopsis plants expressing only the redox-regulated Rca-α isoform have constrained photosynthesis and plant growth | The Plant Journal | 103(6) 2250–62 |
| 2020 | 10.1111/gcbb.12768 | Kim, S. Y., R. A. Slattery and D. R. Ort | A role for differential Rubisco activase isoform expression in C4 bioenergy grasses at high temperature | GCB Bioenergy | 13(1) 211–23 |
| 2020 | 10.1073/pnas.2007245117 | Kim, S. J., B. Chandrasekar, A. C. Rea, L. Danhof, S. Zemelis-Durfee, N. Thrower, Z. S. Shepard, M. Pauly, F. Brandizzi and K. Keegstra | The synthesis of xyloglucan, an abundant plant cell wall polysaccharide, requires CSLC function | Proceedings of the National Academy of Sciences of the United States of America | 117(33) 20316–24 |
| 2020 | 10.1021/acs.est.0c01097 | Kim, S., X. Zhang, A. D. Reddy, B. E. Dale, K. D. Thelen, C. D. Jones, R. C. Izaurralde, T. Runge and C. Maravelias | Carbon-Negative Biofuel Production | Environmental Science & Technology | 54(17) 10797–807 |
| 2020 | 10.1002/bit.27228 | Kim, M.-H. and M. Kino-oka | Designing a blueprint for next-generation stem cell bioprocessing development | Biotechnology and Bioengineering | 117(3) 832–43 |
| 2020 | 10.1016/j.geoderma.2020.114506 | Kim, K., A. Guber, M. Rivers and A. Kravchenko | Contribution of decomposing plant roots to N2O emissions by water absorption | Geoderma | 375 |
| 2020 | 10.1021/acssuschemeng.9b06389 | Kim, H., Q. Z. Li, S. D. Karlen, R. A. Smith, R. Shi, J. Liu, C. M. Yang, S. Tunlaya-Anukit, J. P. Wang, H. M. Chang, R. R. Sederoff, J. Ralph and V. L. Chiang | Monolignol Benzoates Incorporate into the Lignin of Transgenic Populus trichocarpa Depleted in C3H and C4H | ACS Sustainable Chemistry & Engineering | 8(9) 3644–54 |
| 2020 | 10.1007/s12155-020-10149-0 | Khanna, M., W. W. Wang and M. C. Wang | Assessing the Additional Carbon Savings with Biofuel | BioEnergy Research | 13(4) 1082–94 |
| 2020 | 10.1002/was.000400041 | Khalid, M., M. J. Doktycz and S. T. Retterer | Nano-enabled chemical imaging | Wiley Imaging and Microscopy Journal | |
| 2020 | 10.7554/eLife.52786 | Khakhar, A., C. G. Starker, J. C. Chamness, N. Lee, S. Stokke, C. Wang, R. Swanson, F. Rizvi, T. Imaizumi and D. F. Voytas | Building customizable auto-luminescent luciferase-based reporters in plants | eLife | 9 |
| 2020 | 10.3389/fmicb.2020.570770 | Khadempour, L., H. Fan, K. Keefover-Ring, C. Carlos-Shanley, N. S. Nagamoto, M. A. Dam, M. T. Pupo and C. R. Currie | Metagenomics Reveals Diet-Specific Specialization of Bacterial Communities in Fungus Gardens of Grass- and Dicot-Cutter Ants | Frontiers in Microbiology | 11 |
| 2020 | 10.1080/07060661.2019.1626910 | Kerio, S., H. A. Daniels, M. Gomez-Gallego, J. F. Tabima, R. R. Lenz, K. L. Sondreli, N. J. Grunwald, N. Williams, R. Mcdougal and J. M. LeBoldus | From genomes to forest management - tackling invasive Phytophthora species in the era of genomics | Canadian Journal of Plant Pathology | 42(1) 1–29 |
| 2020 | 10.1021/acs.est.0c01676 | Kent, J., M. D. Hartman, D. K. Lee and T. Hudiburg | Simulated Biomass Sorghum GHG Reduction Potential is Similar to Maize | Environmental Science & Technology | 54(19) 12456–66 |
| 2020 | 10.1128/mBio.00569-20 | Kempher, M. L., X. Tao, R. Song, B. Wu, D. A. Stahl, J. D. Wall, A. P. Arkin, A. Zhou and J. Zhou | Effects of Genetic and Physiological Divergence on the Evolution of a Sulfate-Reducing Bacterium under Conditions of Elevated Temperature | mBio | 11(4) |
| 2020 | 10.1002/pld3.235 | Kebrom, T. H., B. A. McKinley and J. E. Mullet | Shade signals alter the expression of circadian clock genes in newly-formed bioenergy sorghum internodes | Plant Direct | 4(6) |
| 2020 | 10.1016/j.copbio.2019.09.005 | Ke, J. and Y. Yoshikuni | Multi-chassis engineering for heterologous production of microbial natural products | Current Opinion in Biotechnology | 62 88-97 |
| 2020 | 10.1016/j.mec.2019.e00114 | Kay, J. E. and M. C. Jewett | A cell-free system for production of 2,3-butanediol is robust to growth-toxic compounds | Metabolic Engineering Communications | 10 e00114 |
| 2020 | 10.1111/gcbb.12777 | Kasanke, C. P., Q. Zhao, S. Bell, A. M. Thompson and K. S. Hofmockel | Can switchgrass increase carbon accrual in marginal soils? The importance of site selection | GCB Bioenergy | 13(2) 320–35 |
| 2020 | 10.1111/tpj.14771 | Karunanithi, P. S., D. I. Berrios, S. Wang, J. Davis, T. Shen, O. Fiehn, J. N. Maloof and P. Zerbe | The foxtail millet (Setaria italica) terpene synthase gene family | The Plant Journal | 103(2) 781-800 |
| 2020 | 10.1002/cssc.201903345 | Karlen, S. D., P. Fasahati, M. Mazaheri, J. Serate, R. A. Smith, et al. | Assessing the Viability of Recovery of Hydroxycinnamic Acids from Lignocellulosic Biorefinery Alkaline Pretreatment Waste Streams | ChemSusChem | 13(8) 2012–24 |
| 2020 | 10.1093/SYNBIO/YSAA019 | Karim, A. S., F. Liew, S. Garg, B. Vögeli, B. J. Rasor, A. Gonnot, M. Pavan, A. Juminaga, S. D. Simpson, M. Köpke and M. C. Jewett | Modular cell-free expression plasmids to accelerate biological design in cells | Synthetic Biology | 5(1) |
| 2020 | 10.1038/s41589-020-0559-0 | Karim, A. S., Q. M. Dudley, A. Juminaga, Y. Yuan, S. A. Crowe, et al. | In vitro prototyping and rapid optimization of biosynthetic enzymes for cell design | Nature Chemical Biology | 16(8) 912-919 |
| 2020 | 10.1007/s12155-019-10066-x | Kar, S., T. Y. Weng, T. Nakashima, A. Villanueva-Morales, J. R. Stewart, E. J. Sacks, Y. Terajima and T. Yamada | Field Performance of Saccharum x Miscanthus Intergeneric Hybrids (Miscanes) Under Cool Climatic Conditions of Northern Japan | BioEnergy Research | 13(1) 132–46 |
| 2020 | 10.1111/pce.13721 | Kankanala, P., P. Jones, R. S. Nandety, D. A. Jacobson and K. S. Mysore | Plasticity of Phymatotrichopsis omnivora infection strategies is dependent on host and nonhost plant responses | Plant, Cell & Environment | 43(4) 1084–101 |
| 2020 | 10.1111/1462-2920.14959 | Kang, H., X. Chen, M. Kemppainen, A. G. Pardo, C. Veneault-Fourrey, A. Kohler and F. M. Martin | The small secreted effector protein MiSSP7.6 of Laccaria bicolor is required for the establishment of ectomycorrhizal symbiosis | Environmental Microbiology | 22(4) 1435–46 |
| 2020 | 10.34133/2020/7914051 | Kalluri, U. C., X. Yang and S. D. Wullschleger | Plant Biosystems Design for a Carbon-Neutral Bioeconomy | BioDesign Research | 2020 |
| 2020 | 10.1111/febs.15251 | Kahn, A., S. Moraïs, D. Chung, N. S. Sarai, N. N. Hengge, A. Kahn, M. E. Himmel, E. A. Bayer and Y. J. Bomble | Glycosylation of hyperthermostable designer cellulosome components yields enhanced stability and cellulose hydrolysis | The FEBS Journal | 287(20) 4370–88 |
| 2020 | 10.7717/peerj.9942 | Jung, H. and C. D. Meile | Numerical investigation of microbial quorum sensing under various flow conditions | PeerJ | 8 e9942 |
| 2020 | 10.3390/en13215805 | Juneja, A., D. Kumar, V. K. Singh, Yadvika and V. Singh | Chemical Free Two-Step Hydrothermal Pretreatment to Improve Sugar Yields from Energy Cane | Energies | 13(21) |
| 2020 | 10.1039/c9cp05339e | Ju, Z., W. Xiao, X. Yao, X. Tan, B. A. Simmons, K. L. Sale and N. Sun | Theoretical study on the microscopic mechanism of lignin solubilization in Keggin-type polyoxometalate ionic liquids | Physical Chemistry Chemical Physics | 22(5) 2878–86 |
| 2020 | 10.1007/978-1-0716-0195-2_15 | Jones, P., D. Weighill, M. Shah, S. Climer, J. Schmutz, A. Sreedasyam, G. Tuskan and D. Jacobson | Network Modeling of Complex Data Sets | Metabolic Pathway Engineering | 2096 197–215 |
| 2020 | 10.1109/BIBM49941.2020.9313524 | John, C., W. Muchero and S. Emrich | Extreme Phenotype Sampling Improves LASSO and Random Forest Marker Selection for Complex Traits | 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) | 2771–78 |
| 2020 | 10.1016/j.rser.2019.109513 | Johansson, R., S. Meyer, J. Whistance, W. Thompson and D. Debnath | Greenhouse gas emission reduction and cost from the United States biofuels mandate | Renewable and Sustainable Energy Reviews | 119 |
| 2020 | 10.1007/s00253-020-10663-3 | Jiang, L., T. Li, J. Jenkins, Y. Hu, C. L. Brueck, H. Pei and M. J. Betenbaugh | Evidence for a mutualistic relationship between the cyanobacteria Nostoc and fungi Aspergilli in different environments | Applied Microbiology and Biotechnology | 104(14) 6413–26 |
| 2020 | 10.5194/hess-24-1251-2020 | Jiang, C., K. Guan, M. Pan, Y. Ryu, B. Peng and S. Wang | BESS-STAIR: a framework to estimate daily, 30 m, and all-weather crop evapotranspiration using multi-source satellite data for the US Corn Belt | Hydrology and Earth System Sciences | 24(3) 1251–73 |
| 2020 | 10.1038/s41467-020-19428-y | Jian, S., J. Li, G. Wang, L. A. Kluber, C. W. Schadt, J. Liang and M. A. Mayes | Multi-year incubation experiments boost confidence in model projections of long-term soil carbon dynamics | Nature Communications | 11(1) 5864 |
| 2020 | 10.3390/en13226022 | Jia, Y. Y., D. Kumar, J. K. Winkler-Moser, B. Dien and V. Singh | Recoveries of Oil and Hydrolyzed Sugars from Corn Germ Meal by Hydrothermal Pretreatment: A Model Feedstock for Lipid-Producing Energy Crops | Energies | 13(22) |
| 2020 | 10.1007/s00248-019-01406-7 | Jha, P. N., A. B. Gomaa, Y. G. Yanni, A. Y. El-Saadany, T. M. Stedtfeld, R. D. Stedtfeld, S. Gantner, B. Chai, J. Cole, S. A. Hashsham and F. B. Dazzo | Alterations in the Endophyte-Enriched Root-Associated Microbiome of Rice Receiving Growth-Promoting Treatments of Urea Fertilizer and Rhizobium Biofertilizer | Microbial Ecology | 79(2) 367–82 |
| 2020 | 10.1128/MRA.00229-20 | Jennings, E. C., M. W. Korthauer and J. B. Benoit | Genome Sequence of a Blattabacterium Strain Isolated from the Viviparous Cockroach, Diploptera punctata | Microbiology Resource Announcements | 9(35) |
| 2020 | 10.1038/s41579-019-0265-7 | Jansson, J. K. and K. S. Hofmockel | Soil microbiomes and climate change | Nature Reviews Microbiology | 18(1) 35–46 |
| 2020 | 10.1146/annurev-micro-022020-051835 | James, T. Y., J. E. Stajich, C. T. Hittinger and A. Rokas | Toward a Fully Resolved Fungal Tree of Life | Annual Review of Microbiology | 74 291–313 |
| 2020 | 10.1111/nph.16744 | Jallet, D., D. Xing, A. Hughes, M. Moosburner, M. P. Simmons, A. E. Allen and G. Peers | Mitochondrial fatty acid β-oxidation is required for storage-lipid catabolism in a marine diatom | New Phytologist | 228(3) 946–58 |
| 2020 | 10.1016/j.synbio.2020.01.004 | Jakociunas, T., A. K. Klitgaard, E. E. Kontou, J. B. Nielsen, E. Thomsen, et al. | Programmable polyketide biosynthesis platform for production of aromatic compounds in yeast | Synthetic and Systems Biotechnology | 5(1) 11–8 |
| 2020 | 10.1038/s41598-020-66916-8 | Jakes, J. E., S. L. Zelinka, C. G. Hunt, P. Ciesielski, C. R. Frihart, D. Yelle, L. Passarini, S. C. Gleber, D. Vine and S. Vogt | Measurement of moisture-dependent ion diffusion constants in wood cell wall layers using time-lapse micro X-ray fluorescence microscopy | Scientific Reports | 10(1) |
| 2020 | 10.1021/bk-2020-1374.ch013 | Jagtap, S. S., A. A. Bedekar and C. V. Rao | Quorum sensing in yeast | Quorum Sensing: Microbial Rules of Life | Chapter 13 235–50 |
| 2020 | 10.1016/j.renene.2020.01.153 | Jacquet, N., A. Eudes, T. Dutta, K. H. Kim, F. Bouxin, V. Benites, E. Baidoo, S. Singh, B. Simmons, D. Loqué and A. Richel | Influence of hydrocracking and ionic liquid pretreatments on composition and properties of Arabidopsis thaliana wild type and CAD mutant lignins | Renewable Energy | 152 1241–49 |
| 2020 | 10.1128/mSystems.00736-19 | Jacobson, T. B., T. K. Korosh, D. M. Stevenson, C. Foster, C. Maranas, D. G. Olson, L. R. Lynd and D. Amador-Noguez | In Vivo Thermodynamic Analysis of Glycolysis in Clostridium thermocellum and Thermoanaerobacterium saccharolyticum Using 13C and 2H Tracers | mSystems | 5(2) |
| 2020 | 10.1002/eap.2047 | Jach-Smith, L. C. and R. D. Jackson | Inorganic N addition replaces N supplied to switchgrass (Panicum virgatum) by arbuscular mycorrhizal fungi | Ecological Applications | 30(2) e02047 |
| 2020 | 10.1007/978-3-030-30659-5_4 | Ispas, C. | Decision-making training of teachers for inclusive school | Studies in Systems, Decision and Control | 247 79-89 |
| 2020 | 10.1098/rstb.2019.0242 | Isobe, K., N. J. Bouskill, E. L. Brodie, E. A. Sudderth and J. B. H. Martiny | Phylogenetic conservation of soil bacterial responses to simulated global changes | Philosophical Transactions of the Royal Society B: Biological Sciences | 375(1798) |
| 2020 | 10.1016/j.semcdb.2020.02.014 | Ischebeck, T., H. E. Krawczyk, R. T. Mullen, J. M. Dyer and K. D. Chapman | Lipid droplets in plants and algae: Distribution, formation, turnover and function | Seminars in Cell & Developmental Biology | 108 82–93 |
| 2020 | 10.1016/j.mec.2019.e00119 | Incha, M. R., M. G. Thompson, J. M. Blake-Hedges, Y. Liu, A. N. Pearson, M. Schmidt, J. W. Gin, C. J. Petzold, A. M. Deutschbauer and J. D. Keasling | Leveraging host metabolism for bisdemethoxycurcumin production in Pseudomonas putida | Metabolic Engineering Communications | 10 e00119 |
| 2020 | 10.1002/bit.27544 | Hwang, J., A. Hari, R. Cheng, J. G. Gardner and D. Lobo | Kinetic modeling of microbial growth, enzyme activity, and gene deletions: An integrated model of β-glucosidase function in xCellvibrio japonicus | Biotechnology and Bioengineering | 117(12) 3876–90 |
| 2020 | 10.1016/j.scitotenv.2020.139379 | Hussain, M. Z., G. P. Robertson, B. Basso and S. K. Hamilton | Leaching losses of dissolved organic carbon and nitrogen from agricultural soils in the upper US Midwest | Science of the Total Environment | 734 139379 |
| 2020 | 10.1002/bbb.2087 | Huntington, T., X. G. Cui, U. Mishra and C. D. Scown | Machine learning to predict biomass sorghum yields under future climate scenarios | Biofuels, Bioproducts and Biorefining | 14(3) 566–77 |
| 2020 | 10.3390/v12121398 | Hufsky, F., N. Beerenwinkel, I. M. Meyer, S. Roux, G. M. Cook, et al. | The International Virus Bioinformatics Meeting 2020 | Viruses | 12(12) 1398 |
| 2020 | 10.1038/s41586-020-2406-6 | Huang, X., B. Wang, Y. Wang, G. Jiang, J. Feng and H. Zhao | Photoenzymatic enantioselective intermolecular radical hydroalkylation | Nature | 584(7819) 69–74 |
| 2020 | 10.1016/j.cbpa.2020.02.004 | Huang, X., M. Cao and H. Zhao | Integrating biocatalysis with chemocatalysis for selective transformations | Current Opinion in Chemical Biology | 55 161–70 |
| 2020 | 10.1007/s11104-020-04568-3 | Huang, W. J., S. Gilbert, A. Poulev, K. Acosta, S. Lebeis, C. L. Long and E. Lam | Host-specific and tissue-dependent orchestration of microbiome community structure in traditional rice paddy ecosystems | Plant and Soil | 452(45659) 379–95 |
| 2020 | 10.1016/j.isci.2019.100751 | Huang, K., P. Fasahati and C. T. Maravelias | System-Level Analysis of Lignin Valorization in Lignocellulosic Biorefineries | iScience | 23(1) 100751 |
| 2020 | 10.1038/s41396-019-0580-z | Howard-Varona, C., M. M. Lindback, G. E. Bastien, N. Solonenko, A. A. Zayed, H. Jang, B. Andreopoulos, H. M. Brewer, T. Glavina del Rio, J. N. Adkins, S. Paul, M. B. Sullivan and M. B. Duhaime | Phage-specific metabolic reprogramming of virocells | The ISME Journal | 14(4) 881-895 |
| 2020 | 10.1128/MRA.00676-20 | Hovorukha, V., A. Bhattacharyya, O. Iungin, H. Tashyreva, V. Romanovska, et al. | Draft Genome Sequences of Six Strains Isolated from the Rhizosphere of Wheat Grown in Cadmium-Contaminated Soil | Microbiology Resource Announcements | 9(34) |
| 2020 | 10.1016/j.marchem.2020.103810 | Houghton, J. L., C. Jones, K. S. Dawson, V. J. Orphan, M. L. Gomes and D. A. Fike | Resolving micron-scale heterogeneity in porewater δ34SH2S by combining films for in-situ sulfide capture and secondary ion mass spectrometry | Marine Chemistry | 223 |
| 2020 | 10.3389/fmicb.2020.00796 | Hough, M., A. McClure, B. Bolduc, E. Dorrepaal, S. Saleska, V. Klepac-Ceraj and V. Rich | Biotic and Environmental Drivers of Plant Microbiomes Across a Permafrost Thaw Gradient | Frontiers in Microbiology | 11 796 |
| 2020 | 10.1021/acs.iecr.9b05873 | Hossain, A., M. S. Rahaman, D. Lee, T. K. Phung, C. G. Canlas, B. A. Simmons, S. Renneckar, W. Reynolds, A. George, S. Tulaphol and N. Sathitsuksanoh | Enhanced Softwood Cellulose Accessibility by H3PO4 Pretreatment: High Sugar Yield without Compromising Lignin Integrity | Industrial & Engineering Chemistry Research | 59(2) 1010–24 |
| 2020 | 10.1038/s41587-020-0584-2 | Hossain, A., E. Lopez, S. M. Halper, D. P. Cetnar, A. C. Reis, D. Strickland, E. Klavins and H. M. Salis | Automated design of thousands of nonrepetitive parts for engineering stable genetic systems | Nature Biotechnology | 38(12) 1466–75 |
| 2020 | 10.7554/eLife.52063 | Hose, J., L. E. Escalante, K. J. Clowers, H. A. Dutcher, D. Robinson, V. Bouriakov, J. J. Coon, E. Shishkova and A. P. Gasch | The genetic basis of aneuploidy tolerance in wild yeast | eLife | 9 |
| 2020 | 10.5511/plantbiotechnology.20.0326a | Hori, C., X. Yu, J. C. Mortimer, R. Sano, T. Matsumoto, J. Kikuchi, T. Demura and M. Ohtani | Impact of abiotic stress on the regulation of cell wall biosynthesis in Populus trichocarpa | Plant Biotechnology | 37(3) 273–83 |
| 2020 | 10.1038/s41598-020-78781-6 | Hori, C., N. Takata, P. Y. Lam, Y. Tobimatsu, S. Nagano, J. C. Mortimer and D. Cullen | Identifying transcription factors that reduce wood recalcitrance and improve enzymatic degradation of xylem cell wall in Populus | Scientific Reports | 10(1) 22043 |
| 2020 | 10.3389/fmicb.2020.00468 | Hördt, A., M. G. López, J. P. Meier-Kolthoff, M. Schleuning, L.-M. Weinhold, B. J. Tindall, S. Gronow, N. C. Kyrpides, T. Woyke and M. Göker | Analysis of 1,000+ Type-Strain Genomes Substantially Improves Taxonomic Classification of Alphaproteobacteria | Frontiers in Microbiology | 11 |
| 2020 | 10.1038/s41598-020-73715-8 | Horák, A., A. E. Allen and M. Oborník | Common origin of ornithine–urea cycle in opisthokonts and stramenopiles | Scientific Reports | 10(1) |
| 2020 | 10.1007/978-1-0716-0195-2_3 | Hon, S., L. Tian, T. Zheng, J. Cui, L. R. Lynd and D. G. Olson | Methods for Metabolic Engineering of Thermoanaerobacterium saccharolyticum | Metabolic Pathway Engineering | 2096 21–43 |
| 2020 | 10.1128/AEM.01795-20 | Holwerda, E. K., J. Zhou, S. Hon, D. M. Stevenson, D. Amador-Noguez, L. R. Lynd and J. P. van Dijken | Metabolic Fluxes of Nitrogen and Pyrophosphate in Chemostat Cultures of Clostridium thermocellum and Thermoanaerobacterium saccharolyticum | Applied and Environmental Microbiology | 86(23) |
| 2020 | 10.1186/s13068-020-01680-5 | Holwerda, E. K., D. G. Olson, N. M. Ruppertsberger, D. M. Stevenson, S. J. L. Murphy, M. I. Maloney, A. A. Lanahan, D. Amador-Noguez and L. R. Lynd | Metabolic and evolutionary responses of Clostridium thermocellum to genetic interventions aimed at improving ethanol production | Biotechnology for Biofuels | 13 40 |
| 2020 | 10.1038/s41598-020-67416-5 | Hofmeyr, S., R. Egan, E. Georganas, A. C. Copeland, R. Riley, A. Clum, E. Eloe-Fadrosh, S. Roux, E. Goltsman, A. Buluç, D. Rokhsar, L. Oliker and K. Yelick | Terabase-scale metagenome coassembly with MetaHipMer | Scientific Reports | 10(1) 10689 |
| 2020 | 10.1186/s13059-020-02162-5 | Hofmeister, B. T., J. Denkena, M. Colomé-Tatché, Y. Shahryary, R. Hazarika, et al. | A genome assembly and the somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa | Genome Biology | 21(1) 259 |
| 2020 | 10.1099/ijsem.0.003798 | Hirose, S., M. Tank, E. Hara, H. Tamaki, K. Mori, S. Takaichi, S. Haruta and S. Hanada | Aquabacterium pictum sp. nov., the first aerobic bacteriochlorophyll a-containing fresh water bacterium in the genus Aquabacterium of the class Betaproteobacteria | International Journal of Systematic and Evolutionary Microbiology | 70(1) 596–603 |
| 2020 | 10.1099/mgen.0.000399 | Hillman, E. T., A. J. Kozik, C. A. Hooker, J. L. Burnett, Y. Heo, V. A. Kiesel, C. J. Nevins, J. Oshiro, M. M. Robins, R. D. Thakkar, S. T. Wu and S. R. Lindemann | Comparative genomics of the genus Roseburia reveals divergent biosynthetic pathways that may influence colonic competition among species | Microbial Genomics | 6(7) |
| 2020 | 10.1126/sciadv.aba1269 | Hill, N. C., J. W. Tay, S. Altus, D. M. Bortz and J. C. Cameron | Life cycle of a cyanobacterial carboxysome | Science Advances | 6(19) eaba1269 |
| 2020 | 10.1042/BST20190119 | Hidalgo-Cantabrana, C. and R. Barrangou | Characterization and applications of Type I CRISPR-Cas systems | Biochemical Society Transactions | 48(1) 15–23 |
| 2020 | 10.7717/peerj.8614 | Hervé, V., P. Liu, C. Dietrich, D. Sillam-Dussès, P. Stiblik, J. Šobotník and A. Brune | Phylogenomic analysis of 589 metagenome-assembled genomes encompassing all major prokaryotic lineages from the gut of higher termites | PeerJ | 8 e8614 |
| 2020 | 10.1073/pnas.1909798116 | Herrmann, J., P. N. Li, F. Jabbarpour, A. C. K. Chan, I. Rajkovic, T. Matsui, L. Shapiro, J. Smit, T. M. Weiss, M. E. P. Murphy and S. Wakatsuki | A bacterial surface layer protein exploits multistep crystallization for rapid self-assembly | Proc Natl Acad Sci U S A | 117(1) 388-394 |
| 2020 | 10.1073/pnas.2010087117 | Henry, K. K., W. Ross, K. S. Myers, K. C. Lemmer, J. M. Vera, R. Landick, T. J. Donohue and R. L. Gourse | A majority of Rhodobacter sphaeroides promoters lack a crucial RNA polymerase recognition feature, enabling coordinated transcription activation | Proceedings of the National Academy of Sciences of the United States of America | 117(47) 29658–68 |
| 2020 | 10.1146/annurev-arplant-081519-040100 | Hennacy, J. H. and M. C. Jonikas | Prospects for Engineering Biophysical CO2 Concentrating Mechanisms into Land Plants to Enhance Yields | Annual Review of Plant Biology | 71 461–85 |
| 2020 | 10.1016/j.coche.2020.05.008 | Hendry, J. I., H. V. Dinh, C. Foster, S. Gopalakrishnan, L. Wang and C. D. Maranas | Metabolic flux analysis reaching genome wide coverage: lessons learned and future perspectives | Current Opinion in Chemical Engineering | 30 17–25 |
| 2020 | 10.1016/j.agee.2019.106780 | Helms, J. A., S. E. Ijelu, B. D. Wills, D. A. Landis and N. M. Haddad | Ant biodiversity and ecosystem services in bioenergy landscapes | Agriculture, Ecosystems & Environment | 290 |
| 2020 | 10.1016/j.envint.2020.106068 | He, Z., Y. Deng, M. Xu, J. Li, J. Liang, et al. | Microbial functional genes commonly respond to elevated carbon dioxide | Environment International | 144 |
| 2020 | 10.3390/pr8080951 | He, Q. P. and J. Wang | Application of Systems Engineering Principles and Techniques in Biological Big Data Analytics: A Review | Processes | 8(8) |
| 2020 | 10.1364/OE.390719 | He, K., X. Wang, Z. W. Wang, H. Yi, N. F. Scherer, A. K. Katsaggelos and O. Cossairt | Snapshot multifocal light field microscopy | Optics Express | 28(8) 12108-12120 |
| 2020 | 10.1098/rstb.2019.0590 | Hawkes, C. V., J. J. Bull and J. A. Lau | Symbiosis and stress: how plant microbiomes affect host evolution | Philosophical Transactions of the Royal Society B: Biological Sciences | 375(1808) 20190590 |
| 2020 | 10.1128/mra.00975-20 | Hatmaker, E. A., G. N. Presley, O. N. Cannon, J. K. Michener, A. M. Guss and J. G. Elkins | Complete Genome Sequences of Four Natural Pseudomonas Isolates That Catabolize a Wide Range of Aromatic Compounds Relevant to Lignin Valorization | Microbiology Resource Announcements | 9(49) |
| 2020 | 10.1128/mra.00589-20 | Hatmaker, E. A., K. B. O’Dell, L. A. Riley, I. C. Payne and A. M. Guss | Methylome and Complete Genome Sequence of Parageobacillus toebii DSM 14590T, a Thermophilic Bacterium | Microbiology Resource Announcements | 9(25) |
| 2020 | 10.34133/2020/9350905 | Hassan, M. M., G. Yuan, J.-G. Chen, G. A. Tuskan and X. Yang | Prime Editing Technology and Its Prospects for Future Applications in Plant Biology Research | BioDesign Research | 2020 |
| 2020 | 10.1002/ecs2.3280 | Hartman, M. D., W. J. Parton, J. D. Derner, D. K. Schulte, W. K. Smith, D. E. Peck, K. A. Day, S. J. Del Grosso, S. Lutz, B. A. Fuchs, M. Chen and W. Gao | Seasonal grassland productivity forecast for the U.S. Great Plains using Grass‐Cast | Ecosphere | 11(11) |
| 2020 | 10.1039/c9ra09726k | Harman-Ware, A. E., K. Orton, C. Deng, S. Kenrick, D. Carpenter and J. R. Ferrell, 3rd | Molecular weight distribution of raw and catalytic fast pyrolysis oils: comparison of analytical methodologies | RSC Advances | 10(7) 3789–95 |
| 2020 | 10.21203/rs.3.rs-23478/v1 | Harman-Ware, A. E., D. Macaya-Sans, C. R. Abeyratne, C. Doeppke, K. Haiby, G. A. Tuskan, B. Stanton, S. P. DiFazio and M. F. Davis | Accurate Determination of Genotypic Variance of Cell Wall Characteristics of a Populus trichocarpa Pedigree Using High-Throughput Pyrolysis-Molecular Beam Mass Spectrometry | Biotechnology for Biofuels | |
| 2020 | 10.1002/9783527814794.ch13 | Harman-Ware, A. E. | Conversion of Terpenes to Chemicals and Related Products | Chemical Catalysts for Biomass Upgrading | 529–68 |
| 2020 | 10.1016/j.simyco.2020.01.003 | Haridas, S., R. Albert, M. Binder, J. Bloem, K. LaButti, et al. | 101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens | Studies in Mycology | 96 141-153 |
| 2020 | 10.1002/pld3.268 | Harding, S. A., C. J. Frost and C. J. Tsai | Defoliation-induced compensatory transpiration is compromised in SUT4-RNAi Populus | Plant Direct | 4(9) e00268 |
| 2020 | 10.1073/pnas.1821684116 | Hannon, J. R., L. R. Lynd, O. Andrade, P. T. Benavides, G. T. Beckham, et al. | Technoeconomic and life-cycle analysis of single-step catalytic conversion of wet ethanol into fungible fuel blendstocks | Proceedings of the National Academy of Sciences of the United States of America | 117(23) 12576–83 |
| 2020 | 10.1021/acscatal.0c01498 | Han, X. T., H. Y. Sheng, C. Yu, T. W. Walker, G. W. Huber, J. S. Qiu and S. Jin | Electrocatalytic Oxidation of Glycerol to Formic Acid by CuCo2O4 Spinel Oxide Nanostructure Catalysts | ACS Catalysis | 10(12) 6741–52 |
| 2020 | 10.1021/acssynbio.9b00420 | Hammer, S. K., Y. Zhang and J. L. Avalos | Mitochondrial Compartmentalization Confers Specificity to the 2-Ketoacid Recursive Pathway: Increasing Isopentanol Production in Saccharomyces cerevisiae | ACS Synthetic Biology | 9(3) 546–55 |
| 2020 | 10.1016/j.micres.2020.126530 | Hamm, P. S., R. C. Mueller, C. R. Kuske and A. Porras-Alfaro | Keratinophilic fungi: Specialized fungal communities in a desert ecosystem identified using cultured-based and Illumina sequencing approaches | Microbiological Research | 239 126530 |
| 2020 | 10.1093/gigascience/giaa093 | Hamilton, J. P., G. T. Godden, E. Lanier, W. W. Bhat, T. J. Kinser, B. Vaillancourt, H. Wang, J. C. Wood, J. Jiang, P. S. Soltis, D. E. Soltis, B. Hamberger and C. R. Buell | Generation of a chromosome-scale genome assembly of the insect-repellent terpenoid-producing Lamiaceae species, Callicarpa americana | GigaScience | 9(9) |
| 2020 | 10.1007/978-3-030-21001-4_4 | Hamberger, B., M. M. S. Yuen, E. Buschiazzo, C. Cullis, A. Yuen, C. Ritland, J. Bohlmann and B. Hamberger | An Intact, But Dormant LTR Retrotransposon Defines a Moderately Sized Family in White Spruce (Picea glauca) | The Spruce Genome | Chapter 4 51–63 |
| 2020 | 10.1021/acssynbio.9b00460 | Halper, S. M., A. Hossain and H. M. Salis | Synthesis Success Calculator: Predicting the Rapid Synthesis of DNA Fragments with Machine Learning | ACS Synthetic Biology | 9(7) 1563–71 |
| 2020 | 10.1074/jbc.H120.015332 | Hallberg, Z. F. and M. E. Taga | Taking the "me" out of meat: A new demethylation pathway dismantles a toxin's precursor | Journal of Biological Chemistry | 295(34) 11982-11983 |
| 2020 | 10.1002/ecy.3113 | Hall, S. J., W. Huang, V. I. Timokhin and K. E. Hammel | Lignin lags, leads, or limits the decomposition of litter and soil organic carbon | Ecology | 101(9) |
| 2020 | 10.1038/s41467-020-15688-w | Hale, K. R. S., F. S. Valdovinos and N. D. Martinez | Mutualism increases diversity, stability, and function of multiplex networks that integrate pollinators into food webs | Nature Communications | 11(1) |
| 2020 | 10.1038/s41396-020-00769-x | Hagen, L. H., C. G. Brooke, C. A. Shaw, A. D. Norbeck, H. Piao, et al. | Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber | The ISME Journal | 15(2) 421-434 |
| 2020 | 10.1099/ijsem.0.003698 | Haas, K. N. and J. L. Blanchard | Reclassification of the Clostridium clostridioforme and Clostridium sphenoides clades as Enterocloster gen. nov. and Lacrimispora gen. nov., including reclassification of 15 taxa | International Journal of Systematic and Evolutionary Microbiology | 70(1) 23-34 |
| 2020 | 10.1016/j.tree.2019.10.003 | Haan, N. L., Y. Zhang and D. A. Landis | Predicting Landscape Configuration Effects on Agricultural Pest Suppression | Trends in Ecology & Evolution | 35(2) 175–86 |
| 2020 | 10.1016/j.biocon.2020.108492 | Haan, N. L. and D. A. Landis | Grassland disturbance effects on first-instar monarch butterfly survival, floral resources, and flower-visiting insects | Biological Conservation | 243 |
| 2020 | 10.1007/978-981-15-6125-2 | Gupta, V. V. S. R. and A. K. Sharma | Rhizosphere Biology: Interactions Between Microbes and Plants | Springer Singapore | |
| 2020 | 10.1128/mra.00299-20 | Gupta, N., K. A. Skinner, Z. M. Summers, J. N. Edirisinghe, P. B. Weisenhorn, J. P. Faria, C. W. Marshall, A. Sharma, N. R. Gottel, J. A. Gilbert, C. S. Henry and E. J. O’Loughlin | Draft Genome Sequence of Pseudarthrobacter sp. Strain ATCC 49442 (Formerly Micrococcus luteus), a Pyridine-Degrading Bacterium | Microbiology Resource Announcements | 9(38) |
| 2020 | 10.1128/MRA.00748-20 | Gupta, N., K. A. Skinner, Z. M. Summers, J. N. Edirisinghe, J. P. Faria, C. W. Marshall, A. Sharma, N. R. Gottel, J. A. Gilbert, C. S. Henry and E. J. O’Loughlin | Draft Genome Sequence of 2-Methylpyridine-, 2-Ethylpyridine-, and 2-Hydroxypyridine-Degrading Arthrobacter sp. Strain ATCC 49987 | Microbiology Resource Announcements | 9(34) e00748-20 |
| 2020 | 10.1038/s41467-020-18706-z | Guo, X., Q. Gao, M. Yuan, G. Wang, X. Zhou, et al. | Gene-informed decomposition model predicts lower soil carbon loss due to persistent microbial adaptation to warming | Nature Communications | 11(1) |
| 2020 | 10.1016/j.ymben.2020.05.009 | Grubbe, W. S., B. J. Rasor, A. Krüger, M. C. Jewett and A. S. Karim | Cell-free styrene biosynthesis at high titers | Metabolic Engineering | 61 89-95 |
| 2020 | 10.1111/nph.16820 | Grosjean, N. and C. E. Blaby-Haas | Leveraging computational genomics to understand the molecular basis of metal homeostasis | New Phytologist | 228(5) 1472–89 |
| 2020 | 10.1093/nar/gkaa898 | Grigoriev, I. V., R. D. Hayes, S. Calhoun, B. Kamel, A. Wang, S. Ahrendt, S. Dusheyko, R. Nikitin, Stephen J. Mondo, A. Salamov, I. Shabalov and A. Kuo | PhycoCosm, a comparative algal genomics resource | Nucleic Acids Research | 49(D1) D1004-D1011 |
| 2020 | 10.1104/pp.19.01496 | Griffiths, M. and L. M. York | Targeting Root Ion Uptake Kinetics to Increase Plant Productivity and Nutrient Use Efficiency | Plant Physiology | 182(4) 1854–68 |
| 2020 | 10.1186/s40168-020-0790-7 | Grieb, A., R. M. Bowers, M. Oggerin, D. Goudeau, J. Lee, R. R. Malmstrom, T. Woyke and B. M. Fuchs | A pipeline for targeted metagenomics of environmental bacteria | Microbiome | 8(1) 21 |
| 2020 | 10.1038/s41396-020-0668-5 | Grettenberger, C. L., D. Y. Sumner, K. Wall, C. T. Brown, J. A. Eisen, T. J. Mackey, I. Hawes, G. Jospin and A. D. Jungblut | A phylogenetically novel cyanobacterium most closely related to Gloeobacter | The ISME Journal | 14(8) 2142-2152 |
| 2020 | 10.1186/s12866-020-01768-w | Grettenberger, C. L., J. R. Havig and T. L. Hamilton | Metabolic diversity and co-occurrence of multiple Ferrovum species at an acid mine drainage site | BMC Microbiology | 20(1) 119 |
| 2020 | 10.1371/journal.pone.0242157 | Goyal, G., N. Elsbree, M. Fero, N. J. Hillson and G. Linshiz | Repurposing a microfluidic formulation device for automated DNA construction | PLOS ONE | 15(11) e0242157 |
| 2020 | 10.1038/s41467-020-17302-5 | Gordon, S. P., B. Contreras-Moreira, J. J. Levy, A. Djamei, A. Czedik-Eysenberg, et al. | Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors | Nature Communications | 11(1) 3670 |
| 2020 | 10.1128/mSystems.00224-20 | Gordon, G. C., J. C. Cameron, S. T. P. Gupta, M. D. Engstrom, J. L. Reed and B. F. Pfleger | Genome-Wide Analysis of RNA Decay in the Cyanobacterium Synechococcus sp. Strain PCC 7002 | mSystems | 5(4) |
| 2020 | 10.1016/j.ymben.2020.03.001 | Gopalakrishnan, S., S. Dash and C. Maranas | K-FIT: An accelerated kinetic parameterization algorithm using steady-state fluxomic data | Metabolic Engineering | 61 197–205 |
| 2020 | 10.1002/pro.3730 | Goodsell, D. S., C. Zardecki, L. Di Costanzo, J. M. Duarte, B. P. Hudson, I. Persikova, J. Segura, C. Shao, M. Voigt, J. D. Westbrook, J. Y. Young and S. K. Burley | RCSB Protein Data Bank: Enabling biomedical research and drug discovery | Protein Science | 29(1) 52–65 |
| 2020 | 10.1371/JOURNAL.PBIO.3000815 | Goodsell, D. S., M. Voigt, C. Zardecki and S. K. Burley | Integrative illustration for coronavirus outreach | PLoS Biology | 18(8) |
| 2020 | 10.1016/j.tibs.2020.02.010 | Goodsell, D. S., A. J. Olson and S. Forli | Art and Science of the Cellular Mesoscale | Trends in Biochemical Sciences | 45(6) 472–83 |
| 2020 | 10.1038/s41388-020-01461-2 | Goodsell, D. S. and S. K. Burley | RCSB Protein Data Bank tools for 3D structure-guided cancer research: human papillomavirus (HPV) case study | Oncogene | 39(43) 6623-6632 |
| 2020 | 10.1089/cmb.2019.0326 | Gong, B. and E. Purdom | MethCP: Differentially Methylated Region Detection with Change Point Models | Journal of Computational Biology | 27(4) 458–71 |
| 2020 | 10.1093/database/baaa075 | Gomez-Cano, F., L. Carey, K. Lucas, T. García Navarrete, E. Mukundi, S. Lundback, D. Schnell and E. Grotewold | CamRegBase: A gene regulation database for the biofuel crop, Camelina sativa | Database | 2020 |
| 2020 | 10.1002/csc2.20049 | Gomez, F. E., J. E. Mullet, A. H. Muliana, K. J. Niklas and W. L. Rooney | The genetic architecture of biomechanical traits in sorghum | Crop Science | 60(1) 82–99 |
| 2020 | 10.1038/s41594-020-0403-y | Glynn, C., M. R. Sawaya, P. Ge, M. Gallagher-Jones, C. W. Short, R. Bowman, M. Apostol, Z. H. Zhou, D. S. Eisenberg and J. A. Rodriguez | Cryo-EM structure of a human prion fibril with a hydrophobic, protease-resistant core | Nature Structural and Molecular Biology | 27(5) 417-423 |
| 2020 | 10.1093/molbev/msaa122 | Gluck-Thaler, E., S. Haridas, M. Binder, I. V. Grigoriev, P. W. Crous, J. W. Spatafora, K. Bushley and J. C. Slot | The Architecture of Metabolism Maximizes Biosynthetic Diversity in the Largest Class of Fungi | Molecular Biology and Evolution | 37(10) 2838-2856 |
| 2020 | 10.1074/jbc.RA120.015328 | Glasgow, E. M., E. I. Kemna, C. A. Bingman, N. Ing, K. Deng, C. M. Bianchetti, T. E. Takasuka, T. R. Northen and B. G. Fox | A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis | Journal of Biological Chemistry | 295(51) 17752–69 |
| 2020 | 10.1016/j.synbio.2020.01.003 | Gilmore, S. P., S. P. Lillington, C. H. Haitjema, R. de Groot and M. A. O'Malley | Designing chimeric enzymes inspired by fungal cellulosomes | Synthetic and Systems Biotechnology | 5(1) 23–32 |
| 2020 | 10.1021/acs.est.9b07019 | Gelfand, I., S. K. Hamilton, A. N. Kravchenko, R. D. Jackson, K. D. Thelen and G. P. Robertson | Empirical Evidence for the Potential Climate Benefits of Decarbonizing Light Vehicle Transport in the U.S. with Bioenergy from Purpose-Grown Biomass with and without BECCS | Environmental Science & Technology | 54(5) 2961–74 |
| 2020 | 10.1186/s12934-020-01456-4 | Geiselman, G. M., J. Kirby, A. Landera, P. Otoupal, G. Papa, et al. | Conversion of poplar biomass into high-energy density tricyclic sesquiterpene jet fuel blendstocks | Microbial Cell Factories | 19(1) 208 |
| 2020 | 10.3389/fmicb.2020.587127 | Ge, X., M. P. Thorgersen, F. L. Poole, 2nd, A. M. Deutschbauer, J. M. Chandonia, P. S. Novichkov, S. Gushgari-Doyle, L. M. Lui, T. Nielsen, R. Chakraborty, P. D. Adams, A. P. Arkin, T. C. Hazen and M. W. W. Adams | Characterization of a Metal-Resistant Bacillus Strain With a High Molybdate Affinity ModA From Contaminated Sediments at the Oak Ridge Reservation | Frontiers in Microbiology | 11 587127 |
| 2020 | 10.1128/MRA.01149-20 | Ge, X., M. P. Thorgersen, F. L. Poole, 2nd, A. M. Deutschbauer, J. M. Chandonia, P. S. Novichkov, P. D. Adams, A. P. Arkin, T. C. Hazen and M. W. W. Adams | Draft Genome Sequence of Bacillus sp. Strain EB106-08-02-XG196, Isolated from High-Nitrate-Contaminated Sediment | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.1038/s41396-020-00825-6 | Gazitúa, M. C., D. R. Vik, S. Roux, A. C. Gregory, B. Bolduc, B. Widner, M. R. Mulholland, S. J. Hallam, O. Ulloa and M. B. Sullivan | Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters | The ISME Journal | 15(4) 981-998 |
| 2020 | 10.1016/j.plasmid.2020.102514 | Gauttam, R., A. Mukhopadhyay and S. W. Singer | Construction of a novel dual-inducible duet-expression system for gene (over)expression in Pseudomonas putida | Plasmid | 110 102514 |
| 2020 | 10.1111/gcbb.12736 | Gautam, S., U. Mishra, C. D. Scown and Y. Zhang | Sorghum biomass production in the continental United States and its potential impacts on soil organic carbon and nitrous oxide emissions | GCB Bioenergy | 12(10) 878–90 |
| 2020 | 10.1039/c9se00912d | Garedew, M., D. Young-Farhat, S. Bhatia, P. Hao, J. E. Jackson and C. M. Saffron | Electrocatalytic cleavage of lignin model dimers using ruthenium supported on activated carbon cloth | Sustainable Energy and Fuels | 4(3) 1340-1350 |
| 2020 | 10.1021/acssynbio.9b00518 | Garcia, S. and C. T. Trinh | Harnessing Natural Modularity of Metabolism with Goal Attainment Optimization to Design a Modular Chassis Cell for Production of Diverse Chemicals | ACS Synthetic Biology | 9(7) 1665–81 |
| 2020 | 10.3389/fbioe.2020.00772 | Garcia, S., R. A. Thompson, R. J. Giannone, S. Dash, C. D. Maranas and C. T. Trinh | Development of a Genome-Scale Metabolic Model of Clostridium thermocellum and Its Applications for Integration of Multi-Omics Datasets and Computational Strain Design | Frontiers in Bioengineering and Biotechnology | 8 772 |
| 2020 | 10.1128/AEM.01639-20 | Garcia, C. A., J. A. Narrett and J. G. Gardner | Trehalose Degradation by Cellvibrio japonicus Exhibits No Functional Redundancy and Is Solely Dependent on the Tre37A Enzyme | Applied and Environmental Microbiology | 86(22) |
| 2020 | 10.1186/s13068-020-01821-w | Garabedian, B. M., C. W. Meadows, F. Mingardon, J. M. Guenther, T. de Rond, R. Abourjeily and T. S. Lee | An automated workflow to screen alkene reductases using high-throughput thin layer chromatography | Biotechnology for Biofuels | 13(1) 184 |
| 2020 | 10.1016/bs.mcb.2020.05.001 | Gao, Y. and J. C. Mortimer | Chapter 7 - Unlocking the architecture of native plant cell walls via solid-state nuclear magnetic resonance | Methods in Cell Biology | 160 121–43 |
| 2020 | 10.1038/s41467-020-19837-z | Gao, Y., A. S. Lipton, Y. Wittmer, D. T. Murray and J. C. Mortimer | A grass-specific cellulose–xylan interaction dominates in sorghum secondary cell walls | Nature Communications | 11(1) 6081 |
| 2020 | 10.1080/09670262.2020.1817569 | Gao, Y., J. Feng, J. Lv, Q. Liu, F. Nan, X. Liu, C.-J. Liu and S. Xie | Effects of nitrogen deficiency on the transcriptome of the oleaginous alga Parachlorella kessleri TY | European Journal of Phycology | 56(2) 203–15 |
| 2020 | 10.1073/pnas.2002780117 | Gao, Q., G. Wang, K. Xue, Y. Yang, J. Xie, H. Yu, S. Bai, F. Liu, Z. He, D. Ning, S. E. Hobbie, P. B. Reich and J. Zhou | Stimulation of soil respiration by elevated CO2 is enhanced under nitrogen limitation in a decade-long grassland study | Proceedings of the National Academy of Sciences of the United States of America | 117(52) 33317–24 |
| 2020 | 10.1371/journal.pone.0238327 | Gao, D., P. R. Barber, J. V. Chacko, M. A. Kader Sagar, C. T. Rueden, A. R. Grislis, M. C. Hiner and K. W. Eliceiri | FLIMJ: An open-source ImageJ toolkit for fluorescence lifetime image data analysis | PLoS One | 15(12) e0238327 |
| 2020 | 10.1038/s41467-019-13913-9 | Gao, C., L. Montoya, L. Xu, M. Madera, J. Hollingsworth, E. Purdom, V. Singan, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Fungal community assembly in drought-stressed sorghum shows stochasticity, selection, and universal ecological dynamics | Nature Communications | 11(1) 34 |
| 2020 | 10.1016/j.cbpa.2020.08.005 | Gambacorta, F. V., J. J. Dietrich, Q. Yan and B. F. Pfleger | Rewiring yeast metabolism to synthesize products beyond ethanol | Current Opinion in Chemical Biology | 59 182–92 |
| 2020 | 10.1073/pnas.1914422117 | Gallego-Giraldo, L., C. Liu, S. Pose-Albacete, S. Pattathil, A. G. Peralta, J. Young, J. Westpheling, M. G. Hahn, X. Rao, J. P. Knox, B. De Meester, W. Boerjan and R. A. Dixon | Arabidopsis Dehiscence Zone Polygalacturonase 1 (ADPG1) releases latent defense signals in stems with reduced lignin content | Proceedings of the National Academy of Sciences of the United States of America | 117(6) 3281–90 |
| 2020 | 10.1016/j.str.2020.09.005 | Gallagher-Jones, M. and J. A. Rodriguez | Structures from the mesophase: MicroEd targets crystals extracted from LCP | Structure | 28(10) 1084-1086 |
| 2020 | 10.1107/S2052252520004030 | Gallagher-Jones, M., K. C. Bustillo, C. Ophus, L. S. Richards, J. Ciston, S. Lee, A. M. Minord and J. A. Rodriguez | Atomic structures determined from digitally defined nanocrystalline regions | IUCrJ | 7 490-499 |
| 2020 | 10.1039/d0gc03218b | Galebach, P. H., J. K. Soeherman, E. Gilcher, A. M. Wittrig, J. Johnson, T. Fredriksen, C. R. Wang, M. P. Lanci, J. A. Dumesic and G. W. Huber | Production of renewable alcohols from maple wood using supercritical methanol hydrodeoxygenation in a semi-continuous flowthrough reactor | Green Chemistry | 22(23) 8462–77 |
| 2020 | 10.1002/cssc.202000002 | Gale, M., C. M. Cai and K. L. Gilliard-Abdul-Aziz | Heterogeneous Catalyst Design Principles for the Conversion of Lignin into High-Value Commodity Fuels and Chemicals | ChemSusChem | 13(8) 1947–66 |
| 2020 | 10.1039/c9np00071b | Galanie, S., D. Entwistle and J. Lalonde | Engineering biosynthetic enzymes for industrial natural product synthesis | Natural Product Reports | 37(8) 1122–43 |
| 2020 | 10.1002/pld3.255 | Gaillard, M., C. Miao, J. C. Schnable and B. Benes | Voxel carving-based 3D reconstruction of sorghum identifies genetic determinants of light interception efficiency | Plant Direct | 4(10) e00255 |
| 2020 | 10.1007/978-3-030-65414-6_21 | Gaillard, M., C. Miao, J. Schnable and B. Benes | Sorghum segmentation by skeleton extraction | Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | 12540 LNCS 296-311 |
| 2020 | 10.1186/s13068-020-01804-x | Gabriel, R., J. Prinz, M. Jecmenica, C. Romero-Vazquez, P. Chou, et al. | Development of genetic tools for the thermophilic filamentous fungus Thermoascus aurantiacus | Biotechnology for Biofuels | 13(1) 167 |
| 2020 | 10.1080/15592294.2019.1666649 | Fu, K., G. Bonora and M. Pellegrini | Interactions between core histone marks and DNA methyltransferases predict DNA methylation patterns observed in human cells and tissues | Epigenetics | 15(3) 272–82 |
| 2020 | 10.1038/s41396-020-00737-5 | Fritts, R. K., J. T. Bird, M. G. Behringer, A. Lipzen, J. Martin, M. Lynch and J. B. McKinlay | Enhanced nutrient uptake is sufficient to drive emergent cross-feeding between bacteria in a synthetic community | ISME Journal | 14(11) 2816-2828 |
| 2020 | 10.1007/s10529-020-02942-w | Fritsche, S., C. Hopson, J. Gorman, R. Gabriel and S. W. Singer | Purification and characterization of a native lytic polysaccharide monooxygenase from Thermoascus aurantiacus | Biotechnology Letters | 42(10) 1897–905 |
| 2020 | 10.1146/annurev-phyto-010820-012740 | Friesen, M. L. | Social Evolution and Cheating in Plant Pathogens | Annual Review of Phytopathology | 58 55–75 |
| 2020 | 10.1038/s41598-020-64311-x | Frausto, R. F., V. S. Swamy, G. S. L. Peh, P. M. Boere, E. M. Hanser, et al. | Phenotypic and functional characterization of corneal endothelial cells during in vitro expansion | Scientific Reports | 10(1) |
| 2020 | 10.1021/jasms.9b00059 | Frankfater, C., W. R. Henson, A. Juenger-Leif, M. Foston, T. S. Moon, J. Turk, J. L. Kao, A. Haas and F. F. Hsu | Structural Determination of a New Peptidolipid Family from Rhodococcus opacus and the Pathogen Rhodococcus equi by Multiple Stage Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 31(3) 611–23 |
| 2020 | 10.1097/01.CCN.0000694084.86350.93 | Franges, E. Z. | Solving the puzzle of Brown-Séquard syndrome | Nursing Critical Care | 15(5) 18-23 |
| 2020 | 10.1128/mBio.02146-20 | Francoeur, C. B., L. Khadempour, R. D. Moreira-Soto, K. Gotting, A. J. Book, A. A. Pinto-Tomás, K. Keefover-Ring and C. R. Currie | Bacteria contribute to plant secondary compound degradation in a generalist herbivore system | mBio | 11(5) 45675 |
| 2020 | Foster, C., V. S. Boorla, T. B. Jacobson, R. Chowdhury, S. Gopalakrishnan, S. Dash, D. G. Olson, D. Amador-Noguez, L. R. Lynd and C. D. Maranas | Assessing the Impact of Allosteric Enzyme Regulations Limiting Ethanol Titer in Clostridium Thermocellum Using a Core Kinetic Model | AIChE Annual Meeting | ||
| 2020 | 10.1021/scimeetings.0c06659 | Foster, C., V. Boorla, T. Jacobson, R. Chowdhury, S. Gopalakrishnan, S. Dash, D. Olson, D. Amador-Noguez, L. Lynd and C. Maranas | 13C Metabolic flux analysis and kinetic modeling of Clostridium thermocellum grown on cellobiose | ACS Fall 2020 | |
| 2020 | 10.1111/pce.13887 | Folk, R. A., C. M. Siniscalchi and D. E. Soltis | Angiosperms at the edge: Extremity, diversity, and phylogeny | Plant, Cell & Environment | 43(12) 2871–93 |
| 2020 | 10.15252/msb.20199419 | Flores‐Tinoco, C. E., F. Tschan, T. Fuhrer, C. Margot, U. Sauer, M. Christen and B. Christen | Co‐catabolism of arginine and succinate drives symbiotic nitrogen fixation | Molecular Systems Biology | 16(6) e9419 |
| 2020 | 10.3389/fmicb.2019.03044 | Flores-Núñez, V. M., C. Fonseca-García, D. Desgarennes, E. Eloe-Fadrosh, T. Woyke and L. P. Partida-Martínez | Functional Signatures of the Epiphytic Prokaryotic Microbiome of Agaves and Cacti | Frontiers in Microbiology | 10 |
| 2020 | 10.1146/annurev-micro-022620-014327 | Fitzpatrick, C. R., I. Salas-González, J. M. Conway, O. M. Finkel, S. Gilbert, D. Russ, P. J. P. L. Teixeira and J. L. Dangl | The Plant Microbiome: From Ecology to Reductionism and beyond | Annual Review of Microbiology | 74 81-100 |
| 2020 | 10.1029/2019WR026058 | Fisher, J. B., B. Lee, A. J. Purdy, G. H. Halverson, M. B. Dohlen, et al. | ECOSTRESS: NASA's Next Generation Mission to Measure Evapotranspiration From the International Space Station | Water Resources Research | 56(4) |
| 2020 | 10.3390/metabo10090361 | Fisher, C. L., P. D. Lane, M. Russell, R. Maddalena and T. W. Lane | Low Molecular Weight Volatile Organic Compounds Indicate Grazing by the Marine Rotifer Brachionus plicatilis on the Microalgae Microchloropsis salina | Metabolites | 10(9) 361 |
| 2020 | 10.1038/s41586-020-2778-7 | Finkel, O. M., I. Salas-González, G. Castrillo, J. M. Conway, T. F. Law, P. J. P. L. Teixeira, E. D. Wilson, C. R. Fitzpatrick, C. D. Jones and J. L. Dangl | A single bacterial genus maintains root growth in a complex microbiome | Nature | 587(7832) 103-108 |
| 2020 | 10.1073/pnas.1920877117 | Field, J. L., T. L. Richard, E. A. H. Smithwick, H. Cai, M. S. Laser, D. S. LeBauer, S. P. Long, K. Paustian, Z. Qin, J. J. Sheehan, P. Smith, M. Q. Wang and L. R. Lynd | Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels | Proceedings of the National Academy of Sciences of the United States of America | 117(36) 21968–77 |
| 2020 | 10.1073/pnas.1916349117 | Fetherolf, M. M., D. J. Levy-Booth, L. E. Navas, J. Liu, J. C. Grigg, A. Wilson, R. Katahira, G. T. Beckham, W. W. Mohn and L. D. Eltis | Characterization of alkylguaiacol-degrading cytochromes P450 for the biocatalytic valorization of lignin | Proceedings of the National Academy of Sciences | 117(41) 25771–78 |
| 2020 | 10.3389/fmicb.2020.581309 | Ferrara, M., A. Gallo, G. Perrone, D. Magistà and S. E. Baker | Comparative Genomic Analysis of Ochratoxin A Biosynthetic Cluster in Producing Fungi: New Evidence of a Cyclase Gene Involvement | Frontiers in Microbiology | 11 |
| 2020 | 10.1111/tpj.14607 | Fernandez-Pozo, N., F. B. Haas, R. Meyberg, K. K. Ullrich, M. Hiss, et al. | PEATmoss (Physcomitrella Expression Atlas Tool): a unified gene expression atlas for the model plant Physcomitrella patens | The Plant Journal | 102(1) 165-177 |
| 2020 | 10.1007/s10295-020-02326-z | Fernandez-Bayo, J. D., C. W. Simmons and J. S. VanderGheynst | Characterization of digestate microbial community structure following thermophilic anaerobic digestion with varying levels of green and food wastes | Journal of Industrial Microbiology and Biotechnology | 47(12) 1031-1044 |
| 2020 | 10.5334/DSJ-2020-025 | Feng, Z., N. Verdiguel, L. Di Costanzo, D. S. Goodsell, J. D. Westbrook, S. K. Burley and C. Zardecki | Impact of the protein data bank across scientific disciplines | Data Science Journal | 19(1) 45671 |
| 2020 | 10.1002/btpr.3008 | Fatma, Z., J. C. Schultz and H. Zhao | Recent advances in domesticating non-model microorganisms | Biotechnology Progress | 36(5) e3008 |
| 2020 | 10.1038/s41598-020-77375-6 | Fatima, M., X. Zhang, J. Lin, P. Zhou, D. Zhou and R. Ming | Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum | Scientific Reports | 10(1) |
| 2020 | 10.1021/acsomega.9b02849 | Farahi, R. H., A. L. Lereu, A. M. Charrier, U. C. Kalluri, B. H. Davison and A. Passian | Nanomechanics and Raman Spectroscopy of in Situ Native Carbohydrate Storage Granules for Enhancing Starch Quality and Lignocellulosic Biomass Production | ACS Omega | 5(6) 2594–602 |
| 2020 | 10.1021/acssuschemeng.0c02351 | Fang, Z., S. Nikafshar, E. L. Hegg and M. Nejad | Biobased Divanillin As a Precursor for Formulating Biobased Epoxy Resin | ACS Sustainable Chemistry & Engineering | 8(24) 9095–103 |
| 2020 | 10.7554/eLife.56717 | Fan, P., P. Wang, Y. R. Lou, B. J. Leong, B. M. Moore, C. A. Schenck, R. Combs, P. Cao, F. Brandizzi, S. H. Shiu and R. L. Last | Evolution of a plant gene cluster in Solanaceae and emergence of metabolic diversity | eLife | 9 |
| 2020 | 10.1007/s00122-020-03612-1 | Fan, K. H., K. M. Devos and P. Schliekelman | Strategies for eQTL mapping in allopolyploid organisms | Theoretical and Applied Genetics | 133(8) 2477-2497 |
| 2020 | 10.1126/science.aba2932 | Evans, S. W., J. Beal, K. Berger, D. A. Bleijs, A. Cagnetti, et al. | Embrace experimentation in biosecurity governance | Science | 368(6487) 138-140 |
| 2020 | 10.1186/s13068-020-01841-6 | Eugene, A., C. Lapierre and J. Ralph | Improved analysis of arabinoxylan-bound hydroxycinnamate conjugates in grass cell walls | Biotechnology for Biofuels | 13(1) |
| 2020 | 10.1038/s41396-020-0638-y | Espino-Vázquez, A. N., J. R. Bermúdez-Barrientos, J. F. Cabrera-Rangel, G. Córdova-López, F. Cardoso-Martínez, A. Martínez-Vázquez, D. A. Camarena-Pozos, S. J. Mondo, T. E. Pawlowska, C. Abreu-Goodger and L. P. Partida-Martínez | Narnaviruses: novel players in fungal–bacterial symbioses | The ISME Journal | 14(7) 1743-1754 |
| 2020 | 10.1038/s41467-020-18630-2 | Espah Borujeni, A., J. Zhang, H. Doosthosseini, A. A. K. Nielsen and C. A. Voigt | Genetic circuit characterization by inferring RNA polymerase movement and ribosome usage | Nature Communications | 11(1) 5001 |
| 2020 | 10.1016/j.mec.2019.e00115 | Eng, T., Y. Sasaki, R. A. Herbert, A. Lau, J. Trinh, Y. Chen, M. Mirsiaghi, C. J. Petzold and A. Mukhopadhyay | Production of tetra-methylpyrazine using engineered Corynebacterium glutamicum | Metabolic Engineering Communications | 10 e00115 |
| 2020 | 10.3389/fmicb.2020.01742 | Eng, T., R. A. Herbert, U. Martinez, B. Wang, J. C. Chen, J. B. Brown, A. M. Deutschbauer, M. J. Bissell, J. C. Mortimer and A. Mukhopadhyay | Iron Supplementation Eliminates Antagonistic Interactions Between Root-Associated Bacteria | Frontiers in Microbiology | 11 |
| 2020 | Eminoglu, A., D. G. Olson and L. R. Lynd | Increased ethanol production by thermophilic microorganisms with deletion of individual hfs hydrogenase subunits | |||
| 2020 | 10.1016/j.biombioe.2019.105452 | Emery, S. M., K. A. Stahlheber and K. L. Gross | Drought minimized nitrogen fertilization effects on bioenergy feedstock quality | Biomass and Bioenergy | 133 105452 |
| 2020 | 10.7717/peerj.8102 | Elufisan, T. O., I. C. Rodriguez-Luna, O. O. Oyedara, A. Sanchez-Varela, A. Hernandez-Mendoza, E. Dantan Gonzalez, A. D. Paz-Gonzalez, K. Muhammad, G. Rivera, M. A. Villalobos-Lopez and X. Guo | The Polycyclic Aromatic Hydrocarbon (PAH) degradation activities and genome analysis of a novel strain Stenotrophomonas sp. Pemsol isolated from Mexico | PeerJ | 8 e8102 |
| 2020 | 10.1111/tpj.14696 | Ellsworth, P. Z., M. J. Feldman, I. Baxter and A. B. Cousins | A genetic link between leaf carbon isotope composition and whole-plant water use efficiency in the C4 grass Setaria | Plant Journal | 102(6) 1234-1248 |
| 2020 | 10.1186/s12864-020-6615-z | Ellis, J. C. | P finder: genomic and metagenomic annotation of RNase P RNA gene (rnpB) | BMC Genomics | 21(1) 334 |
| 2020 | 10.1021/acssuschemeng.0c02880 | Elder, T., J. C. Del Río, J. Ralph, J. Rencoret, H. Kim, G. T. Beckham and M. F. Crowley | Coupling and Reactions of Lignols and New Lignin Monomers: A Density Functional Theory Study | ACS Sustainable Chemistry and Engineering | 8(30) 11033-11045 |
| 2020 | 10.1128/mra.01087-19 | Eichorst, S. A., D. Trojan, M. Huntemann, A. Clum, M. Pillay, et al. | One Complete and Seven Draft Genome Sequences of Subdivision 1 and 3 Acidobacteria Isolated from Soil | Microbiology Resource Announcements | 9(5) |
| 2020 | 10.1021/acssynbio.9b00402 | Eiben, C. B., T. Tian, M. G. Thompson, D. Mendez-Perez, N. Kaplan, G. Goyal, J. Chiniquy, N. J. Hillson, T. S. Lee and J. D. Keasling | Adenosine Triphosphate and Carbon Efficient Route to Second Generation Biofuel Isopentanol | ACS Synthetic Biology | 9(3) 468–74 |
| 2020 | 10.1094/pbiomes-02-20-0019-r | Eckshtain-Levi, N., S. L. Harris, R. Q. Roscios and E. A. Shank | Bacterial Community Members Increase Bacillus subtilis Maintenance on the Roots of Arabidopsis thaliana | Phytobiomes Journal | 4(4) 303–13 |
| 2020 | 10.2172/1614826 | Dunbar, J. M., P. S. G. Chain, M. B. N. Albright, J. Babilonia, M. E. Kroeger, D. P. Morales, A. J. Robinson, R. E. McDonald and S. Iyer | Microbiome to Function: Next Generation Eco-Microbiology Workshop Report | Journal | |
| 2020 | 10.1016/j.ymben.2020.05.006 | Dudley, Q. M., A. S. Karim, C. J. Nash and M. C. Jewett | In vitro prototyping of limonene biosynthesis using cell-free protein synthesis | Metabolic Engineering | 61 251–60 |
| 2020 | 10.3389/fmicb.2020.01528 | Dove, N. C., T. J. Rogers, C. Leppanen, D. Simberloff, J. A. Fordyce, V. A. Brown, A. V. LeBude, T. G. Ranney and M. A. Cregger | Microbiome Variation Across Two Hemlock Species With Hemlock Woolly Adelgid Infestation | Frontiers in Microbiology | 11 1528 |
| 2020 | 10.1364/ol.45.003087 | Doughty, B., U. I. Premadasa, J. F. Cahill, A. B. Webb, J. L. Morrell-Falvey, M. Khalid, S. T. Retterer and Y. Z. Ma | Total internal reflection enabled wide-field coherent anti-Stokes Raman scattering microscopy | Opt Lett | 45(11) 3087-3090 |
| 2020 | 10.1038/s41396-019-0557-y | Doud, D. F. R., R. M. Bowers, F. Schulz, M. De Raad, K. Deng, et al. | Function-driven single-cell genomics uncovers cellulose-degrading bacteria from the rare biosphere | The ISME Journal | 14(3) 659–75 |
| 2020 | 10.1038/s41467-020-14981-y | Dong, O. X., S. Yu, R. Jain, N. Zhang, P. Q. Duong, C. Butler, Y. Li, A. Lipzen, J. A. Martin, K. W. Barry, J. Schmutz, L. Tian and P. C. Ronald | Marker-free carotenoid-enriched rice generated through targeted gene insertion using CRISPR-Cas9 | Nature Communications | 11(1) 1178 |
| 2020 | 10.1038/s41467-020-17502-z | Domeignoz-Horta, L. A., G. Pold, X. A. Liu, S. D. Frey, J. M. Melillo and K. M. DeAngelis | Microbial diversity drives carbon use efficiency in a model soil | Nature Communications | 11(1) 3684 |
| 2020 | 10.1128/AEM.00880-20 | Dirks, A. C. and R. D. Jackson | Community Structure of Arbuscular Mycorrhizal Fungi in Soils of Switchgrass Harvested for Bioenergy | Applied and Environmental Microbiology | 86(19) |
| 2020 | 10.1021/acschembio.9b00800 | Dippel, A. B., W. A. Anderson, J. H. Park, F. H. Yildiz and M. C. Hammond | Development of Ratiometric Bioluminescent Sensors for in Vivo Detection of Bacterial Signaling | ACS Chemical Biology | 15(4) 904-914 |
| 2020 | 10.1038/s41477-020-00787-9 | Ding, Y., P. R. Weckwerth, E. Poretsky, K. M. Murphy, J. Sims, et al. | Genetic elucidation of interconnected antibiotic pathways mediating maize innate immunity | Nature Plants | 6(11) 1375-1388 |
| 2020 | 10.1021/acscentsci.0c00662 | Ding, S.-Y. and E. A. Bayer | Understanding Cellulosome Interaction with Cellulose by High-Resolution Imaging | ACS Central Science | 6(7) 1034-1036 |
| 2020 | 10.1021/acssuschemeng.9b06637 | Dien, B. S., W. F. Anderson, M.-H. Cheng, J. E. Knoll, M. Lamb, P. J. O’Bryan, V. Singh, R. B. Sorensen, T. C. Strickland and P. J. Slininger | Field Productivities of Napier Grass for Production of Sugars and Ethanol | ACS Sustainable Chemistry & Engineering | 8(4) 2052–60 |
| 2020 | 10.3390/insects11040250 | Dharampal, P. S., L. Diaz-Garcia, M. A. B. Haase, J. Zalapa, C. R. Currie, C. T. Hittinger and S. A. Steffan | Microbial Diversity Associated with the Pollen Stores of Captive-Bred Bumble Bee Colonies | Insects | 11(4) |
| 2020 | 10.1016/j.tplants.2020.05.011 | Dewhirst, R. A., J. C. Mortimer and K. J. Jardine | Do Cell Wall Esters Facilitate Forest Response to Climate? | Trends in Plant Science | 25(8) 729–32 |
| 2020 | 10.1371/journal.pone.0227591 | Dewhirst, R. A., C. A. Afseth, C. Castanha, J. C. Mortimer and K. J. Jardine | Cell wall O-acetyl and methyl esterification patterns of leaves reflected in atmospheric emission signatures of acetic acid and methanol | PLOS ONE | 15(5) e0227591 |
| 2020 | 10.1073/pnas.1917110117 | Demir, B., T. Kropp, K. R. Rivera-Dones, E. B. Gilcher, G. W. Huber, M. Mavrikakis and J. A. Dumesic | A self-adjusting platinum surface for acetone hydrogenation | Proceedings of the National Academy of Sciences of the United States of America | 117(7) 3446–50 |
| 2020 | 10.1126/sciadv.aax8254 | Del Valle, I., T. M. Webster, H. Y. Cheng, J. E. Thies, A. Kessler, M. K. Miller, Z. T. Ball, K. R. MacKenzie, C. A. Masiello, J. J. Silberg and J. Lehmann | Soil organic matter attenuates the efficacy of flavonoid-based plant-microbe communication | Science Advances | 6(5) eaax8254 |
| 2020 | 10.1021/acssuschemeng.0c01109 | Del Río, J. C., J. Rencoret, A. Gutiérrez, T. Elder, H. Kim and J. Ralph | Lignin Monomers from beyond the Canonical Monolignol Biosynthetic Pathway: Another Brick in the Wall | ACS Sustainable Chemistry and Engineering | 8(13) 4997-5012 |
| 2020 | 10.1128/MRA.00614-20 | DeAngelis, K. M. and G. Pold | Genome Sequences of Frankineae sp. Strain MT45 and Jatrophihabitans sp. Strain GAS493, Two Actinobacteria Isolated from Forest Soil | Microbiology Resource Announcements | 9(38) |
| 2020 | 10.1111/1751-7915.13575 | De Vrieze, J., T. De Mulder, S. Matassa, J. Zhou, L. T. Angenent, N. Boon and W. Verstraete | Stochasticity in microbiology: managing unpredictability to reach the Sustainable Development Goals | Microbial Biotechnology | 13(4) 829–43 |
| 2020 | 10.1016/j.ydbio.2019.11.015 | de Vries, M., M. Carpinelli, E. Rutland, A. Hatzipantelis, D. Partridge, A. Auden, P. J. Anderson, B. De Groef, H. Wu, M. Osterwalder, A. Visel, S. M. Jane and S. Dworkin | Interrogating the Grainyhead-like 2 (Grhl2) genomic locus identifies an enhancer element that regulates palatogenesis in mouse | Developmental Biology | 459(2) 194-203 |
| 2020 | 10.1038/s41467-020-18822-w | De Meester, B., B. Madariaga Calderón, L. de Vries, J. Pollier, G. Goeminne, J. Van Doorsselaere, M. Chen, J. Ralph, R. Vanholme and W. Boerjan | Tailoring poplar lignin without yield penalty by combining a null and haploinsufficient CINNAMOYL-CoA REDUCTASE2 allele | Nature Communications | 11(1) 5020 |
| 2020 | 10.1016/j.biombioe.2020.105807 | Davis, M. R., D. Kainer, G. A. Tuskan, M. H. Langholtz, C. M. Hellwinckel, M. Shedden and L. Eaton | Modeled economic potential for Eucalyptus spp. production for jet fuel additives in the United States | Biomass and Bioenergy | 143 105807 |
| 2020 | 10.1016/j.cbpa.2020.04.001 | Davis, K. and T. S. Moon | Tailoring microbes to upgrade lignin | Current Opinion in Chemical Biology | 59 23-29 |
| 2020 | 10.1016/j.cels.2020.05.011 | Davis, J. E., K. D. Insigne, E. M. Jones, Q. A. Hastings, W. C. Boldridge and S. Kosuri | Dissection of c-AMP Response Element Architecture by Using Genomic and Episomal Massively Parallel Reporter Assays | Cell Systems | 11(1) 75-85.e7 |
| 2020 | 10.1016/j.ygeno.2020.08.022 | Dávila Costa, J. S., P. A. Hoskisson, P. Paterlini, C. M. Romero and A. Alvarez | Whole genome sequence of the multi-resistant plant growth-promoting bacteria Streptomyces sp. Z38 with potential application in agroindustry and bio-nanotechnology | Genomics | 112(6) 4684–89 |
| 2020 | 10.1089/ind.2020.29230.nda | Danielson, N., S. McKay, P. Bloom, J. Dunn, N. Jakel, T. Bauer, J. Hannon, M. C. Jewett and B. Shanks | Industrial Biotechnology - An Industry at an Inflection Point | Industrial Biotechnology | 16(6) 321-332 |
| 2020 | 10.1128/msystems.00098-20 | Danczak, R. E., R. A. Daly, M. A. Borton, J. C. Stegen, S. Roux, K. C. Wrighton and M. J. Wilkins | Ecological Assembly Processes Are Coordinated between Bacterial and Viral Communities in Fractured Shale Ecosystems | mSystems | 5(2) |
| 2020 | 10.1016/j.jbiotec.2019.11.014 | Daly, P., M. Peng, S. Casado López, A. Lipzen, V. Ng, V. R. Singan, M. Wang, I. V. Grigoriev, R. P. de Vries and M. R. Mäkelä | Mixtures of aromatic compounds induce ligninolytic gene expression in the wood-rotting fungus Dichomitus squalens | Journal of Biotechnology | 308 35-39 |
| 2020 | 10.1038/s41598-020-72387-8 | Dalia, T. N., J. L. Chlebek and A. B. Dalia | A modular chromosomally integrated toolkit for ectopic gene expression in Vibrio cholerae | Scientific Reports | 10(1) 15398 |
| 2020 | 10.3390/land9100398 | Dahlin, K. M., D. Akanga, D. L. Lombardozzi, D. E. Reed, G. Shirkey, C. Lei, M. Abraha and J. Chen | Challenging a Global Land Surface Model in a Local Socio-Environmental System | Land | 9(10) 398 |
| 2020 | 10.1038/s41598-020-76832-6 | Daguerre, Y., V. Basso, S. Hartmann-Wittulski, R. Schellenberger, L. Meyer, J. Bailly, A. Kohler, J. M. Plett, F. Martin and C. Veneault-Fourrey | The mutualism effector MiSSP7 of Laccaria bicolor alters the interactions between the poplar JAZ6 protein and its associated proteins | Scientific Reports | 10(1) 20362 |
| 2020 | 10.1128/AEM.01851-20 | Cyle, K. T., A. R. Klein, L. Aristilde and C. E. Martínez | Ecophysiological Study of Paraburkholderia sp. Strain 1N under Soil Solution Conditions: Dynamic Substrate Preferences and Characterization of Carbon Use Efficiency | Applied and Environmental Microbiology | 86(24) e01851-20 |
| 2020 | 10.1021/acs.biochem.0c00126 | Curran, S. C., J. H. Pereira, M. J. Baluyot, J. Lake, H. Puetz, D. J. Rosenburg, P. Adams and J. D. Keasling | Structure and Function of BorB, the Type II Thioesterase from the Borrelidin Biosynthetic Gene Cluster | Biochemistry | 59(16) 1630–9 |
| 2020 | 10.1002/jrs.6056 | Cupil‐Garcia, V., P. Strobbia, B. M. Crawford, H. N. Wang, H. Ngo, Y. Liu and T. Vo‐Dinh | Plasmonic nanoplatforms: From surface‐enhanced Raman scattering sensing to biomedical applications | Journal of Raman Spectroscopy | 52(2) 541–53 |
| 2020 | 10.1117/12.2552993 | Cupil-Garcia, V., P. Strobbia, Y. Ran, B. M. Crawford, H.-N. Wang, R. Zentella, T.-P. Sun and T. Vo-Dinh | Fiberoptics SERS sensors using plasmonic nanostar probes for detection of molecular biotargets | Proceedings of Plasmonics in Biology and Medicine XVII | 11257 112570O |
| 2020 | 10.3389/fenrg.2020.00072 | Cui, J. X., D. Stevenson, T. Korosh, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Developing a Cell-Free Extract Reaction (CFER) System in Clostridium thermocellum to Identify Metabolic Limitations to Ethanol Production | Frontiers in Energy Research | 8 |
| 2020 | 10.1016/j.mec.2020.e00122 | Cui, J., M. I. Maloney, D. G. Olson and L. R. Lynd | Conversion of phosphoenolpyruvate to pyruvate in Thermoanaerobacterium saccharolyticum | Metabolic Engineering Communications | 10 e00122 |
| 2020 | 10.1186/s12864-020-6489-0 | Cuevas, H. E. and L. K. Prom | Evaluation of genetic diversity, agronomic traits, and anthracnose resistance in the NPGS Sudan Sorghum Core collection | BMC Genomics | 21(1) 88 |
| 2020 | 10.1534/g3.120.401121 | Cruet-Burgos, C. M., H. E. Cuevas, L. K. Prom, J. E. Knoll, L. R. Stutts and W. Vermerris | Genomic Dissection of Anthracnose Colletotrichum sublineolum Resistance Response in Sorghum Differential Line SC112-14 | G3 Genes|Genomes|Genetics | 10(4) 1403–12 |
| 2020 | 10.1094/phyto-12-19-0478-a | Crouch, J. A., A. Dawe, A. Aerts, K. Barry, A. C. L. Churchill, et al. | Genome Sequence of the Chestnut Blight Fungus Cryphonectria parasitica EP155: A Fundamental Resource for an Archetypical Invasive Plant Pathogen | Phytopathology® | 110(6) 1180-1188 |
| 2020 | 10.1038/s41396-020-0655-x | Crits-Christoph, A., M. R. Olm, S. Diamond, K. Bouma-Gregson and J. F. Banfield | Soil bacterial populations are shaped by recombination and gene-specific selection across a grassland meadow | The ISME Journal | 14(7) 1834-1846 |
| 2020 | 10.1104/pp.19.00817 | Crisp, P. A., R. Hammond, P. Zhou, B. Vaillancourt, A. Lipzen, C. Daum, K. Barry, N. de Leon, C. R. Buell, S. M. Kaeppler, B. C. Meyers, C. N. Hirsch and N. M. Springer | Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids | Plant Physiology | 182(1) 318–31 |
| 2020 | 10.1007/s12010-019-03130-x | Crigler, J., M. A. Eiteman and E. Altman | Characterization of the Furfural and 5-Hydroxymethylfurfural (HMF) Metabolic Pathway in the Novel Isolate Pseudomonas putida ALS1267 | Applied Biochemistry and Biotechnology | 190(3) 918–30 |
| 2020 | 10.1088/2515-7647/ab9714 | Crawford, B. M., H. N. Wang, P. Strobbia, R. Zentella, Z. M. Pei, T. P. Sun and T. Vo-Dinh | Plasmonic Nanobiosensing: from in situ plant monitoring to cancer diagnostics at the point of care | Journal of Physics: Photonics | 2(3) |
| 2020 | 10.1111/tpj.14664 | Cousins, A. B., D. L. Mullendore and B. V. Sonawane | Recent developments in mesophyll conductance in C3, C4, and crassulacean acid metabolism plants | The Plant Journal | 101(4) 816–30 |
| 2020 | 10.1021/acssuschemeng.9b07040 | Cortes-Peña, Y., D. Kumar, V. Singh and J. S. Guest | BioSTEAM: A Fast and Flexible Platform for the Design, Simulation, and Techno-Economic Analysis of Biorefineries under Uncertainty | ACS Sustainable Chemistry and Engineering | 8(8) 3302-3310 |
| 2020 | 10.21105/joss.02814 | Cortés-Peña, Y. | Thermosteam: BioSTEAM's Premier Thermodynamic Engine | Journal of Open Source Software | 5(56) |
| 2020 | 10.1038/s42003-020-1047-5 | Cooper, C. J., K. Zheng, K. W. Rush, A. Johs, B. C. Sanders, G. A. Pavlopoulos, N. C. Kyrpides, M. Podar, S. Ovchinnikov, S. W. Ragsdale and J. M. Parks | Structure determination of the HgcAB complex using metagenome sequence data: insights into microbial mercury methylation | Communications Biology | 3(1) 320 |
| 2020 | 10.1128/mSystems.00516-19 | Contador, C. A., S. K. Lo, S. H. J. Chan and H. M. Lam | Metabolic Analyses of Nitrogen Fixation in the Soybean Microsymbiont Sinorhizobium fredii Using Constraint-Based Modeling | mSystems | 5(1) |
| 2020 | 10.3389/fenrg.2020.00093 | Comer, A. D., J. P. Abraham, A. J. Steiner, T. C. Korosh, A. L. Markley and B. F. Pfleger | Enhancing photosynthetic production of glycogen-rich biomass for use as a fermentation feedstock | Frontiers in Energy Research | 8 |
| 2020 | Collaborative, O. C. B. E. | 1.21: BioFuel Project | Lab Manual: Introduction to Biotechnology | ||
| 2020 | 10.1128/mra.01599-19 | Coleine, C., D. Albanese, S. Onofri, S. G. Tringe, C. Pennacchio, C. Donati, J. E. Stajich and L. Selbmann | Metagenomes in the Borderline Ecosystems of the Antarctic Cryptoendolithic Communities | Microbiology Resource Announcements | 9(10) |
| 2020 | 10.1038/s41579-020-0381-4 | Cole, B. J., J. T. R. Basso and A. Visel | Power in isolation: insights from single cells | Nature Reviews Microbiology | 18(7) 364 |
| 2020 | 10.3390/metabo10010030 | Cocuron, J. C., Z. Ross and A. P. Alonso | Liquid Chromatography Tandem Mass Spectrometry Quantification of 13C-Labeling in Sugars | Metabolites | 10(1) |
| 2020 | 10.1146/annurev-arplant-050718-100221 | Clark, T. J., L. Guo, J. Morgan and J. Schwender | Modeling Plant Metabolism: From Network Reconstruction to Mechanistic Models | Annual Review of Plant Biology | 71 303–26 |
| 2020 | 10.1007/978-1-0716-0195-2_2 | Chung, D., N. S. Sarai, M. E. Himmel and Y. J. Bomble | Genetics of Unstudied Thermophiles for Industry | Metabolic Pathway Engineering | 5–19 |
| 2020 | 10.1039/c9gc03524a | Chundawat, S. P. S., L. D. Sousa, S. Roy, Z. Yang, S. Gupta, R. Pal, C. Zhao, S. H. Liu, L. Petridis, H. O'Neill and S. V. Pingali | Ammonia-salt solvent promotes cellulosic biomass deconstruction under ambient pretreatment conditions to enable rapid soluble sugar production at ultra-low enzyme loadings | Green Chemistry | 22(1) 204–18 |
| 2020 | 10.3791/57488 | Chundawat, S. P. S., R. K. Pal, C. Zhao, T. Campbell, F. Teymouri, et al. | Ammonia fiber expansion (AFEX) pretreatment of lignocellulosic biomass | Journal of Visualized Experiments | 2020(158) |
| 2020 | 10.1128/mra.00895-20 | Chuckran, P. F., M. Huntemann, A. Clum, B. Foster, B. Foster, et al. | Metagenomes and Metatranscriptomes of a Glucose-Amended Agricultural Soil | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.1128/MRA.00895-20 | Chuckran, P. F., M. Huntemann, A. Clum, B. Foster, B. Foster, et al. | Metagenomes and Metatranscriptomes of a Glucose-Amended Agricultural Soil | Microbiology Resource Announcements | 9(44) |
| 2020 | 10.1016/j.micres.2020.126426 | Chroumpi, T., M. V. Aguilar-Pontes, M. Peng, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev, M. R. Mäkelä and R. P. de Vries | Identification of a gene encoding the last step of the L-rhamnose catabolic pathway in Aspergillus niger revealed the inducer of the pathway regulator | Microbiological Research | 234 126426 |
| 2020 | 10.1016/j.str.2020.08.003 | Chowdhury, R., M. J. Grisewood, V. S. Boorla, Q. Yan, B. F. Pfleger and C. D. Maranas | IPRO+/-: Computational Protein Design Tool Allowing for Insertions and Deletions | Structure | 28(12) 1344–57.e4 |
| 2020 | 10.1016/j.csbj.2020.09.019 | Chowdhury, R., V. S. Boorla and C. D. Maranas | Computational biophysical characterization of the SARS-CoV-2 spike protein binding with the ACE2 receptor and implications for infectivity | Computational and Structural Biotechnology Journal | 18 2573–82 |
| 2020 | 10.15252/msb.20199265 | Choudhury, A., J. A. Fenster, R. G. Fankhauser, J. L. Kaar, O. Tenaillon and R. T. Gill | CRISPR/Cas9 recombineering-mediated deep mutational scanning of essential genes in Escherichia coli | Molecular Systems Biology | 16(3) e9265 |
| 2020 | 10.1021/acssynbio.9b00440 | Choudhury, A., R. G. Fankhauser, E. F. Freed, E. J. Oh, A. B. Morgenthaler, M. C. Bassalo, S. D. Copley, J. L. Kaar and R. T. Gill | Determinants for Efficient Editing with Cas9-Mediated Recombineering in Escherichia coli | ACS Synthetic Biology | 9(5) 1083–99 |
| 2020 | 10.1007/978-1-0716-0195-2_4 | Chou, Y.-C., A. Singh, Q. Xu, M. E. Himmel and M. Zhang | Methods for Metabolic Engineering of a Filamentous Trichoderma reesei | Metabolic Pathway Engineering | 45–50 |
| 2020 | 10.3389/fpls.2020.545748 | Chhetri, H. B., A. Furches, D. Macaya-Sanz, A. R. Walker, D. Kainer, P. Jones, A. E. Harman-Ware, T. J. Tschaplinski, D. Jacobson, G. A. Tuskan and S. P. DiFazio | Genome-Wide Association Study of Wood Anatomical and Morphological Traits in Populus trichocarpa | Frontiers in Plant Science | 11 545748 |
| 2020 | 10.1021/acscatal.9b03460 | Chew, A. K., T. W. Walker, Z. Z. Shen, B. Demir, L. Witteman, J. Euclide, G. W. Huber, J. A. Dumesic and R. C. Van Lehn | Effect of Mixed-Solvent Environments on the Selectivity of Acid-Catalyzed Dehydration Reactions | ACS Catalysis | 10(3) 1679–91 |
| 2020 | 10.1039/d0sc03261a | Chew, A. K., S. Jiang, W. Zhang, V. M. Zavala and R. C. Van Lehn | Fast predictions of liquid-phase acid-catalyzed reaction rates using molecular dynamics simulations and convolutional neural networks | Chemical Science | 11(46) 12464–76 |
| 2020 | 10.1016/j.biortech.2020.123275 | Cheng, M. H., L. Sun, Y. S. Jin, B. Dien and V. Singh | Production of xylose enriched hydrolysate from bioenergy sorghum and its conversion to β-carotene using an engineered Saccharomyces cerevisiae | Bioresource Technology | 308 123275 |
| 2020 | 10.1016/j.biortech.2020.124051 | Cheng, M. H., H. J. Kadhum, G. S. Murthy, B. S. Dien and V. Singh | High solids loading biorefinery for the production of cellulosic sugars from bioenergy sorghum | Bioresource Technology | 318 124051 |
| 2020 | 10.1038/s41588-020-0614-5 | Chen, Z. J., A. Sreedasyam, A. Ando, Q. Song, L. M. De Santiago, et al. | Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement | Nature Genetics | 52(5) 525-533 |
| 2020 | 10.1038/s41564-020-0757-2 | Chen, Y., S. Zhang, E. M. Young, T. S. Jones, D. Densmore and C. A. Voigt | Genetic circuit design automation for yeast | Nature Microbiology | 5(11) 1349–60 |
| 2020 | 10.1016/j.copbio.2019.12.007 | Chen, Y., D. Banerjee, A. Mukhopadhyay and C. J. Petzold | Systems and synthetic biology tools for advanced bioproduction hosts | Current Opinion in Biotechnology | 64 101–9 |
| 2020 | 10.3389/fmicb.2020.00376 | Chen, M. L., E. D. Becraft, M. Pachiadaki, J. M. Brown, J. K. Jarett, J. M. Gasol, N. V. Ravin, D. P. Moser, T. Nunoura, G. J. Herndl, T. Woyke and R. Stepanauskas | Hiding in Plain Sight: The Globally Distributed Bacterial Candidate Phylum PAUC34f | Frontiers in Microbiology | 11 |
| 2020 | 10.1093/nar/gkaa939 | Chen, I.-M. A., K. Chu, K. Palaniappan, A. Ratner, J. Huang, et al. | The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities | Nucleic Acids Research | 49(D1) D751-D763 |
| 2020 | 10.1016/j.ymben.2020.03.007 | Cheah, Y. E., Y. Xu, S. A. Sacco, P. K. Babele, A. O. Zheng, C. H. Johnson and J. D. Young | Systematic identification and elimination of flux bottlenecks in the aldehyde production pathway of Synechococcus elongatus PCC 7942 | Metabolic Engineering | 60 56–65 |
| 2020 | 10.1016/j.copbio.2019.08.013 | Chatterjee, A., D. M. DeLorenzo, R. Carr and T. S. Moon | Bioconversion of renewable feedstocks by Rhodococcus opacus | Current Opinion in Biotechnology | 64 10–6 |
| 2020 | 10.1128/AEM.01271-20 | Charubin, K., H. Streett and E. T. Papoutsakis | Development of Strong Anaerobic Fluorescent Reporters for Clostridium acetobutylicum and Clostridium ljungdahlii Using HaloTag and SNAP-tag Proteins | Applied and Environmental Microbiology | 86(20) |
| 2020 | 10.1128/mBio.02030-20 | Charubin, K., S. Modla, J. L. Caplan and E. T. Papoutsakis | Interspecies Microbial Fusion and Large-Scale Exchange of Cytoplasmic Proteins and RNA in a Syntrophic Clostridium Coculture | mBio | 11(5) |
| 2020 | 10.1371/journal.pone.0233823 | Chaput, G., A. F. Billings, L. DeDiego, R. Orellana, J. N. Adkins, C. D. Nicora, Y.-M. Kim, R. Chu, B. Simmons and K. M. DeAngelis | Lignin induced iron reduction by novel sp., Tolumonas lignolytic BRL6-1 | PLOS ONE | 15(9) e0233823 |
| 2020 | 10.5194/bg-17-5849-2020 | Chang, K. Y., W. J. Riley, P. M. Crill, R. F. Grant and S. R. Saleska | Hysteretic temperature sensitivity of wetland CH4 fluxes explained by substrate availability and microbial activity | Biogeosciences | 17(22) 5849–60 |
| 2020 | 10.1002/cssc.202001471 | Chang, H., G. W. Huber and J. A. Dumesic | Chemical-Switching Strategy for Synthesis and Controlled Release of Norcantharimides from a Biomass-Derived Chemical | ChemSusChem | 13(19) 5213–9 |
| 2020 | 10.1039/d0gc01576h | Chang, H., I. Bajaj, G. W. Huber, C. T. Maravelias and J. A. Dumesic | Catalytic strategy for conversion of fructose to organic dyes, polymers, and liquid fuels | Green Chemistry | 22(16) 5285–95 |
| 2020 | 10.1111/tpj.14671 | Chakrabarti, M., L. de Lorenzo, S. E. Abdel-Ghany, A. S. N. Reddy and A. G. Hunt | Wide-ranging transcriptome remodelling mediated by alternative polyadenylation in response to abiotic stresses in Sorghum | Plant Journal | 102(5) 916-930 |
| 2020 | 10.1016/j.ymben.2019.03.005 | Chae, T. U., J. H. Ahn, Y.-S. Ko, J. W. Kim, J. A. Lee, E. H. Lee and S. Y. Lee | Metabolic engineering for the production of dicarboxylic acids and diamines | Metabolic Engineering | 58 2–16 |
| 2020 | 10.1128/mSystems.00252-20 | Catlett, J. L., J. Catazaro, M. Cashman, S. Carr, R. Powers, M. B. Cohen and N. R. Buan | Metabolic Feedback Inhibition Influences Metabolite Secretion by the Human Gut Symbiont Bacteroides thetaiotaomicron | mSystems | 5(5) |
| 2020 | 10.1016/j.dib.2020.105834 | Castro, J. C., J. D. Maddox, H. N. Rodríguez, C. G. Castro, S. A. Imán-Correa, M. Cobos, J. D. Paredes, J. L. Marapara, J. Braga and P. M. Adrianzén | Dataset of de novo assembly and functional annotation of the transcriptome during germination and initial growth of seedlings of Myrciaria Dubia “camu-camu” | Data in Brief | 31 105834 |
| 2020 | 10.3389/fmicb.2020.00341 | Casarrubia, S., E. Martino, S. Daghino, A. Kohler, E. Morin, H. R. Khouja, C. Murat, K. W. Barry, E. A. Lindquist, F. M. Martin and S. Perotto | Modulation of Plant and Fungal Gene Expression Upon Cd Exposure and Symbiosis in Ericoid Mycorrhizal Vaccinium myrtillus | Frontiers in Microbiology | 11 341 |
| 2020 | 10.3389/fmicb.2020.00341 | Casarrubia, S., E. Martino, S. Daghino, A. Kohler, E. Morin, H.-R. Khouja, C. Murat, K. W. Barry, E. A. Lindquist, F. M. Martin and S. Perotto | Modulation of Plant and Fungal Gene Expression Upon Cd Exposure and Symbiosis in Ericoid Mycorrhizal Vaccinium myrtillus | Frontiers in Microbiology | 11 |
| 2020 | 10.1038/s41467-020-17837-7 | Carrasco-López, C., E. M. Zhao, A. A. Gil, N. Alam, J. E. Toettcher and J. L. Avalos | Development of light-responsive protein binding in the monobody non-immunoglobulin scaffold | Nature Communications | 11(1) |
| 2020 | 10.1016/j.copbio.2020.07.012 | Carrasco-López, C., S. A. García-Echauri, T. Kichuk and J. L. Avalos | Optogenetics and biosensors set the stage for metabolic cybergenetics | Current Opinion in Biotechnology | 65 296-309 |
| 2020 | 10.1128/MRA.00351-20 | Carper, D. L., C. W. Schadt, L. H. Burdick, U. C. Kalluri and D. A. Pelletier | Draft Genome Sequence of Tumebacillus sp. Strain BK434, Isolated from the Roots of Eastern Cottonwood | Microbiology Resource Announcements | 9(22) |
| 2020 | 10.7717/peerj.8534 | Carper, D. L., T. J. Lawrence, A. A. Carrell, D. A. Pelletier and D. J. Weston | DISCo-microbe: design of an identifiable synthetic community of microbes | PeerJ | 8 e8534 |
| 2020 | 10.1038/s41396-020-0666-7 | Carlson, H. K., L. M. Lui, M. N. Price, A. E. Kazakov, A. V. Carr, J. V. Kuehl, T. K. Owens, T. Nielsen, A. P. Arkin and A. M. Deutschbauer | Selective carbon sources influence the end products of microbial nitrate respiration | The ISME Journal | 14(8) 2034–45 |
| 2020 | 10.1104/pp.19.00740 | Carey, L. M., T. J. Clark, R. R. Deshpande, J. C. Cocuron, E. K. Rustad and Y. Shachar-Hill | High Flux Through the Oxidative Pentose Phosphate Pathway Lowers Efficiency in Developing Camelina Seeds | Plant Physiology | 182(1) 493–506 |
| 2020 | 10.1016/j.ijbiomac.2020.06.226 | Cardinali-Rezende, J., A. Di Genova, R. A. T. P. S. Nahat, A. Steinbüchel, M.-F. Sagot, R. S. Costa, H. C. Oliveira, M. K. Taciro, L. F. Silva and J. G. C. Gomez | The relevance of enzyme specificity for coenzymes and the presence of 6-phosphogluconate dehydrogenase for polyhydroxyalkanoates production in the metabolism of Pseudomonas sp. LFM046 | International Journal of Biological Macromolecules | 163 240–50 |
| 2020 | 10.1038/s41594-020-0435-3 | Cao, Q., D. R. Boyer, M. R. Sawaya, P. Ge and D. S. Eisenberg | Cryo-EM structure and inhibitor design of human IAPP (amylin) fibrils | Nature Structural and Molecular Biology | 27(7) 653-659 |
| 2020 | 10.1111/biom.13144 | Cao, M., W. Zhou, F. J. Breidt and G. Peers | Large scale maximum average power multiple inference on time-course count data with application to RNA-seq analysis | Biometrics | 76(1) 9–22 |
| 2020 | 10.1016/j.copbio.2020.06.012 | Cao, M., V. G. Tran and H. Zhao | Unlocking nature's biosynthetic potential by directed genome evolution | Current Opinion in Biotechnology | 66 95-104 |
| 2020 | 10.1016/j.ymben.2020.01.005 | Cao, M., Z. Fatma, X. Song, P. H. Hsieh, V. G. Tran, W. L. Lyon, M. Sayadi, Z. Shao, Y. Yoshikuni and H. Zhao | A genetic toolbox for metabolic engineering of Issatchenkia orientalis | Metabolic Engineering | 59 87–97 |
| 2020 | 10.1016/j.ymben.2020.01.005 | Cao, M., Z. Fatma, X. Song, P.-H. Hsieh, V. G. Tran, W. L. Lyon, M. Sayadi, Z. Shao, Y. Yoshikuni and H. Zhao | A genetic toolbox for metabolic engineering of Issatchenkia orientalis | Metabolic Engineering | 59 87-97 |
| 2020 | 10.1021/acssuschemeng.9b07073 | Cao, H., J. D. Walton, P. Brumm and G. N. Phillips | Crystal Structure of α-Xylosidase from Aspergillus niger in Complex with a Hydrolyzed Xyloglucan Product and New Insights in Accurately Predicting Substrate Specificities of GH31 Family Glycosidases | ACS Sustainable Chemistry and Engineering | 8(6) 2540-2547 |
| 2020 | 10.1002/pro.3802 | Cannon, K. A., R. U. Park, S. E. Boyken, U. Nattermann, S. Yi, D. Baker, N. P. King and T. O. Yeates | Design and structure of two new protein cages illustrate successes and ongoing challenges in protein engineering | Protein Science | 29(4) 919–29 |
| 2020 | 10.1021/acssynbio.9b00392 | Cannon, K. A., V. N. Nguyen, C. Morgan and T. O. Yeates | Design and Characterization of an Icosahedral Protein Cage Formed by a Double-Fusion Protein Containing Three Distinct Symmetry Elements | ACS Synthetic Biology | 9(3) 517-524 |
| 2020 | 10.1021/jasms.0c00030 | Campuzano, I. D. G., M. Nshanian, C. Spahr, C. Lantz, C. Netirojjanakul, H. Li, P. Wongkongkathep, J. J. Wolff and J. A. Loo | High Mass Analysis with a Fourier Transform Ion Cyclotron Resonance Mass Spectrometer: From Inorganic Salt Clusters to Antibody Conjugates and beyond | Journal of the American Society for Mass Spectrometry | 31(5) 1155-1162 |
| 2020 | 10.1016/j.mec.2020.e00132 | Campos, D. T., C. Zuñiga, A. Passi, J. Del Toro, J. D. Tibocha-Bonilla, A. Zepeda, M. J. Betenbaugh and K. Zengler | Modeling of nitrogen fixation and polymer production in the heterotrophic diazotroph Azotobacter vinelandii DJ: Genome-scale metabolic modeling of Azotobacter vinelandii DJ | Metabolic Engineering Communications | 11 |
| 2020 | 10.1021/acscentsci.0c00241 | Calgaro-Kozina, A., K. M. Vuu, J. D. Keasling, D. Loqué, E. S. Sattely and P. M. Shih | Engineering Plant Synthetic Pathways for the Biosynthesis of Novel Antifungals | ACS Central Science | 6(8) 1394–400 |
| 2020 | 10.1074/jbc.RA120.014258 | Cai, Y., X. H. Yu, J. Chai, C. J. Liu and J. Shanklin | A conserved evolutionary mechanism permits Δ9 desaturation of very-long-chain fatty acyl lipids | Journal of Biological Chemistry | 295(32) 11337–45 |
| 2020 | 10.1016/j.pbi.2020.03.007 | Cahoon, E. B. and Y. Li-Beisson | Plant unusual fatty acids: learning from the less common | Current Opinion in Plant Biology | 55 66–73 |
| 2020 | 10.1021/jasms.9b00093 | Cahill, J. F., M. Khalid, S. T. Retterer, C. L. Walton and V. Kertesz | In Situ Chemical Monitoring and Imaging of Contents within Microfluidic Devices Having a Porous Membrane Wall Using Liquid Microjunction Surface Sampling Probe Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 31(4) 832-839 |
| 2020 | 10.1002/bmb.21428 | Burley, S. K., Y. Bromberg, P. Craig, S. Duffy, S. Dutta, et al. | Virtual Boot Camp: COVID-19 evolution and structural biology | Biochemistry and Molecular Biology Education | 48(5) 511-513 |
| 2020 | 10.1371/journal.pone.0234839 | Buongiorno, J., K. Sipes, K. Wasmund, A. Loy and K. G. Lloyd | Woeseiales transcriptional response to shallow burial in Arctic fjord surface sediment | PLoS One | 15(8) e0234839 |
| 2020 | 10.1099/ijsem.0.004316 | Buhl, M. and M. Marschal | Prevotella vespertina sp. nov., isolated from an abscess of a hospital patient | International Journal of Systematic and Evolutionary Microbiology | 70(8) 4576–82 |
| 2020 | 10.1016/j.chemgeo.2020.119808 | Bryant, R. N., C. Jones, M. R. Raven, J. D. Owens and D. A. Fike | Shifting modes of iron sulfidization at the onset of OAE-2 drive regional shifts in pyrite δ34S records | Chemical Geology | 553 |
| 2020 | 10.1016/j.tplants.2020.03.008 | Bryant, N. D., Y. Pu, T. J. Tschaplinski, G. A. Tuskan, W. Muchero, U. C. Kalluri, C. G. Yoo and A. J. Ragauskas | Transgenic Poplar Designed for Biofuels | Trends in Plant Science | 25(9) 881–96 |
| 2020 | 10.1002/slct.202000406 | Bryant, N., C. G. Yoo, Y. Q. Pu and A. J. Ragauskas | 2D HSQC Chemical Shifts of Impurities from Biomass Pretreatment | ChemistrySelect | 5(11) 3359–64 |
| 2020 | 10.1371/journal.pone.0222691 | Bruns, T. D., J. A. Chung, A. A. Carver and S. I. Glassman | A simple pyrocosm for studying soil microbial response to fire reveals a rapid, massive response by Pyronema species | PLoS One | 15(3) e0222691 |
| 2020 | 10.1039/c9gc03062j | Brunecky, R., V. Subramanian, J. M. Yarbrough, B. S. Donohoe, T. B. Vinzant, T. A. Vanderwall, B. C. Knott, Y. B. Chaudhari, Y. J. Bomble, M. E. Himmel and S. R. Decker | Synthetic fungal multifunctional cellulases for enhanced biomass conversion | Green Chemistry | 22(2) 478–89 |
| 2020 | 10.1002/jeq2.20082 | Brown, S., M. Pannu and S. C. Fransen | Greener gas? Impact of biosolids on carbon intensity of switchgrass ethanol | Journal of Environmental Quality | 49(4) 1032-1043 |
| 2020 | 10.1534/g3.119.400921 | Brenton, Z. W., B. T. Juengst, E. A. Cooper, M. T. Myers, K. E. Jordan, S. M. Dale, J. C. Glaubitz, X. Wang, R. E. Boyles, E. L. Connolly and S. Kresovich | Species-Specific Duplication Event Associated with Elevated Levels of Nonstructural Carbohydrates in Sorghum bicolor | G3 Genes|Genomes|Genetics | 10(5) 1511-1520 |
| 2020 | 10.3389/fmicb.2020.00076 | Bratburd, J. R., R. A. Arango and H. A. Horn | Defensive Symbioses in Social Insects Can Inform Human Health and Agriculture | Frontiers in Microbiology | 11 76 |
| 2020 | 10.3389/fpls.2020.00282 | Brandon, A. G. and H. V. Scheller | Engineering of Bioenergy Crops: Dominant Genetic Approaches to Improve Polysaccharide Properties and Composition in Biomass | Frontiers in Plant Science | 11 282 |
| 2020 | 10.1111/pbi.13198 | Brandon, A. G., D. S. Birdseye and H. V. Scheller | A dominant negative approach to reduce xylan in plants | Plant Biotechnology Journal | 18(1) 5–7 |
| 2020 | 10.1007/s00122-020-03659-0 | Bragg, J., P. Tomasi, L. Zhang, T. Williams, D. Wood, J. T. Lovell, A. Healey, J. Schmutz, J. E. Bonnette, P. Cheng, L. Chanbusarakum, T. Juenger and C. M. Tobias | Environmentally responsive QTL controlling surface wax load in switchgrass | Theoretical and Applied Genetics | 133(11) 3119–37 |
| 2020 | 10.1073/pnas.1917914117 | Boyer, D. R., B. Li, C. Sun, W. Fan, K. Zhou, M. P. Hughes, M. R. Sawaya, L. Jiang and D. S. Eisenberg | The α-synuclein hereditary mutation E46K unlocks a more stable, pathogenic fibril structure | Proceedings of the National Academy of Sciences of the United States of America | 117(7) 3592–602 |
| 2020 | 10.1105/TPC.19.00481 | Boxall, S. F., N. Kadu, L. V. Dever, J. Knerová, J. L. Waller, P. J. D. Gould and J. Hartwell | Kalanchoë PPC1 is essential for crassulacean acid metabolism and the regulation of core circadian clock and guard cell signaling genes[CC-BY] | Plant Cell | 32(4) 1136-1160 |
| 2020 | 10.1073/pnas.2007413117 | Bowman, E. K., M. Deaner, J.-F. Cheng, R. Evans, E. Oberortner, Y. Yoshikuni and H. S. Alper | Bidirectional titration of yeast gene expression using a pooled CRISPR guide RNA approach | Proceedings of the National Academy of Sciences | 117(31) 18424-18430 |
| 2020 | 10.1016/j.tibtech.2019.12.024 | Bowie, J. U., S. Sherkhanov, T. P. Korman, M. A. Valliere, P. H. Opgenorth and H. Liu | Synthetic Biochemistry: The Bio-inspired Cell-Free Approach to Commodity Chemical Production | Trends in Biotechnology | 38(7) 766–78 |
| 2020 | 10.1111/tpj.14869 | Borowska-Zuchowska, N., A. Kovarik, E. Robaszkiewicz, M. Tuna, G. S. Tuna, S. Gordon, J. P. Vogel and R. Hasterok | The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum | The Plant Journal | 103(5) 1810-1825 |
| 2020 | 10.1088/1361-6420/ab6e78 | Borges, C. and G. Biros | A Domain Decomposition Preconditioning for an Inverse Volume Scattering Problem | Inverse Problems | 36(3) |
| 2020 | 10.1073/pnas.2001637117 | Boratto, P. V. M., G. P. Oliveira, T. B. Machado, A. C. S. P. Andrade, J.-P. Baudoin, T. Klose, F. Schulz, S. Azza, P. Decloquement, E. Chabrière, P. Colson, A. Levasseur, B. La Scola and J. S. Abrahão | Yaravirus: A novel 80-nm virus infecting Acanthamoeba castellanii | Proceedings of the National Academy of Sciences | 117(28) 16579-16586 |
| 2020 | 10.1007/978-1-0716-0195-2_1 | Bomble, Y. J. and M. E. Himmel | Overview and Future Directions | Metabolic Pathway Engineering | 1–3 |
| 2020 | 10.1038/s41396-020-0617-3 | Blazewicz, S. J., B. A. Hungate, B. J. Koch, E. E. Nuccio, E. Morrissey, E. L. Brodie, E. Schwartz, J. Pett-Ridge and M. K. Firestone | Taxon-specific microbial growth and mortality patterns reveal distinct temporal population responses to rewetting in a California grassland soil | The ISME Journal | 14(6) 1520–32 |
| 2020 | 10.1021/jacs.9b09187 | Blake-Hedges, J. M., J. H. Pereira, P. Cruz-Morales, M. G. Thompson, J. F. Barajas, et al. | Structural Mechanism of Regioselectivity in an Unusual Bacterial Acyl-CoA Dehydrogenase | Journal of the American Chemical Society | 142(2) 835–46 |
| 2020 | 10.1371/journal.pcbi.1008502 | Bittrich, S., S. K. Burley and A. S. Rose | Real-time structural motif searching in proteins using an inverted index strategy | PLoS Computational Biology | 16(12) |
| 2020 | 10.1038/s41564-020-0694-0 | Bittinger, K., C. Zhao, Y. Li, E. Ford, E. S. Friedman, et al. | Bacterial colonization reprograms the neonatal gut metabolome | Nature Microbiology | 5(6) 838–47 |
| 2020 | 10.1016/j.rhisph.2020.100259 | Bilyera, N., I. Kuzyakova, A. Guber, B. S. Razavi and Y. Kuzyakov | How “hot” are hotspots: Statistically localizing the high-activity areas on soil and rhizosphere images | Rhizosphere | 16 |
| 2020 | 10.1002/lno.11301 | Bier, R. L., J. J. Wernegreen, R. J. Vilgalys, J. C. Ellis and E. S. Bernhardt | Subsidized or stressed? Shifts in freshwater benthic microbial metagenomics along a gradient of alkaline coal mine drainage | Limnology and Oceanography | 65(S1) S277–92 |
| 2020 | 10.1021/acs.jpclett.0c00485 | Bhattarai, A., B. T. O’Callahan, C.-F. Wang, S. Wang and P. Z. El-Khoury | Spatio-Spectral Characterization of Multipolar Plasmonic Modes of Au Nanorods via Tip-Enhanced Raman Scattering | The Journal of Physical Chemistry Letters | 11(8) 2870-2874 |
| 2020 | 10.1021/acs.jpclett.0c00305 | Bhattarai, A., K. T. Crampton, A. G. Joly, C. F. Wang, Z. D. Schultz and P. Z. El-Khoury | A Closer Look at Corrugated Au Tips | J Phys Chem Lett | 11(5) 1915-1920 |
| 2020 | 10.1021/acs.jpclett.0c00217 | Bhattarai, A., Z. Cheng, A. G. Joly, I. V. Novikova, J. E. Evans, Z. D. Schultz, M. R. Jones and P. Z. El-Khoury | Tip-Enhanced Raman Nanospectroscopy of Smooth Spherical Gold Nanoparticles | The Journal of Physical Chemistry Letters | 11(5) 1795-1801 |
| 2020 | 10.1128/mSystems.00645-19 | Bhattacharjee, A., D. Velickovic, T. W. Wietsma, S. L. Bell, J. K. Jansson, K. S. Hofmockel and C. R. Anderton | Visualizing Microbial Community Dynamics via a Controllable Soil Environment | mSystems | 5(1) |
| 2020 | 10.1016/j.soilbio.2020.108037 | Bhattacharjee, A., A. M. Thompson, K. C. Schwarz, M. C. Burnet, Y. M. Kim, et al. | Soil microbial EPS resiliency is influenced by carbon source accessibility | Soil Biology and Biochemistry | 151 |
| 2020 | 10.1016/j.biortech.2019.122724 | Bhatia, S. K., S. S. Jagtap, A. A. Bedekar, R. K. Bhatia, A. K. Patel, D. Pant, J. Rajesh Banu, C. V. Rao, Y. G. Kim and Y. H. Yang | Recent developments in pretreatment technologies on lignocellulosic biomass: Effect of key parameters, technological improvements, and challenges | Bioresource Technology | 300 122724 |
| 2020 | 10.1016/j.pbi.2020.09.003 | Bhandari, D. D. and F. Brandizzi | Plant endomembranes and cytoskeleton: moving targets in immunity | Current Opinion in Plant Biology | 58 8–16 |
| 2020 | 10.1016/j.plantsci.2020.110675 | Beuchat, G., X. Xue and L. Q. Chen | Review: The Next Steps in Crop Improvement: Adoption of Emerging Strategies to Identify Bottlenecks in Sugar Flux | Plant Science | 301 110675 |
| 2020 | 10.1039/D0NA00017E | Bertram, J. R., Y. Ding and P. Nagpal | Gold nanoclusters cause selective light-driven biochemical catalysis in living nano-biohybrid organisms | Nanoscale Advances | 2(6) 2363–70 |
| 2020 | 10.1007/s11240-020-01897-0 | Berim, A. and D. R. Gang | Extractability, stability, and accumulation of nepetoidins in Ocimum basilicum L. leaves and cell cultures | Plant Cell, Tissue and Organ Culture | 143(1) 75-85 |
| 2020 | 10.1038/s41467-020-15704-z | Beri, D., W. S. York, L. R. Lynd, M. J. Peña and C. D. Herring | Development of a thermophilic coculture for corn fiber conversion to ethanol | Nature Communications | 11(1) 1937 |
| 2020 | 10.1186/s40168-020-00875-0 | Berg, G., D. Rybakova, D. Fischer, T. Cernava, M.-C. C. Vergès, et al. | Microbiome definition re-visited: old concepts and new challenges | Microbiome | 8(1) 103 |
| 2020 | 10.1111/gcbb.12730 | Berardi, D., E. Brzostek, E. Blanc‐Betes, B. Davison, E. H. DeLucia, M. D. Hartman, J. Kent, W. J. Parton, D. Saha and T. W. Hudiburg | 21st‐century biogeochemical modeling: Challenges for Century‐based models and where do we go from here? | GCB Bioenergy | 12(10) 774–88 |
| 2020 | 10.1371/journal.pone.0237368 | Benucci, G. M. N., B. Rennick and G. Bonito | Patient propagules: Do soil archives preserve the legacy of fungal and prokaryotic communities? | PLoS One | 15(8) e0237368 |
| 2020 | 10.1371/journal.ppat.1008211 | Ben Maamar, S., A. J. Glawe, T. K. Brown, N. Hellgeth, J. Hu, J. P. Wang, C. Huttenhower and E. M. Hartmann | Mobilizable antibiotic resistance genes are present in dust microbial communities | PLoS Pathogens | 16(1) e1008211 |
| 2020 | 10.1128/mra.01361-19 | Bell, T. H., R. V. Trexler, X. Peng, M. Huntemann, A. Clum, et al. | Metatranscriptomic Sequencing of a Cyanobacterial Soil-Surface Consortium with and without a Diverse Underlying Soil Microbiome | Microbiology Resource Announcements | 9(1) |
| 2020 | 10.1038/s41589-020-0547-4 | Belcher, M. S., K. M. Vuu, A. Zhou, N. Mansoori, A. Agosto Ramos, M. G. Thompson, H. V. Scheller, D. Loqué and P. M. Shih | Design of orthogonal regulatory systems for modulating gene expression in plants | Nature Chemical Biology | 16(8) 857–65 |
| 2020 | 10.1016/j.copbio.2020.02.001 | Belcher, M. S., J. Mahinthakumar and J. D. Keasling | New frontiers: harnessing pivotal advances in microbial engineering for the biosynthesis of plant-derived terpenoids | Current Opinion in Biotechnology | 65 88–93 |
| 2020 | 10.1111/mec.15656 | Beier, S., A. F. Andersson, P. E. Galand, C. Hochart, J. B. Logue, K. McMahon and S. Bertilsson | The environment drives microbial trait variability in aquatic habitats | Molecular Ecology | 29(23) 4605-4617 |
| 2020 | 10.1007/s00572-020-00976-6 | Behr, M., F. Baldacci-Cresp, A. Kohler, K. Morreel, G. Goeminne, R. Van Acker, C. Veneault-Fourrey, A. Mol, G. Pilate, W. Boerjan, J. de Almeida Engler, M. El Jaziri and M. Baucher | Alterations in the phenylpropanoid pathway affect poplar ability for ectomycorrhizal colonisation and susceptibility to root-knot nematodes | Mycorrhiza | 30(5) 555–66 |
| 2020 | 10.1038/s41396-020-00828-3 | Bayer, B., M. A. Saito, M. R. McIlvin, S. Lücker, D. M. Moran, T. S. Lankiewicz, C. L. Dupont and A. E. Santoro | Metabolic versatility of the nitrite-oxidizing bacterium Nitrospira marina and its proteomic response to oxygen-limited conditions | The ISME Journal | 15(4) 1025-1039 |
| 2020 | 10.1016/j.pbi.2020.01.006 | Baxter, I. | We aren't good at picking candidate genes, and it's slowing us down | Current Opinion in Plant Biology | 54 57-60 |
| 2020 | 10.1007/978-1-0716-0142-6_4 | Basso, V. and C. Veneault-Fourrey | Role of Jasmonates in Beneficial Microbe-Root Interactions | Methods in Molecular Biology | 2085 43–67 |
| 2020 | 10.1111/pce.13702 | Basso, V., A. Kohler, S. Miyauchi, V. Singan, F. Guinet, et al. | An ectomycorrhizal fungus alters sensitivity to jasmonate, salicylate, gibberellin, and ethylene in host roots | Plant Cell & Environment | 43(4) 1047–68 |
| 2020 | 10.1038/s41893-020-0510-0 | Basso, B. and J. Antle | Digital agriculture to design sustainable agricultural systems | Nature Sustainability | 3(4) 254-256 |
| 2020 | 10.5194/bg-17-1293-2020 | Basile, S. J., X. Lin, W. R. Wieder, M. D. Hartman and G. Keppel-Aleks | Leveraging the signature of heterotrophic respiration on atmospheric CO2 for model benchmarking | Biogeosciences | 17(5) 1293–308 |
| 2020 | 10.3389/fmicb.2020.601788 | Barua, N., A. M. Herken, K. R. Stern, S. Reese, R. L. Powers, J. L. Morrell-Falvey, T. G. Platt and R. R. Hansen | Simultaneous Discovery of Positive and Negative Interactions Among Rhizosphere Bacteria Using Microwell Recovery Arrays | Frontiers in Microbiology | 11 601788 |
| 2020 | 10.3390/genes11010102 | Barthel, S., S. Palluk, N. J. Hillson, J. D. Keasling and D. H. Arlow | Enhancing Terminal Deoxynucleotidyl Transferase Activity on Substrates with 3′ Terminal Structures for Enzymatic De Novo DNA Synthesis | Genes | 11(1) 102 |
| 2020 | 10.3390/genes11010102 | Barthel, S., S. Palluk, N. J. Hillson, J. D. Keasling and D. H. Arlow | Enhancing Terminal Deoxynucleotidyl Transferase Activity on Substrates with 3' Terminal Structures for Enzymatic De Novo DNA Synthesis | Genes | 11(1) |
| 2020 | 10.1016/j.tplants.2019.09.011 | Barros, J. and R. A. Dixon | Plant Phenylalanine/Tyrosine Ammonia-lyases | Trends in Plant Science | 25(1) 66–79 |
| 2020 | 10.1089/crispr.2020.29085.rba | Barrangou, R. | Ushering in the Next CRISPR Decade | The CRISPR Journal | 3(1) 2 |
| 2020 | 10.1093/femsec/fiz194 | Barnett, S. E., N. D. Youngblut and D. H. Buckley | Soil characteristics and land-use drive bacterial community assembly patterns | FEMS Microbiology Ecology | 96(1) |
| 2020 | 10.1186/s12859-020-3372-6 | Barnett, S. E. and D. H. Buckley | Simulating metagenomic stable isotope probing datasets with MetaSIPSim | BMC Bioinformatics | 21(1) 37 |
| 2020 | 10.1016/j.soilbio.2020.107819 | Barnard, R. L., S. J. Blazewicz and M. K. Firestone | Rewetting of soil: Revisiting the origin of soil CO2 emissions | Soil Biology and Biochemistry | 147 |
| 2020 | 10.1111/1462-2920.14873 | Barbi, F., A. Kohler, K. Barry, P. Baskaran, C. Daum, et al. | Fungal ecological strategies reflected in gene transcription - a case study of two litter decomposers | Environmental Microbiology | 22(3) 1089-1103 |
| 2020 | 10.1016/j.rser.2019.109619 | Baral, N. R., P. Neupane, B. B. Ale, C. Quiroz-Arita, S. Manandhar and T. H. Bradley | Stochastic economic and environmental footprints of biodiesel production from Jatropha curcas Linnaeus in the different federal states of Nepal | Renewable and Sustainable Energy Reviews | 120 109619 |
| 2020 | 10.1021/acssuschemeng.0c03784 | Baral, N. R., J. Dahlberg, D. Putnam, J. C. Mortimer and C. D. Scown | Supply Cost and Life-Cycle Greenhouse Gas Footprint of Dry and Ensiled Biomass Sorghum for Biofuel Production | ACS Sustainable Chemistry & Engineering | 8(42) 15855–64 |
| 2020 | 10.1073/pnas.1918539117 | Bao, Y., W. M. Song, P. Wang, X. Yu, B. Li, C. Jiang, S. H. Shiu, H. Zhang and D. C. Bassham | COST1 regulates autophagy to control plant drought tolerance | Proceedings of the National Academy of Sciences of the United States of America | 117(13) 7482–93 |
| 2020 | 10.1002/cpmc.130 | Banta, A. B., R. D. Ward, J. S. Tran, E. E. Bacon and J. M. Peters | Programmable Gene Knockdown in Diverse Bacteria Using Mobile-CRISPRi | Current Protocols in Microbiology | 59(1) e130 |
| 2020 | 10.1128/AEM.01621-20 | Banta, A. B., A. L. Enright, C. Siletti and J. M. Peters | A High-Efficacy CRISPR Interference System for Gene Function Discovery in Zymomonas mobilis | Applied and Environmental Microbiology | 86(23) |
| 2020 | 10.1128/mBio.00351-20 | Banerjee, R., E. Weisenhorn, K. J. Schwartz, K. S. Myers, J. D. Glasner, N. T. Perna, J. J. Coon, R. A. Welch and P. J. Kiley | Tailoring a Global Iron Regulon to a Uropathogen | mBio | 11(2) |
| 2020 | 10.1038/s41467-020-19171-4 | Banerjee, D., T. Eng, A. K. Lau, Y. Sasaki, B. Wang, Y. Chen, J.-P. Prahl, V. R. Singan, R. A. Herbert, Y. Liu, D. Tanjore, C. J. Petzold, J. D. Keasling and A. Mukhopadhyay | Genome-scale metabolic rewiring improves titers rates and yields of the non-native product indigoidine at scale | Nature Communications | 11(1) 5385 |
| 2020 | 10.1038/s41477-020-00762-4 | Banda, D. M., J. H. Pereira, A. K. Liu, D. J. Orr, M. Hammel, C. He, M. A. J. Parry, E. Carmo-Silva, P. D. Adams, J. F. Banfield and P. M. Shih | Novel bacterial clade reveals origin of form I Rubisco | Nature Plants | 6(9) 1158–66 |
| 2020 | 10.3390/ijms21020406 | Baldacci-Cresp, F., M. Behr, A. Kohler, N. Badalato, K. Morreel, G. Goeminne, A. Mol, J. de Almeida Engler, W. Boerjan, M. El Jaziri and M. Baucher | Molecular Changes Concomitant with Vascular System Development in Mature Galls Induced by Root-Knot Nematodes in the Model Tree Host Populus tremula × P. alba | International Journal of Molecular Sciences | 21(2) 406 |
| 2020 | 10.1093/bioinformatics/btaa1075 | Baisya, D. R. and S. Lonardi | Prediction Of Histone Post-Translational Modifications Using Deep Learning | Bioinformatics | 36(24) 5160–7 |
| 2020 | 10.1515/jib-2020-0017 | Baig, H., P. Fontanarrosa, V. Kulkarni, J. A. McLaughlin, P. Vaidyanathan, et al. | Synthetic biology open language (SBOL) version 3.0.0 | Journal of Integrative Bioinformatics | 17(45691) |
| 2020 | 10.1007/s12155-020-10090-2 | Bahri, B. A., G. Daverdin, X. Y. Xu, J. F. Cheng, K. W. Barry, E. C. Brummer, A. Missaoui and K. M. Devos | Natural Variation in Lignin and Pectin Biosynthesis-Related Genes in Switchgrass (Panicum virgatum L.) and Association of SNP Variants with Dry Matter Traits | BioEnergy Research | 13(1) 79–99 |
| 2020 | 10.1007/s12155-020-10090-2 | Bahri, B. A., G. Daverdin, X. Xu, J.-F. Cheng, K. W. Barry, E. C. Brummer, A. Missaoui and K. M. Devos | Natural Variation in Lignin and Pectin Biosynthesis-Related Genes in Switchgrass (Panicum virgatum L.) and Association of SNP Variants with Dry Matter Traits | BioEnergy Research | 13(1) 79-99 |
| 2020 | 10.1080/09670262.2019.1664769 | Badis, Y., T. A. Klochkova, J. Brakel, P. Arce, M. Ostrowski, S. G. Tringe, G. H. Kim and C. M. M. Gachon | Hidden diversity in the oomycete genus Olpidiopsis is a potential hazard to red algal cultivation and conservation worldwide | European Journal of Phycology | 55(2) 162-171 |
| 2020 | 10.1002/wsbm.1472 | Babele, P. K. and J. D. Young | Applications of stable isotope-based metabolomics and fluxomics toward synthetic biology of cyanobacteria | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 12(3) e1472 |
| 2020 | 10.1016/j.tig.2020.03.005 | Azodi, C. B., J. Tang and S. H. Shiu | Opening the Black Box: Interpretable Machine Learning for Geneticists | Trends in Genetics | 36(6) 442–55 |
| 2020 | 10.1105/tpc.19.00332 | Azodi, C. B., J. Pardo, R. VanBuren, G. de Los Campos and S. H. Shiu | Transcriptome-Based Prediction of Complex Traits in Maize | The Plant Cell | 32(1) 139–51 |
| 2020 | 10.1093/nargab/lqaa049 | Azodi, C. B., J. P. Lloyd and S. H. Shiu | The cis-regulatory codes of response to combined heat and drought stress in Arabidopsis thaliana | NAR Genomics and Bioinformatics | 2(3) lqaa049 |
| 2020 | 10.1038/s41598-020-75170-x | Ayangbenro, A. S. and O. O. Babalola | Genomic analysis of Bacillus cereus NWUAB01 and its heavy metal removal from polluted soil | Scientific Reports | 10(1) 19660 |
| 2020 | 10.1038/s41396-020-0601-y | Avcı, B., K. Krüger, B. M. Fuchs, H. Teeling and R. I. Amann | Polysaccharide niche partitioning of distinct Polaribacter clades during North Sea spring algal blooms | The ISME Journal | 14(6) 1369-1383 |
| 2020 | 10.1128/mra.01046-20 | Aulitto, M., L. M. Tom, J. A. Ceja-Navarro, B. A. Simmons and S. W. Singer | Whole-Genome Sequence of Brevibacillus borstelensis SDM, Isolated from a Sorghum-Adapted Microbial Community | Microbiology Resource Announcements | 9(48) |
| 2020 | 10.1515/9783110589757-016 | Askenasy, I. and M. E. Stroupe | The siroheme-[4fe-4s] coupled center | Metal Ions in Life Sciences | 20 343-380 |
| 2020 | 10.1007/s13205-020-02210-8 | Arroyo-Herrera, I., F. U. Rojas-Rojas, K. D. Lozano-Cervantes, V. Larios-Serrato, M. S. Vásquez-Murrieta, W. B. Whtiman, J. A. Ibarra and P. Estrada-de los Santos | Draft genome of five Cupriavidus plantarum strains: agave, maize and sorghum plant-associated bacteria with resistance to metals | 3 Biotech | 10(6) 242 |
| 2020 | 10.1016/j.apenergy.2020.115933 | Arora, A. and V. Singh | Biodiesel production from engineered sugarcane lipids under uncertain feedstock compositions: Process design and techno-economic analysis | Applied Energy | 280 |
| 2020 | 10.1177/0003702820923392 | Apra, E., A. Bhattarai, E. Baxter, S. Wang, G. E. Johnson, N. Govind and P. Z. El-Khoury | Simplified Ab Initio Molecular Dynamics-Based Raman Spectral Simulations | Appl Spectrosc | 74(11) 1350-1357 |
| 2020 | 10.1021/acs.chemrev.9b00717 | Anson, C. W. and S. S. Stahl | Mediated Fuel Cells: Soluble Redox Mediators and Their Applications to Electrochemical Reduction of O2 and Oxidation of H2, Alcohols, Biomass, and Complex Fuels | Chemical Reviews | 120(8) 3749–86 |
| 2020 | 10.1038/s41467-020-18677-1 | Angenent-Mari, N. M., A. S. Garruss, L. R. Soenksen, G. Church and J. J. Collins | A deep learning approach to programmable RNA switches | Nature Communications | 11(1) 5057 |
| 2020 | 10.1128/msystems.00260-20 | Anderton, C. R., J. M. Mobberley, J. K. Cole, J. R. Nunez, R. Starke, et al. | Nitrogen Source Governs Community Carbon Metabolism in a Model Hypersaline Benthic Phototrophic Biofilm | mSystems | 5(3) |
| 2020 | 10.1016/j.cell.2020.04.046 | Anava, S., M. Neuhof, H. Gingold, O. Sagy, A. Munters, et al. | Illuminating Genetic Mysteries of the Dead Sea Scrolls | Cell | 181(6) 1218–31.e27 |
| 2020 | 10.1073/pnas.1916529117 | Anandharaj, M., Y.-J. Lin, R. P. Rani, E. K. Nadendla, M.-C. Ho, C.-C. Huang, J.-F. Cheng, J.-J. Chang and W.-H. Li | Constructing a yeast to express the largest cellulosome complex on the cell surface | Proceedings of the National Academy of Sciences | 117(5) 2385-2394 |
| 2020 | 10.1038/s41477-020-0591-9 | Amstutz, C. L., R. Fristedt, A. Schultink, S. S. Merchant, K. K. Niyogi and A. Malnoë | An atypical short-chain dehydrogenase–reductase functions in the relaxation of photoprotective qH in Arabidopsis | Nature Plants | 6(2) 154-166 |
| 2020 | 10.3389/feart.2020.557961 | AminiTabrizi, R., R. M. Wilson, J. D. Fudyma, S. B. Hodgkins, H. M. Heyman, V. I. Rich, S. R. Saleska, J. P. Chanton and M. M. Tfaily | Controls on Soil Organic Matter Degradation and Subsequent Greenhouse Gas Emissions Across a Permafrost Thaw Gradient in Northern Sweden | Frontiers in Earth Science | 8 |
| 2020 | 10.1038/s41587-020-0583-3 | Amen, A. M., K. W. Barry, J. M. Boyle, C. E. Brook, S. Choo, et al. | Blueprint for a pop-up SARS-CoV-2 testing lab | Nature Biotechnology | 38(7) 791-797 |
| 2020 | 10.1021/acs.orglett.0c02182 | Alterman, J. L., D. X. Vang, M. R. Stroud, L. J. Halverson and G. A. Kraus | Ozonolysis of Alkynes-A Flexible Route to Alpha-Diketones: Synthesis of AI-2 | Org Lett | 22(19) 7424-7426 |
| 2020 | 10.1128/msystems.00768-19 | Alteio, L. V., F. Schulz, R. Seshadri, N. Varghese, W. Rodriguez-Reillo, E. Ryan, D. Goudeau, S. A. Eichorst, R. R. Malmstrom, R. M. Bowers, L. A. Katz, J. L. Blanchard and T. Woyke | Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil | mSystems | 5(2) |
| 2020 | 10.1111/gcb.15053 | Alster, C. J., J. C. von Fischer, S. D. Allison and K. K. Treseder | Embracing a new paradigm for temperature sensitivity of soil microbes | Global Change Biology | 26(6) 3221–9 |
| 2020 | 10.1007/s10533-020-00697-0 | Alster, C. J., S. D. Allison and K. K. Treseder | Carbon budgets for soil and plants respond to long-term warming in an Alaskan boreal forest | Biogeochemistry | 150(3) 345-353 |
| 2020 | 10.1016/j.copbio.2019.11.003 | Allen, D. K. and J. D. Young | Tracing metabolic flux through time and space with isotope labeling experiments | Current Opinion in Biotechnology | 64 92–100 |
| 2020 | 10.1111/gcbb.12731 | Ali, S., D. D. Serba, D. Walker, J. Jenkins, J. Schmutz, S. Bhamidimarri and M. C. Saha | Genome‐wide quantitative trait loci detection for biofuel traits in switchgrass (Panicum virgatum L.) | GCB Bioenergy | 12(11) 923–40 |
| 2020 | 10.1186/s12870-020-2305-x | Alexandersson, E., S. Kushwaha, A. Subedi, D. Weighill, S. Climer, D. Jacobson and E. Andreasson | Linking crop traits to transcriptome differences in a progeny population of tetraploid potato | BMC Plant Biology | 20(1) 120 |
| 2020 | 10.1007/s10681-020-2558-3 | Alexander, L., C. Hatcher, M. Mazarei, E. Haynes, H. Baxter, K. Kim, C. Hamilton, R. Sykes, G. Turner, M. Davis, Z.-Y. Wang, N. Labbé and C. Neal Stewart | Development and field assessment of transgenic hybrid switchgrass for improved biofuel traits | Euphytica | 216(2) 25 |
| 2020 | 10.1016/j.xcrm.2020.100077 | Alcon-Giner, C., M. J. Dalby, S. Caim, J. Ketskemety, A. Shaw, et al. | Microbiota Supplementation with Bifidobacterium and Lactobacillus Modifies the Preterm Infant Gut Microbiota and Metabolome: An Observational Study | Cell Reports Medicine | 1(5) 100077 |
| 2020 | 10.1093/femsec/fiaa135 | Albright, M. B. N., J. Thompson, M. E. Kroeger, R. Johansen, D. E. M. Ulrich, L. V. Gallegos-Graves, B. Munsky and J. Dunbar | Differences in substrate use linked to divergent carbon flow during litter decomposition | FEMS Microbiology Ecology | 96(8) fiaa135 |
| 2020 | 10.1128/mbio.02089-20 | Albright, M. B. N., S. Sevanto, L. V. Gallegos-Graves and J. Dunbar | Biotic Interactions Are More Important than Propagule Pressure in Microbial Community Invasions | mBio | 11(5) |
| 2020 | 10.1371/journal.pone.0224641 | Albright, M. B. N., A. Runde, D. Lopez, J. Gans, S. Sevanto, D. Woolf and J. Dunbar | Effects of initial microbial biomass abundance on respiration during pine litter decomposition | PLOS ONE | 15(2) e0224641 |
| 2020 | 10.3389/fmicb.2020.542220 | Albright, M. B. N., R. Johansen, J. Thompson, D. Lopez, L. V. Gallegos-Graves, M. E. Kroeger, A. Runde, R. C. Mueller, A. Washburne, B. Munsky, T. Yoshida and J. Dunbar | Soil Bacterial and Fungal Richness Forecast Patterns of Early Pine Litter Decomposition | Frontiers in Microbiology | 11 |
| 2020 | 10.1111/ele.13576 | Albrecht, M., D. Kleijn, N. M. Williams, M. Tschumi, B. R. Blaauw, et al. | The effectiveness of flower strips and hedgerows on pest control, pollination services and crop yield: a quantitative synthesis | Ecology Letters | 23(10) 1488-1498 |
| 2020 | 10.1073/pnas.1905641117 | Albert, S., W. Wietrzynski, C. W. Lee, M. Schaffer, F. Beck, J. M. Schuller, P. A. Salomé, J. M. Plitzko, W. Baumeister and B. D. Engel | Direct visualization of degradation microcompartments at the ER membrane | Proceedings of the National Academy of Sciences of the United States of America | 117(2) 1069-1080 |
| 2020 | 10.1007/978-1-0716-0195-2_10 | Alahuhta, M., M. E. Himmel, Y. J. Bomble and V. V. Lunin | Crystallography of Metabolic Enzymes | Metabolic Pathway Engineering | 125–39 |
| 2020 | 10.1038/s41586-020-2007-4 | Al-Shayeb, B., R. Sachdeva, L.-X. Chen, F. Ward, P. Munk, et al. | Clades of huge phages from across Earth’s ecosystems | Nature | 578(7795) 425-431 |
| 2020 | 10.1128/AEM.01424-20 | Akob, D. M., M. Hallenbeck, F. Beulig, M. Fabisch, K. Küsel, J. L. Keffer, T. Woyke, N. Shapiro, A. Lapidus, H.-P. Klenk and C. S. Chan | Mixotrophic Iron-Oxidizing Thiomonas Isolates from an Acid Mine Drainage-Affected Creek | Applied and Environmental Microbiology | 86(24) e01424-20 |
| 2020 | 10.3390/toxins12050324 | Aili, S. R., A. Touchard, R. Hayward, S. D. Robinson, S. S. Pineda, H. Lalagüe, Mrinalini, I. Vetter, E. A. B. Undheim, R. M. Kini, P. Escoubas, M. P. Padula, G. S. A. Myers and G. M. Nicholson | An Integrated Proteomic and Transcriptomic Analysis Reveals the Venom Complexity of the Bullet Ant Paraponera clavata | Toxins | 12(5) 324 |
| 2020 | 10.1111/1462-2920.15192 | Aigle, A., C. Gubry-Rangin, C. Thion, K. Y. Estera-Molina, H. Richmond, J. Pett-Ridge, M. K. Firestone, G. W. Nicol and J. I. Prosser | Experimental testing of hypotheses for temperature- and pH-based niche specialization of ammonia oxidizing archaea and bacteria | Environmental Microbiology | 22(9) 4032–45 |
| 2020 | 10.1039/D0GC01560A | Ai, B., W. Li, J. Woomer, M. Li, Y. Pu, Z. Sheng, L. Zheng, A. Adedeji, A. J. Ragauskas and J. Shi | Natural deep eutectic solvent mediated extrusion for continuous high-solid pretreatment of lignocellulosic biomass | Green Chemistry | 22(19) 6372–83 |
| 2020 | 10.1016/j.apt.2020.04.032 | Ahamed, F., M. Singh, H.-S. Song, P. Doshi, C. W. Ooi and Y. K. Ho | On the use of sectional techniques for the solution of depolymerization population balances: Results on a discrete-continuous mesh | Advanced Powder Technology | 31(7) 2669–79 |
| 2020 | 10.1111/tpj.14815 | Agtuca, B. J., S. A. Stopka, S. Evans, L. Samarah, Y. Liu, D. Xu, M. G. Stacey, D. W. Koppenaal, L. Pasa-Tolic, C. R. Anderton, A. Vertes and G. Stacey | Metabolomic profiling of wild-type and mutant soybean root nodules using laser-ablation electrospray ionization mass spectrometry reveals altered metabolism | Plant J | 103(5) 1937-1958 |
| 2020 | 10.1021/acs.jctc.9b01138 | Agarwal, R., M. D. Smith and J. C. Smith | Capturing Deuteration Effects in a Molecular Mechanics Force Field: Deuterated THF and the THF–Water Miscibility Gap | Journal of Chemical Theory and Computation | 16(4) 2529–40 |
| 2020 | 10.1016/j.bpj.2020.05.021 | Agarwal, R., U. R. Shrestha, X.-Q. Chu, L. Petridis and J. C. Smith | Mesophilic Pyrophosphatase Function at High Temperature: A Molecular Dynamics Simulation Study | Biophysical Journal | 119(1) 142–50 |
| 2020 | 10.1021/acs.jpcb.0c07759 | Addison, B., D. Stengel, V. S. Bharadwaj, R. M. Happs, C. Doeppke, T. Wang, Y. J. Bomble, G. P. Holland and A. E. Harman-Ware | Selective One-Dimensional 13C–13C Spin-Diffusion Solid-State Nuclear Magnetic Resonance Methods to Probe Spatial Arrangements in Biopolymers Including Plant Cell Walls, Peptides, and Spider Silk | The Journal of Physical Chemistry B | 124(44) 9870–83 |
| 2020 | 10.1371/journal.pone.0228560 | Acosta, K., J. Xu, S. Gilbert, E. Denison, T. Brinkman, S. Lebeis and E. Lam | Duckweed hosts a taxonomically similar bacterial assemblage as the terrestrial leaf microbiome | PLoS One | 15(2) e0228560 |
| 2020 | 10.1016/j.apsoil.2020.103602 | Achmon, Y., J. T. Claypool, J. D. Fernández-Bayo, K. Hernandez, D. G. McCurry, D. R. Harrold, J. Su, B. A. Simmons, S. W. Singer, R. M. Dahlquist-Willard, J. J. Stapleton, J. S. VanderGheynst and C. W. Simmons | Structural changes in bacterial and fungal soil microbiome components during biosolarization as related to volatile fatty acid accumulation | Applied Soil Ecology | 153 103602 |
| 2020 | 10.1002/pmic.202000067 | Abraham, P. E., A. Matthiadis, R. L. Hettich and U. C. Kalluri | Molecular Remodeling in Populus PdKOR RNAi Roots Profiled Using LC-MS/MS Proteomics | Proteomics | 20(24) e2000067 |
| 2020 | 10.1111/tpj.14757 | Abraham, P. E., N. Hurtado Castano, D. Cowan-Turner, J. Barnes, S. Poudel, R. Hettich, S. Flütsch, D. Santelia and A. M. Borland | Peeling back the layers of crassulacean acid metabolism: functional differentiation between Kalanchoë fedtschenkoi epidermis and mesophyll proteomes | Plant Journal | 103(2) 869-888 |
| 2020 | 10.1186/s40793-019-0352-4 | Abraham, B. S., D. Caglayan, N. V. Carrillo, M. C. Chapman, C. T. Hagan, et al. | Shotgun metagenomic analysis of microbial communities from the Loxahatchee nature preserve in the Florida Everglades | Environmental Microbiome | 15(1) 2 |
| 2020 | 10.1002/hyp.13630 | Abraha, M., J. Q. Chen, S. K. Hamilton and G. P. Robertson | Long-term evapotranspiration rates for rainfed corn versus perennial bioenergy crops in a mesic landscape | Hydrological Processes | 34(3) 810–22 |
| 2020 | 10.1016/j.ymben.2020.07.008 | Abdel-Mawgoud, A. M. and G. Stephanopoulos | Improving CRISPR/Cas9-mediated genome editing efficiency in Yarrowia lipolytica using direct tRNA-sgRNA fusions | Metabolic Engineering | 62 106–15 |
| 2020 | 10.3390/ijms21030772 | Abdel-Ghany, S. E., F. Ullah, A. Ben-Hur and A. S. N. Reddy | Transcriptome Analysis of Drought-Resistant and Drought-Sensitive Sorghum (Sorghum bicolor) Genotypes in Response to PEG-Induced Drought Stress | International Journal of Molecular Sciences | 21(3) |
| 2020 | 10.1093/treephys/tpz020 | Abbas, M., I. Peszlen, R. Shi, H. Kim, R. Katahira, et al. | Involvement of CesA4, CesA7-A/B and CesA8-A/B in secondary wall formation in Populus trichocarpa wood | Tree Physiology | 40(1) 73–89 |
| 2021 | 10.1016/j.copbio.2021.06.024 | Zuniga, C., J. D. Tibocha-Bonilla and M. J. Betenbaugh | Kinetic, metabolic, and statistical analytics: addressing metabolic transport limitations among organelles and microbial communities | Current Opinion in Biotechnology | 71 91-97 |
| 2021 | 10.1111/1462-2920.15316 | Zinke, L. A., P. N. Evans, C. Santos-Medellín, A. L. Schroeder, D. H. Parks, R. K. Varner, V. I. Rich, G. W. Tyson and J. B. Emerson | Evidence for non-methanogenic metabolisms in globally distributed archaeal clades basal to the Methanomassiliicoccales | Environmental Microbiology | 23(1) 340-357 |
| 2021 | 10.1016/j.csbj.2020.11.052 | Ziegler, S. J., S. J. B. Mallinson, P. C. St. John and Y. J. Bomble | Advances in integrative structural biology: Towards understanding protein complexes in their cellular context | Computational and Structural Biotechnology Journal | 19 214–25 |
| 2021 | 10.1007/s40789-020-00394-1 | Zhu, T., R. Wang, N. Yi, W. Niu, L. Wang and Z. Xue | Correction to: CO2 and SO2 emission characteristics of the whole process industry chain of coal processing and utilization in China (International Journal of Coal Science & Technology, (2020), 7, 1, (19-25), 10.1007/s40789-020-00297-1) | International Journal of Coal Science and Technology | 8(1) 176 |
| 2021 | 10.1002/cssc.202101137 | Zhou, P., K. L. Sánchez-Rivera, G. W. Huber and R. C. Van Lehn | Computational Approach for Rapidly Predicting Temperature-Dependent Polymer Solubilities Using Molecular-Scale Models | ChemSusChem | 14(19) 4307–16 |
| 2021 | 10.3791/61707 | Zhou, M., S. H. Abdali, D. Dilworth, L. Liu, B. Cole, et al. | Isolation of histone from sorghum leaf tissue for top down mass spectrometry profiling of potential epigenetic markers | Journal of Visualized Experiments | 169 |
| 2021 | 10.1038/s41396-021-01067-w | Zhou, J., S. M. Theroux, C. P. Bueno de Mesquita, W. H. Hartman, Y. Tian and S. G. Tringe | Microbial drivers of methane emissions from unrestored industrial salt ponds | The ISME Journal | 16(1) 284-295 |
| 2021 | 10.1186/s40168-021-01106-w | Zhong, Z.-P., F. Tian, S. Roux, M. C. Gazitúa, N. E. Solonenko, Y.-F. Li, M. E. Davis, J. L. Van Etten, E. Mosley-Thompson, V. I. Rich, M. B. Sullivan and L. G. Thompson | Glacier ice archives nearly 15,000-year-old microbes and phages | Microbiome | 9(1) 160 |
| 2021 | 10.1039/D1GC00911G | Zhao, Z.-M., S. Zhang, X. Meng, Y. Pu, Z.-H. Liu, W. K. Ledford, S. M. Kilbey, B.-Z. Li and A. J. Ragauskas | Elucidating the mechanisms of enhanced lignin bioconversion by an alkali sterilization strategy | Green Chemistry | 23(13) 4697–709 |
| 2021 | 10.1021/acschembio.1c00267 | Zhao, Z., E. E. Ozcan, E. VanArsdale, J. Li, E. Kim, A. D. Sandler, D. L. Kelly, W. E. Bentley and G. F. Payne | Mediated Electrochemical Probing: A Systems-Level Tool for Redox Biology | ACS Chemical Biology | 16(7) 1099–110 |
| 2021 | 10.1094/mpmi-08-20-0222-a | Zhao, Z., N. Bokros, S. DeBolt, P. Yang and Y. Xia | Genome Sequence Resource of Bacillus sp. RRD69, a Beneficial Bacterial Endophyte Isolated from Switchgrass Plants | Molecular Plant-Microbe Interactions | 34(11) 1320–3 |
| 2021 | 10.3389/fpls.2021.755576 | Zhao, Y., X.-H. Yu and C.-J. Liu | The Inducible Accumulation of Cell Wall-Bound p-Hydroxybenzoates Is Involved in the Regulation of Gravitropic Response of Poplar | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41477-021-00975-1 | Zhao, Y., X. Yu, P.-Y. Lam, K. Zhang, Y. Tobimatsu and C.-J. Liu | Monolignol acyltransferase for lignin p-hydroxybenzoylation in Populus | Nature Plants | 7(9) 1288–300 |
| 2021 | 10.1063/5.0063634 | Zhao, T., J. S. Beckwith, M. J. Amin, M. Pálmai, P. T. Snee, M. Tien and H. Yang | Leveraging lifetime information to perform real-time 3D single-particle tracking in noisy environments | The Journal of Chemical Physics | 155(16) 164201 |
| 2021 | 10.7554/eLife.69508 | Zhao, K., D. Kong, B. Jin, C. D. Smolke and S. Y. Rhee | A novel form of bivalent chromatin associates with rapid induction of camalexin biosynthesis genes in response to a pathogen signal in Arabidopsis | eLife | 10 |
| 2021 | 10.1016/j.copbio.2021.01.018 | Zhao, H. and Y. Yoshikuni | Editorial overview: Energy biotechnology | Current Opinion in Biotechnology | 67 iii-v |
| 2021 | 10.1073/pnas.2022590118 | Zhao, F., Z. Zhou, Y. Dang, H. Na, C. Adam, A. Lipzen, V. Ng, I. V. Grigoriev and Y. Liu | Genome-wide role of codon usage on transcription and identification of potential regulators | Proceedings of the National Academy of Sciences | 118(6) e2022590118 |
| 2021 | 10.1021/acssynbio.0c00642 | Zhao, E. M., M. A. Lalwani, J. M. Chen, P. Orillac, J. E. Toettcher and J. L. Avalos | Optogenetic Amplification Circuits for Light-Induced Metabolic Control | ACS Synthetic Biology | 10(5) 1143-1154 |
| 2021 | 10.1088/1748-9326/abecbe | Zhang, X., T. J. Lark, C. M. Clark, Y. Yuan and S. D. LeDuc | Grassland-to-cropland conversion increased soil, nutrient, and carbon losses in the US Midwest between 2008 and 2016 | Environmental Research Letters | 16(5) 054018 |
| 2021 | 10.1158/0008-5472.CAN-21-0206 | Zhang, S., Y. F. Zhou, J. Cao, S. K. Burley, H. Y. Wang and X. F. S. Zheng | mTORC1 Promotes ARID1A degradation and oncogenic chromatin remodeling in hepatocellular carcinoma | Cancer Research | 81(22) 5642-5665 |
| 2021 | 10.1016/j.jmva.2021.104786 | Zhang, L., W. Zhou and H. Wang | A semiparametric latent factor model for large scale temporal data with heteroscedasticity | Journal of Multivariate Analysis | 186 |
| 2021 | 10.1093/g3journal/jkab144 | Zhang, L., A. MacQueen, J. Bonnette, F. B. Fritschi, D. B. Lowry and T. E. Juenger | QTL × environment interactions underlie ionome divergence in switchgrass | G3 Genes|Genomes|Genetics | 11(7) |
| 2021 | 10.1016/j.csbj.2021.03.016 | Zhang, L., W. Gong, C. Li, N. Shen, Y. Gui, Y. Bian, H. S. Kwan, M. K. Cheung and Y. Xiao | RNA-Seq-based high-resolution linkage map reveals the genetic architecture of fruiting body development in shiitake mushroom, Lentinula edodes | Computational and Structural Biotechnology Journal | 19 1641-1653 |
| 2021 | 10.1128/mSystems.01351-20 | Zhang, K., W. Zhao, D. A. Rodionov, G. M. Rubinstein, D. N. Nguyen, T. N. N. Tanwee, J. Crosby, R. G. Bing, R. M. Kelly, M. W. W. Adams and Y. Zhang | Genome-scale metabolic model of caldicellulosiruptor bescii reveals optimal metabolic engineering strategies for bio-based chemical production | mSystems | 6(3) |
| 2021 | 10.1039/D1GC02854E | Zhang, J., E. Yoo, B. H. Davison, D. Liu, J. A. Schaidle, L. Tao and Z. Li | Towards cost-competitive middle distillate fuels from ethanol within a market-flexible biorefinery concept | Green Chemistry | 23(23) 9534–48 |
| 2021 | 10.1016/j.cej.2021.128660 | Zhang, J., W. Shen, C. Collings, K. A. Vander Meulen, B. G. Fox, L. M. Vázquez Ramos, J. A. Dumesic and S.-Y. Ding | Visualizing plant cell wall changes proves the superiority of hydrochloric acid over sulfuric acid catalyzed γ-valerolactone pretreatment | Chemical Engineering Journal | 412 128660 |
| 2021 | 10.1007/s00374-021-01544-6 | Zhang, B., C. R. Penton, Z. Yu, C. Xue, Q. Chen, Z. Chen, C. Yan, Q. Zhang, M. Zhao, J. F. Quensen and J. M. Tiedje | A new primer set for Clade I nosZ that recovers genes from a broader range of taxa | Biology and Fertility of Soils | 57(4) 523–31 |
| 2021 | 10.1094/pbiomes-12-20-0090-e | Zhalnina, K., C. Hawkes, A. Shade, M. K. Firestone and J. Pett-Ridge | Managing Plant Microbiomes for Sustainable Biofuel Production | Phytobiomes Journal | 5(1) 3–13 |
| 2021 | 10.3390/plants10030513 | Zhai, Z., H. Liu and J. Shanklin | Ectopic Expression of OLEOSIN 1 and Inactivation of GBSS1 Have a Synergistic Effect on Oil Accumulation in Plant Leaves | Plants | 10(3) 513 |
| 2021 | 10.1021/jasms.1c00113 | Zenaidee, M. A., B. Wei, C. Lantz, H. T. Wu, T. R. Lambeth, J. K. Diedrich, R. R. Ogorzalek Loo, R. R. Julian and J. A. Loo | Internal Fragments Generated from Different Top-Down Mass Spectrometry Fragmentation Methods Extend Protein Sequence Coverage | Journal of the American Society for Mass Spectrometry | 32(7) 1752-1758 |
| 2021 | 10.3389/fmicb.2021.610497 | Zeiner, C. A., S. O. Purvine, E. Zink, S. Wu, L. Paša-Tolić, D. L. Chaput, C. M. Santelli and C. M. Hansel | Mechanisms of Manganese(II) Oxidation by Filamentous Ascomycete Fungi Vary With Species and Time as a Function of Secretome Composition | Frontiers in Microbiology | 12 |
| 2021 | 10.1002/cbic.202000616 | Zegeye, E. K., N. C. Sadler, G. X. Lomas, I. K. Attah, J. K. Jansson, K. S. Hofmockel, C. R. Anderton and A. T. Wright | Activity-Based Protein Profiling of Chitin Catabolism | ChemBioChem | 22(4) 717–23 |
| 2021 | 10.1007/978-1-0716-0966-8_17 | Zee, C. T., A. Saha, M. R. Sawaya and J. A. Rodriguez | Ab Initio Determination of Peptide Structures by MicroED | Methods in Molecular Biology | 2215 329-348 |
| 2021 | 10.1093/bioinformatics/btab451 | Zayed, A. A., D. Lücking, M. Mohssen, D. Cronin, B. Bolduc, A. C. Gregory, K. R. Hargreaves, P. D. Piehowski, R. A. White III, E. L. Huang, J. N. Adkins, S. Roux, C. Moraru and M. B. Sullivan | efam: an expanded, metaproteome-supported HMM profile database of viral protein families | Bioinformatics | 37(22) 4202-4208 |
| 2021 | 10.1016/j.copbio.2021.01.013 | Zaramela, L. S., O. Moyne, M. Kumar, C. Zuniga, J. D. Tibocha-Bonilla and K. Zengler | The Sum is Greater than the Parts: Exploiting Microbial Communities to Achieve Complex Functions | Current Opinion in Biotechnology | 67 149–57 |
| 2021 | 10.7717/peerj.11088 | Zablocki, O., M. Michelsen, M. Burris, N. Solonenko, J. Warwick-Dugdale, R. Ghosh, J. Pett-Ridge, M. B. Sullivan and B. Temperton | VirION2: a short- and long-read sequencing and informatics workflow to study the genomic diversity of viruses in nature | PeerJ | 9 e11088 |
| 2021 | 10.1186/s43008-021-00067-x | Yurkov, A., A. Alves, F.-Y. Bai, K. Boundy-Mills, P. Buzzini, et al. | Nomenclatural issues concerning cultured yeasts and other fungi: why it is important to avoid unneeded name changes | IMA Fungus | 12(1) 18 |
| 2021 | 10.1021/acscatal.0c05393 | Yun, D., E. Z. Ayla, D. T. Bregante and D. W. Flaherty | Reactive Species and Reaction Pathways for the Oxidative Cleavage of 4-Octene and Oleic Acid with H2O2 over Tungsten Oxide Catalysts | ACS Catalysis | 11(5) 3137–52 |
| 2021 | 10.3389/fenrg.2021.640337 | Yue, F., W. Lan, L. Zhang, F. Lu, R. Sun and J. Ralph | Efficient Synthesis of Pinoresinol, an Important Lignin Dimeric Model Compound | Frontiers in Energy Research | 9 |
| 2021 | 10.1016/j.carbpol.2021.117637 | Yuan, Y., H. Li, W. Leite, Q. Zhang, P. V. Bonnesen, J. L. Labbé, K. L. Weiss, S. V. Pingali, K. Hong, V. S. Urban, S. Salmon and H. O’Neill | Biosynthesis and characterization of deuterated chitosan in filamentous fungus and yeast | Carbohydrate Polymers | 257 117637 |
| 2021 | 10.1128/mBio.03509-20 | Yuan, M. M., A. Kakouridis, E. Starr, N. Nguyen, S. Shi, J. Zhou, M. Firestone, J. Pett-Ridge and E. Nuccio | Fungal-bacterial cooccurrence patterns differ between arbuscular mycorrhizal fungi and nonmycorrhizal fungi across soil niches | mBio | 12(2) |
| 2021 | 10.1038/s41558-021-00989-9 | Yuan, M. M., X. Guo, L. Wu, Y. Zhang, N. Xiao, D. Ning, Z. Shi, X. Zhou, L. Wu, Y. Yang, J. M. Tiedje and J. Zhou | Climate warming enhances microbial network complexity and stability | Nature Climate Change | 11(4) 343-348 |
| 2021 | 10.1038/s41438-021-00663-3 | Yuan, G., H. Lu, D. Tang, M. M. Hassan, Y. Li, J.-G. Chen, G. A. Tuskan and X. Yang | Expanding the application of a UV-visible reporter for transient gene expression and stable transformation in plants | Horticulture Research | 8 |
| 2021 | 10.1021/acssynbio.1c00455 | Yuan, G., M. M. Hassan, T. Yao, H. Lu, M. M. Vergara, J. L. Labbé, W. Muchero, C. Pan, J.-G. Chen, G. A. Tuskan, Y. Qi, P. E. Abraham and X. Yang | Plant-Based Biosensors for Detecting CRISPR-Mediated Genome Engineering | ACS Synthetic Biology | 10(12) 3600–3 |
| 2021 | 10.1093/plphys/kiaa109 | Yu, X. H., Y. Cai, J. Keereetaweep, K. Wei, J. Chai, E. Deng, H. Liu and J. Shanklin | Biotin Attachment Domain-Containing Proteins Mediate Hydroxy Fatty Acid-Dependent Inhibition of Acetyl CoA Carboxylase | Plant Physiology | 185(3) 892–901 |
| 2021 | 10.1038/s41467-020-20094-3 | Yu, T. C., W. L. Liu, M. S. Brinck, J. E. Davis, J. Shek, G. Bower, T. Einav, K. D. Insigne, R. Phillips, S. Kosuri and G. Urtecho | Multiplexed characterization of rationally designed promoter architectures deconstructs combinatorial logic for IPTG-inducible systems | Nature Communications | 12(1) |
| 2021 | 10.1111/tpj.15273 | Yu, L., C. Zhou, J. Fan, J. Shanklin and C. Xu | Mechanisms and functions of membrane lipid remodeling in plants | The Plant Journal | 107(1) 37–53 |
| 2021 | 10.1038/s41598-020-79975-8 | Yu, K. M. J., B. McKinley, W. L. Rooney and J. E. Mullet | High planting density induces the expression of GA3-oxidase in leaves and GA mediated stem elongation in bioenergy sorghum | Scientific Reports | 11(1) 46 |
| 2021 | 10.1186/s13068-021-02026-5 | Yu, H., C. Liu and R. A. Dixon | A gene-editing/complementation strategy for tissue-specific lignin reduction while preserving biomass yield | Biotechnology for Biofuels | 14(1) 175 |
| 2021 | 10.1038/s41592-021-01137-z | Young, J. Y., J. Berrisford and M. Chen | wwPDB biocuration: on the front line of structural biology | Nature Methods | 18(5) 431-432 |
| 2021 | 10.1093/plphys/kiaa071 | Young, D. Y. and Y. Shachar-Hill | Large fluxes of fatty acids from membranes to triacylglycerol and back during N-deprivation and recovery in Chlamydomonas | Plant Physiology | 185(3) 796–814 |
| 2021 | 10.1021/bk-2021-1377.ch001 | Yoo, C. G. and A. J. Ragauskas | Opportunities and Challenges of Lignin Utilization | Lignin Utilization Strategies: From Processing to Applications | 1377 1–12 |
| 2021 | 10.3389/fmicb.2021.625752 | Yee, M. O., P. Kim, Y. Li, A. K. Singh, T. R. Northen and R. Chakraborty | Specialized Plant Growth Chamber Designs to Study Complex Rhizosphere Interactions | Frontiers in Microbiology | 12 |
| 2021 | 10.1128/AEM.03017-20 | Yayo, J., T. Kuil, D. G. Olson, L. R. Lynd, E. K. Holwerda and A. J. A. v. Maris | Laboratory Evolution and Reverse Engineering of Clostridium thermocellum for Growth on Glucose and Fructose | Applied and Environmental Microbiology | 87(9) e03017-20 |
| 2021 | 10.1093/gbe/evab198 | Yates, T. B., K. Feng, J. Zhang, V. Singan, S. S. Jawdy, P. Ranjan, P. E. Abraham, K. Barry, A. Lipzen, C. Pan, J. Schmutz, J.-G. Chen, G. A. Tuskan and W. Muchero | The Ancient Salicoid Genome Duplication Event: A Platform for Reconstruction of De Novo Gene Evolution in Populus trichocarpa | Genome Biology and Evolution | 13(9) |
| 2021 | 10.1093/gbe/evab198 | Yates, T. B., K. Feng, J. Zhang, V. Singan, S. S. Jawdy, P. Ranjan, P. E. Abraham, K. Barry, A. Lipzen, C. Pan, J. Schmutz, J.-G. Chen, G. A. Tuskan and W. Muchero | The Ancient Salicoid Genome Duplication Event: A Platform for Reconstruction of De Novo Gene Evolution in Populus trichocarpa | Genome Biology and Evolution | 13(9) |
| 2021 | 10.3389/fpls.2021.704697 | Yao, T., K. Feng, M. Xie, J. Barros, T. J. Tschaplinski, G. A. Tuskan, W. Muchero and J. G. Chen | Phylogenetic Occurrence of the Phenylpropanoid Pathway and Lignin Biosynthesis in Plants | Frontiers in Plant Science | 12 704697 |
| 2021 | 10.1021/acssuschemeng.0c09330 | Yao, A., H. Choudhary, M. Mohan, A. Rodriguez, H. Magurudeniya, J. G. Pelton, A. George, B. A. Simmons and J. M. Gladden | Can Multiple Ions in an Ionic Liquid Improve the Biomass Pretreatment Efficacy? | ACS Sustainable Chemistry & Engineering | 9(12) 4371–6 |
| 2021 | 10.1128/mSystems.01038-21 | Yannarell, S. M., D. Veličković, C. R. Anderton and E. A. Shank | Direct Visualization of Chemical Cues and Cellular Phenotypes throughout Bacillus subtilis Biofilms | mSystems | 6(6) e01038-21 |
| 2021 | 10.1111/pbi.13550 | Yang, Y., J. H. Lee, M. R. Poindexter, Y. Shao, W. Liu, S. C. Lenaghan, A. H. Ahkami, E. Blumwald and C. N. Stewart | Rational design and testing of abiotic stress-inducible synthetic promoters from poplar cis-regulatory elements | Plant Biotechnology Journal | 19(7) 1354-1369 |
| 2021 | Yang, X., G. A. Tuskan, D. Liu, R. HU, J.-G. Chen and M. Xie | Genes for enhancing drought and heat tolerance in plants and methods of use | LLC, U. B. | ||
| 2021 | 10.34133/2021/9798714 | Yang, X., D. Liu, H. Lu, D. J. Weston, J.-G. Chen, et al. | Biological Parts for Plant Biodesign to Enhance Land-Based Carbon Dioxide Removal | BioDesign Research | 2021 9798714 |
| 2021 | 10.1016/j.biombioe.2021.106275 | Yang, P., X. Cai, C. Leibensperger and M. Khanna | Adoption of perennial energy crops in the US Midwest: Causal and heterogeneous determinants | Biomass and Bioenergy | 155 106275 |
| 2021 | 10.1111/gcbb.12821 | Yang, P., X. Cai and M. Khanna | Farmers' heterogeneous perceptions of marginal land for biofuel crops in US Midwestern states considering biophysical and socioeconomic factors | GCB Bioenergy | 13(5) 849–61 |
| 2021 | 10.1021/acssuschemeng.1c01706 | Yang, M., J. Dahlberg, N. R. Baral, D. Putnam and C. D. Scown | Identifying Forage Sorghum Ideotypes for Advanced Biorefineries | ACS Sustainable Chemistry & Engineering | 9(23) 7873–81 |
| 2021 | 10.1016/j.indcrop.2021.113587 | Yang, L., M. Lin, H. Zhang, C. Wang, L. Shi, W. Lan, L. Zhang, F. Yue and F. Lu | Ferulate-sinapyl alcohol cross-coupling reaction improves the understanding of grass cell wall lignification | Industrial Crops and Products | 168 |
| 2021 | 10.1093/plphys/kiab169 | Yang, J., E. Bertolini, M. Braud, J. Preciado, A. Chepote, H. Jiang and A. L. Eveland | The SvFUL2 transcription factor is required for inflorescence determinacy and timely flowering in Setaria viridis | Plant Physiology | 187(3) 1202-1220 |
| 2021 | 10.1016/j.molp.2020.11.023 | Yan, J., Y. Liu, L. Yang, H. He, Y. Huang, L. Fang, H. V. Scheller, M. Jiang and A. Zhang | Cell wall β-1,4-galactan regulated by the BPC1/BPC2-GALS1 module aggravates salt sensitivity in Arabidopsis thaliana | Molecular Plant | 14(3) 411–25 |
| 2021 | 10.1111/1758-2229.13012 | Yadav, S., M. Koenen, N. Bale, J. S. Sinninghe Damsté and L. Villanueva | The physiology and metabolic properties of a novel, low-abundance Psychrilyobacter species isolated from the anoxic Black Sea shed light on its ecological role | Environmental Microbiology Reports | 13(6) 899–910 |
| 2021 | 10.1021/acs.analchem.1c01246 | Xue, J., R. J. E. Derks, B. Webb, E. M. Billings, A. Aisporna, M. Giera and G. Siuzdak | Single Quadrupole Multiple Fragment Ion Monitoring Quantitative Mass Spectrometry | Analytical Chemistry | 93(31) 10879–89 |
| 2021 | 10.1186/s13068-020-01861-2 | Xu, Z., C. Pan, X. Li, N. Hao, T. Zhang, M. J. Gaffrey, Y. Pu, J. R. Cort, A. J. Ragauskas, W.-J. Qian and B. Yang | Enhancement of polyhydroxyalkanoate production by co-feeding lignin derivatives with glycerol in Pseudomonas putida KT2440 | Biotechnology for Biofuels | 14(1) 11 |
| 2021 | 10.3390/plants10122726 | Xu, Y., V. Shrestha, C. Piasecki, B. Wolfe, L. Hamilton, R. J. Millwood, M. Mazarei and C. N. Stewart | Sustainability Trait Modeling of Field-Grown Switchgrass (Panicum virgatum) Using UAV-Based Imagery | Plants | 10(12) 2726 |
| 2021 | 10.1038/s41467-021-23553-7 | Xu, L., Z. Dong, D. Chiniquy, G. Pierroz, S. Deng, et al. | Genome-resolved metagenomics reveals role of iron metabolism in drought-induced rhizosphere microbiome dynamics | Nature Communications | 12(1) |
| 2021 | 10.1016/j.rse.2021.112445 | Xie, Y. and T. J. Lark | Mapping annual irrigation from Landsat imagery and environmental variables across the conterminous United States | Remote Sensing of Environment | 260 112445 |
| 2021 | 10.5194/essd-13-5689-2021 | Xie, Y., H. K. Gibbs and T. J. Lark | Landsat-based Irrigation Dataset (LANID): 30 m resolution maps of irrigation distribution, frequency, and change for the US, 1997–2017 | Earth System Science Data | 13(12) 5689–710 |
| 2021 | Xie, M., J.-G. Chen, W. Muchero, C. Pan, D. M. Close, E. B. Gee and Q. Yao | Methods of improving drought and salt resistance in a plant and genetically engineering plants with improved drought and salt resistance | LLC, U. B. | ||
| 2021 | 10.1128/MRA.01410-20 | Xavier, R. K. M., D. Xu, P. J. McCarthy, S. Yang and G. Wang | Genome Sequence of Streptomyces sp. Strain HB-N217, Isolated from the Marine Sponge Forcepia sp. | Microbiology Resource Announcements | 10(8) e01410-20 |
| 2021 | 10.1128/Spectrum.01414-21 | Wu, X., A. E. Kazakov, S. Gushgari-Doyle, X. Yu, V. Trotter, R. K. Stuart and R. Chakraborty | Comparative Genomics Reveals Insights into Induction of Violacein Biosynthesis and Adaptive Evolution in Janthinobacterium | Microbiology Spectrum | 9(3) e01414-21 |
| 2021 | 10.1021/acs.est.1c00802 | Wu, X., A. Chauhan, A. C. Layton, M. C. Y. Lau Vetter, B. T. Stackhouse, D. E. Williams, L. Whyte, S. M. Pfiffner, T. C. Onstott and T. A. Vishnivetskaya | Comparative Metagenomics of the Active Layer and Permafrost from Low-Carbon Soil in the Canadian High Arctic | Environmental Science and Technology | 55(18) 12683-12693 |
| 2021 | 10.1038/s41598-021-92395-6 | Wu, T., J. Liu, Z. Guo, J. Hou and J. Cheng | MULTICOM2 open-source protein structure prediction system powered by deep learning and distance prediction | Scientific Reports | 11(1) |
| 2021 | 10.1128/mBio.02595-21 | Wu, R., M. R. Davison, W. C. Nelson, E. B. Graham, S. J. Fansler, Y. Farris, S. L. Bell, I. Godinez, J. E. Mcdermott, K. S. Hofmockel and J. K. Jansson | DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes | mBio | 12(6) e02595-21 |
| 2021 | 10.1038/s42003-021-02514-2 | Wu, R., M. R. Davison, Y. Gao, C. D. Nicora, J. E. McDermott, K. E. Burnum-Johnson, K. S. Hofmockel and J. K. Jansson | Moisture modulates soil reservoirs of active DNA and RNA viruses | Communications Biology | 4(1) 992 |
| 2021 | 10.1093/gbe/evab148 | Wu, K., Z.-H. Cheng, E. Williams, N. T. Turner, D. Ran, H. Li, X. Zhou, H. Guo, W. Sung, D.-F. Liu, M. Lynch and H. Long | Unexpected Discovery of Hypermutator Phenotype Sounds the Alarm for Quality Control Strains | Genome Biology and Evolution | 13(8) |
| 2021 | 10.1038/s41467-021-24653-0 | Wu, G. A., C. Sugimoto, H. Kinjo, C. Azama, F. Mitsube, M. Talon, F. G. Gmitter and D. S. Rokhsar | Diversification of mandarin citrus by hybrid speciation and apomixis | Nature Communications | 12(1) 4377 |
| 2021 | 10.1109/Cluster48925.2021.00053 | Wolf, M., J. Logan, K. Mehta, D. Jacobson, M. Cashman, A. M. Walker, G. Eisenhauer, P. Widener and A. Cliff | Reusability First: Toward FAIR Workflows | 2021 IEEE International Conference on Cluster Computing (CLUSTER) | 444–55 |
| 2021 | 10.1073/pnas.2004192118 | Wilson, R. M., M. M. Tfaily, M. Kolton, E. R. Johnston, C. Petro, et al. | Soil metabolome response to whole-ecosystem warming at the Spruce and Peatland Responses under Changing Environments experiment | Proceedings of the National Academy of Sciences | 118(25) e2004192118 |
| 2021 | 10.3389/fmicb.2021.674758 | Williams, T. J., M. A. Allen, N. Ivanova, M. Huntemann, S. Haque, A. M. Hancock, S. Brazendale and R. Cavicchioli | Genome Analysis of a Verrucomicrobial Endosymbiont With a Tiny Genome Discovered in an Antarctic Lake | Frontiers in Microbiology | 12 |
| 2021 | 10.1128/mbio.03259-21 | Wilkes, R. A., J. Waldbauer and L. Aristilde | Analogous Metabolic Decoupling in Pseudomonas putida and Comamonas testosteroni Implies Energetic Bypass to Facilitate Gluconeogenic Growth | mBio | 12(6) e03259-21 |
| 2021 | 10.1128/mSystems.00002-21 | Wilken, S. E., J. M. Monk, P. A. Leggieri, C. E. Lawson, T. S. Lankiewicz, et al. | Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus | mSystems | 6(1) e00002-21 |
| 2021 | 10.1128/mBio.03099-20 | Wilhelm, R. C., C. Pepe-Ranney, P. Weisenhorn, M. Lipton and D. H. Buckley | Competitive Exclusion and Metabolic Dependency among Microorganisms Structure the Cellulose Economy of an Agricultural Soil | mBio | 12(1) |
| 2021 | 10.12688/f1000research.51494.2 | Werbin, Z. R., B. Hackos, J. Lopez-Nava, M. C. Dietze and J. M. Bhatnagar | The National Ecological Observatory Network's soil metagenomes: assembly and basic analysis | F1000Research | 10 299 |
| 2021 | 10.1021/jasms.0c00251 | Weitz, K. K., M. L. Smith, K. K. Hixson, E. A. Hill, J. K. Jansson, K. S. Hofmockel and M. S. Lipton | Real-Time Mass Spectrometry Measurements of Respiration Rates in Biological Systems | Journal of the American Society for Mass Spectrometry | 32(3) 648–52 |
| 2021 | 10.3389/fmicb.2021.757741 | Wei, H., W. Wang, E. P. Knoshaug, X. Chen, S. Van Wychen, Y. J. Bomble, M. E. Himmel and M. Zhang | Disruption of the Snf1 Gene Enhances Cell Growth and Reduces the Metabolic Burden in Cellulase-Expressing and Lipid-Accumulating Yarrowia lipolytica | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.tibs.2021.06.007 | Wedow, J. M., E. A. Ainsworth and S. Li | Plant biochemistry influences tropospheric ozone formation, destruction, deposition, and response | Trends in Biochemical Sciences | 46(12) 992–1002 |
| 2021 | 10.1016/B978-0-08-102688-5.00073-8 | Waugh, M. W., S. Dwaraknath and Y. Lu | Advances in Metalloprotein Design and Engineering: Strategies Employed and Insights Gained | Comprehensive Coordination Chemistry III | 900–28 |
| 2021 | 10.1038/s42003-021-02244-5 | Ware, I. M., M. E. Van Nuland, Z. K. Yang, C. W. Schadt, J. A. Schweitzer and J. K. Bailey | Climate-driven divergence in plant-microbiome interactions generates range-wide variation in bud break phenology | Communications Biology | 4(1) 748 |
| 2021 | 10.1128/mra.00258-21 | Ward, R. D., J. E. Stajich, J. R. Johansen, M. Huntemann, A. Clum, et al. | Metagenome Sequencing to Explore Phylogenomics of Terrestrial Cyanobacteria | Microbiology Resource Announcements | 10(22) |
| 2021 | 10.1038/s43586-020-00006-x | Wannier, T. M., P. N. Ciaccia, A. D. Ellington, G. T. Filsinger, F. J. Isaacs, K. Javanmardi, M. A. Jones, A. M. Kunjapur, A. Nyerges, C. Pal, M. G. Schubert and G. M. Church | Recombineering and MAGE | Nature Reviews Methods Primers | 1(1) |
| 2021 | 10.1021/acs.biomac.1c00223 | Wang, Y.-Y., B. Scheidemantle, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Polyurethanes Based on Unmodified and Refined Technical Lignins: Correlation between Molecular Structure and Material Properties | Biomacromolecules | 22(5) 2129–36 |
| 2021 | 10.1021/acs.chemrev.1c00260 | Wang, Y., P. Xue, M. Cao, T. Yu, S. T. Lane and H. Zhao | Directed Evolution: Methodologies and Applications | Chemical Reviews | 121(20) 12384-12444 |
| 2021 | 10.1002/cssc.202101492 | Wang, Y., X. Meng, Y. Tian, K. H. Kim, L. Jia, Y. Pu, G. Leem, D. Kumar, A. Eudes, A. J. Ragauskas and C. G. Yoo | Engineered Sorghum Bagasse Enables a Sustainable Biorefinery with p-Hydroxybenzoic Acid-Based Deep Eutectic Solvent | ChemSusChem | 14(23) 5235–44 |
| 2021 | 10.1186/s12870-021-02903-z | Wang, Y., W. Dong, M. C. Saha, M. K. Udvardi and Y. Kang | Improved node culture methods for rapid vegetative propagation of switchgrass (Panicum virgatum L.) | BMC Plant Biology | 21(1) 128 |
| 2021 | 10.1111/tpj.15365 | Wang, Y., K. X. Chan and S. P. Long | Towards a dynamic photosynthesis model to guide yield improvement in C4 crops | The Plant Journal | 107(2) 343–59 |
| 2021 | 10.1186/s12915-021-01124-y | Wang, Y., F. Baumdicker, P. Schweiger, S. Kuenzel and F. Staubach | Horizontal gene transfer-mediated bacterial strain variation affects host fitness in Drosophila | BMC Biology | 19(1) 187 |
| 2021 | 10.1016/j.ymben.2021.01.004 | Wang, X., J. H. Pereira, S. Tsutakawa, X. Fang, P. D. Adams, A. Mukhopadhyay and T. S. Lee | Efficient production of oxidized terpenoids via engineering fusion proteins of terpene synthase and cytochrome P450 | Metabolic Engineering | 64 41–51 |
| 2021 | 10.1093/jxb/eraa432 | Wang, S., K. Guan, Z. Wang, E. A. Ainsworth, T. Zheng, P. A. Townsend, K. Li, C. Moller, G. Wu and C. Jiang | Unique contributions of chlorophyll and nitrogen to predict crop photosynthetic capacity from leaf spectroscopy | Journal of Experimental Botany | 72(2) 341–54 |
| 2021 | 10.1371/journal.ppat.1009175 | Wang, Q., N. Shakoor, A. Boyher, K. M. Veley, J. C. Berry, T. C. Mockler and R. S. Bart | Escalation in the host-pathogen arms race: A host resistance response corresponds to a heightened bacterial virulence response | PLOS Pathogens | 17(1) e1009175 |
| 2021 | 10.1073/pnas.2019229118 | Wang, Q., A. Alowaifeer, P. Kerner, N. Balasubramanian, A. Patterson, W. Christian, A. Tarver, J. E. Dore, R. Hatzenpichler, B. Bothner and T. R. McDermott | Aerobic bacterial methane synthesis | Proceedings of the National Academy of Sciences | 118(27) e2019229118 |
| 2021 | 10.1111/nph.17355 | Wang, P., B. M. Moore, S. Uygun, M. D. Lehti-Shiu, C. S. Barry and S.-H. Shiu | Optimising the use of gene expression data to predict plant metabolic pathway memberships | New Phytologist | 231(1) 475–89 |
| 2021 | 10.1186/s12864-021-07397-5 | Wang, P., F. Meng, B. M. Moore and S.-H. Shiu | Impact of short-read sequencing on the misassembly of a plant genome | BMC Genomics | 22(1) 99 |
| 2021 | 10.1128/MSYSTEMS.00749-20 | Wang, P., Y. N. Chai, R. Roston, F. E. Dayan and D. P. Schachtman | The Sorghum bicolor root exudate sorgoleone shapes bacterial communities and delays network formation | mSystems | 6(2) |
| 2021 | 10.1371/journal.pcbi.1009448 | Wang, L., V. Upadhyay and C. D. Maranas | dGPredictor: Automated fragmentation method for metabolic reaction free energy prediction and de novo pathway design | PLoS Computational Biology | 17(9) e1009448 |
| 2021 | 10.1021/acssynbio.0c00598 | Wang, L. and C. D. Maranas | Computationally Prospecting Potential Pathways from Lignin Monomers and Dimers toward Aromatic Compounds | ACS Synthetic Biology | 10(5) 1064–76 |
| 2021 | 10.1111/gcbb.12872 | Wang, J., Y. Li, C. M. Wai, G. Beuchat and L. Q. Chen | Identification and analysis of stem-specific promoters from sugarcane and energy cane for oil accumulation in their stems | GCB Bioenergy | 13(9) 1515-1527 |
| 2021 | 10.1016/j.csbj.2021.03.034 | Wang, J., D. L. Carper, L. H. Burdick, H. K. Shrestha, M. R. Appidi, P. E. Abraham, C. M. Timm, R. L. Hettich, D. A. Pelletier and M. J. Doktycz | Formation, characterization and modeling of emergent synthetic microbial communities | Computational and Structural Biotechnology Journal | 19 1917–27 |
| 2021 | 10.1093/synbio/ysab020 | Wang, J., K. Anderson, E. Yang, L. He and M. E. Lidstrom | Enzyme engineering and in vivo testing of a formate reduction pathway | Synthetic Biology | 6(1) |
| 2021 | 10.1016/j.carbpol.2021.118564 | Wang, H.-T., V. S. Bharadwaj, J.-Y. Yang, T. M. Curry, K. W. Moremen, Y. J. Bomble and B. R. Urbanowicz | Rational enzyme design for controlled functionalization of acetylated xylan for cell-free polymer biosynthesis | Carbohydrate Polymers | 273 118564 |
| 2021 | 10.1038/s41477-021-00852-x | Wang, H., Y. Li, M. Chern, Y. Zhu, L.-L. Zhang, et al. | Suppression of rice miR168 improves yield, flowering time and immunity | Nature Plants | 7(2) 129–36 |
| 2021 | 10.3389/fpls.2021.650109 | Wang, H., J.-G. Chen and Y. Chang | Identification, Expression, and Interaction Analysis of Ovate Family Proteins in Populus trichocarpa Reveals a Role of PtOFP1 Regulating Drought Stress Response | Frontiers in Plant Science | 12 |
| 2021 | 10.1021/acs.jpclett.1c00763 | Wang, C. F. and P. Z. El-Khoury | Imaging Plasmons with Sub-2 nm Spatial Resolution via Tip-Enhanced Four-Wave Mixing | J Phys Chem Lett | 12(14) 3535-3539 |
| 2021 | 10.1021/acs.jpcc.1c04012 | Wang, C.-F., M. Zamkov and P. Z. El-Khoury | Ambient Tip-Enhanced Photoluminescence with 5 nm Spatial Resolution | The Journal of Physical Chemistry C | 125(22) 12251-12255 |
| 2021 | 10.1063/5.0056541 | Wang, C.-F., B. T. O’Callahan, A. Krayev and P. Z. El-Khoury | Nanoindentation-enhanced tip-enhanced Raman spectroscopy | The Journal of Chemical Physics | 154(24) 241101 |
| 2021 | 10.1038/s41467-021-25369-x | Wang, B., Y. Xu, X. Wang, J. S. Yuan, C. H. Johnson, J. D. Young and J. Yu | A guanidine-degrading enzyme controls genomic stability of ethylene-producing cyanobacteria | Nature Communications | 12(1) |
| 2021 | 10.1002/ecs2.3562 | Wang, B. and S. D. Allison | Drought legacies mediated by trait trade-offs in soil microbiomes | Ecosphere | 12(6) |
| 2021 | 10.1021/jasms.0c00268 | Walton, C. L., V. Kertesz and J. F. Cahill | Design and Evaluation of a Tethered, Open Port Sampling Interface for Liquid Extraction-Mass Spectrometry Chemical Analysis | Journal of the American Society for Mass Spectrometry | 32(1) 198-205 |
| 2021 | 10.1128/MRA.00072-21 | Wall, J. D., G. M. Zane, T. R. Juba, J. V. Kuehl, J. Ray, S. R. Chhabra, V. V. Trotter, M. Shatsky, K. B. D. León, K. L. Keller, K. S. Bender, G. Butland, A. P. Arkin and A. M. Deutschbauer | Deletion Mutants, Archived Transposon Library, and Tagged Protein Constructs of the Model Sulfate-Reducing Bacterium Desulfovibrio vulgaris Hildenborough | Microbiology Resource Announcements | 10(11) e00072-21 |
| 2021 | 10.1128/msystems.00443-21 | Walker, C., B. Dien, R. J. Giannone, P. Slininger, S. R. Thompson and C. T. Trinh | Exploring Proteomes of Robust Yarrowia lipolytica Isolates Cultivated in Biomass Hydrolysate Reveals Key Processes Impacting Mixed Sugar Utilization, Lipid Accumulation, and Degradation | mSystems | 6(4) |
| 2021 | 10.1128/mSystems.00443-21 | Walker, C., B. Dien, R. J. Giannone, P. Slininger, S. R. Thompson and C. T. Trinh | Exploring proteomes of robust yarrowia lipolytica isolates cultivated in biomass hydrolysate reveals key processes impacting mixed sugar utilization, lipid accumulation, and degradation | mSystems | 6(4) |
| 2021 | 10.1371/journal.pgen.1009725 | Wakao, S., P. M. Shih, K. Guan, W. Schackwitz, J. Ye, D. Patel, R. M. Shih, R. M. Dent, M. Chovatia, A. Sharma, J. Martin, C.-L. Wei and K. K. Niyogi | Discovery of photosynthesis genes through whole-genome sequencing of acetate-requiring mutants of Chlamydomonas reinhardtii | PLOS Genetics | 17(9) e1009725 |
| 2021 | 10.1016/j.ymben.2021.01.013 | Wada, A., É. T. Prates, R. Hirano, A. Z. Werner, N. Kamimura, D. A. Jacobson, G. T. Beckham and E. Masai | Characterization of aromatic acid/proton symporters in Pseudomonas putida KT2440 toward efficient microbial conversion of lignin-related aromatics | Metabolic Engineering | 64 167–79 |
| 2021 | 10.1002/agj2.20832 | von Haden, A. C., M. B. Burnham, W. H. Yang and E. H. DeLucia | Comparative establishment and yield of bioenergy sorghum and maize following pre-emergence waterlogging | Agronomy Journal | 113(6) 5602–11 |
| 2021 | 10.1016/j.jclepro.2021.126875 | Viswanathan, M. B., M.-H. Cheng, T. E. Clemente, I. Dweikat and V. Singh | Economic perspective of ethanol and biodiesel coproduction from industrial hemp | Journal of Cleaner Production | 299 126875 |
| 2021 | 10.1128/MRA.00652-21 | Villarreal, A. R., D. E. Campbell, S. S. Webster and R. C. Hunter | Draft genome sequence of scheffersomyces spartinae ARV011, a marine yeast isolate | Microbiology Resource Announcements | 10(45) |
| 2021 | 10.1016/j.scitotenv.2020.144498 | Villa, J. A., Y. Ju, T. Yazbeck, S. Waldo, K. C. Wrighton and G. Bohrer | Ebullition dominates methane fluxes from the water surface across different ecohydrological patches in a temperate freshwater marsh at the end of the growing season | Science of the Total Environment | 767 |
| 2021 | 10.1111/1462-2920.15409 | Viljakainen, V. R. and L. A. Hug | The phylogenetic and global distribution of bacterial polyhydroxyalkanoate bioplastic-degrading genes | Environmental Microbiology | 23(3) 1717-1731 |
| 2021 | 10.29303/jbt.v21i2.2802 | Viersanova, A. and H. Purwanto | Draft Genome of Lysinibacillus sphaericus Isolate 229C Pathogenic to Vector Mosquitoes | Jurnal Biologi Tropis | 21(2) 576–86 |
| 2021 | 10.1021/acssynbio.1c00136 | Vezeau, G. E. and H. M. Salis | Tuning cell-free composition controls the time delay, dynamics, and productivity of TX-TL expression | ACS Synthetic Biology | 10(10) 2508-2519 |
| 2021 | 10.1016/j.plantsci.2020.110693 | Verhertbruggen, Y., A. Bouder, J. Vigouroux, C. Alvarado, A. Geairon, et al. | The TaCslA12 gene expressed in the wheat grain endosperm synthesizes wheat-like mannan when expressed in yeast and Arabidopsis | Plant Science | 302 110693 |
| 2021 | 10.1111/nph.17462 | Veneault-Fourrey, C. and M. Rep | Quantitative resistance linked to late effectors | New Phytologist | 231(4) 1301–3 |
| 2021 | 10.3390/jof7080609 | Veličković, D., M. Zhou, J. S. Schilling and J. Zhang | Using MALDI-FTICR-MS imaging to track low-molecular-weight aromatic derivatives of fungal decayed wood | Journal of Fungi | 7(8) |
| 2021 | 10.1371/journal.pone.0231367 | Vélez, J. M., R. M. Morris, R. Vilgalys, J. Labbé and C. W. Schadt | Phylogenetic diversity of 200+ isolates of the ectomycorrhizal fungus Cenococcum geophilum associated with Populus trichocarpa soils in the Pacific Northwest, USA and comparison to globally distributed representatives | PLoS ONE | 16(1) e0231367 |
| 2021 | 10.1002/wsbm.1512 | Vasdekis, A. E. and A. Singh | Microbial metabolic noise | WIREs Systems Biology and Medicine | 13(3) e1512 |
| 2021 | 10.12688/F1000RESEARCH.27262.1 | Varoquaux, N. and E. Purdom | A pipeline to analyse time-course gene expression data [version 1; peer review: 1 approved with reservations] | F1000Research | 9 15342 |
| 2021 | 10.3390/rs13091763 | Varela, S., T. Pederson, C. J. Bernacchi and A. D. B. Leakey | Understanding Growth Dynamics and Yield Prediction of Sorghum Using High Temporal Resolution UAV Imagery Time Series and Machine Learning | Remote Sensing | 13(9) 1763 |
| 2021 | 10.1128/mSystems.01194-20 | Vangay, P., J. Burgin, A. Johnston, K. L. Beck, D. C. Berrios, et al. | Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities | mSystems | 6(1) |
| 2021 | 10.1111/nph.17599 | Van Nuland, M. E., I. M. Ware, C. W. Schadt, Z. Yang, J. K. Bailey and J. A. Schweitzer | Natural soil microbiome variation affects spring foliar phenology with consequences for plant productivity and climate-driven range shifts | New Phytologist | 232(2) 762-775 |
| 2021 | 10.1038/s42003-021-02809-4 | Van Goethem, M. W., A. R. Osborn, B. P. Bowen, P. F. Andeer, T. L. Swenson, et al. | Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics | Communications Biology | 4(1) 1302 |
| 2021 | 10.1002/ajb2.1659 | Valverde-Barrantes, O. J., L. Authier, H. Schimann and C. Baraloto | Root anatomy helps to reconcile observed root trait syndromes in tropical tree species | American Journal of Botany | 108(5) 744-755 |
| 2021 | 10.1107/S2059798321003922 | Vadivel, K., A. E. Schmidt, D. Cascio, K. Padmanabhan, S. Krishnaswamy, H. Brandstetter and S. P. Bajaj | Structure of human factor VIIa-soluble tissue factor with calcium, magnesium and rubidium | Acta Crystallographica Section D: Structural Biology | 77 809-819 |
| 2021 | 10.1094/pbiomes-12-19-0069-fi | Ulbrich, T. C., M. L. Friesen, S. S. Roley, L. K. Tiemann and S. E. Evans | Intraspecific Variability in Root Traits and Edaphic Conditions Influence Soil Microbiomes Across 12 Switchgrass Cultivars | Phytobiomes Journal | 5(1) 108–20 |
| 2021 | 10.1038/s41579-021-00631-7 | Udwary, D. W., H. Otani and N. J. Mouncey | New keys to unlock the treasure trove of microbial natural products | Nature Reviews Microbiology | 19(11) 683 |
| 2021 | 10.7554/eLife.52770 | Turnšek, J., J. K. Brunson, M. P. Martinez Viedma, T. J. Deerinck, A. Horák, M. Oborník, V. A. Bielinski and A. E. Allen | Proximity proteomics in a marine diatom reveals a putative cell surface-to-chloroplast iron trafficking pathway | eLife | 10 1-113 |
| 2021 | 10.1038/s41396-021-00919-9 | Turkarslan, S., N. Stopnisek, A. W. Thompson, C. E. Arens, J. J. Valenzuela, et al. | Synergistic epistasis enhances the co-operativity of mutualistic interspecies interactions | The ISME Journal | 15(8) 2233–47 |
| 2021 | 10.3389/feduc.2021.711618 | Tully, B. J., J. Buongiorno, A. B. Cohen, J. A. Cram, A. I. Garber, et al. | The Bioinformatics Virtual Coordination Network: An Open-Source and Interactive Learning Environment | Frontiers in Education | 6 |
| 2021 | 10.1016/j.jmii.2020.04.019 | Tseng, C.-H., J.-F. Cheng, S.-Y. Chen, W.-H. Chen, Z.-Y. Shi, Y.-H. Lin, C.-A. Tsai, S.-P. Lin, Y.-C. Chen, Y.-C. Lin, Y.-T. Huang and P.-Y. Liu | Detection of S83V GyrA mutation in quinolone-resistant Shewanella algae using comparative genomics | Journal of Microbiology, Immunology and Infection | 54(4) 658-664 |
| 2021 | 10.1201/9781003048237-19 | Tsai, C.-J. | Genome editing of woody perennial trees | Genome editing for precision crop breeding | 441–57 |
| 2021 | 10.1186/s40168-021-01154-2 | Trubl, G., J. A. Kimbrel, J. Liquet-Gonzalez, E. E. Nuccio, P. K. Weber, J. Pett-Ridge, J. K. Jansson, M. P. Waldrop and S. J. Blazewicz | Active virus-host interactions at sub-freezing temperatures in Arctic peat soil | Microbiome | 9(1) 208 |
| 2021 | 10.7717/peerj.12628 | Tross, M. C., M. Gaillard, M. Zwiener, C. Miao, R. J. Grove, B. Li, B. Benes and J. C. Schnable | 3D reconstruction identifies loci linked to variation in angle of individual sorghum leaves | PeerJ | 9 |
| 2021 | 10.1525/elementa.2020.00144 | Treseder, K. K., C. J. Alster, L. A. Cat, M. E. Gorris, A. L. Kuhn, K. G. Lovero, F. Hagedorn, J. F. Kerekes, T. A. McHugh and E. F. Solly | Nutrient and stress tolerance traits linked to fungal responses to global change: Four case studies | Elementa | 9(1) |
| 2021 | 10.1038/s42003-021-02731-9 | Traving, S. J., C. T. E. Kellogg, T. Ross, R. McLaughlin, B. Kieft, G. Y. Ho, A. Peña, M. Krzywinski, M. Robert and S. J. Hallam | Prokaryotic responses to a warm temperature anomaly in northeast subarctic Pacific waters | Communications Biology | 4(1) 1217 |
| 2021 | 10.1093/jimb/kuab067 | Tran, V. G. and H. Zhao | Engineering robust microorganisms for organic acid production | Journal of Industrial Microbiology and Biotechnology | 49(2) |
| 2021 | 10.1038/s41396-021-00898-x | Tran, P. Q., S. C. Bachand, P. B. McIntyre, B. M. Kraemer, Y. Vadeboncoeur, I. A. Kimirei, R. Tamatamah, K. D. McMahon and K. Anantharaman | Depth-discrete metagenomics reveals the roles of microbes in biogeochemical cycling in the tropical freshwater Lake Tanganyika | The ISME Journal | 15(7) 1971-1986 |
| 2021 | 10.1002/tpg2.20149 | Tilhou, N. W. and M. D. Casler | Subsampling and DNA pooling can increase gains through genomic selection in switchgrass | The Plant Genome | 14(3) e20149 |
| 2021 | 10.1186/s13068-021-02068-9 | Tian, Y., C.-Y. Lin, J.-H. Park, C.-Y. Wu, R. Kakumanu, et al. | Overexpression of the rice BAHD acyltransferase AT10 increases xylan-bound p-coumarate and reduces lignin in Sorghum bicolor | Biotechnology for Biofuels | 14(1) 217 |
| 2021 | 10.3389/fpls.2021.704905 | Tian, F., X.-L. Hu, T. Yao, X. Yang, J.-G. Chen, M.-Z. Lu and J. Zhang | Recent Advances in the Roles of HSFs and HSPs in Heat Stress Response in Woody Plants | Frontiers in Plant Science | 12 |
| 2021 | 10.1128/AEM.01037-21 | Thorgersen, M. P., J. Xue, E. L. W. Majumder, V. V. Trotter, X. Ge, F. L. Poole, T. K. Owens, L. M. Lui, T. N. Nielsen, A. P. Arkin, A. M. Deutschbauer, G. Siuzdak and M. W. W. Adams | Deciphering Microbial Metal Toxicity Responses via Random Bar Code Transposon Site Sequencing and Activity-Based Metabolomics | Applied and Environmental Microbiology | 87(21) e01037-21 |
| 2021 | 10.1128/MRA.00150-21 | Thompson, M. G., C. B. Eiben, A. N. Pearson and P. M. Shih | Draft Genome Sequence of Mycobacterium sp. Strain JC1 DSM 3803 | Microbiology Resource Announcements | 10(19) e00150-21 |
| 2021 | 10.3389/fmicb.2021.632731 | Thomas, S. C., D. Payne, K. O. Tamadonfar, C. O. Seymour, J.-Y. Jiao, et al. | Genomics, Exometabolomics, and Metabolic Probing Reveal Conserved Proteolytic Metabolism of Thermoflexus hugenholtzii and Three Candidate Species From China and Japan | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fpls.2021.732307 | Tetreault, H. M., T. Gries, S. Liu, J. Toy, Z. Xin, W. Vermerris, J. Ralph, D. L. Funnell-Harris and S. E. Sattler | The Sorghum (Sorghum bicolor) Brown Midrib 30 Gene Encodes a Chalcone Isomerase Required for Cell Wall Lignification | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41586-021-03306-8 | Terrer, C., R. P. Phillips, B. A. Hungate, J. Rosende, J. Pett-Ridge, et al. | A trade-off between plant and soil carbon storage under elevated CO2 | Nature | 591(7851) 599–603 |
| 2021 | 10.1186/s40168-021-01156-0 | ter Horst, A. M., C. Santos-Medellín, J. W. Sorensen, L. A. Zinke, R. M. Wilson, E. R. Johnston, G. Trubl, J. Pett-Ridge, S. J. Blazewicz, P. J. Hanson, J. P. Chanton, C. W. Schadt, J. E. Kostka and J. B. Emerson | Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations | Microbiome | 9(1) 233 |
| 2021 | 10.1111/gcbb.12745 | Tejera, M. D., F. E. Miguez and E. A. Heaton | The older plant gets the sun: Age-related changes in Miscanthus × giganteus phenology | GCB Bioenergy | 13(1) 45767 |
| 2021 | 10.1073/pnas.2100678118 | Teixeira, P. J. P. L., N. R. Colaianni, T. F. Law, J. M. Conway, S. Gilbert, H. Li, I. Salas-González, D. Panda, N. M. Del Risco, O. M. Finkel, G. Castrillo, P. Mieczkowski, C. D. Jones and J. L. Dangl | Specific modulation of the root immune system by a community of commensal bacteria | Proceedings of the National Academy of Sciences of the United States of America | 118(16) |
| 2021 | 10.1016/j.copbio.2021.01.019 | Taş, N., A. E. E. de Jong, Y. Li, G. Trubl, Y. Xue and N. C. Dove | Metagenomic tools in microbial ecology research | Current Opinion in Biotechnology | 67 184–91 |
| 2021 | 10.1108/BEPAM-03-2020-0053 | Tariq, H., C. Pathirage and T. Fernando | Measuring community disaster resilience using Q-methods: a physical resilience perspective | Built Environment Project and Asset Management | 11(4) 722-737 |
| 2021 | 10.1029/2021MS002469 | Tang, J., W. J. Riley, G. L. Marschmann and E. L. Brodie | Conceptualizing Biogeochemical Reactions With an Ohm's Law Analogy | Journal of Advances in Modeling Earth Systems | 13(10) e2021MS002469 |
| 2021 | 10.1107/S1600576720015526 | Tan, L., J. G. Elkins, B. H. Davison, E. G. Kelley and J. Nickels | Implementation of a self-consistent slab model of bilayer structure in the SasView suite | Journal of Applied Crystallography | 54 363–70 |
| 2021 | 10.1002/anie.202110658 | Takino, J., A. Kotani, T. Ozaki, W. Peng, J. Yu, Y. Guo, S. Mochizuki, K. Akimitsu, M. Hashimoto, T. Ye, A. Minami and H. Oikawa | Biochemistry-Guided Prediction of the Absolute Configuration of Fungal Reduced Polyketides | Angewandte Chemie International Edition | 60(43) 23403-23411 |
| 2021 | 10.1093/pcp/pcab103 | Takahashi, D., I. R. Willick, J. Kasuga and D. P. Livingston III | Responses of the Plant Cell Wall to Sub-Zero Temperatures: A Brief Update | Plant and Cell Physiology | 62(12) 1858–66 |
| 2021 | 10.1002/aepp.13067 | Swinton, S. M., F. Dulys and S. S. H. Klammer | Why Biomass Residue Is Not as Plentiful as It Looks: Case Study on Economic Supply of Logging Residues | Applied Economic Perspectives and Policy | 43(3) 1003–25 |
| 2021 | 10.3389/ffunb.2021.708358 | Swift, C. L., N. G. Malinov, S. J. Mondo, A. Salamov, I. V. Grigoriev and M. A. O'Malley | A Genomic Catalog of Stress Response Genes in Anaerobic Fungi for Applications in Bioproduction | Frontiers in Fungal Biology | 2 |
| 2021 | 10.1073/pnas.2019855118 | Swift, C. L., K. B. Louie, B. P. Bowen, H. M. Olson, S. O. Purvine, A. Salamov, S. J. Mondo, K. V. Solomon, A. T. Wright, T. R. Northen, I. V. Grigoriev, N. P. Keller and M. A. O’Malley | Anaerobic gut fungi are an untapped reservoir of natural products | Proceedings of the National Academy of Sciences | 118(18) e2019855118 |
| 2021 | 10.1128/mBio.01442-21 | Swift, C. L., K. B. Louie, B. P. Bowen, C. A. Hooker, K. V. Solomon, V. Singan, C. Daum, C. P. Pennacchio, K. Barry, V. Shutthanandan, J. E. Evans, I. V. Grigoriev, T. R. Northen and M. A. O’malley | Cocultivation of anaerobic fungi with rumen bacteria establishes an antagonistic relationship | mBio | 12(4) |
| 2021 | 10.1093/synbio/ysab019 | Svoboda, J., B. Cisneros and B. Philmus | Evaluation of inducible promoter–riboswitch constructs for heterologous protein expression in the cyanobacterial species Anabaena sp. PCC 7120 | Synthetic Biology | 6(1) |
| 2021 | 10.1038/s41467-021-24126-4 | Sutter, M., M. R. Melnicki, F. Schulz, T. Woyke and C. A. Kerfeld | A catalog of the diversity and ubiquity of bacterial microcompartments | Nature Communications | 12(1) 3809 |
| 2021 | 10.1016/j.ymben.2020.11.013 | Suthers, P. F., C. J. Foster, D. Sarkar, L. Wang and C. D. Maranas | Recent advances in constraint and machine learning-based metabolic modeling by leveraging stoichiometric balances, thermodynamic feasibility and kinetic law formalisms | Metabolic Engineering | 63 13–33 |
| 2021 | 10.1016/j.sbi.2020.12.013 | Sun, T.-p. | Novel nucleocytoplasmic protein O-fucosylation by SPINDLY regulates diverse developmental processes in plants | Current Opinion in Structural Biology | 68 113-121 |
| 2021 | 10.1128/msystems.01020-20 | Sun, M., Y. Zhan, D. Marsan, D. Páez-Espino, L. Cai and F. Chen | Uncultivated Viral Populations Dominate Estuarine Viromes on the Spatiotemporal Scale | mSystems | 6(2) |
| 2021 | 10.1038/s41467-021-25241-y | Sun, L., J. W. Lee, S. Yook, S. Lane, Z. Sun, S. R. Kim and Y.-S. Jin | Complete and efficient conversion of plant cell wall hemicellulose into high-value bioproducts by engineered yeast | Nature Communications | 12(1) 4975 |
| 2021 | 10.1002/biot.202000142 | Sun, L. and Y. S. Jin | Xylose Assimilation for the Efficient Production of Biofuels and Chemicals by Engineered Saccharomyces cerevisiae | Biotechnology Journal | 16(4) e2000142 |
| 2021 | 10.1038/s43705-021-00032-0 | Sun, J., P. N. Evans, E. J. Gagen, B. J. Woodcroft, B. P. Hedlund, T. Woyke, P. Hugenholtz and C. Rinke | Recoding of stop codons expands the metabolic potential of two novel Asgardarchaeota lineages | ISME Communications | 1(1) |
| 2021 | 10.1111/gcbb.12875 | Studt, J. E., M. D. McDaniel, M. D. Tejera, A. VanLoocke, A. Howe and E. A. Heaton | Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays | GCB Bioenergy | 13(9) 1545–60 |
| 2021 | 10.1117/12.2583914 | Strobbia, P., V. Cupil-Garcia, R. Odion, B. M. Crawford, H.-N. Wang, Y. Liu, M. Maiwald, B. Sumpf and T. Vo-Dinh | Translation of SERS sensing to real-world settings through the combination with shifted-excitation Raman difference spectroscopy (SERDS) | Proceedings of Plasmonics in Biology and Medicine XVIII | 11661 1166103 |
| 2021 | 10.7150/thno.53101 | Strobbia, P., V. Cupil-Garcia, B. M. Crawford, A. M. Fales, T. J. Pfefer, Y. Liu, M. Maiwald, B. Sumpf and T. Vo-Dinh | Accurate in vivo tumor detection using plasmonic-enhanced shifted-excitation Raman difference spectroscopy (SERDS) | Theranostics | 11(9) 4090-4102 |
| 2021 | 10.1016/j.copbio.2021.07.005 | Streett, H., K. Charubin and E. T. Papoutsakis | Anaerobic fluorescent reporters for cell identification, microbial cell biology and high-throughput screening of microbiota and genomic libraries | Current Opinion in Biotechnology | 71 151-163 |
| 2021 | 10.1038/s41467-021-25691-4 | Stork, D. A., G. R. Squyres, E. Kuru, K. A. Gromek, J. Rittichier, A. Jog, B. M. Burton, G. M. Church, E. C. Garner and A. M. Kunjapur | Designing efficient genetic code expansion in Bacillus subtilis to gain biological insights | Nature Communications | 12(1) |
| 2021 | 10.1038/s41467-021-23676-x | Stone, B. W., J. Li, B. J. Koch, S. J. Blazewicz, P. Dijkstra, M. Hayer, K. S. Hofmockel, X. J. A. Liu, R. L. Mau, E. M. Morrissey, J. Pett-Ridge, E. Schwartz and B. A. Hungate | Nutrients cause consolidation of soil carbon flux to small proportion of bacterial community | Nature Communications | 12(1) |
| 2021 | 10.1071/mf20024 | Stoessel, D. J., A. R. van Rooyen, L. B. Beheregaray, S. M. C. Raymond, B. van Wyk, J. Haddy, J. Lieschke and A. R. Weeks | Population genetic structure of estuary perch (Percalates colonorum Gunther) in south-eastern Australia | Marine and Freshwater Research | 72(2) |
| 2021 | 10.1007/978-1-0716-1657-4_22 | Stettner, S. and C. Eckert | CRISPR-Cas Genome Editing in the Cellulolytic Bacterium Clostridium thermocellum (C. thermocellum) | CRISPR-Cas Methods: Volume 2 | 335–44 |
| 2021 | 10.1016/j.mec.2021.e00176 | Stephens, K., F. R. Zakaria, E. VanArsdale, G. F. Payne and W. E. Bentley | Electronic signals are electrogenetically relayed to control cell growth and co-culture composition | Metabolic Engineering Communications | 13 e00176 |
| 2021 | 10.1021/acsearthspacechem.1c00087 | Stemple, B., K. Tinker, P. Sarkar, J. Miller, D. Gulliver and K. Bibby | Biogeochemistry of the Antrim Shale Natural Gas Reservoir | ACS Earth and Space Chemistry | 5(7) 1752–61 |
| 2021 | 10.1111/1462-2920.15273 | Steindorff, A. S., A. Carver, S. Calhoun, K. Stillman, H. Liu, A. Lipzen, G. He, M. Yan, J. Pangilinan, K. LaButti, V. Ng, T. D. Bruns and I. V. Grigoriev | Comparative genomics of pyrophilous fungi reveals a link between fire events and developmental genes | Environmental Microbiology | 23(1) 99–109 |
| 2021 | 10.1086/716182 | Steidinger, B. S. and K. G. Peay | Optimal allocation ratios: A square root relationship between the ratios of symbiotic costs and benefits | American Naturalist | 198(4) 460-472 |
| 2021 | 10.1126/sciadv.abe4724 | Stebbing, J., G. S. Nievas, M. Falcone, S. Youhanna, P. Richardson, et al. | JAK inhibition reduces SARS-CoV-2 liver infectivity and modulates inflammatory responses to reduce morbidity and mortality | Science Advances | 7(1) |
| 2021 | 10.1128/mSphere.00085-21 | Starr, E. P., S. Shi, S. J. Blazewicz, B. J. Koch, A. J. Probst, B. A. Hungate, J. Pett-Ridge, M. K. Firestone and J. F. Banfield | Stable-Isotope-Informed, Genome-Resolved Metagenomics Uncovers Potential Cross-Kingdom Interactions in Rhizosphere Soil | mSphere | 6(5) e00085-21 |
| 2021 | 10.1016/j.soilbio.2021.108170 | Starke, R., R. L. Mondéjar, Z. R. Human, D. Navrátilová, M. Štursová, et al. | Niche differentiation of bacteria and fungi in carbon and nitrogen cycling of different habitats in a temperate coniferous forest: A metaproteomic approach | Soil Biology and Biochemistry | 155 108170 |
| 2021 | 10.7554/eLife.65145 | Staquicini, F. I., A. Hajitou, W. H. P. Driessen, B. Proneth, M. Cardó-Vila, et al. | Targeting a cell surface vitamin d receptor on tumor-associated macrophages in triple-negative breast cancer | eLife | 10 |
| 2021 | 10.1073/pnas.2105739118 | Staquicini, D. I., F. H. F. Tang, C. Markosian, V. J. Yao, F. I. Staquicini, et al. | Design and proof of concept for targeted phage-based COVID-19 vaccination strategies with a streamlined cold-free supply chain | Proceedings of the National Academy of Sciences of the United States of America | 118(30) |
| 2021 | 10.1007/s00248-020-01651-1 | St. James, A. R., J. Lin and R. E. Richardson | Relationship Between Peat Type and Microbial Ecology in Sphagnum-Containing Peatlands of the Adirondack Mountains, NY, USA | Microbial Ecology | 82(2) 429–41 |
| 2021 | 10.1038/s41396-020-00782-0 | St James, A. R., J. B. Yavitt, S. H. Zinder and R. E. Richardson | Linking microbial Sphagnum degradation and acetate mineralization in acidic peat bogs: from global insights to a genome-centric case study | The ISME Journal | 15(1) 293–303 |
| 2021 | 10.1093/femsle/fnab153 | St James, A. R. and R. E. Richardson | Stimulation of dissimilatory sulfate reduction in response to sulfate in microcosm incubations from two contrasting temperate peatlands near Ithaca, NY, USA | FEMS Microbiology Letters | 368(21-24) |
| 2021 | 10.1016/j.bioflm.2021.100052 | Speers, A. M. and G. Reguera | Competitive advantage of oxygen-tolerant bioanodes of Geobacter sulfurreducens in bioelectrochemical systems | Biofilm | 3 100052 |
| 2021 | 10.1088/1748-9326/ac2e35 | Spawn-Lee, S. A., T. J. Lark, H. K. Gibbs, R. A. Houghton, C. J. Kucharik, C. Malins, R. E. O. Pelton and G. P. Robertson | Comment on ‘Carbon Intensity of corn ethanol in the United States: state of the science’ | Environmental Research Letters | 16(11) 118001 |
| 2021 | 10.1016/j.polymdegradstab.2021.109481 | Soulenthone, P., Y. Tachibana, M. Suzuki, T. Mizuno, Y. Ohta and K.-i. Kasuya | Characterization of a poly(butylene adipate-co-terephthalate) hydrolase from the mesophilic actinobacteria Rhodococcus fascians | Polymer Degradation and Stability | 184 |
| 2021 | 10.3389/fpls.2021.589518 | Soto, M. J., P. K. Prabhakar, H.-T. Wang, J. Backe, D. Chapla, M. Bartetzko, I. M. Black, P. Azadi, M. J. Peña, F. Pfrengle, K. W. Moremen, B. R. Urbanowicz and M. G. Hahn | AtFUT4 and AtFUT6 Are Arabinofuranose-Specific Fucosyltransferases | Frontiers in Plant Science | 12 |
| 2021 | 10.1093/g3journal/jkab222 | Sorgini, C. A., L. M. Roberts, M. Sullivan, A. B. Cousins, I. Baxter and A. J. Studer | The genetic architecture of leaf stable carbon isotope composition in Zea mays and the effect of transpiration efficiency on leaf elemental accumulation | G3: Genes, Genomes, Genetics | 11(9) |
| 2021 | 10.1128/mSystems.00614-21 | Sorensen, J. W., L. A. Zinke, A. M. ter Horst, C. Santos-Medellín, A. Schroeder and J. B. Emerson | Dnase treatment improves viral enrichment in agricultural soil viromes | mSystems | 6(5) |
| 2021 | 10.1128/mSystems.00224-21 | Song, F., J. V. Kuehl, A. Chandran and A. P. Arkin | A Simple, Cost-Effective, and Automation-Friendly Direct PCR Approach for Bacterial Community Analysis | mSystems | 6(5) e00224-21 |
| 2021 | 10.1111/nph.17287 | Sonawane, B. V., N. K. Koteyeva, D. M. Johnson and A. B. Cousins | Differences in leaf anatomy determines temperature response of leaf hydraulic and mesophyll CO2 conductance in phylogenetically related C4 and C3 grass species | New Phytologist | 230(5) 1802-1814 |
| 2021 | 10.1146/annurev-virology-010421-053015 | Sommers, P., A. Chatterjee, A. Varsani and G. Trubl | Integrating Viral Metagenomics into an Ecological Framework | Annual Review of Virology | 8(1) 133–58 |
| 2021 | 10.1111/pbi.13606 | Smith, R. A., C. L. Cass, D. L. Petrik, D. Padmakshan, J. Ralph, J. C. Sedbrook and S. D. Karlen | Stacking AsFMT overexpression with BdPMT loss of function enhances monolignol ferulate production in Brachypodium distachyon | Plant Biotechnology Journal | 19(9) 1878–86 |
| 2021 | 10.1016/j.csbj.2021.05.031 | Smith, M. D., L. J. Tassoulas, T. A. Biernath, J. E. Richman, K. G. Aukema and L. P. Wackett | p-Nitrophenyl esters provide new insights and applications for the thiolase enzyme OleA | Computational and Structural Biotechnology Journal | 19 3087-3096 |
| 2021 | 10.1126/sciadv.abk0734 | Smith, L. M., J. N. Agar, J. Chamot-Rooke, P. O. Danis, Y. Ge, J. A. Loo, L. Paša-Toliæ, Y. O. Tsybin and N. L. Kelleher | The human proteoform project: Defining the human proteome | Science Advances | 7(46) |
| 2021 | 10.1111/mec.15767 | Smith, G. R., L. C. Edy and K. G. Peay | Contrasting fungal responses to wildfire across different ecosystem types | Molecular Ecology | 30(3) 844–54 |
| 2021 | 10.1111/gcbb.12893 | Smercina, D. N., S. E. Evans, M. L. Friesen and L. K. Tiemann | Temporal dynamics of free-living nitrogen fixation in the switchgrass rhizosphere | GCB Bioenergy | 13(11) 1814–30 |
| 2021 | 10.1094/pbiomes-09-19-0055-fi | Smercina, D. N., A. W. Bowsher, S. E. Evans, M. L. Friesen, E. K. Eder, D. W. Hoyt and L. K. Tiemann | Switchgrass Rhizosphere Metabolite Chemistry Driven by Nitrogen Availability | Phytobiomes Journal | 5(1) 88–96 |
| 2021 | 10.1093/femsec/fiab091 | Smercina, D. N., V. L. Bailey and K. S. Hofmockel | Micro on a macroscale: relating microbial-scale soil processes to global ecosystem function | FEMS Microbiology Ecology | 97(7) fiab091 |
| 2021 | 10.1093/g3journal/jkab213 | Skerker, J. M., K. M. Pianalto, S. J. Mondo, K. Yang, A. P. Arkin, N. P. Keller, I. V. Grigoriev and N. L. Glass | Chromosome assembled and annotated genome sequence of Aspergillus flavus NRRL 3357 | G3 Genes|Genomes|Genetics | 11(8) |
| 2021 | 10.1128/AEM.00972-21 | Sipes, K., A. Almatari, A. Eddie, D. Williams, E. Spirina, E. Rivkina, R. Liang, T. C. Onstott, T. A. Vishnivetskaya and K. G. Lloyd | Eight Metagenome-Assembled Genomes Provide Evidence for Microbial Adaptation in 20,000- to 1,000,000-Year-Old Siberian Permafrost | Applied and Environmental Microbiology | 87(19) e00972-21 |
| 2021 | 10.1002/ece3.8335 | Singleton, A. L., M. H. Liu, S. Votzke, A. Yammine and J. P. Gibert | Increasing temperature weakens the positive effect of genetic diversity on population growth | Ecology and Evolution | 11(24) 17810-17816 |
| 2021 | 10.1089/ind.2021.0020 | Singh, R. and V. Singh | Integrated Biorefinery for Valorization of Engineered Bioenergy Crops—A Review | Industrial Biotechnology | 17(5) 271–82 |
| 2021 | 10.1016/j.biortech.2021.125817 | Singh, R., H. Liu, J. Shanklin and V. Singh | Hydrothermal pretreatment for valorization of genetically engineered bioenergy crop for lipid and cellulosic sugar recovery | Bioresource Technology | 341 125817 |
| 2021 | 10.1002/bbb.2255 | Singh, R., B. S. Dien and V. Singh | Response surface methodology guided adsorption and recovery of free fatty acids from oil using resin | Biofuels, Bioproducts and Biorefining | 15(5) 1485–95 |
| 2021 | 10.1016/j.biortech.2021.124772 | Singh, R., A. Arora and V. Singh | Biodiesel from oil produced in vegetative tissues of biomass – A review | Bioresource Technology | 326 124772 |
| 2021 | 10.1094/pbiomes-05-20-0042-rvw | Singer, E., J. P. Vogel, T. Northen, C. J. Mungall and T. E. Juenger | Novel and Emerging Capabilities that Can Provide a Holistic Understanding of the Plant Root Microbiome | Phytobiomes Journal | 5(2) 122–132 |
| 2021 | 10.1038/s41579-021-00509-8 | Singer, E. | An ancestral Matryoshka doll | Nature Reviews Microbiology | 19(3) 140 |
| 2021 | 10.1093/plcell/koaa046 | Simpson, J. P., C. Wunderlich, X. Li, E. Svedin, B. Dilkes and C. Chapple | Metabolic source isotopic pair labeling and genome-wide association are complementary tools for the identification of metabolite-gene associations in plants | Plant Cell | 33(3) 492-510 |
| 2021 | 10.3389/fpls.2021.714164 | Simpson, J. P., J. Olson, B. Dilkes and C. Chapple | Identification of the Tyrosine- and Phenylalanine-Derived Soluble Metabolomes of Sorghum | Frontiers in Plant Science | 12 |
| 2021 | 10.1371/journal.pone.0245069 | Sim, M. S., C. T. Skennerton and V. J. Orphan | Physiological, genomic, and sulfur isotopic characterization of methanol metabolism by Desulfovibrio carbinolicus | PLoS One | 16(1) e0245069 |
| 2021 | 10.1093/jxb/erab450 | Silva, T. N., J. B. Thomas, J. Dahlberg, S. Y. Rhee and J. C. Mortimer | Progress and challenges in sorghum biotechnology, a multipurpose feedstock for the bioeconomy | Journal of Experimental Botany | 73(3) 646–64 |
| 2021 | 10.1038/s41598-021-83937-z | Silva, P. C., J. A. Ceja-Navarro, F. Azevedo, U. Karaoz, E. L. Brodie and B. Johansson | A novel d-xylose isomerase from the gut of the wood feeding beetle Odontotaenius disjunctus efficiently expressed in Saccharomyces cerevisiae | Scientific Reports | 11(1) 4766 |
| 2021 | 10.1094/MPMI-11-20-0316-FI | Silva Pankievicz, V. C., F. P. do Amaral, J. M. Ané and G. Stacey | Diazotrophic bacteria and their mechanisms to interact and benefit cereals | Molecular Plant-Microbe Interactions | 34(5) 491-498 |
| 2021 | 10.1111/tbed.13771 | Silva, J. G., W. J. Araujo, E. L. Leite, L. M. Dias, P. C. Vasconcelos, N. M. V. Silva, R. P. Oliveira, M. J. Sena, C. J. B. Oliveira and R. A. Mota | First report of a livestock-associated methicillin-resistant Staphylococcus aureus ST126 harbouring the mecC variant in Brazil | Transboundary and Emerging Diseases | 68(3) 1019–25 |
| 2021 | 10.1002/9783527815128.ch3 | Si, T., P. Xue, K. Choe, H. Zhao and J. V. Sweedler | High-Throughput Mass Spectrometry Complements Protein Engineering | Protein Engineering: Tools and Applications | 57–79 |
| 2021 | 10.1002/pmic.202100127 | Shrestha, H. K., M. I. V. Solis, S. S. Jawdy, G. A. Tuskan, X. Yang and P. E. Abraham | Temporal dynamics of protein and post-translational modification abundances in Populus leaf across a diurnal period | Proteomics | 21(20) 2100127 |
| 2021 | 10.1186/s12866-021-02370-4 | Shrestha, H. K., M. R. Appidi, M. I. Villalobos Solis, J. Wang, D. L. Carper, L. Burdick, D. A. Pelletier, M. J. Doktycz, R. L. Hettich and P. E. Abraham | Metaproteomics reveals insights into microbial structure, interactions, and dynamic regulation in defined communities as they respond to environmental disturbance | BMC Microbiology | 21(1) 308 |
| 2021 | 10.1016/j.cub.2021.04.077 | Shmakova, L., S. Malavin, N. Iakovenko, T. Vishnivetskaya, D. Shain, M. Plewka and E. Rivkina | A living bdelloid rotifer from 24,000-year-old Arctic permafrost | Current Biology | 31(11) R712-R713 |
| 2021 | 10.3390/en14092633 | Shirkey, G., M. Belongeay, S. Wu, X. Ma, H. Tavakol, A. Anctil, S. Marquette-Pyatt, R. A. Stewart, P. Sinha, R. Corkish, J. Chen and I. Celik | An Environmental and Societal Analysis of the US Electrical Energy Industry Based on the Water–Energy Nexus | Energies | 14(9) 2633 |
| 2021 | 10.1128/mSystems.00493-21 | Shi, W., Q. Ma, F. Pan, Y. Fan, M. L. Kempher, D. Ning, Y. Qu, J. D. Wall, A. Zhou and J. Zhou | Genetic Basis of Chromate Adaptation and the Role of the Pre-existing Genetic Divergence during an Experimental Evolution Study with Desulfovibrio vulgaris Populations | mSystems | 6(3) e00493-21 |
| 2021 | 10.1016/j.jwpe.2021.102137 | Shen, X.-y., Y.-y. Zhuge, Y.-d. Liu, J. P. Shapleigh and W. Li | Long-term effects of acetylene on denitrifying N2O production: Biomass performance and microbial community | Journal of Water Process Engineering | 42 102137 |
| 2021 | 10.1038/s41589-021-00854-y | Sharon, I., A. S. Haque, M. Grogg, I. Lahiri, D. Seebach, A. E. Leschziner, D. Hilvert and T. M. Schmeing | Structures and function of the amino acid polymerase cyanophycin synthetase | Nature Chemical Biology | 17(10) 1101-1110 |
| 2021 | 10.1016/j.watres.2020.116571 | Shabtai, I. A., L. M. Lynch and Y. G. Mishael | Designing clay-polymer nanocomposite sorbents for water treatment: A review and meta-analysis of the past decade | Water Research | 188 116571 |
| 2021 | 10.1186/s13068-021-01905-1 | Serrani-Yarce, J. C., L. Escamilla-Trevino, J. Barros, L. Gallego-Giraldo, Y. Pu, A. Ragauskas and R. A. Dixon | Targeting hydroxycinnamoyl CoA: shikimate hydroxycinnamoyl transferase for lignin modification in Brachypodium distachyon | Biotechnology for Biofuels | 14(1) 50 |
| 2021 | 10.1016/j.crmicr.2021.100055 | Sergio, d. l. S.-V., K. James Michael, P.-C. Fannie Isela, V.-R. Valeria, H.-K. Corina, G.-O. Luis Fernando, T. James Michael, H. Sheng Yang and P.-C. Juan Jose | Draft genome sequence of Paraburkholderia sp. strain XV isolated from the rhizosphere of mango (Mangifera indica L.) | Current Research in Microbial Sciences | 2 100055 |
| 2021 | 10.1016/j.ymben.2021.04.005 | Seo, H., J.-W. Lee, R. J. Giannone, N. J. Dunlap and C. T. Trinh | Engineering promiscuity of chloramphenicol acetyltransferase for microbial designer ester biosynthesis | Metabolic Engineering | 66 179–190 |
| 2021 | 10.3389/fmicb.2021.754698 | Sengupta, A., T. H. M. Volkmann, R. E. Danczak, J. C. Stegen, K. Dontsova, et al. | Contrasting Community Assembly Forces Drive Microbial Structural and Potential Functional Responses to Precipitation in an Incipient Soil System | Frontiers in Microbiology | 12 |
| 2021 | 10.1093/aobpla/plab056 | Seethepalli, A., K. Dhakal, M. Griffiths, H. Guo, G. T. Freschet and L. M. York | RhizoVision Explorer: open-source software for root image analysis and measurement standardization | AoB PLANTS | 13(6) plab056 |
| 2021 | 10.1016/j.copbio.2021.01.002 | Scown, C. D., N. R. Baral, M. Yang, N. Vora and T. Huntington | Technoeconomic analysis for biofuels and bioproducts | Current Opinion in Biotechnology | 67 58–64 |
| 2021 | 10.1016/j.jece.2021.105665 | Scott, F., L. Yañez, R. Conejeros, B. Araya and A. Vergara-Fernández | Two internal bottlenecks cause the overflow metabolism leading to poly(3-hydroxybutyrate) production in Azohydromonas lata DSM1123 | Journal of Environmental Chemical Engineering | 9(4) 105665 |
| 2021 | 10.1093/femsyr/foab066 | Schultz, J. C., M. Cao, A. Mejia and H. Zhao | CUT&RUN identifies centromeric DNA regions of Rhodotorula toruloides IFO0880 | FEMS Yeast Research | 21(8) |
| 2021 | 10.1126/sciadv.abh2433 | Schulte, C. C. M., K. Borah, R. M. Wheatley, J. J. Terpolilli, G. Saalbach, N. Crang, D. H. de Groot, R. G. Ratcliffe, N. J. Kruger, A. Papachristodoulou and P. S. Poole | Metabolic control of nitrogen fixation in rhizobium-legume symbioses | Science Advances | 7(31) eabh2433 |
| 2021 | 10.1073/pnas.2018181118 | Schubert, M. G., D. B. Goodman, T. M. Wannier, D. Kaur, F. Farzadfard, T. K. Lu, S. L. Shipman and G. M. Church | High-throughput functional variant screens via in vivo production of single-stranded DNA | Proceedings of the National Academy of Sciences of the United States of America | 118(18) |
| 2021 | 10.1093/femsec/fiab082 | Schreiber, L., N. Fortin, J. Tremblay, J. Wasserscheid, S. Sanschagrin, J. Mason, C. A. Wright, D. Spear, S. C. Johannessen, B. Robinson, T. King, K. Lee and C. W. Greer | In situ microcosms deployed at the coast of British Columbia (Canada) to study dilbit weathering and associated microbial communities under marine conditions | FEMS Microbiology Ecology | 97(7) |
| 2021 | 10.3389/fmicb.2021.702015 | Schmidt, J. M., T. M. Royalty, K. G. Lloyd and A. D. Steen | Potential activities and long lifetimes of organic carbon-degrading extracellular enzymes in deep subsurface sediments of the Baltic Sea | Frontiers in Microbiology | 12 |
| 2021 | 10.1128/jb.00377-21 | Schmid, S., D. Chaput, M. Breitbart, R. Hines, S. Williams, H. K. Gossett, S. D. Parsi, R. Peterson, R. A. Whittaker, A. Tarver and K. M. Scott | Dissolved Inorganic Carbon-Accumulating Complexes from Autotrophic Bacteria from Extreme Environments | Journal of Bacteriology | 203(23) |
| 2021 | 10.1371/journal.ppat.1010112 | Schiffer, J. A., S. V. Stumbur, M. Seyedolmohadesin, Y. Xu, W. T. Serkin, et al. | Modulation of sensory perception by hydrogen peroxide enables Caenorhabditis elegans to find a niche that provides both food and protection from hydrogen peroxide | PLOS Pathogens | 17(12) e1010112 |
| 2021 | 10.1109/TMI.2020.3024264 | Scheufele, K., S. Subramanian and G. Biros | Fully Automatic Calibration of Tumor-Growth Models Using a Single mpMRI Scan | IEEE Transactions on Medical Imaging | 40(1) 193–204 |
| 2021 | 10.1038/s41929-020-00557-y | Scheffen, M., D. G. Marchal, T. Beneyton, S. K. Schuller, M. Klose, et al. | A new-to-nature carboxylation module to improve natural and synthetic CO2 fixation | Nature Catalysis | 4(2) 105-115 |
| 2021 | 10.3389/fpls.2021.747225 | Scavuzzo-Duggan, T., N. Varoquaux, M. Madera, J. P. Vogel, J. Dahlberg, R. Hutmacher, M. Belcher, J. Ortega, D. Coleman-Derr, P. Lemaux, E. Purdom and H. V. Scheller | Cell Wall Compositions of Sorghum bicolor Leaves and Roots Remain Relatively Constant Under Drought Conditions | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fpls.2021.747225 | Scavuzzo-Duggan, T., N. Varoquaux, M. Madera, J. P. Vogel, J. Dahlberg, R. Hutmacher, M. Belcher, J. Ortega, D. Coleman-Derr, P. Lemaux, E. Purdom and H. V. Scheller | Cell Wall Compositions of Sorghum bicolor Leaves and Roots Remain Relatively Constant Under Drought Conditions | Frontiers in Plant Science | 12 |
| 2021 | 10.3390/microorganisms9040694 | Saye, L. M. G., T. A. Navaratna, J. P. J. Chong, M. A. O'Malley, M. K. Theodorou and M. Reilly | The Anaerobic Fungi: Challenges and Opportunities for Industrial Lignocellulosic Biofuel Production | Microorganisms | 9(4) |
| 2021 | Sawyer, C. R. and J. L. Labbé | Small RNAs at the Interface of the Plant-Fungal Interactions | Fungal Genomics & Biology | 11(1) | |
| 2021 | 10.1007/s00203-021-02566-2 | Saticioglu, I. B. | Flavobacterium erciyesense sp. nov., a putative non-pathogenic fish symbiont | Archives of Microbiology | 203(9) 5783–92 |
| 2021 | 10.1371/journal.pcbi.1008983 | Sarkar, D., M. Landa, A. Bandyopadhyay, H. B. Pakrasi, J. P. Zehr and C. D. Maranas | Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling | PLoS Computational Biology | 17(5) e1008983 |
| 2021 | 10.1038/s41396-021-00897-y | Santos-Medellin, C., L. A. Zinke, A. M. ter Horst, D. L. Gelardi, S. J. Parikh and J. B. Emerson | Viromes outperform total metagenomes in revealing the spatiotemporal patterns of agricultural soil viral communities | ISME Journal | 15(7) 1956-1970 |
| 2021 | 10.3389/fpls.2021.740534 | Santos, M. G., P. A. Davey, T. A. Hofmann, A. Borland, J. Hartwell and T. Lawson | Stomatal Responses to Light, CO2, and Mesophyll Tissue in Vicia faba and Kalanchoë fedtschenkoi | Frontiers in Plant Science | 12 |
| 2021 | 10.1002/bit.27740 | Santala, S., V. Santala, N. Liu and G. Stephanopoulos | Partitioning metabolism between growth and product synthesis for coordinated production of wax esters in Acinetobacter baylyi ADP1 | Biotechnology and Bioengineering | 118(6) 2283-2292 |
| 2021 | 10.1016/j.tim.2020.12.010 | Sanford, R. A., K. G. Lloyd, K. T. Konstantinidis and F. E. Löffler | Microbial Taxonomy Run Amok | Trends in Microbiology | 29(5) 394-404 |
| 2021 | 10.1016/j.syapm.2021.126244 | Sandoval-Powers, M., S. Králová, G.-S. Nguyen, D. V. Fawwal, K. Degnes, A. S. Lewin, G. Klinkenberg, A. Wentzel and M. R. Liles | Streptomyces poriferorum sp. nov., a novel marine sponge-derived Actinobacteria species expressing anti-MRSA activity | Systematic and Applied Microbiology | 44(5) 126244 |
| 2021 | 10.1002/anie.202012213 | Samkian, A. E., G. R. Kiel, C. G. Jones, H. M. Bergman, J. Oktawiec, H. M. Nelson and T. D. Tilley | Elucidation of Diverse Solid-State Packing in a Family of Electron-Deficient Expanded Helicenes via Microcrystal Electron Diffraction (MicroED)** | Angewandte Chemie - International Edition | 60(5) 2493-2499 |
| 2021 | 10.1002/anie.202015251 | Samarah, L. Z., T. H. Tran, G. Stacey and A. Vertes | Mass Spectrometry Imaging of Bio-oligomer Polydispersity in Plant Tissues by Laser Desorption Ionization from Silicon Nanopost Arrays | Angewandte Chemie International Edition | 60(16) 9071-9077 |
| 2021 | 10.1093/plcell/koab042 | Salomé, P. A. and S. S. Merchant | Co-expression networks in Chlamydomonas reveal significant rhythmicity in batch cultures and empower gene function discovery | Plant Cell | 33(4) 1058-1082 |
| 2021 | 10.3389/fmicb.2021.687971 | Saldierna Guzmán, J. P., M. Reyes-Prieto and S. C. Hart | Characterization of Erwinia gerundensis A4, an Almond-Derived Plant Growth-Promoting Endophyte | Frontiers in Microbiology | 12 |
| 2021 | 10.1186/s12870-021-02970-2 | Sakai, K., S. Citerne, S. Antelme, P. Le Bris, S. Daniel, et al. | BdERECTA controls vasculature patterning and phloem-xylem organization in Brachypodium distachyon | BMC Plant Biology | 21(1) 196 |
| 2021 | 10.3389/fpls.2021.640930 | Saha, P., F. Lin, S. Thibivilliers, Y. Xiong, C. Pan and L. E. Bartley | Phenylpropanoid Biosynthesis Gene Expression Precedes Lignin Accumulation During Shoot Development in Lowland and Upland Switchgrass Genotypes | Frontiers in Plant Science | 12 |
| 2021 | 10.1088/1748-9326/abd2f3 | Saha, D., B. Basso and G. P. Robertson | Machine learning improves predictions of agricultural nitrous oxide (N2O) emissions from intensively managed cropping systems | Environmental Research Letters | 16(2) |
| 2021 | 10.1016/j.talanta.2021.122198 | Sadeghi, S., T. A. Anderson and W. A. Jackson | Determination of phosphite (HPO3−2) by a new IC/MS/MS method using an 18O-labeled HPO3−2 internal standard | Talanta | 230 |
| 2021 | 10.1016/j.molcel.2020.12.031 | Saba, J., X. Cao and R. Landick | Bacterial Transcription Continues to Surprise: Activation by Alarmone-Mediated σ-Factor Tethering | Molecular Cell | 81(1) 8–9 |
| 2021 | 10.1016/j.ces.2021.116766 | Ryu, J. and C. T. Maravelias | A generalized distillation network synthesis model | Chemical Engineering Science | 244 116766 |
| 2021 | 10.1016/j.tim.2020.06.009 | Ryan, M. J., M. Schloter, G. Berg, T. Kostic, L. L. Kinkel, et al. | Development of Microbiome Biobanks – Challenges and Opportunities | Trends in Microbiology | 29(2) 89–92 |
| 2021 | 10.21203/rs.3.rs-515228/v1 | Ryan, D. P., M. K. Dunlap, M. P. Gelfand, J. H. Werner, A. V. Orden and P. M. Goodwin | A Gain-Series Method for Accurate EMCCD Calibration | Scientific Reports | 11(1) 18348 |
| 2021 | 10.3390/microorganisms9122612 | Ruytinx, J., S. Miyauchi, S. Hartmann-Wittulsky, M. de Freitas Pereira, F. Guinet, J.-L. Churin, C. Put, F. Le Tacon, C. Veneault-Fourrey, F. Martin and A. Kohler | A Transcriptomic Atlas of the Ectomycorrhizal Fungus Laccaria bicolor | Microorganisms | 9(12) 2612 |
| 2021 | 10.3389/ffunb.2021.716511 | Rush, T. A., H. K. Shrestha, M. Gopalakrishnan Meena, M. K. Spangler, J. C. Ellis, J. L. Labbé and P. E. Abraham | Bioprospecting Trichoderma: A Systematic Roadmap to Screen Genomes and Natural Products for Biocontrol Applications | Frontiers in Fungal Biology | 2 |
| 2021 | 10.1128/AEM.00241-21 | Rupp, D. L., L. J. Lamit, S. M. Techtmann, E. S. Kane, E. A. Lilleskov and M. R. Turetsky | The Rhizosphere Responds: Rich Fen Peat and Root Microbial Ecology after Long-Term Water Table Manipulation | Applied and Environmental Microbiology | 87(12) e00241-21 |
| 2021 | 10.1016/j.syapm.2021.126185 | Ruiz-Perez, C. A., A. D. Bertagnolli, D. Tsementzi, T. Woyke, F. J. Stewart and K. T. Konstantinidis | Description of Candidatus Mesopelagibacter carboxydoxydans and Candidatus Anoxipelagibacter denitrificans: Nitrate-reducing SAR11 genera that dominate mesopelagic and anoxic marine zones | Systematic and Applied Microbiology | 44(2) 126185 |
| 2021 | 10.15698/mic2021.08.757 | Rueda-Mejia, M. P., L. Nageli, S. Lutz, R. D. Hayes, A. R. Varadarajan, I. V. Grigoriev, C. H. Ahrens and F. M. Freimoser | Genome, transcriptome and secretome analyses of the antagonistic, yeast-like fungus Aureobasidium pullulans to identify potential biocontrol genes | Microbial Cell | 8(8) 184-202 |
| 2021 | 10.1093/bioinformatics/btab753 | Rubinstein, R. L., M. A. Borton, H. Zhou, M. Shaffer, D. W. Hoyt, J. Stegen, C. S. Henry, K. C. Wrighton and R. Versteeg | ORT: a workflow linking genome-scale metabolic models with reactive transport codes | Bioinformatics | 38(3) 778-784 |
| 2021 | 10.1371/journal.pone.0260933 | Rubin, R. L., K. A. Ballantine, A. Hegberg and J. P. Andras | Flooding and ecological restoration promote wetland microbial communities and soil functions on former cranberry farmland | PLOS ONE | 16(12) e0260933 |
| 2021 | 10.3389/fbioe.2021.612893 | Roy, S., T. Radivojevic, M. Forrer, J. M. Marti, V. Jonnalagadda, T. Backman, W. Morrell, H. Plahar, J. Kim, N. Hillson and H. Garcia Martin | Multiomics Data Collection, Visualization, and Utilization for Guiding Metabolic Engineering | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1016/j.baae.2021.08.009 | Rowe, L., D. Gibson, D. A. Landis and R. Isaacs | Wild bees and natural enemies prefer similar flower species and respond to similar plant traits | Basic and Applied Ecology | 56 259-269 |
| 2021 | 10.1101/2021.01.12.426419 | Rowe, A. R., F. Salimijazi, L. Trutschel, J. Sackett, O. Adesina, I. Anzai, L. H. Kugelmass, M. H. Baym and B. Barstow | Identification of a Pathway for Electron Uptake in <em>Shewanella oneidensis</em> | bioRxiv | 2021.01.12.426419 |
| 2021 | 10.1038/s41467-021-23402-7 | Roux, S., B. G. Paul, S. C. Bagby, S. Nayfach, M. A. Allen, et al. | Ecology and molecular targets of hypermutation in the global microbiome | Nature Communications | 12(1) |
| 2021 | 10.1038/s41467-021-23402-7 | Roux, S., B. G. Paul, S. C. Bagby, S. Nayfach, M. A. Allen, et al. | Ecology and molecular targets of hypermutation in the global microbiome | Nature Communications | 12(1) 3076 |
| 2021 | 10.1016/B978-0-12-809633-8.20957-6 | Roux, S., J. Matthijnssens and B. E. Dutilh | Metagenomics in Virology | Encyclopedia of Virology (Fourth Edition) | 133-140 |
| 2021 | 10.3389/fmicb.2021.741523 | Roth, S., B. A. Poulin, Z. Baumann, X. Liu, L. Zhang, D. P. Krabbenhoft, M. E. Hines, J. K. Schaefer and T. Barkay | Nutrient Inputs Stimulate Mercury Methylation by Syntrophs in a Subarctic Peatland | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.jmb.2020.11.003 | Rose, Y., J. M. Duarte, R. Lowe, J. Segura, C. Bi, C. Bhikadiya, L. Chen, A. S. Rose, S. Bittrich, S. K. Burley and J. D. Westbrook | RCSB Protein Data Bank: Architectural advances towards integrated searching and efficient access to macromolecular structure data from the PDB archive | Journal of Molecular Biology | 433(11) |
| 2021 | 10.1128/MRA.00212-21 | Rosario, M. E., J. Camm, D. Cavanagh, D. C. Rowley and D. R. Nelson | Draft Genome Sequence of Pseudoalteromonas sp. Strain JC3 | Microbiology Resource Announcements | 10(36) e00212-21 |
| 2021 | 10.3390/metabo11030148 | Romsdahl, T. B., S. Kambhampati, S. Koley, U. P. Yadav, A. P. Alonso, D. K. Allen and K. D. Chapman | Analyzing mass spectrometry imaging data of 13c-labeled phospholipids in camelina sativa and thlaspi arvense (Pennycress) embryos | Metabolites | 11(3) 45678 |
| 2021 | 10.1094/pbiomes-11-19-0064-fi | Roley, S. S., T. C. Ulbrich and G. P. Robertson | Nitrogen Fixation and Resorption Efficiency Differences Among Twelve Upland and Lowland Switchgrass Cultivars | Phytobiomes Journal | 5(1) 97–107 |
| 2021 | 10.1099/ijsem.0.004838 | Roldán, D. M., N. Kyrpides, T. Woyke, N. Shapiro, W. B. Whitman, S. Králová, I. Sedláček, H.-J. Busse and R. J. Menes | Hymenobacter caeli sp. nov., an airborne bacterium isolated from King George Island, Antarctica | International Journal of Systematic and Evolutionary Microbiology | 71(6) |
| 2021 | 10.1099/ijsem.0.004838 | Roldán, D. M., N. Kyrpides, T. Woyke, N. Shapiro, W. B. Whitman, S. Králová, I. Sedláček, H.-J. Busse and R. J. Menes | Hymenobacter caeli sp. nov., an airborne bacterium isolated from King George Island, Antarctica | International Journal of Systematic and Evolutionary Microbiology | 71(6) |
| 2021 | 10.1128/mSystems.00774-21 | Rodríguez-Verdugo, A. | Evolving interactions and emergent functions in microbial consortia | mSystems | 6(4) |
| 2021 | 10.1186/s12934-021-01670-8 | Rodriguez, A., J. A. Meadows, N. Sun, B. A. Simmons and J. M. Gladden | Evaluation of bacterial hosts for conversion of lignin-derived p-coumaric acid to 4-vinylphenol | Microbial Cell Factories | 20(1) 181 |
| 2021 | 10.1073/pnas.2104445118 | Rodrigues, J. A., P.-H. Hsieh, D. Ruan, T. Nishimura, M. K. Sharma, R. Sharma, X. Ye, N. D. Nguyen, S. Nijjar, P. C. Ronald, R. L. Fischer and D. Zilberman | Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting | Proceedings of the National Academy of Sciences | 118(29) e2104445118 |
| 2021 | 10.1128/mSystems.01345-20 | Rodionov, D. A., I. A. Rodionova, V. A. Rodionov, A. A. Arzamasov, K. Zhang, et al. | Transcriptional regulation of plant biomass degradation and carbohydrate utilization genes in the extreme thermophile Caldicellulosiruptor bescii | mSystems | 6(3) |
| 2021 | 10.1016/J.JBC.2021.100643 | Robinson, K. P., A. Jochem, S. E. Johnson, T. R. Reddy, J. D. Russell, J. J. Coon and D. J. Pagliarini | Defining intermediates and redundancies in coenzyme Q precursor biosynthesis | Journal of Biological Chemistry | 296 |
| 2021 | 10.7554/eLife.70564 | Robinson, D., M. Place, J. Hose, A. Jochem and A. P. Gasch | Natural variation in the consequences of gene overexpression and its implications for evolutionary trajectories | eLife | 10 e70564 |
| 2021 | 10.1038/s42003-021-02693-y | Robinson, A. J., G. L. House, D. P. Morales, J. M. Kelliher, L. V. Gallegos-Graves, et al. | Widespread bacterial diversity within the bacteriome of fungi | Communications Biology | 4(1) 1168 |
| 2021 | 10.1038/s41564-021-00918-8 | Rinke, C., M. Chuvochina, A. J. Mussig, P.-A. Chaumeil, A. A. Davín, D. W. Waite, W. B. Whitman, D. H. Parks and P. Hugenholtz | A standardized archaeal taxonomy for the Genome Taxonomy Database | Nature Microbiology | 6(7) 946–59 |
| 2021 | 10.1186/s13068-020-01872-z | Riley, L. A. and A. M. Guss | Approaches to genetic tool development for rapid domestication of non-model microorganisms | Biotechnology for Biofuels | 14(1) 30 |
| 2021 | 10.1002/bmb.21578 | Riley, K. J., D. Vardar-Ulu, E. Pollock and S. Dutta | Students authoring molecular case studies as a partial course-based undergraduate research experience (CURE) for lab instruction | Biochemistry and Molecular Biology Education | 49(6) 853-855 |
| 2021 | 10.1111/pbi.13510 | Rigoulot, S. B., T. M. Schimel, J. H. Lee, R. G. Sears, H. Brabazon, et al. | Imaging of multiple fluorescent proteins in canopies enables synthetic biology in plants | Plant Biotechnology Journal | 19(4) 830–43 |
| 2021 | 10.1016/J.JBC.2021.100742 | Richardson, J. S., D. C. Richardson and D. S. Goodsell | Seeing the PDB | Journal of Biological Chemistry | 296 |
| 2021 | 10.1016/j.cropro.2021.105576 | Ribeiro, V. H. V., L. S. G. Maia, N. J. Arneson, M. C. Oliveira, H. W. Read, J. M. Ané, J. B. dos Santos and R. Werle | Influence of PRE-emergence herbicides on soybean development, root nodulation and symbiotic nitrogen fixation | Crop Protection | 144 |
| 2021 | 10.1093/plphys/kiab469 | Rencoret, J., M. J. Rosado, H. Kim, V. I. Timokhin, A. Gutiérrez, F. Bausch, T. Rosenau, A. Potthast, J. Ralph and J. C. del Río | Flavonoids naringenin chalcone, naringenin, dihydrotricin, and tricin are lignin monomers in papyrus | Plant Physiology | 188(1) 208–19 |
| 2021 | 10.1093/plcell/koab055 | Ren, Y., M. Li, S. Guo, H. Sun, J. Zhao, et al. | Evolutionary gain of oligosaccharide hydrolysis and sugar transport enhanced carbohydrate partitioning in sweet watermelon fruits | The Plant Cell | 33(5) 1554–73 |
| 2021 | 10.1038/s41396-021-01167-7 | Reji, L., E. L. Cardarelli, K. Boye, J. R. Bargar and C. A. Francis | Diverse ecophysiological adaptations of subsurface Thaumarchaeota in floodplain sediments revealed through genome-resolved metagenomics | The ISME Journal | 16(4) 1140-1152 |
| 2021 | 10.3389/fmicb.2021.668238 | Reichart, N. J., R. M. Bowers, T. Woyke and R. Hatzenpichler | High Potential for Biomass-Degrading Enzymes Revealed by Hot Spring Metagenomics | Frontiers in Microbiology | 12 |
| 2021 | 10.3390/metabo11100707 | Reese, K. L., C. L. Fisher, P. D. Lane, J. D. Jaryenneh, A. D. Jones, M. Frank and T. W. Lane | Abiotic and Biotic Damage of Microalgae Generate Different Volatile Organic Compounds (VOCs) for Early Diagnosis of Algal Cultures for Biofuel Production | Metabolites | 11(10) 707 |
| 2021 | 10.1029/2021JG006363 | Reed, D. E., J. Poe, M. Abraha, K. M. Dahlin and J. Chen | Modeled Surface-Atmosphere Fluxes From Paired Sites in the Upper Great Lakes Region Using Neural Networks | JGR Biogeosciences | 126(8) e2021JG006363 |
| 2021 | 10.1039/D0CS01297A | Reed, C. J., Q. N. Lam, E. N. Mirts and Y. Lu | Molecular understanding of heteronuclear active sites in heme–copper oxidases, nitric oxide reductases, and sulfite reductases through biomimetic modelling | Chemical Society Reviews | 50(4) 2486–539 |
| 2021 | 10.1007/s10681-021-02788-x | Razar, R. M., S. Makaju and A. M. Missaoui | QTL mapping of biomass and forage quality traits measured using near-infrared reflectance spectroscopy (NIRS) in switchgrass | Euphytica | 217(3) 51 |
| 2021 | 10.1111/1462-2920.15242 | Ray, P., Y. Guo, M. H. Chi, N. Krom, M. C. Saha and K. D. Craven | Serendipita bescii promotes winter wheat growth and modulates the host root transcriptome under phosphorus and nitrogen starvation | Environmental Microbiology | 23(4) 1876–88 |
| 2021 | 10.1094/mpmi-04-21-0084-r | Ray, P., Y. Guo, M.-H. Chi, N. Krom, C. Boschiero, B. Watson, D. Huhman, P. Zhao, V. R. Singan, E. A. Lindquist, J. Yan, C. Adam and K. D. Craven | Serendipita Fungi Modulate the Switchgrass Root Transcriptome to Circumvent Host Defenses and Establish a Symbiotic Relationship | Molecular Plant-Microbe Interactions | 34(10) 1128–42 |
| 2021 | 10.1038/s41467-021-25233-y | Rasor, B. J., X. Yi, H. Brown, H. S. Alper and M. C. Jewett | An integrated in vivo/in vitro framework to enhance cell-free biosynthesis with metabolically rewired yeast extracts | Nature Communications | 12(1) 5139 |
| 2021 | 10.1016/j.copbio.2020.12.012 | Rasor, B. J., B. Vögeli, G. M. Landwehr, J. W. Bogart, A. S. Karim and M. C. Jewett | Toward sustainable, cell-free biomanufacturing | Current Opinion in Biotechnology | 69 136-144 |
| 2021 | 10.1007/s00248-020-01621-7 | Rasmussen, A. N., J. Damashek, E. A. Eloe-Fadrosh and C. A. Francis | In-depth Spatiotemporal Characterization of Planktonic Archaeal and Bacterial Communities in North and South San Francisco Bay | Microbial Ecology | 81(3) 601-616 |
| 2021 | 10.3389/fmicb.2021.701186 | Rapp, J. Z., M. B. Sullivan and J. W. Deming | Divergent Genomic Adaptations in the Microbiomes of Arctic Subzero Sea-Ice and Cryopeg Brines | Frontiers in Microbiology | 12 |
| 2021 | 10.3390/microorganisms9112249 | Ramesh, C., M. Anwesh, N. V. Vinithkumar, R. Kirubagaran and L. Dufossé | Complete Genome Analysis of Undecylprodigiosin Pigment Biosynthesizing Marine Streptomyces Species Displaying Potential Bioactive Applications | Microorganisms | 9(11) 2249 |
| 2021 | 10.1128/mbio.01306-21 | Ramachandran, A., S. McLatchie and D. A. Walsh | A Novel Freshwater to Marine Evolutionary Transition Revealed within Methylophilaceae Bacteria from the Arctic Ocean | mBio | 12(3) |
| 2021 | 10.1038/s41467-021-24803-4 | Rahlff, J., V. Turzynski, S. P. Esser, I. Monsees, T. L. V. Bornemann, P. A. Figueroa-Gonzalez, F. Schulz, T. Woyke, A. Klingl, C. Moraru and A. J. Probst | Lytic archaeal viruses infect abundant primary producers in Earth’s crust | Nature Communications | 12(1) 4642 |
| 2021 | 10.1016/j.electacta.2020.137326 | Rago, L., D. Popp, J. T. Heiker and F. Harnisch | Electroactive microorganisms in mouse feces | Electrochimica Acta | 365 |
| 2021 | 10.1080/15592324.2021.1903758 | R. Cope, K., T. B. Irving, S. Chakraborty and J. M. Ané | Perception of lipo-chitooligosaccharides by the bioenergy crop Populus | Plant Signaling and Behavior | 16(6) |
| 2021 | 10.3389/fmolb.2021.716973 | Quadir, F., R. S. Roy, E. Soltanikazemi and J. Cheng | DeepComplex: A Web Server of Predicting Protein Complex Structures by Deep Learning Inter-chain Contact Prediction and Distance-Based Modelling | Frontiers in Molecular Biosciences | 8 |
| 2021 | 10.1038/s41598-021-91827-7 | Quadir, F., R. S. Roy, R. Halfmann and J. Cheng | DNCON2_Inter: predicting interchain contacts for homodimeric and homomultimeric protein complexes using multiple sequence alignments of monomers and deep learning | Scientific Reports | 11(1) |
| 2021 | 10.1111/pbi.13671 | Qiao, Z., T. B. Yates, H. K. Shrestha, N. L. Engle, A. Flanagan, et al. | Towards engineering ectomycorrhization into switchgrass bioenergy crops via a lectin receptor-like kinase | Plant Biotechnology Journal | 19(12) 2454–68 |
| 2021 | 10.1111/pbi.13589 | Qiao, L., C. Lan, L. Capriotti, A. Ah-Fong, J. Nino Sanchez, R. Hamby, J. Heller, H. Zhao, N. L. Glass, H. S. Judelson, B. Mezzetti, D. Niu and H. Jin | Spray-induced gene silencing for disease control is dependent on the efficiency of pathogen RNA uptake | Plant Biotechnology Journal | 19(9) 1756–68 |
| 2021 | 10.1016/j.mib.2021.05.003 | Qian, Y., F. Lan and O. S. Venturelli | Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models | Current Opinion in Microbiology | 62 84-92 |
| 2021 | 10.1007/s00122-021-03798-y | Qi, P., T. H. Pendergast, A. Johnson, B. A. Bahri, S. Choi, A. Missaoui and K. M. Devos | Quantitative trait locus mapping combined with variant and transcriptome analyses identifies a cluster of gene candidates underlying the variation in leaf wax between upland and lowland switchgrass ecotypes | Theoretical and Applied Genetics | 134(7) 1957–75 |
| 2021 | 10.1371/journal.pgen.1009342 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | Four families of folate-independent methionine synthases | PLoS Genetics | 17(2) e1009342 |
| 2021 | 10.1016/j.ymben.2021.02.003 | Presley, G. N., A. Z. Werner, R. Katahira, D. C. Garcia, S. J. Haugen, K. J. Ramirez, R. J. Giannone, G. T. Beckham and J. K. Michener | Pathway discovery and engineering for cleavage of a β-1 lignin-derived biaryl compound | Metabolic Engineering | 65 45667 |
| 2021 | 10.1039/D1AN00129A | Premadasa, U. I., A. N. Bible, J. L. Morrell-Falvey, B. Doughty and Y.-Z. Ma | Spatially co-registered wide-field nonlinear optical imaging of living and complex biosystems in a total internal reflection geometry | Analyst | 146(9) 3062-3072 |
| 2021 | 10.7717/peerj.11447 | Pratama, A. A., B. Bolduc, A. A. Zayed, Z. P. Zhong, J. Guo, D. R. Vik, M. C. Gazitúa, J. M. Wainaina, S. Roux and M. B. Sullivan | Expanding standards in viromics: In silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation | PeerJ | 9 |
| 2021 | 10.7717/peerj.11447 | Pratama, A. A., B. Bolduc, A. A. Zayed, Z.-P. Zhong, J. Guo, D. R. Vik, M. C. Gazitúa, J. M. Wainaina, S. Roux and M. B. Sullivan | Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation | PeerJ | 9 e11447 |
| 2021 | 10.1186/s13068-021-01964-4 | Poudel, S., A. L. Cope, K. B. O’Dell, A. M. Guss, H. Seo, C. T. Trinh and R. L. Hettich | Identification and characterization of proteins of unknown function (PUFs) in Clostridium thermocellum DSM 1313 strains as potential genetic engineering targets | Biotechnology for Biofuels | 14(1) 116 |
| 2021 | 10.1093/bioinformatics/btab026 | Pons, J. C., D. Paez-Espino, G. Riera, N. Ivanova, N. C. Kyrpides and M. Llabrés | VPF-Class: taxonomic assignment and host prediction of uncultivated viruses based on viral protein families | Bioinformatics | 37(13) 1805-1813 |
| 2021 | 10.1093/aob/mcab008 | Pompidor, N., C. Charron, C. Hervouet, S. Bocs, G. Droc, R. Rivallan, A. Manez, T. Mitros, K. Swaminathan, J.-C. Glaszmann, O. Garsmeur and A. D’Hont | Three founding ancestral genomes involved in the origin of sugarcane | Annals of Botany | 127(6) 827-840 |
| 2021 | 10.3390/en14051414 | Polymenakou, P. N., P. Nomikou, H. Zafeiropoulos, M. Mandalakis, T. I. Anastasiou, S. Kilias, N. C. Kyrpides, G. Kotoulas and A. Magoulas | The Santorini Volcanic Complex as a Valuable Source of Enzymes for Bioenergy | Energies | 14(5) 1414 |
| 2021 | 10.1016/j.soilbio.2021.108451 | Polussa, A., J. Gonzalez-Rivero, N. Fields, F. V. Jevon, S. A. Wood, W. R. Wieder and M. A. Bradford | Scale dependence in functional equivalence and difference in the soil microbiome | Soil Biology and Biochemistry | 163 |
| 2021 | 10.1016/j.ymben.2021.04.009 | Podolsky, I. A., S. Seppälä, H. Xu, Y.-S. Jin and M. A. O'Malley | A SWEET surprise: Anaerobic fungal sugar transporters and chimeras enhance sugar uptake in yeast | Metabolic Engineering | 66 137–47 |
| 2021 | 10.1128/MRA.00002-21 | Podar, P. T., K. Peyton, A. Soren, R. L. Wilpiszeski, C. C. Gilmour, D. A. Elias and M. Podar | Complete Genome Sequence of Desulfobulbus oligotrophicus Prop6, an Anaerobic Deltabacterota Strain That Lacks Mercury Methylation Capability | Microbiology Resource Announcements | 10(5) e00002-21 |
| 2021 | 10.1128/MRA.00793-21 | Podar, N. A., D. Klingeman, F. Miranda-Sanchez, F. E. Dewhirst and M. Podar | Draft Genome Sequence of Schaalia odontolytica Strain ORNL0103, a Basibiont of “Candidatus Saccharibacteria” HMT352 | Microbiology Resource Announcements | 10(44) e00793-21 |
| 2021 | 10.1111/1462-2920.15320 | Plett, K. L., A. Kohler, T. Lebel, V. R. Singan, D. Bauer, G. He, V. Ng, I. V. Grigoriev, F. Martin, J. M. Plett and I. C. Anderson | Intra-species genetic variability drives carbon metabolism and symbiotic host interactions in the ectomycorrhizal fungus Pisolithus microcarpus | Environmental Microbiology | 23(4) 2004-2020 |
| 2021 | 10.7554/eLife.66877 | Plant Cell Atlas, C., S. G. Jha, A. T. Borowsky, B. J. Cole, N. Fahlgren, et al. | Vision, challenges and opportunities for a Plant Cell Atlas | eLife | 10 e66877 |
| 2021 | 10.1021/acssynbio.1c00263 | Plahar, H. A., T. N. Rich, S. D. Lane, W. C. Morrell, L. Springthorpe, O. Nnadi, E. Aravina, T. Dai, M. J. Fero, N. J. Hillson and C. J. Petzold | BioParts—A Biological Parts Search Portal and Updates to the ICE Parts Registry Software Platform | ACS Synthetic Biology | 10(10) 2649–60 |
| 2021 | 10.3390/d13120641 | Pira, H., C. Risdian, P. Kämpfer, M. Müsken, P. J. Schupp and J. Wink | Zooshikella harenae sp. nov., Isolated from Pacific Oyster Crassostrea gigas, and Establishment of Zooshikella ganghwensis subsp. marina subsp. nov. and Zooshikella ganghwensis subsp. ganghwensis subsp. nov | Diversity | 13(12) 641 |
| 2021 | 10.1093/plphys/kiab395 | Pignon, C. P., S. B. Fernandes, R. Valluru, N. Bandillo, R. Lozano, E. Buckler, M. A. Gore, S. P. Long, P. J. Brown and A. D. B. Leakey | Phenotyping stomatal closure by thermal imaging for GWAS and TWAS of water use efficiency-related genes | Plant Physiology | 187(4) 254-2562 |
| 2021 | 10.1186/s13068-021-01953-7 | Pham, L. T. M., K. Deng, T. R. Northen, S. W. Singer, P. D. Adams, B. A. Simmons and K. L. Sale | Experimental and theoretical insights into the effects of pH on catalysis of bond-cleavage by the lignin peroxidase isozyme H8 from Phanerochaete chrysosporium | Biotechnology for Biofuels | 14(1) 108 |
| 2021 | 10.1099/ijsem.0.004765 | Peta, V., R. Raths and H. Bücking | Massilia horti sp. nov. and Noviherbaspirillum arenae sp. nov., two novel soil bacteria of the Oxalobacteraceae | International Journal of Systematic and Evolutionary Microbiology | 71(5) |
| 2021 | 10.7554/eLife.65091 | Pessotti, R. d. C., B. L. Hansen, J. N. Reaso, J. A. Ceja-Navarro, L. El-Hifnawi, E. L. Brodie and M. F. Traxler | Multiple lineages of Streptomyces produce antimicrobials within passalid beetle galleries across eastern North America | eLife | 10 e65091 |
| 2021 | 10.1093/gbe/evab279 | Persoons, A., A. Maupetit, C. Louet, A. Andrieux, A. Lipzen, K. W. Barry, H. Na, C. Adam, I. V. Grigoriev, V. Segura, S. Duplessis, P. Frey, F. Halkett and S. De Mita | Genomic Signatures of a Major Adaptive Event in the Pathogenic Fungus Melampsora larici-populina | Genome Biology and Evolution | 14(1) |
| 2021 | 10.1016/j.indcrop.2021.113924 | Pérez-Pimienta, J. A., R. M. García-López, H. O. Méndez-Acosta, V. González-Álvarez, B. A. Simmons, J. A. Méndoza-Pérez and J. Arreola-Vargas | Ionic liquid-water mixtures enhance pretreatment and anaerobic digestion of agave bagasse | Industrial Crops and Products | 171 113924 |
| 2021 | 10.1128/AEM.02794-20 | Perez, J. M., W. S. Kontur, C. Gehl, D. M. Gille, Y. Ma, A. V. Niles, G. Umana, T. J. Donohue and D. R. Noguera | Redundancy in Aromatic O-Demethylation and Ring-Opening Reactions in Novosphingobium aromaticivorans and Their Impact in the Metabolism of Plant-Derived Phenolics | Applied and Environmental Microbiology | 87(8) e02794-20 |
| 2021 | 10.1186/s12859-021-04472-2 | Pereira, W. J., F. M. Almeida, D. Conde, K. M. Balmant, P. M. Triozzi, H. W. Schmidt, C. Dervinis, G. J. Pappas and M. Kirst | Asc-Seurat: analytical single-cell Seurat-based web application | BMC Bioinformatics | 22(1) |
| 2021 | 10.1016/j.jrurstud.2021.04.019 | Pereira, C., A. Pereira, A. Budal, S. Dahal, J. Daniel-Wrabetz, J. Meshelemiah, J. Carvalho, M. J. Ramos, R. M. Carmo and R. P. Pires | ‘If you don't migrate, you're a nobody’: Migration recruitment networks and experiences of Nepalese farm workers in Portugal | Journal of Rural Studies | 88 500-509 |
| 2021 | 10.1038/s41564-020-00861-0 | Peng, X., S. E. Wilken, T. S. Lankiewicz, S. P. Gilmore, J. L. Brown, J. K. Henske, C. L. Swift, A. Salamov, K. Barry, I. V. Grigoriev, M. K. Theodorou, D. L. Valentine and M. A. O’Malley | Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes | Nature Microbiology | 6(4) 499–511 |
| 2021 | 10.1016/j.tcsw.2021.100050 | Peng, M., C. Khosravi, R. J. M. Lubbers, R. S. Kun, M. V. Aguilar Pontes, et al. | CreA-mediated repression of gene expression occurs at low monosaccharide levels during fungal plant biomass conversion in a time and substrate dependent manner | The Cell Surface | 7 100050 |
| 2021 | 10.3390/jof7060426 | Peña, A., R. Babiker, D. Chaduli, A. Lipzen, M. Wang, et al. | A Multiomic Approach to Understand How Pleurotus eryngii Transforms Non-Woody Lignocellulosic Material | Journal of Fungi | 7(6) 426 |
| 2021 | 10.1002/ecs2.3460 | Pec, G. J., L. T. A. van Diepen, M. Knorr, A. S. Grandy, J. M. Melillo, K. M. DeAngelis, J. L. Blanchard and S. D. Frey | Fungal community response to long-term soil warming with potential implications for soil carbon dynamics | Ecosphere | 12(5) e03460 |
| 2021 | 10.1101/2021.09.28.462238 | Payyavula, R. S., R. Badmi, S. S. Jawdy, M. Rodriguez, L. Gunter, R. W. Sykes, K. A. Winkeler, C. M. Collins, W. H. Rottmann, J.-G. Chen, X. Yang, G. A. Tuskan and U. C. Kalluri | Biomass formation and sugar release efficiency of Populus modified by altered expression of a NAC transcription factor | bioRxiv | 2021.09.28.462238 |
| 2021 | 10.1371/journal.pcbi.1008841 | Pavlova, Y. S., D. Paez-Espino, A. Y. Morozov and I. S. Belalov | Searching for fat tails in CRISPR-Cas systems: Data analysis and mathematical modeling | PLOS Computational Biology | 17(3) e1008841 |
| 2021 | 10.3390/plants10010158 | Pavicic, M., K. Overmyer, A. U. Rehman, P. Jones, D. Jacobson and K. Himanen | Image-Based Methods to Score Fungal Pathogen Symptom Progression and Severity in Excised Arabidopsis Leaves | Plants | 10(1) |
| 2021 | 10.1007/978-1-0716-1032-9_5 | Pavan, M. | Setting Up an Automated Biomanufacturing Laboratory | Methods in Molecular Biology | 2229 137–55 |
| 2021 | 10.1186/s13068-021-01904-2 | Patri, A. S., R. Mohan, Y. Pu, C. G. Yoo, A. J. Ragauskas, R. Kumar, D. Kisailus, C. M. Cai and C. E. Wyman | THF co-solvent pretreatment prevents lignin redeposition from interfering with enzymes yielding prolonged cellulase activity | Biotechnology for Biofuels | 14(1) 63 |
| 2021 | 10.1007/s12155-021-10244-w | Parrish, A. S., M.-S. Lee, T. B. Voigt and D. K. Lee | Miscanthus × giganteus Responses to Nitrogen Fertilization and Harvest Timing in Illinois, USA | BioEnergy Research | 14(4) 1126–35 |
| 2021 | 10.1111/gcbb.12883 | Park, K., S. A. Sanjaya, T. Quach and E. B. Cahoon | Toward sustainable production of value-added bioenergy and industrial oils in oilseed and biomass feedstocks | GCB Bioenergy | 13(10) 1610–23 |
| 2021 | 10.1007/s11627-021-10215-y | Parikh, A., E. J. Brant, M. C. Baloglu and F. Altpeter | CRISPR/Cas-mediated genome editing in sorghum — recent progress, challenges and prospects | In Vitro Cellular & Developmental Biology - Plant | 57(4) 720–30 |
| 2021 | 10.1016/B978-0-12-814515-9.00034-5 | Pappas, N., S. Roux, M. Hölzer, K. Lamkiewicz, F. Mock, M. Marz and B. E. Dutilh | Virus Bioinformatics | Encyclopedia of Virology (Fourth Edition) | 124-132 |
| 2021 | 10.1186/s40168-021-01173-z | Panwar, P., M. A. Allen, T. J. Williams, S. Haque, S. Brazendale, A. M. Hancock, D. Paez-Espino and R. Cavicchioli | Remarkably coherent population structure for a dominant Antarctic Chlorobium species | Microbiome | 9(1) 231 |
| 2021 | 10.1128/mBio.03518-20 | Pant, S. R., S. Irigoyen, J. Liu, R. Bedre, S. A. Christensen, E. A. Schmelz, J. C. Sedbrook, K. B. G. Scholthof and K. K. Mandadi | Brachypodium phenylalanine ammonia lyase (PAL) promotes antiviral defenses against Panicum mosaic virus and its satellites | mBio | 12(1) 45674 |
| 2021 | 10.1016/j.ymben.2021.10.007 | Pang, B., J. Li, C. B. Eiben, E. Oksen, C. Barcelos, R. Chen, E. Englund, E. Sundstrom and J. D. Keasling | Lepidopteran mevalonate pathway optimization in Escherichia coli efficiently produces isoprenol analogs for next-generation biofuels | Metabolic Engineering | 68 210–9 |
| 2021 | 10.1098/rsif.2021.0348 | Pacheco, A. R. and D. Segrè | An evolutionary algorithm for designing microbial communities via environmental modification | Journal of The Royal Society Interface | 18(179) 20210348 |
| 2021 | 10.1038/s41467-021-22426-3 | Pacheco, A. R., M. L. Osborne and D. Segrè | Non-additive microbial community responses to environmental complexity | Nature Communications | 12(1) 2365 |
| 2021 | 10.3389/fmicb.2021.720644 | Öztürk, Y., C. E. Blaby-Haas, N. Daum, A. Andrei, J. Rauch, F. Daldal and H.-G. Koch | Maturation of Rhodobacter capsulatus Multicopper Oxidase CutO Depends on the CopA Copper Efflux Pathway and Requires the cutF Product | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fgeed.2021.673566 | Oz, M. T., A. Altpeter, R. Karan, A. Merotto and F. Altpeter | CRISPR/Cas9-Mediated Multi-Allelic Gene Targeting in Sugarcane Confers Herbicide Tolerance | Frontiers in Genome Editing | 3 |
| 2021 | 10.1128/mSystems.01025-20 | Otwell, A. E., A. V. Carr, E. L. W. Majumder, M. K. Ruiz, R. L. Wilpiszeski, L. T. Hoang, B. Webb, S. Turkarslan, S. M. Gibbons, D. A. Elias, D. A. Stahl, G. Siuzdak and N. S. Baliga | Sulfur Metabolites Play Key System-Level Roles in Modulating Denitrification | mSystems | 6(1) e01025-20 |
| 2021 | 10.1002/9781119545958.ch11 | Otegui, M. S. | Imaging Polyphenolic Compounds in Plant Tissues | Recent Advances in Polyphenol Research | 281-295 |
| 2021 | 10.1007/s10533-020-00742-y | Ostrom, P. H., S. DeCamp, H. Gandhi, J. Haslun and N. E. Ostrom | The influence of tillage and fertilizer on the flux and source of nitrous oxide with reference to atmospheric variation using laser spectroscopy | Biogeochemistry | 152(2–3) 143–59 |
| 2021 | 10.1038/s41396-021-01105-7 | Orellana, L. H., T. B. Francis, M. Ferraro, J.-H. Hehemann, B. M. Fuchs and R. I. Amann | Verrucomicrobiota are specialist consumers of sulfated methyl pentoses during diatom blooms | The ISME Journal | 16(3) 630-641 |
| 2021 | 10.1111/tpj.15086 | Oliver, J., M. Fan, B. McKinley, S. Zemelis-Durfee, F. Brandizzi, C. Wilkerson and J. E. Mullet | The AGCVIII kinase Dw2 modulates cell proliferation, endomembrane trafficking, and MLG/xylan cell wall localization in elongating stem internodes of Sorghum bicolor | The Plant Journal | 105(4) 1053–71 |
| 2021 | 10.1038/s41598-021-95106-3 | Oliver, A., S. Podell, A. Pinowska, J. C. Traller, S. R. Smith, et al. | Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom | Scientific Reports | 11(1) 15592 |
| 2021 | 10.1038/s41598-021-95106-3 | Oliver, A., S. Podell, A. Pinowska, J. C. Traller, S. R. Smith, et al. | Diploid genomic architecture of Nitzschia inconspicua, an elite biomass production diatom | Scientific Reports | 11(1) |
| 2021 | 10.1107/S2053230X21007470 | Ochoa, J. M., O. Mijares, A. A. Acosta, X. Escoto, N. Leon-Rivera, J. D. Marshall, M. R. Sawaya and T. O. Yeatesa | Structural characterization of hexameric shell proteins from two types of choline-utilization bacterial microcompartments | Acta Crystallographica Section F: Structural Biology Communications | 77 275-285 |
| 2021 | 10.1038/s41598-021-88318-0 | Ocejo, M., B. Oporto, J. L. Lavín and A. Hurtado | Whole genome-based characterisation of antimicrobial resistance and genetic diversity in Campylobacter jejuni and Campylobacter coli from ruminants | Scientific Reports | 11(1) 8998 |
| 2021 | 10.3168/jds.2021-20232 | Oberg, C., K. Sorensen, T. Oberg, S. Young, M. Domek, M. Culumber and D. McMahon | Gluconate metabolism and gas production by Paucilactobacillus wasatchensis WDC04 | Journal of Dairy Science | 104(10) 10586–93 |
| 2021 | 10.1073/pnas.2008888118 | Oates, N. C., A. Abood, A. M. Schirmacher, A. M. Alessi, S. M. Bird, J. P. Bennett, D. R. Leadbeater, Y. Li, A. A. Dowle, S. Liu, V. I. Tymokhin, J. Ralph, S. J. McQueen-Mason and N. C. Bruce | A multi-omics approach to lignocellulolytic enzyme discovery reveals a new ligninase activity from Parascedosporium putredinis NO1 | Proceedings of the National Academy of Sciences | 118(18) e2008888118 |
| 2021 | 10.1016/j.coche.2020.100666 | O’Neill, E. G. and C. T. Maravelias | Towards integrated landscape design and biofuel supply chain optimization | Current Opinion in Chemical Engineering | 31 100666 |
| 2021 | 10.1371/journal.ppat.1009138 | O’Brien, C. E., J. Oliveira-Pacheco, E. Ó Cinnéide, M. A. B. Haase, C. T. Hittinger, T. R. Rogers, O. Zaragoza, U. Bond and G. Butler | Population genomics of the pathogenic yeast Candida tropicalis identifies hybrid isolates in environmental samples | PLoS Pathogens | 17(3) e1009138 |
| 2021 | 10.3390/biom11060898 | Ntana, F., W. W. Bhat, S. R. Johnson, H. J. L. Jørgensen, D. B. Collinge, B. Jensen and B. Hamberger | A Sesquiterpene Synthase from the Endophytic Fungus Serendipita indica Catalyzes Formation of Viridiflorol | Biomolecules | 11(6) 898 |
| 2021 | 10.1038/s41564-020-00851-2 | Nowinski, B. and M. A. Moran | Niche dimensions of a marine bacterium are identified using invasion studies in coastal seawater | Nature Microbiology | 6(4) 524-532 |
| 2021 | 10.1016/j.ymben.2021.02.005 | Notonier, S., A. Z. Werner, E. Kuatsjah, L. Dumalo, P. E. Abraham, et al. | Metabolism of syringyl lignin-derived compounds in Pseudomonas putida enables convergent production of 2-pyrone-4,6-dicarboxylic acid | Metabolic Engineering | 65 111–22 |
| 2021 | 10.1016/j.bej.2021.108008 | Norena-Caro, D. A., C. Zuniga, A. J. Pete, S. A. Saemundsson, M. R. Donaldson, A. J. Adams, K. M. Dooley, K. Zengler and M. G. Benton | Analysis of the cyanobacterial amino acid metabolism with a precise genome-scale metabolic reconstruction of Anabaena sp. UTEX 2576 | Biochemical Engineering Journal | 171 |
| 2021 | 10.1364/BOE.423798 | Nong, D., Z. K. Haviland, K. V. Kuntz, M. Tien, C. T. Anderson and W. O. Hancock | Integrated multi-wavelength microscope combining TIRFM and IRM modalities for imaging cellulases and other processive enzymes | Biomedical Optics Express | 12(6) 3253-3264 |
| 2021 | 10.1016/j.isci.2021.103218 | Niu, P., M. J. Soto, B.-J. Yoon, E. R. Dougherty, F. J. Alexander, I. Blaby and X. Qian | TRIMER: Transcription Regulation Integrated with Metabolic Regulation | iScience | 24(11) 103218 |
| 2021 | 10.1111/oik.07912 | Nielsen, D. A., N. Fierer, J. L. Geoghegan, M. R. Gillings, V. Gumerov, J. S. Madin, L. Moore, I. T. Paulsen, T. B. K. Reddy, S. G. Tetu and M. Westoby | Aerobic bacteria and archaea tend to have larger and more versatile genomes | Oikos | 130(4) 501-511 |
| 2021 | 10.1128/mSystems.01205-20 | Nicolas, A. M., A. L. Jaffe, E. E. Nuccio, M. E. Taga, M. K. Firestone and J. F. Banfield | Soil candidate phyla radiation bacteria encode components of aerobic metabolism and co-occur with nanoarchaea in the rare biosphere of rhizosphere grassland communities | mSystems | 6(4) |
| 2021 | 10.1128/MRA.00580-21 | Nickolson, G. P., N. M. Balasjin and C. W. Marshall | Draft Genome Sequence of Staphylococcus succinus Strain GN1, Isolated from a Basement Floor in Milwaukee, WI | Microbiology Resource Announcements | 10(27) e00580-21 |
| 2021 | 10.1016/j.ymben.2021.02.006 | Ni, Z., A. E. Stine, K. E. J. Tyo and L. J. Broadbelt | Curating a comprehensive set of enzymatic reaction rules for efficient novel biosynthetic pathway design | Metabolic Engineering | 65 79-87 |
| 2021 | 10.1016/j.watres.2020.116445 | Nguyen Quoc, B., S. Wei, M. Armenta, R. Bucher, P. Sukapanpotharam, D. A. Stahl, H. D. Stensel and M. H. Winkler | Aerobic granular sludge: Impact of size distribution on nitrification capacity | Water Research | 188 116445 |
| 2021 | 10.1016/j.watres.2021.117119 | Nguyen Quoc, B., M. Armenta, J. A. Carter, R. Bucher, P. Sukapanpotharam, S. J. Bryson, D. A. Stahl, H. D. Stensel and M.-K. H. Winkler | An investigation into the optimal granular sludge size for simultaneous nitrogen and phosphate removal | Water Research | 198 117119 |
| 2021 | 10.1021/acs.est.1c00300 | Neurath, R. A., J. Pett-Ridge, I. Chu-Jacoby, D. Herman, T. Whitman, P. S. Nico, A. S. Lipton, J. Kyle, M. M. Tfaily, A. Thompson and M. K. Firestone | Root Carbon Interaction with Soil Minerals Is Dynamic, Leaving a Legacy of Microbially Derived Residues | Environmental Science & Technology | 55(19) 13345–55 |
| 2021 | 10.1093/sysbio/syaa038 | Neumann, J. S., R. Desalle, A. Narechania, B. Schierwater and M. Tessler | Morphological Characters Can Strongly Influence Early Animal Relationships Inferred from Phylogenomic Data Sets | Systematic Biology | 70(2) 360–75 |
| 2021 | 10.1002/bit.27637 | Nemmaru, B., N. Ramirez, C. J. Farino, J. M. Yarbrough, N. Kravchenko and S. P. S. Chundawat | Reduced type-A carbohydrate-binding module interactions to cellulose I leads to improved endocellulase activity | Biotechnology and Bioengineering | 118(3) 1141-1151 |
| 2021 | 10.1021/acs.orglett.0c03966 | Nelson, H. M., J. C. Siu, A. Saha, D. Cascio, S. N. MacMillan, S. B. Wu, C. Lu, J. A. Rodríguez, K. N. Houk and S. Lin | Isolation and X-ray Crystal Structure of an Electrogenerated TEMPO-N3Charge-Transfer Complex | Organic Letters | 23(2) 454-458 |
| 2021 | 10.1128/mbio.03014-20 | Neches, R. Y., N. C. Kyrpides and C. A. Ouzounis | Atypical Divergence of SARS-CoV-2 Orf8 from Orf7a within the Coronavirus Lineage Suggests Potential Stealthy Viral Strategies in Immune Evasion | mBio | 12(1) |
| 2021 | 10.1080/00275514.2021.1965852 | Ndinga-Muniania, C., R. C. Mueller, C. R. Kuske and A. Porras-Alfaro | Seasonal variation and potential roles of dark septate fungi in an arid grassland | Mycologia | 113(6) 1181–98 |
| 2021 | 10.1099/ijsem.0.004912 | Nde, A. L., G. Charimba, A. Hitzeroth, L. Oosthuizen, L. Steyn, J. D. Newman and C. Hugo | Chryseobacterium pennae sp. nov., isolated from poultry feather waste | International Journal of Systematic and Evolutionary Microbiology | 71(7) |
| 2021 | 10.1038/s41587-020-0718-6 | Nayfach, S., S. Roux, R. Seshadri, D. Udwary, N. Varghese, et al. | A genomic catalog of Earth’s microbiomes | Nature Biotechnology | 39(4) 499-509 |
| 2021 | 10.1038/s41587-020-0718-6 | Nayfach, S., S. Roux, R. Seshadri, D. Udwary, N. Varghese, et al. | A genomic catalog of Earth’s microbiomes | Nature Biotechnology | 39(4) 499–509 |
| 2021 | 10.1038/s41564-021-00928-6 | Nayfach, S., D. Páez-Espino, L. Call, S. J. Low, H. Sberro, N. N. Ivanova, A. D. Proal, M. A. Fischbach, A. S. Bhatt, P. Hugenholtz and N. C. Kyrpides | Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome | Nature Microbiology | 6(7) 960-970 |
| 2021 | 10.1038/s41587-020-00774-7 | Nayfach, S., A. P. Camargo, F. Schulz, E. Eloe-Fadrosh, S. Roux and N. C. Kyrpides | CheckV assesses the quality and completeness of metagenome-assembled viral genomes | Nature Biotechnology | 39(5) 578-585 |
| 2021 | 10.1038/s41597-021-00957-0 | Nathani, N. M., K. J. Dave, P. P. Vatsa, M. S. Mahajan, P. Sharma and C. Mootapally | 309 metagenome assembled microbial genomes from deep sediment samples in the Gulfs of Kathiawar Peninsula | Scientific Data | 8(1) 194 |
| 2021 | 10.1073/pnas.2004846117 | Nasti, R. A. and D. F. Voytas | Attaining the promise of plant gene editing at scale | Proceedings of the National Academy of Sciences of the United States of America | 118(22) |
| 2021 | 10.1038/s41467-021-27548-2 | Nam, H. I., Z. Shahzad, Y. Dorone, S. Clowez, K. Zhao, N. Bouain, K. S. Lay-Pruitt, H. Cho, S. Y. Rhee and H. Rouached | Interdependent iron and phosphorus availability controls photosynthesis through retrograde signaling | Nature Communications | 12(1) |
| 2021 | 10.3390/ijms22084107 | Nag, A., A. Gerritsen, C. Doeppke and A. E. Harman-Ware | Machine Learning-Based Classification of Lignocellulosic Biomass from Pyrolysis-Molecular Beam Mass Spectrometry Data | International Journal of Molecular Sciences | 22(8) 4107 |
| 2021 | 10.1128/MRA.00160-21 | Myers, K. S., M. Place, J. Kominek, D. R. Noguera and T. J. Donohue | Delila-PY, a Pipeline for Utilizing the Delila Suite of Software to Identify Potential DNA Binding Motifs | Microbiology Resource Announcements | 10(15) e00160-21 |
| 2021 | 10.1128/mSystems.00526-21 | Myers, K. S., D. R. Noguera and T. J. Donohue | Promoter Architecture Differences among Alphaproteobacteria and Other Bacterial Taxa | mSystems | 6(4) e00526-21 |
| 2021 | 10.1111/gcb.15439 | Mushinski, R. M., Z. C. Payne, J. D. Raff, M. E. Craig, S. E. Pusede, D. B. Rusch, J. R. White and R. P. Phillips | Nitrogen cycling microbiomes are structured by plant mycorrhizal associations with consequences for nitrogen oxide fluxes in forests | Global Change Biology | 27(5) 1068-1082 |
| 2021 | 10.1128/mra.00206-21 | Murray, B., M. Dailey, E. Ertekin and J. DiRuggiero | Draft Metagenomes of Endolithic Cyanobacteria and Cohabitants from Hyper-Arid Deserts | Microbiology Resource Announcements | 10(30) |
| 2021 | 10.1038/s41598-020-79320-z | Murphy, K. M., J. Edwards, K. B. Louie, B. P. Bowen, V. Sundaresan, T. R. Northen and P. Zerbe | Bioactive diterpenoids impact the composition of the root-associated microbiome in maize (Zea mays) | Scientific Reports | 11(1) 333 |
| 2021 | 10.1016/j.biombioe.2021.106051 | Murphy, E. K., Y. Mottiar, R. Y. Soolanayakanahally and S. D. Mansfield | Variations in cell wall traits impact saccharification potential of Salix famelica and Salix eriocephala | Biomass and Bioenergy | 148 106051 |
| 2021 | 10.1128/mbio.00985-21 | Murphy, C. L., A. Sheremet, P. F. Dunfield, J. R. Spear, R. Stepanauskas, T. Woyke, M. S. Elshahed and N. H. Youssef | Genomic Analysis of the Yet-Uncultured Binatota Reveals Broad Methylotrophic, Alkane-Degradation, and Pigment Production Capacities | mBio | 12(3) |
| 2021 | 10.1093/GENETICS/IYAB087 | Mural, R. V., M. Grzybowski, C. Miao, A. Damke, S. Sapkota, R. E. Boyles, M. G. S. Fernandez, P. S. Schnable, B. Sigmon, S. Kresovich and J. C. Schnable | Meta-analysis identifies pleiotropic loci controlling phenotypic trade-offs in sorghum | Genetics | 218(3) |
| 2021 | 10.1093/nar/gkaa983 | Mukherjee, S., D. Stamatis, J. Bertsch, G. Ovchinnikova, J. C. Sundaramurthi, J. Lee, M. Kandimalla, I. A. Chen, N. C. Kyrpides and T. B. K. Reddy | Genomes OnLine Database (GOLD) v.8: overview and updates | Nucleic Acids Research | 49(D1) D723–33 |
| 2021 | Mueller, R. C., C. R. Kuske and B. J. M. Bohannan | Variable thresholds in fungal and bacterial community response to experimental nitrogen deposition between two forest stands | Applied and Environmental Microbiology | ||
| 2021 | 10.1111/tpj.15492 | Muchlinski, A., M. Jia, K. Tiedge, J. S. Fell, K. A. Pelot, L. Chew, D. Davisson, Y. Chen, J. Siegel, J. T. Lovell and P. Zerbe | Cytochrome P450-catalyzed biosynthesis of furanoditerpenoids in the bioenergy crop switchgrass (Panicum virgatum L.) | The Plant Journal | 108(4) 1053-1068 |
| 2021 | 10.1111/tpj.15492 | Muchlinski, A., M. Jia, K. Tiedge, J. S. Fell, K. A. Pelot, L. Chew, D. Davisson, Y. Chen, J. Siegel, J. T. Lovell and P. Zerbe | Cytochrome P450-catalyzed biosynthesis of furanoditerpenoids in the bioenergy crop switchgrass (Panicum virgatum L.) | Plant Journal | 108(4) 1053-1068 |
| 2021 | 10.1016/j.apenergy.2021.117098 | Mousavi-Avval, S. H. and A. Shah | Life cycle energy and environmental impacts of hydroprocessed renewable jet fuel production from pennycress | Applied Energy | 297 |
| 2021 | 10.1016/j.rser.2021.111340 | Mousavi-Avval, S. H. and A. Shah | Techno-economic analysis of hydroprocessed renewable jet fuel production from pennycress oilseed | Renewable and Sustainable Energy Reviews | 149 |
| 2021 | 10.1016/j.copbio.2021.07.017 | Motabar, D., J. Li, G. F. Payne and W. E. Bentley | Mediated electrochemistry for redox-based biological targeting: entangling sensing and actuation for maximizing information transfer | Current Opinion in Biotechnology | 71 137–44 |
| 2021 | 10.3389/fsufs.2021.706142 | Mosier, S., S. C. Córdova and G. P. Robertson | Restoring Soil Fertility on Degraded Lands to Meet Food, Fuel, and Climate Security Needs via Perennialization | Frontiers in Sustainable Food Systems | 5 |
| 2021 | 10.3390/cells10092217 | Moseley, R. C., F. Motta, G. A. Tuskan, S. B. Haase and X. Yang | Inference of Gene Regulatory Network Uncovers the Linkage between Circadian Clock and Crassulacean Acid Metabolism in Kalanchoë fedtschenkoi | Cells | 10(9) 2217 |
| 2021 | 10.1038/s41592-020-01007-0 | Morton, J. T., D. McDonald, A. A. Aksenov, L. F. Nothias, J. R. Foulds, et al. | Reply to: Examining microbe–metabolite correlations by linear methods | Nature Methods | 18(1) 40-41 |
| 2021 | 10.1128/mra.00799-20 | Morin, E., C. Murat, N. Cichocki, H. D. l. Varga, A. Kohler, J. Xu, I. V. Grigoriev and F. M. Martin | Draft Genome Sequences of the Black Truffles Tuber brumale Vittad. and Tuber indicum Cook & Massee | Microbiology Resource Announcements | 10(4) |
| 2021 | 10.1093/sysbio/syaa066 | Morales-Briones, D. F., G. Kadereit, D. T. Tefarikis, M. J. Moore, S. A. Smith, S. F. Brockington, A. Timoneda, W. C. Yim, J. C. Cushman and Y. Yang | Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l | Systematic Biology | 70(2) 219-235 |
| 2021 | 10.1016/j.cub.2021.03.067 | Moore, W. M., C. Chan, T. Ishikawa, E. A. Rennie, H. M. L. Wipf, V. Benites, M. Kawai-Yamada, J. C. Mortimer and H. V. Scheller | Reprogramming sphingolipid glycosylation is required for endosymbiont persistence in Medicago truncatula | Current Biology | 31(11) 2374–85.e4 |
| 2021 | 10.1111/gcbb.12788 | Moore, C. E., A. C. von Haden, M. B. Burnham, I. B. Kantola, C. D. Gibson, B. J. Blakely, E. C. Dracup, M. D. Masters, W. H. Yang, E. H. DeLucia and C. J. Bernacchi | Ecosystem-scale biogeochemical fluxes from three bioenergy crop candidates: How energy sorghum compares to maize and miscanthus | GCB Bioenergy | 13(3) 445–58 |
| 2021 | 10.1093/jxb/erab090 | Moore, C. E., K. Meacham-Hensold, P. Lemonnier, R. A. Slattery, C. Benjamin, C. J. Bernacchi, T. Lawson and A. P. Cavanagh | The effect of increasing temperature on crop photosynthesis: from enzymes to ecosystems | Journal of Experimental Botany | 72(8) 2822–44 |
| 2021 | 10.1093/plcell/koab287 | Moore, B. M., Y. S. Lee, P. Wang, C. Azodi, E. Grotewold and S.-H. Shiu | Modeling temporal and hormonal regulation of plant transcriptional response to wounding | The Plant Cell | 34(2) 867–88 |
| 2021 | 10.1111/mmi.14717 | Monge, E. C. and J. G. Gardner | Efficient chito-oligosaccharide utilization requires two TonB-dependent transporters and one hexosaminidase in Cellvibrio japonicus | Molecular Microbiology | 116(2) 366-380 |
| 2021 | 10.1038/s41467-021-23503-3 | Mondal, D., B. F. Fisher, Y. Jiang and J. C. Lewis | Flavin-dependent halogenases catalyze enantioselective olefin halocyclization | Nature Communications | 12(1) 3268 |
| 2021 | 10.1128/MRA.00531-21 | Mok, S., P. R. Flanagan, E. Roycroft, T. R. Rogers and M. M. Fitzgibbon | Draft Genome Sequences of Clinical Respiratory Isolates of Mycobacterium goodii Recovered in Ireland | Microbiology Resource Announcements | 10(31) e00531-21 |
| 2021 | 10.1039/D1GC01622A | Mohan, M., H. Choudhary, A. George, B. A. Simmons, K. Sale and J. M. Gladden | Towards understanding of delignification of grassy and woody biomass in cholinium-based ionic liquids | Green Chemistry | 23(16) 6020–35 |
| 2021 | 10.1016/j.cub.2021.03.089 | Mohammadi, S., L. Yang, A. Harpak, S. Herrera-Álvarez, M. del Pilar Rodríguez-Ordoñez, J. Peng, K. Zhang, J. F. Storz, S. Dobler, A. J. Crawford and P. Andolfatto | Concerted evolution reveals co-adapted amino acid substitutions in Na+K+-ATPase of frogs that prey on toxic toads | Current Biology | 31(12) 2530-2538.e10 |
| 2021 | 10.1021/acs.est.0c06452 | Mishra, S. K., S. Gautam, U. Mishra and C. D. Scown | Performance-Based Payments for Soil Carbon Sequestration Can Enable a Low-Carbon Bioeconomy | Environmental Science & Technology | 55(8) 5180–8 |
| 2021 | 10.1038/s43705-021-00037-9 | Min, B., B. Wu, J. Gaskell, J. Zhang, C. Toapanta, S. Ahrendt, R. A. Blanchette, E. Master, D. Cullen, D. S. Hibbett and I. V. Grigoriev | RNA-editing in Basidiomycota, revisited | ISME Communications | 1(1) 70 |
| 2021 | 10.1117/12.2577747 | Michalet, X. | An overview of continuous and discrete phasor analysis of binned or time-gated periodic decays | Proc SPIE Int Soc Opt Eng | 11648 |
| 2021 | 10.1063/5.0027834 | Michalet, X. | Continuous and discrete phasor analysis of binned or time-gated periodic decays | AIP Adv | 11(3) 035331 |
| 2021 | 10.1101/gr.266429.120 | Michael, T. P., E. Ernst, N. Hartwick, P. Chu, D. Bryant, et al. | Genome and time-of-day transcriptome of Wolffia australiana link morphological minimization with gene loss and less growth control | Genome Research | 31(2) 225–38 |
| 2021 | 10.1002/ppj2.20022 | Miao, C., A. Guo, A. M. Thompson, J. Yang, Y. Ge and J. C. Schnable | Automation of leaf counting in maize and sorghum using deep learning | Plant Phenome Journal | 4(1) |
| 2021 | 10.3390/life11060551 | Meyer, C., Y. Nakamura, B. J. Rasor, A. S. Karim, M. C. Jewett and C. Tan | Analysis of the innovation trend in cell-free synthetic biology | Life | 11(6) |
| 2021 | 10.1038/s41396-020-00757-1 | Metcalfe, K. S., R. Murali, S. W. Mullin, S. A. Connon and V. J. Orphan | Experimentally-validated correlation analysis reveals new anaerobic methane oxidation partnerships with consortium-level heterogeneity in diazotrophy | The ISME Journal | 15(2) 377–396 |
| 2021 | 10.1038/s41467-021-27479-y | Mesny, F., S. Miyauchi, T. Thiergart, B. Pickel, L. Atanasova, et al. | Genetic determinants of endophytism in the Arabidopsis root mycobiome | Nature Communications | 12(1) 7227 |
| 2021 | 10.1021/bk-2021-1377.ch011 | Meng, X., M. Poonia, C. G. Yoo and A. J. Ragauskas | Recent Advances in Synthesis and Application of Lignin Nanoparticles | Lignin Utilization Strategies: From Processing to Applications | 1377 273–93 |
| 2021 | 10.1073/pnas.2026330118 | Meng, X., Z. Liang, X. Dai, Y. Zhang, S. Mahboub, D. W. Ngu, R. L. Roston and J. C. Schnable | Predicting transcriptional responses to cold stress across plant species | Proceedings of the National Academy of Sciences of the United States of America | 118(10) |
| 2021 | 10.1007/s10482-021-01656-x | Menes, R. J., E. V. Machin, D. M. Roldán, N. Kyrpides, T. Woyke, W. B. Whitman and H.-J. Busse | Frigoriflavimonas asaccharolytica gen. nov., sp. nov., a novel psychrophilic esterase and protease producing bacterium isolated from Antarctica | Antonie van Leeuwenhoek | 114(12) 1991–2002 |
| 2021 | 10.1016/B978-0-12-809633-8.21068-6 | Mendoza, S. N., S. Calhoun, B. Teusink and M. V. Aguilar-Pontes | Metabolic Modeling of Fungi | Encyclopedia of Mycology | 394-405 |
| 2021 | 10.1371/journal.pone.0255083 | Mendes, I. V., M. B. Garcia, A. C. A. Bitencourt, R. H. Santana, P. d. C. Lins, R. Silveira, B. A. Simmons, J. M. Gladden, R. H. Kruger and B. F. Quirino | Bacterial diversity dynamics in microbial consortia selected for lignin utilization | PLoS ONE | 16(9) e0255083 |
| 2021 | 10.1093/molbev/msab063 | Meleshko, O., M. D. Martin, T. S. Korneliussen, C. Schröck, P. Lamkowski, J. Schmutz, A. Healey, B. T. Piatkowski, A. J. Shaw, D. J. Weston, K. I. Flatberg, P. Szövényi, K. Hassel and H. K. Stenøien | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus | Molecular Biology and Evolution | 38(7) 2750-2766 |
| 2021 | 10.1038/s41467-021-24549-z | Mehrshad, M., M. Lopez-Fernandez, J. Sundh, E. Bell, D. Simone, M. Buck, R. Bernier-Latmani, S. Bertilsson and M. Dopson | Energy efficiency and biological interactions define the core microbiome of deep oligotrophic groundwater | Nature Communications | 12(1) 4253 |
| 2021 | 10.1038/s41396-021-01139-x | McKay, L. J., H. J. Smith, E. P. Barnhart, H. D. Schweitzer, R. R. Malmstrom, D. Goudeau and M. W. Fields | Activity-based, genome-resolved metagenomics uncovers key populations and pathways involved in subsurface conversions of coal to methane | The ISME Journal | 16(4) 915-926 |
| 2021 | 10.1038/s41467-021-22765-1 | McGivern, B. B., M. M. Tfaily, M. A. Borton, S. M. Kosina, R. A. Daly, C. D. Nicora, S. O. Purvine, A. R. Wong, M. S. Lipton, D. W. Hoyt, T. R. Northen, A. E. Hagerman and K. C. Wrighton | Decrypting bacterial polyphenol metabolism in an anoxic wetland soil | Nature Communications | 12(1) |
| 2021 | 10.1128/MRA.00628-21 | McDermith, E. J., A. R. Sterling, M. J. Bertin and B. D. Jenkins | Draft Genome Sequence of Salegentibacter sp. Strain BDJ18, a Plankton-Associated Bacterium in the Northeast Atlantic Ocean | Microbiology Resource Announcements | 10(36) e00628-21 |
| 2021 | 10.1128/MRA.00244-21 | McDaniel, E. A., R. Wever, B. O. Oyserman, D. R. Noguera and K. D. McMahon | Genome-Resolved Metagenomics of a Photosynthetic Bioreactor Performing Biological Nutrient Removal | Microbiology Resource Announcements | 10(18) e00244-21 |
| 2021 | 10.1128/mSystems.00474-21 | McDaniel, E. A., F. Moya-Flores, N. K. Beach, P. Y. Camejo, B. O. Oyserman, M. Kizaric, E. H. Khor, D. R. Noguera and K. D. McMahon | Metabolic Differentiation of Co-occurring Accumulibacter Clades Revealed through Genome-Resolved Metatranscriptomics | mSystems | 6(4) e00474-21 |
| 2021 | 10.1039/D1GC00243K | McClelland, D. J., B.-X. Wang, W. T. Cordell, Y. R. Cortes-Peña, E. B. Gilcher, L. Zhang, J. S. Guest, B. F. Pfleger, G. W. Huber and J. A. Dumesic | Renewable linear alpha-olefins by base-catalyzed dehydration of biologically-derived fatty alcohols | Green Chemistry | 23(12) 4338–54 |
| 2021 | 10.1071/FP20332 | Mayer, J. A., B. W. M. Wone, D. C. Alexander, L. Guo, J. A. Ryals and J. C. Cushman | Metabolic profiling of epidermal and mesophyll tissues under water-deficit stress in Opuntia ficus-indica reveals stress-adaptive metabolic responses | Functional Plant Biology | 48(7) 717-731 |
| 2021 | 10.1007/978-3-030-63512-1_13 | Mayali, X. | Microscale Carbon Cycling Between Bacteria and Algae Under the Sun | Microbes: The Foundation Stone of the Biosphere | 205–10 |
| 2021 | 10.3389/fmicb.2021.651282 | Mavrodi, O. V., J. R. McWilliams, J. O. Peter, A. Berim, K. A. Hassan, L. D. H. Elbourne, M. K. LeTourneau, D. R. Gang, I. T. Paulsen, D. M. Weller, L. S. Thomashow, A. S. Flynt and D. V. Mavrodi | Root Exudates Alter the Expression of Diverse Metabolic, Transport, Regulatory, and Stress Response Genes in Rhizosphere Pseudomonas | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fmicb.2021.651282 | Mavrodi, O. V., J. R. McWilliams, J. O. Peter, A. Berim, K. A. Hassan, L. D. H. Elbourne, M. K. LeTourneau, D. R. Gang, I. T. Paulsen, D. M. Weller, L. S. Thomashow, A. S. Flynt and D. V. Mavrodi | Root Exudates Alter the Expression of Diverse Metabolic, Transport, Regulatory, and Stress Response Genes in Rhizosphere Pseudomonas | Frontiers in Microbiology | 12 |
| 2021 | 10.1186/s40168-020-00957-z | Matheus Carnevali, P. B., A. Lavy, A. D. Thomas, A. Crits-Christoph, S. Diamond, et al. | Meanders as a scaling motif for understanding of floodplain soil microbiome and biogeochemical potential at the watershed scale | Microbiome | 9(1) 121 |
| 2021 | 10.1007/s13157-021-01423-8 | Mason, O. U., P. Chanton, L. N. Knobbe, J. Zaugg and B. Mortazavi | New Insights Into the Influence of Plant and Microbial Diversity on Denitrification Rates in a Salt Marsh | Wetlands | 41(2) 33 |
| 2021 | 10.1128/MRA.00664-21 | Martinez, J. N., A. Nishihara and S. Haruta | Metagenome-Assembled Genome Sequences Recovered from Epilithic River Biofilm in the Tama River, Japan | Microbiology Resource Announcements | 10(38) e00664-21 |
| 2021 | 10.1128/MRA.01380-20 | Martin, R. M., M. Kausch, K. Yap, J. D. Wehr, G. L. Boyer and S. W. Wilhelm | Metagenome-Assembled Genome Sequences of Raphidiopsis raciborskii and Planktothrix agardhii from a Cyanobacterial Bloom in Kissena Lake, New York, USA | Microbiology Resource Announcements | 10(2) e01380-20 |
| 2021 | 10.1038/s41467-021-25646-9 | Martin, K., K. Schmidt, A. Toseland, C. A. Boulton, K. Barry, et al. | The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole | Nature Communications | 12(1) 5483 |
| 2021 | 10.1128/mSystems.00987-21 | Martien, J. I., E. A. Trujillo, T. B. Jacobson, M. Tatli, A. S. Hebert, D. M. Stevenson, J. J. Coon and D. Amador-Noguez | Metabolic Remodeling during Nitrogen Fixation in Zymomonas mobilis | mSystems | 6(6) e00987-21 |
| 2021 | 10.1111/nph.17044 | Marqués-Gálvez, J. E., S. Miyauchi, F. Paolocci, A. Navarro-Ródenas, F. Arenas, M. Pérez-Gilabert, E. Morin, L. Auer, K. W. Barry, A. Kuo, I. V. Grigoriev, F. M. Martin, A. Kohler and A. Morte | Desert truffle genomes reveal their reproductive modes and new insights into plant–fungal interaction and ectendomycorrhizal lifestyle | New Phytologist | 229(5) 2917–2932 |
| 2021 | 10.1126/science.abf8761 | Markin, C. J., D. A. Mokhtari, F. Sunden, M. J. Appel, E. Akiva, S. A. Longwell, C. Sabatti, D. Herschlag and P. M. Fordyce | Revealing enzyme functional architecture via high-throughput microfluidic enzyme kinetics | Science | 373(6553) eabf8761 |
| 2021 | 10.1093/nar/gkaa721 | Marchand, J. A., M. D. Pierson Smela, T. H. H. Jordan, K. Narasimhan and G. M. Church | TBDB: A database of structurally annotated T-box riboswitch:tRNA pairs | Nucleic Acids Research | 49(D1) D229-D235 |
| 2021 | 10.1016/j.jbc.2021.100602 | Mamode Cassim, A., Y. Navon, Y. Gao, M. Decossas, L. Fouillen, et al. | Biophysical analysis of the plant-specific GIPC sphingolipids reveals multiple modes of membrane regulation | Journal of Biological Chemistry | 296 100602 |
| 2021 | 10.1038/s41596-020-00455-4 | Majumder, E. L. W., E. M. Billings, H. P. Benton, R. L. Martin, A. Palermo, C. Guijas, M. M. Rinschen, X. Domingo-Almenara, J. R. Montenegro-Burke, B. A. Tagtow, R. S. Plumb and G. Siuzdak | Cognitive analysis of metabolomics data for systems biology | Nature Protocols | 16(3) 1376–418 |
| 2021 | 10.1016/j.biortech.2020.124424 | Maitra, S. and V. Singh | Balancing sugar recovery and inhibitor generation during energycane processing: Coupling cryogenic grinding with hydrothermal pretreatment at low temperatures | Bioresource Technology | 321 124424 |
| 2021 | 10.1111/gcbb.12841 | Maitra, S., B. Dien, S. P. Long and V. Singh | Development and validation of time-domain 1H-NMR relaxometry correlation for high-throughput phenotyping method for lipid contents of lignocellulosic feedstocks | GCB Bioenergy | 13(7) 1179-1190 |
| 2021 | 10.1093/plphys/kiab499 | Mahon, E. L., L. de Vries, S.-K. Jang, S. Middar, H. Kim, F. Unda, J. Ralph and S. D. Mansfield | Exogenous chalcone synthase expression in developing poplar xylem incorporates naringenin into lignins | Plant Physiology | 188(2) 984–96 |
| 2021 | 10.1128/mra.00327-21 | Mahan, K. M., J. E. W. Polle, Z. McKie-Krisberg, A. Lipzen, A. Kuo, I. V. Grigoriev, T. W. Lane and A. K. Davis | Annotated Genome Sequence of the High-Biomass-Producing Yellow-Green Alga Tribonema minus | Microbiology Resource Announcements | 10(24) |
| 2021 | 10.7150/jgen.53019 | Maguvu, T. E., A. O. Oladipo and C. C. Bezuidenhout | Analysis of Genome Sequences of Coagulase-Negative Staphylococci Isolates from South Africa and Nigeria Highlighted Environmentally Driven Heterogeneity | Journal of Genomics | 9 26–37 |
| 2021 | 10.3390/microorganisms9091928 | Maguvu, T. E. and C. C. Bezuidenhout | Whole Genome Sequencing Based Taxonomic Classification, and Comparative Genomic Analysis of Potentially Human Pathogenic Enterobacter spp. Isolated from Chlorinated Wastewater in the North West Province, South Africa | Microorganisms | 9(9) 1928 |
| 2021 | 10.1039/D0GC03260C | Magurudeniya, H. D., N. R. Baral, A. Rodriguez, C. D. Scown, J. Dahlberg, D. Putnam, A. George, B. A. Simmons and J. M. Gladden | Use of ensiled biomass sorghum increases ionic liquid pretreatment efficiency and reduces biofuel production cost and carbon footprint | Green Chemistry | 23(8) 3127–40 |
| 2021 | 10.1007/s11119-021-09810-1 | Maestrini, B. and B. Basso | Subfield crop yields and temporal stability in thousands of US Midwest fields | Precision Agriculture | 22(6) 1749–67 |
| 2021 | 10.1146/annurev-arplant-080620-031054 | Maeda, H. A. and A. R. Fernie | Evolutionary History of Plant Metabolism | Annual Review of Plant Biology | 72 185-216 |
| 2021 | 10.1021/acs.jpca.1c06797 | Ma, Y.-Z. and B. Doughty | Nonlinear Optical Microscopy with Ultralow Quantum Light | The Journal of Physical Chemistry A | 125(40) 8765-8776 |
| 2021 | 10.1007/s10532-021-09932-3 | Ma, Y., T. J. Donohue and D. R. Noguera | Kinetic modeling of anaerobic degradation of plant-derived aromatic mixtures by Rhodopseudomonas palustris | Biodegradation | 32(2) 179–92 |
| 2021 | 10.12688/f1000research.38156.1 | Ma, X., J. Olsen, T. Reusch, G. Procaccini, D. Kudrna, M. Williams, J. Grimwood, S. Rajasekar, J. Jenkins, J. Schmutz and Y. Van de Peer | Improved chromosome-level genome assembly and annotation of the seagrass, Zostera marina (eelgrass) | F1000Research | 10(289) |
| 2021 | 10.1094/pbiomes-01-20-0014-fi | Ma, L., F. I. Rocha, J. Lee, J. Choi, M. Tejera, T. Sooksa-Nguan, N. Boersma, A. VanLoocke, E. Heaton and A. Howe | The Impact of Stand Age and Fertilization on the Soil Microbiome of Miscanthus × giganteus | Phytobiomes Journal | 5(1) 51–59 |
| 2021 | 10.1093/plcell/koab025 | Ma, F., P. A. Salomé, S. S. Merchant and M. Pellegrini | Single-cell RNA sequencing of batch Chlamydomonas cultures reveals heterogeneity in their diurnal cycle phase | Plant Cell | 33(4) 1042-1057 |
| 2021 | 10.1097/MOH.0000000000000651 | Ma, F., G. E. Hernandez, M. Romay and M. L. Iruela-Arispe | Single-cell RNA sequencing to study vascular diversity and function | Current Opinion in Hematology | 28(3) 221-229 |
| 2021 | 10.1021/jacs.1c03129 | Lyu, M., L. Kong, Z. Yang, Y. Wu, C. E. McGhee and Y. Lu | PNA-Assisted DNAzymes to Cleave Double-Stranded DNA for Genetic Engineering with High Sequence Fidelity | Journal of the American Chemical Society | 143(26) 9724–8 |
| 2021 | 10.1038/s41467-021-25976-8 | Luo, Y., G. Jiang, T. Yu, Y. Liu, L. Vo, H. Ding, Y. Su, W. W. Qian, H. Zhao and J. Peng | ECNet is an evolutionary context-integrated deep learning framework for protein engineering | Nature Communications | 12(1) 5743 |
| 2021 | 10.1073/pnas.2019462118 | Luo, S., B. G. Coutinho, P. Dadhwal, Y. Oda, J. Ren, A. L. Schaefer, E. P. Greenberg, C. S. Harwood and L. Tong | Structural basis for a bacterial Pip system plant effector recognition protein | Proceedings of the National Academy of Sciences | 118(10) e2019462118 |
| 2021 | 10.1021/jacs.1c08635 | Luo, H., E. P. Weeda, M. Alherech, C. W. Anson, S. D. Karlen, Y. Cui, C. E. Foster and S. S. Stahl | Oxidative Catalytic Fractionation of Lignocellulosic Biomass under Non-alkaline Conditions | Journal of the American Chemical Society | 143(37) 15462–70 |
| 2021 | 10.1128/spectrum.00520-21 | Lukowski, J. K., A. Bhattacharjee, S. M. Yannarell, K. Schwarz, L. M. Shor, E. A. Shank and C. R. Anderton | Expanding Molecular Coverage in Mass Spectrometry Imaging of Microbial Systems Using Metal-Assisted Laser Desorption/Ionization | Microbiology Spectrum | 9(1) e00520-21 |
| 2021 | 10.1371/journal.pcbi.1008972 | Lui, L. M., T. N. Nielsen and A. P. Arkin | A method for achieving complete microbial genomes and improving bins from metagenomics data | PLoS Computational Biology | 17(5) e1008972 |
| 2021 | 10.3389/fmicb.2021.642422 | Lui, L. M., E. L.-W. Majumder, H. J. Smith, H. K. Carlson, F. von Netzer, M. W. Fields, D. A. Stahl, J. Zhou, T. C. Hazen, N. S. Baliga, P. D. Adams and A. P. Arkin | Mechanism Across Scales: A Holistic Modeling Framework Integrating Laboratory and Field Studies for Microbial Ecology | Frontiers in Microbiology | 12 |
| 2021 | 10.1039/D1GC01507A | Lu, F., C. Wang, M. Chen, F. Yue and J. Ralph | A facile spectroscopic method for measuring lignin content in lignocellulosic biomass | Green Chemistry | 23(14) 5106–12 |
| 2021 | 10.1038/s41586-020-03127-1 | Lovell, J. T., A. H. MacQueen, S. Mamidi, J. Bonnette, J. Jenkins, et al. | Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass | Nature | 590(7846) 438–444 |
| 2021 | 10.1038/s41467-021-24328-w | Lovell, J. T., N. B. Bentley, G. Bhattarai, J. W. Jenkins, A. Sreedasyam, et al. | Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding | Nature Communications | 12(1) 4125 |
| 2021 | 10.1021/acssynbio.0c00372 | Lovelett, R. J., E. M. Zhao, M. A. Lalwani, J. E. Toettcher, I. G. Kevrekidis and J. L. Avalos | Dynamical Modeling of Optogenetic Circuits in Yeast for Metabolic Engineering Applications | ACS Synthetic Biology | 10(2) 219-227 |
| 2021 | 10.1007/s00253-021-11399-4 | Lopez, C., M. Cao, Z. Yao and Z. Shao | Revisiting the unique structure of autonomously replicating sequences in Yarrowia lipolytica and its role in pathway engineering | Applied Microbiology and Biotechnology | 105(14) 5959–72 |
| 2021 | 10.3390/microorganisms9061329 | Lopes, L. D., Y. N. Chai, E. L. Marsh, J. F. Rajewski, I. Dweikat and D. P. Schachtman | Sweet sorghum genotypes tolerant and sensitive to nitrogen stress select distinct root endosphere and rhizosphere bacterial communities | Microorganisms | 9(6) |
| 2021 | 10.1039/9781839161056-00102 | Loo, J. A., A. K. Goring, C. Lantz, B. Wei and M. A. Zenaidee | Investigating 3D Structures of Native Proteins and Complexes through Electron-based Dissociation | New Developments in Mass Spectrometry | 2021-January 102-133 |
| 2021 | 10.3389/fmicb.2020.635786 | Loh, H. Q., V. Hervé and A. Brune | Metabolic Potential for Reductive Acetogenesis and a Novel Energy-Converting [NiFe] Hydrogenase in Bathyarchaeia From Termite Guts – A Genome-Centric Analysis | Frontiers in Microbiology | 11 |
| 2021 | 10.1111/nph.17160 | Lofgren, L. A., N. H. Nguyen, R. Vilgalys, J. Ruytinx, H.-L. Liao, et al. | Comparative genomics reveals dynamic genome evolution in host specialist ectomycorrhizal fungi | New Phytologist | 230(2) 774-792 |
| 2021 | 10.1111/1758-2229.12892 | Lloyd, K. G. | Time as a microbial resource | Environmental Microbiology Reports | 13(1) 18–21 |
| 2021 | 10.1371/journal.pbio.3001442 | Liu, Y., T. A. Demina, S. Roux, P. Aiewsakun, D. Kazlauskas, P. Simmonds, D. Prangishvili, H. M. Oksanen and M. Krupovic | Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes | PLOS Biology | 19(11) e3001442 |
| 2021 | 10.1016/j.cell.2021.01.052 | Liu, Y., P. Cruz-Morales, A. Zargar, M. S. Belcher, B. Pang, E. Englund, Q. Dan, K. Yin and J. D. Keasling | Biofuels for a sustainable future | Cell | 184(6) 1636–47 |
| 2021 | 10.1111/tpj.15108 | Liu, X., R. Van Acker, W. Voorend, A. Pallidis, G. Goeminne, J. Pollier, K. Morreel, H. Kim, H. Muylle, M. Bosio, J. Ralph, R. Vanholme and W. Boerjan | Rewired phenolic metabolism and improved saccharification efficiency of a Zea mays cinnamyl alcohol dehydrogenase 2 (zmcad2) mutant | The Plant Journal | 105(5) 1240–57 |
| 2021 | 10.1016/B978-0-12-821477-0.00001-5 | Liu, R., L. Liang, S. Stettner, E. F. Freed and C. A. Eckert | CRISPR-based tools for microbial cell factories | Microbial Cell Factories Engineering for Production of Biomolecules | 95–113 |
| 2021 | 10.1016/j.tibtech.2020.07.005 | Liu, R., L. Liang, E. F. Freed and R. T. Gill | Directed Evolution of CRISPR/Cas Systems for Precise Gene Editing | Trends in Biotechnology | 39(3) 262–73 |
| 2021 | 10.1007/s00253-021-11394-9 | Liu, J.-J., W. Woodruff, A. Deewan, S. S. Jagtap, E. J. Yun, H. E. Walukiewicz, Y.-S. Jin and C. V. Rao | Investigating the role of the transcriptional regulator Ure2 on the metabolism of Saccharomyces cerevisiae: a multi-omics approach | Applied Microbiology and Biotechnology | 105(12) 5103–12 |
| 2021 | 10.1128/mSystems.00201-21 | Liu, J., P. Villanueva, J. Choi, S. Gunturu, Y. Ouyang, L. K. Tiemann, J. R. Cole, K. R. Glanville, S. J. Hall, M. D. McDaniel, J. Lee and A. Howe | MetaFunPrimer: an Environment-Specific, High-Throughput Primer Design Tool for Improved Quantification of Target Genes | mSystems | 6(5) e00201-21 |
| 2021 | 10.1038/s41598-020-79733-w | Liu, J., A. Cheng, M. Wang, M. Liu, D. Zhu, et al. | Comparative genomics and metabolomics analysis of Riemerella anatipestifer strain CH-1 and CH-2 | Scientific Reports | 11(1) 616 |
| 2021 | 10.1016/j.celrep.2021.108789 | Liu, H., A. L. Shiver, M. N. Price, H. K. Carlson, V. V. Trotter, Y. Chen, V. Escalante, J. Ray, K. E. Hern, C. J. Petzold, P. J. Turnbaugh, K. C. Huang, A. P. Arkin and A. M. Deutschbauer | Functional genetics of human gut commensal Bacteroides thetaiotaomicron reveals metabolic requirements for growth across environments | Cell Reports | 34(9) 108789 |
| 2021 | 10.1038/s41598-021-88899-w | Liu, H. and J. U. Bowie | Cell-free synthetic biochemistry upgrading of ethanol to 1,3 butanediol | Scientific Reports | 11(1) |
| 2021 | 10.1016/j.copbio.2020.09.011 | Liu, D., M. Liberton, J. I. Hendry, J. Aminian-Dehkordi, C. D. Maranas and H. B. Pakrasi | Engineering biology approaches for food and nutrient production by cyanobacteria | Current Opinion in Biotechnology | 67 1–6 |
| 2021 | 10.3390/cells10030582 | Liu, D., R. Hu, J. Zhang, H. B. Guo, H. Cheng, L. Li, A. M. Borland, H. Qin, J. G. Chen, W. Muchero, G. A. Tuskan and X. Yang | Overexpression of an Agave Phosphoenolpyruvate Carboxylase Improves Plant Growth and Stress Tolerance | Cells | 10(3) |
| 2021 | 10.1128/AEM.01643-20 | Lipson, D. A., T. K. Raab, S. P. Castro and A. Powell | Organohalide-Respiring Bacteria at the Heart of Anaerobic Metabolism in Arctic Wet Tundra Soils | Applied and Environmental Microbiology | 87(3) e01643-20 |
| 2021 | 10.1128/AEM.01742-21 | Linz, A. M., Y. Ma, J. M. Perez, K. S. Myers, W. S. Kontur, D. R. Noguera and T. J. Donohue | Aromatic Dimer Dehydrogenases from Novosphingobium aromaticivorans Reduce Monoaromatic Diketones | Applied and Environmental Microbiology | 87(24) e01742-21 |
| 2021 | 10.1371/journal.pone.0233249 | Linardić, M. and S. A. Braybrook | Identification and selection of optimal reference genes for qPCR-based gene expression analysis in Fucus distichus under various abiotic stresses | PLoS ONE | 16(44290) |
| 2021 | 10.1007/s10533-021-00790-y | Lin, Y., A. N. Campbell, A. Bhattacharyya, N. DiDonato, A. M. Thompson, M. M. Tfaily, P. S. Nico, W. L. Silver and J. Pett-Ridge | Differential effects of redox conditions on the decomposition of litter and soil organic matter | Biogeochemistry | 154(1) 1–15 |
| 2021 | 10.1016/j.mec.2021.e00164 | Lin, P. C., F. Zhang and H. B. Pakrasi | Enhanced limonene production in a fast-growing cyanobacterium through combinatorial metabolic engineering | Metabolic Engineering Communications | 12 |
| 2021 | 10.1021/acsomega.1c04750 | Lin, H.-H., Y. Cheng, J. Huo and B. H. Shanks | Selective Ammonolysis of Bioderived Esters for Biobased Amide Synthesis | ACS Omega | 6(44) 30040–9 |
| 2021 | 10.1038/s41467-021-23202-z | Lin, H., H. J. Lee, N. Tague, J. B. Lugagne, C. Zong, F. Deng, J. Shin, L. Tian, W. Wong, M. J. Dunlop and J. X. Cheng | Microsecond fingerprint stimulated Raman spectroscopic imaging by ultrafast tuning and spatial-spectral learning | Nature Communications | 12(1) |
| 2021 | 10.1038/s41396-020-00889-4 | Lin, H., D. B. Ascher, Y. Myung, C. H. Lamborg, S. J. Hallam, C. M. Gionfriddo, K. E. Holt and J. W. Moreau | Mercury methylation by metabolically versatile and cosmopolitan marine bacteria | The ISME Journal | 15(6) 1810-1825 |
| 2021 | 10.1016/j.ymben.2021.04.011 | Lin, C.-Y., K. M. Vuu, B. Amer, P. M. Shih, E. E. K. Baidoo, H. V. Scheller and A. Eudes | In-planta production of the biodegradable polyester precursor 2-pyrone-4,6-dicarboxylic acid (PDC): Stacking reduced biomass recalcitrance with value-added co-product | Metabolic Engineering | 66 148–56 |
| 2021 | 10.1186/s13068-021-01891-4 | Lin, C.-Y., B. S. Donohoe, Y. J. Bomble, H. Yang, M. Yunes, N. S. Sarai, T. Shollenberger, S. R. Decker, X. Chen, M. C. McCann, M. P. Tucker, H. Wei and M. E. Himmel | Iron incorporation both intra- and extra-cellularly improves the yield and saccharification of switchgrass (Panicum virgatum L.) biomass | Biotechnology for Biofuels | 14(1) 55 |
| 2021 | 10.1021/acssuschemeng.1c03765 | Lim, H. G., T. Eng, D. Banerjee, G. Alarcon, A. K. Lau, M.-R. Park, B. A. Simmons, B. O. Palsson, S. W. Singer, A. Mukhopadhyay and A. M. Feist | Generation of Pseudomonas putida KT2440 Strains with Efficient Utilization of Xylose and Galactose via Adaptive Laboratory Evolution | ACS Sustainable Chemistry & Engineering | 9(34) 11512–23 |
| 2021 | 10.1128/mBio.00832-21 | Lillington, S. P., W. Chrisler, C. H. Haitjema, S. P. Gilmore, C. R. Smallwood, V. Shutthanandan, J. E. Evans and M. A. O'Malley | Cellulosome Localization Patterns Vary across Life Stages of Anaerobic Fungi | mBio | e0083221 |
| 2021 | 10.1016/j.jbc.2021.100385 | Liberato, M. V., E. Teixeira Prates, T. A. Gonçalves, A. Bernardes, N. Vilela, J. Fattori, G. C. Ematsu, M. Chinaglia, E. R. Machi Gomes, A. C. Migliorini Figueira, A. Damasio, I. Polikarpov, M. S. Skaf and F. M. Squina | Insights into the dual cleavage activity of the GH16 laminarinase enzyme class on β-1,3 and β-1,4 glycosidic bonds | Journal of Biological Chemistry | 296 100385 |
| 2021 | 10.1093/bioinformatics/btab347 | Liber, J. A., G. Bonito and G. M. N. Benucci | CONSTAX2: improved taxonomic classification of environmental DNA markers | Bioinformatics | 37(21) 3941–3 |
| 2021 | 10.3389/fmicb.2021.680267 | Liao, H.-L., G. Bonito, K. Hameed, S. H. Wu, K.-H. Chen, J. Labbé, C. W. Schadt, G. A. Tuskan, F. Martin, A. Kuo, K. Barry, I. V. Grigoriev and R. Vilgalys | Heterospecific Neighbor Plants Impact Root Microbiome Diversity and Molecular Function of Root Fungi | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.scitotenv.2021.147589 | Liang, X., Y. Wang, Y. Zhang, B. Li and M. Radosevich | Bacteriophage-host depth distribution patterns in soil are maintained after nutrient stimulation in vitro | Science of The Total Environment | 787 147589 |
| 2021 | 10.1186/s40168-021-01057-2 | Liang, R., Z. Li, M. C. Y. Lau Vetter, T. A. Vishnivetskaya, O. G. Zanina, K. G. Lloyd, S. M. Pfiffner, E. M. Rivkina, W. Wang, J. Wiggins, J. Miller, R. L. Hettich and T. C. Onstott | Genomic reconstruction of fossil and living microorganisms in ancient Siberian permafrost | Microbiome | 9(1) |
| 2021 | 10.1021/acssynbio.0c00253 | Liang, L., R. Liu, E. F. Freed, C. A. Eckert and R. T. Gill | Transcriptional regulatory networks involved in C3-C4 alcohol stress response and tolerance in yeast | ACS Synthetic Biology | 10(1) 19-28 |
| 2021 | 10.1029/2021JG006392 | Liang, J., G. Wang, S. Singh, S. Jagadamma, L. Gu, C. W. Schadt, J. D. Wood, P. J. Hanson and M. A. Mayes | Intensified Soil Moisture Extremes Decrease Soil Organic Carbon Decomposition: A Mechanistic Modeling Analysis | Journal of Geophysical Research: Biogeosciences | 126(8) |
| 2021 | 10.1111/gcb.15833 | Liang, D. and G. P. Robertson | Nitrification is a minor source of nitrous oxide (N2O) in an agricultural landscape and declines with increasing management intensity | Global Change Biology | 27(21) 5599–613 |
| 2021 | 10.1111/tpj.15042 | Li, Z., P. Zhou, R. Della Coletta, T. Zhang, A. B. Brohammer, et al. | Single-parent expression drives dynamic gene expression complementation in maize hybrids | Plant Journal | 105(1) 93-107 |
| 2021 | 10.1016/j.cub.2021.01.074 | Li, Y., J. L. Steenwyk, Y. Chang, Y. Wang, T. Y. James, J. E. Stajich, J. W. Spatafora, M. Groenewald, C. W. Dunn, C. T. Hittinger, X. X. Shen and A. Rokas | A genome-scale phylogeny of the kingdom Fungi | Current Biology | 31(8) 1653–65.e5 |
| 2021 | 10.1021/acssuschemeng.0c08055 | Li, Y., S. S. Bhagwat, Y. R. Cortés-Peña, D. Ki, C. V. Rao, Y.-S. Jin and J. S. Guest | Sustainable Lactic Acid Production from Lignocellulosic Biomass | ACS Sustainable Chemistry & Engineering | 9(3) 1341–51 |
| 2021 | 10.1016/j.watres.2021.117505 | Li, W., J. Gao, J.-l. Zhuang, G.-j. Yao, X. Zhang, Y.-d. Liu, Q.-k. Liu, J. P. Shapleigh and L. Ma | Metagenomics and metatranscriptomics uncover the microbial community associated with high S0 production in a denitrifying desulfurization granular sludge reactor | Water Research | 203 117505 |
| 2021 | 10.1111/pce.13962 | Li, S., C. A. Moller, N. G. Mitchell, D. Lee and E. A. Ainsworth | Bioenergy sorghum maintains photosynthetic capacity in elevated ozone concentrations | Plant, Cell & Environment | 44(3) 729–46 |
| 2021 | 10.1016/j.nbt.2020.10.005 | Li, M., Y. Pu, F. Chen and A. J. Ragauskas | Synthesis and Characterization of Lignin-grafted-poly(ε-caprolactone) from Different Biomass Sources | New Biotechnology | 60 189–99 |
| 2021 | 10.1186/s13068-020-01852-3 | Li, M., X. Lang, M. Moran Cabrera, S. De Keyser, X. Sun, N. Da Silva and I. Wheeldon | CRISPR-mediated multigene integration enables Shikimate pathway refactoring for enhanced 2-phenylethanol biosynthesis in Kluyveromyces marxianus | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1002/adma.202007758 | Li, J., S. P. Wang, G. Zong, E. Kim, C.-Y. Tsao, E. VanArsdale, L.-X. Wang, W. E. Bentley and G. F. Payne | Interactive Materials for Bidirectional Redox-Based Communication | Advanced Materials | 33(18) 2007758 |
| 2021 | 10.1021/accountsmr.1c00075 | Li, J., C. Chen, J. Y. Zhu, A. J. Ragauskas and L. Hu | In Situ Wood Delignification toward Sustainable Applications | Accounts of Materials Research | 2(8) 606–20 |
| 2021 | 10.1146/annurev-ento-040920-061140 | Li, H., S. E. Young, M. Poulsen and C. R. Currie | Symbiont-Mediated Digestion of Plant Biomass in Fungus-Farming Insects | Annual Review of Entomology | 66 297–316 |
| 2021 | 10.1002/tpg2.20110 | Li, H., X. Hu, J. T. Lovell, P. P. Grabowski, S. Mamidi, C. Chen, M. Amirebrahimi, I. Kahanda, B. Mumey, K. Barry, D. Kudrna, J. Schmutz, J. Lachowiec and C. Lu | Genetic dissection of natural variation in oilseed traits of camelina by whole-genome resequencing and QTL mapping | The Plant Genome | 14(2) e20110 |
| 2021 | 10.1111/pbi.13581 | Li, G., S. Sretenovic, E. Eisenstein, G. Coleman and Y. Qi | Highly efficient C-to-T and A-to-G base editing in a Populus hybrid | Plant Biotechnology Journal | 19(6) 1086-1088 |
| 2021 | 10.1016/j.algal.2021.102492 | Li, C. T., K. Trigani, C. Zuñiga, R. Eng, E. Chen, K. Zengler and M. J. Betenbaugh | Examining the impact of carbon dioxide levels and modulation of resulting hydrogen peroxide in Chlorella vulgaris | Algal Research | 60 |
| 2021 | 10.1016/j.soilbio.2021.108349 | Li, B.-B., S. S. Roley, D. S. Duncan, J. Guo, J. F. Quensen, H.-Q. Yu and J. M. Tiedje | Long-term excess nitrogen fertilizer increases sensitivity of soil microbial community to seasonal change revealed by ecological network and metagenome analyses | Soil Biology and Biochemistry | 160 108349 |
| 2021 | 10.1094/phyto-02-21-0053-r | Lenz, R. R., K. B. Louie, K. L. Søndreli, S. S. Galanie, J.-G. Chen, W. Muchero, B. P. Bowen, T. R. Northen and J. M. LeBoldus | Metabolomic Patterns of Septoria Canker Resistant and Susceptible Populus trichocarpa Genotypes 24 Hours Postinoculation | Phytopathology | 111(11) 2052–2066 |
| 2021 | 10.1002/prot.26222 | Lensink, M. F., G. Brysbaert, T. Mauri, N. Nadzirin, S. Velankar, et al. | Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment | Proteins: Structure, Function and Bioinformatics | 89(12) 1800-1823 |
| 2021 | 10.3389/fmicb.2021.725756 | Leichty, S. I., C. P. Kasanke, S. L. Bell and K. S. Hofmockel | Site and Bioenergy Cropping System Similarly Affect Distinct Live and Total Soil Microbial Communities | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.rser.2020.110613 | Leibensperger, C., P. Yang, Q. K. Zhao, S. R. Wei and X. M. Cai | The synergy between stakeholders for cellulosic biofuel development: Perspectives, opportunities, and barriers | Renewable and Sustainable Energy Reviews | 137 |
| 2021 | 10.1146/annurev-arplant-080720-105454 | Lei, L., E. Goltsman, D. Goodstein, G. A. Wu, D. S. Rokhsar and J. P. Vogel | Plant Pan-Genomics Comes of Age | Annual Review of Plant Biology | 72(72) 411-435 |
| 2021 | 10.1093/jpe/rtab018 | Lei, C., M. Abraha, J. Chen and Y.-J. Su | Long-term variability of root production in bioenergy crops from ingrowth core measurements | Journal of Plant Ecology | 14(5) 757–70 |
| 2021 | 10.1038/s41561-021-00852-8 | Lehmann, J., A. Cowie, C. A. Masiello, C. Kammann, D. Woolf, J. E. Amonette, M. L. Cayuela, M. Camps-Arbestain and T. Whitman | Biochar in climate change mitigation | Nature Geoscience | 14(12) 883-892 |
| 2021 | 10.1146/annurev-bioeng-082120-022836 | Leggieri, P. A., Y. Liu, M. Hayes, B. Connors, S. Seppälä, M. A. O'Malley and O. S. Venturelli | Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes | Annual Review of Biomedical Engineering | 23(1) 169–201 |
| 2021 | 10.1186/s12934-021-01684-2 | Leggieri, P. A., C. Kerdman-Andrade, T. S. Lankiewicz, M. T. Valentine and M. A. O’Malley | Non-destructive quantification of anaerobic gut fungi and methanogens in co-culture reveals increased fungal growth rate and changes in metabolic flux relative to mono-culture | Microbial Cell Factories | 20(1) 199 |
| 2021 | 10.1093/nar/gkab781 | Lee, Y.-J., N. Dai, S. I. Müller, C. Guan, M. J. Parker, et al. | Pathways of thymidine hypermodification | Nucleic Acids Research | 50(6) 3001–17 |
| 2021 | 10.1007/s12275-021-1323-1 | Lee, S.-Y., H. Sung, P. S. Kim, H. S. Kim, J.-Y. Lee, J.-Y. Lee, Y.-S. Jeong, E. J. Tak, J. E. Han, D.-W. Hyun and J.-W. Bae | Description of Ornithinimicrobium ciconiae sp. nov., and Ornithinimicrobium avium sp. nov., isolated from the faeces of the endangered and near-threatened birds | Journal of Microbiology | 59(11) 978–87 |
| 2021 | 10.1016/j.ymben.2021.09.008 | Lee, S.-B., M. Tremaine, M. Place, L. Liu, A. Pier, D. J. Krause, D. Xie, Y. Zhang, R. Landick, A. P. Gasch, C. T. Hittinger and T. K. Sato | Crabtree/Warburg-like aerobic xylose fermentation by engineered Saccharomyces cerevisiae | Metabolic Engineering | 68 119–30 |
| 2021 | 10.1073/pnas.2105124118 | Lee, S., E. T. Sieradzki, A. M. Nicolas, R. L. Walker, M. K. Firestone, C. Hazard and G. W. Nicol | Methane-derived carbon flows into host–virus networks at different trophic levels in soil | Proceedings of the National Academy of Sciences | 118(32) e2105124118 |
| 2021 | 10.1073/pnas.2105124118 | Lee, S., E. T. Sieradzki, A. M. Nicolas, R. L. Walker, M. K. Firestone, C. Hazard and G. W. Nicol | Methane-derived carbon flows into host-virus networks at different trophic levels in soil | Proceedings of the National Academy of Sciences of the United States of America | 118(32) |
| 2021 | 10.1002/ppp3.10181 | Lee, M. R. and C. V. Hawkes | Widespread co-occurrence of Sebacinales and arbuscular mycorrhizal fungi in switchgrass roots and soils has limited dependence on soil carbon or nutrients | Plants, People, Planet | 3(5) 614–26 |
| 2021 | 10.1094/pbiomes-07-20-0056-fi | Lee, M. R. and C. V. Hawkes | Plant and Soil Drivers of Whole-Plant Microbiomes: Variation in Switchgrass Fungi from Coastal to Mountain Sites | Phytobiomes Journal | 5(1) 69–79 |
| 2021 | 10.1038/s41596-020-00427-8 | Lee, K. S., F. C. Pereira, M. Palatinszky, L. Behrendt, U. Alcolombri, D. Berry, M. Wagner and R. Stocker | Optofluidic Raman-activated cell sorting for targeted genome retrieval or cultivation of microbial cells with specific functions | Nature Protocols | 16(2) 634-676 |
| 2021 | 10.1038/s43586-021-00075-6 | Lee, K. S., Z. Landry, F. C. Pereira, M. Wagner, D. Berry, W. E. Huang, G. T. Taylor, J. Kneipp, J. Popp, M. Zhang, J.-X. Cheng and R. Stocker | Raman microspectroscopy for microbiology | Nature Reviews Methods Primers | 1(1) 80 |
| 2021 | 10.1016/j.copbio.2020.10.012 | Lee, J. W., S. Yook, H. Koh, C. V. Rao and Y. S. Jin | Engineering xylose metabolism in yeasts to produce biofuels and chemicals | Current Opinion in Biotechnology | 67 15–25 |
| 2021 | 10.1007/s00253-021-11436-2 | Lee, J. W., Y.-G. Lee, Y.-S. Jin and C. V. Rao | Metabolic engineering of non-pathogenic microorganisms for 2,3-butanediol production | Applied Microbiology and Biotechnology | 105(14) 5751–67 |
| 2021 | 10.3390/microorganisms9020321 | Lee, J. A., A. C. Baugh, N. J. Shevalier, B. Strand, S. Stolyar and C. J. Marx | Cross-Feeding of a Toxic Metabolite in a Synthetic Lignocellulose-Degrading Microbial Community | Microorganisms | 9(2) |
| 2021 | 10.1002/bit.27926 | Lee, J.-W., H. Seo, C. Young and C. T. Trinh | Probing specificities of alcohol acyltransferases for designer ester biosynthesis with a high-throughput microbial screening platform | Biotechnology and Bioengineering | 118(12) 4655–4667 |
| 2021 | 10.1117/12.2577311 | Lee, J., S. S. Ly, T. A. Laurence, P. K. Weber | Label-free multiphoton nonlinear microspectroscopy imaging of microbial cells and organic matter in rhizosphere and soil minerals | SPIE Photonics West | 11655-21 |
| 2021 | 10.1038/s41396-020-00805-w | Lawson, C. E., G. H. L. Nuijten, R. M. de Graaf, T. B. Jacobson, M. Pabst, D. M. Stevenson, M. S. M. Jetten, D. R. Noguera, K. D. McMahon, D. Amador-Noguez and S. Lücker | Autotrophic and mixotrophic metabolism of an anammox bacterium revealed by in vivo 13C and 2H metabolic network mapping | ISME Journal | 15(3) 673-687 |
| 2021 | 10.1128/mSystems.00173-21 | Lawson, C. E., A. B. Mundinger, H. Koch, T. B. Jacobson, C. A. Weathersby, M. S. M. Jetten, M. Pabst, D. Amador-Noguez, D. R. Noguera, K. McMahon, S. Lücker, S. J. Hallam and B. L. Mellbye | Investigating the Chemolithoautotrophic and Formate Metabolism of Nitrospira moscoviensis by Constraint-Based Metabolic Modeling and 13C-Tracer Analysis | mSystems | 6(4) e00173-21 |
| 2021 | 10.1016/j.ymben.2020.10.005 | Lawson, C. E., J. M. Martí, T. Radivojevic, S. V. R. Jonnalagadda, R. Gentz, et al. | Machine learning for metabolic engineering: A review | Metabolic Engineering | 63 34–60 |
| 2021 | 10.3390/rs13050968 | Lark, T. J., I. H. Schelly and H. K. Gibbs | Accuracy, Bias, and Improvements in Mapping Crops and Cropland across the United States Using the USDA Cropland Data Layer | Remote Sensing | 13(5) 968 |
| 2021 | 10.1021/acs.jproteome.0c00952 | Lantz, C., M. A. Zenaidee, B. Wei, Z. Hemminger, R. R. Ogorzalek Loo and J. A. Loo | ClipsMS: An Algorithm for Analyzing Internal Fragments Resulting from Top-Down Mass Spectrometry | Journal of Proteome Research | 20(4) 1928-1935 |
| 2021 | 10.1038/s41396-021-01057-y | Langwig, M. V., V. De Anda, N. Dombrowski, K. W. Seitz, I. M. Rambo, C. Greening, A. P. Teske and B. J. Baker | Large-scale protein level comparison of Deltaproteobacteria reveals cohesive metabolic groups | The ISME Journal | 16(1) 307-320 |
| 2021 | 10.1038/s41545-021-00134-1 | Landreau, M., H. J. You, D. A. Stahl and M. K. H. Winkler | Immobilization of active ammonia-oxidizing archaea in hydrogel beads | npj Clean Water | 4(1) |
| 2021 | 10.1111/omi.12323 | Lamont, E. I., A. Gadkari, K. A. Kerns, T. T. To, D. Daubert, G. Kotsakis, B. Bor, X. He and J. S. McLean | Modified SHI medium supports growth of a disease-state subgingival polymicrobial community in vitro | Molecular Oral Microbiology | 36(1) 37–49 |
| 2021 | 10.1111/mec.16125 | Lamit, L. J., K. J. Romanowicz, L. R. Potvin, J. T. Lennon, S. G. Tringe, R. A. Chimner, R. K. Kolka, E. S. Kane and E. A. Lilleskov | Peatland microbial community responses to plant functional group and drought are depth-dependent | Molecular Ecology | 30(20) 5119-5136 |
| 2021 | 10.1021/acssynbio.1c00229 | Lalwani, M. A., E. M. Zhao, S. A. Wegner and J. L. Avalos | The Neurospora crassa Inducible Q System Enables Simultaneous Optogenetic Amplification and Inversion in Saccharomyces cerevisiae for Bidirectional Control of Gene Expression | ACS Synthetic Biology | 10(8) 2060-2075 |
| 2021 | 10.1021/acssynbio.1c00182 | Lalwani, M. A., H. Kawabe, R. L. Mays, S. M. Hoffman and J. L. Avalos | Optogenetic control of microbial consortia populations for chemical production | ACS Synthetic Biology | 10(8) 2015-2029 |
| 2021 | 10.1038/s41589-020-0639-1 | Lalwani, M. A., S. S. Ip, C. Carrasco-López, C. Day, E. M. Zhao, H. Kawabe and J. L. Avalos | Optogenetic control of the lac operon for bacterial chemical and protein production | Nature Chemical Biology | 17(1) 71-79 |
| 2021 | 10.3389/fevo.2021.715381 | Lalejini, A., A. J. Ferguson, N. A. Grant and C. Ofria | Adaptive Phenotypic Plasticity Stabilizes Evolution in Fluctuating Environments | Frontiers in Ecology and Evolution | 9 |
| 2021 | 10.1128/AEM.00808-21 | Lal, P. B., F. Wells, K. S. Myers, R. Banerjee, A. M. Guss and P. J. Kiley | Improving Mobilization of Foreign DNA into Zymomonas mobilis Strain ZM4 by Removal of Multiple Restriction Systems | Applied and Environmental Microbiology | 87(19) e00808-21 |
| 2021 | 10.1109/BIBM52615.2021.9669503 | Labhishetty, S., I. Lourentzou, M. J. Volk, S. Mishra, H. Zhao and C. Zhai | TriGORank: A Gene Ontology Enriched Learning-to-Rank Framework for Trigenic Fitness Prediction | 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) | 1841–8 |
| 2021 | 10.1371/journal.pbio.3001185 | LaBella, A. L., D. A. Opulente, J. L. Steenwyk, C. T. Hittinger and A. Rokas | Signatures of optimal codon usage in metabolic genes inform budding yeast ecology | PLoS Biology | 19(4) e3001185 |
| 2021 | 10.1002/bbb.2212 | Kurambhatti, C., D. Kumar and V. Singh | Technical and economic feasibility of an integrated ethanol and anthocyanin coproduction process using purple corn stover | Biofuels, Bioproducts and Biorefining | 15(3) 719–35 |
| 2021 | 10.1016/j.cpb.2021.100229 | Kumari, S., V. Kumar, K. Beilsmith, S. M. D. Seaver, S. Canon, et al. | A KBase case study on genome-wide transcriptomics and plant primary metabolism in response to drought stress in Sorghum | Current Plant Biology | 28 100229 |
| 2021 | 10.1002/cptc.202000195 | Kumar Singh, A., S. J. Burkhow, C. Wijesooriya, B. W. Boote, J. W. Petrich and E. A. Smith | Inorganic Semiconductor Quantum Dots as a Saturated Excitation (SAX) Probe for Sub‐Diffraction Imaging | ChemPhotoChem | 5(3) 253-259 |
| 2021 | 10.1016/j.ymben.2021.06.009 | Kumar, P., P. A. Adamczyk, X. Zhang, R. B. Andrade, P. A. Romero, P. Ramanathan and J. L. Reed | Active and machine learning-based approaches to rapidly enhance microbial chemical production | Metabolic Engineering | 67 216-226 |
| 2021 | 10.1002/vzj2.20124 | Kuhl, A. S., A. D. Kendall, R. L. van Dam, S. K. Hamilton and D. W. Hyndman | Root water uptake of biofuel crops revealed by coupled electrical resistivity and soil water content measurements | Vadose Zone Journal | 20(4) e20124 |
| 2021 | 10.1016/j.jbc.2021.100758 | Kuatsjah, E., A. C. K. Chan, R. Katahira, S. J. Haugen, G. T. Beckham, M. E. P. Murphy and L. D. Eltis | Structural and functional analysis of lignostilbene dioxygenases from Sphingobium sp. SYK-6 | Journal of Biological Chemistry | 296 100758 |
| 2021 | 10.1002/bit.27576 | Kuanyshev, N., C. V. Rao, B. Dien and Y. S. Jin | Domesticating a food spoilage yeast into an organic acid-tolerant metabolic engineering host: Lactic acid production by engineered Zygosaccharomyces bailii | Biotechnology and Bioengineering | 118(1) 372–82 |
| 2021 | 10.1002/biot.202100238 | Kuanyshev, N., A. Deewan, S. S. Jagtap, J. Liu, B. Selvam, L.-Q. Chen, D. Shukla, C. V. Rao and Y.-S. Jin | Identification and analysis of sugar transporters capable of co-transporting glucose and xylose simultaneously | Biotechnology Journal | 16(11) 2100238 |
| 2021 | 10.1002/prot.26231 | Kryshtafovych, A., J. Moult, W. M. Billings, D. Della Corte, K. Fidelis, et al. | Modeling SARS-CoV-2 proteins in the CASP-commons experiment | Proteins: Structure, Function and Bioinformatics | 89(12) 1987-1996 |
| 2021 | 10.1111/1462-2920.15705 | Kroeger, M. E., M. Rae DeVan, J. Thompson, R. Johansen, L. V. Gallegos-Graves, D. Lopez, A. Runde, T. Yoshida, B. Munsky, S. Sevanto, M. B. N. Albright and J. Dunbar | Microbial community composition controls carbon flux across litter types in early phase of litter decomposition | Environmental Microbiology | 23(11) 6676–93 |
| 2021 | 10.3390/s21238044 | Krishnan, T., H.-N. Wang and T. Vo-Dinh | Smartphone-Based Device for Colorimetric Detection of MicroRNA Biomarkers Using Nanoparticle-Based Assay | Sensors | 21(23) 8044 |
| 2021 | 10.1016/j.soilbio.2021.108297 | Kravchenko, A. N., H. Zheng, Y. Kuzyakov, G. P. Robertson and A. K. Guber | Belowground interplant carbon transfer promotes soil carbon gains in diverse plant communities | Soil Biology and Biochemistry | 159 108297 |
| 2021 | 10.1128/mSystems.00537-21 | Kothari, A., S. Roux, H. Zhang, A. Prieto, D. Soneja, et al. | Ecogenomics of Groundwater Phages Suggests Niche Differentiation Linked to Specific Environmental Tolerance | mSystems | 6(3) e00537-21 |
| 2021 | 10.1038/s41467-021-24294-3 | Köstlbacher, S., A. Collingro, T. Halter, F. Schulz, S. P. Jungbluth and M. Horn | Pangenomics reveals alternative environmental lifestyles among chlamydiae | Nature Communications | 12(1) 4021 |
| 2021 | 10.3389/fmicb.2021.757856 | Kosina, S. M., P. Rademacher, K. M. Wetmore, M. de Raad, M. Zemla, G. M. Zane, J. J. Zulovich, R. Chakraborty, B. P. Bowen, J. D. Wall, M. Auer, A. P. Arkin, A. M. Deutschbauer and T. R. Northen | Biofilm Interaction Mapping and Analysis (BIMA) of Interspecific Interactions in Pseudomonas Co-culture Biofilms | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.cub.2021.06.033 | Koch, R. A., G. M. Yoon, U. K. Aryal, K. Lail, M. Amirebrahimi, K. LaButti, A. Lipzen, R. Riley, K. Barry, B. Henrissat, I. V. Grigoriev, J. R. Herr and M. C. Aime | Symbiotic nitrogen fixation in the reproductive structures of a basidiomycete fungus | Current Biology | 31(17) 3905-3914.e6 |
| 2021 | 10.1111/tpj.15044 | Ko, D. K. and F. Brandizzi | A temporal hierarchy underpins the transcription factor–DNA interactome of the maize UPR | The Plant Journal | 105(1) 254–70 |
| 2021 | 10.1186/s40168-020-00975-x | Klassen, L., G. Reintjes, J. P. Tingley, D. R. Jones, J.-H. Hehemann, et al. | Quantifying fluorescent glycan uptake to elucidate strain-level variability in foraging behaviors of rumen bacteria | Microbiome | 9(1) 23 |
| 2021 | 10.1111/nph.17373 | Kivlin, S. N., C. V. Hawkes, M. Papeş, K. K. Treseder and C. Averill | The future of microbial ecological niche theory and modeling | New Phytologist | 231(2) 508–11 |
| 2021 | 10.1186/s13068-021-01950-w | Kirby, J., G. M. Geiselman, J. Yaegashi, J. Kim, X. Zhuang, et al. | Further engineering of R. toruloides for the production of terpenes from lignocellulosic biomass | Biotechnology for Biofuels | 14(1) 101 |
| 2021 | 10.1201/9781003243090 | Kim, Y. J., J. Y. Jung and U. Mishra | Managing Soil Organic Carbon for Climate Change Mitigation and Food Security | Soil Organic Carbon and Feeding the Future | 25–46 |
| 2021 | 10.1021/acschembio.1c00157 | Kim, W. E., K. Charov, M. Džunková, E. D. Becraft, J. Brown, F. Schulz, T. Woyke, J. J. La Clair, R. Stepanauskas and M. D. Burkart | Synthase-Selective Exploration of a Tunicate Microbiome by Activity-Guided Single-Cell Genomics | ACS Chemical Biology | 16(5) 813-819 |
| 2021 | 10.1128/AEM.00524-21 | Kim, S.-K., J. Russell, M. Cha, M. E. Himmel, Y. J. Bomble and J. Westpheling | Coexpression of a β-d-Xylosidase from Thermotoga maritima and a Family 10 Xylanase from Acidothermus cellulolyticus Significantly Improves the Xylan Degradation Activity of the Caldicellulosiruptor bescii Exoproteome | Applied and Environmental Microbiology | 87(14) e0052421 |
| 2021 | 10.1093/pcp/pcab106 | Kim, S.-J. and F. Brandizzi | Advances in Cell Wall Matrix Research with a Focus on Mixed-Linkage Glucan | Plant and Cell Physiology | 62(12) 1839–46 |
| 2021 | 10.1038/s41589-021-00834-2 | Kim, L. J., M. Ohashi, Z. Zhang, D. Tan, M. Asay, D. Cascio, J. A. Rodriguez, Y. Tang and H. M. Nelson | Prospecting for natural products by genome mining and microcrystal electron diffraction | Nature Chemical Biology | 17(8) 872-877 |
| 2021 | 10.1007/s11104-021-04871-7 | Kim, K., T. Kutlu, A. Kravchenko and A. Guber | Dynamics of N2O in vicinity of plant residues: a microsensor approach | Plant and Soil | 462(1) 331–47 |
| 2021 | Kim, K. | Change of Soil Micro-Environments During Plant Decomposition and Its Effect on Carbon and Nitrogen Dynamics | Dissertation | (28866173) 164 | |
| 2021 | 10.3389/fbioe.2020.612832 | Kim, J., S. T. Coradetti, Y.-M. Kim, Y. Gao, J. Yaegashi, J. D. Zucker, N. Munoz, E. M. Zink, K. E. Burnum-Johnson, S. E. Baker, B. A. Simmons, J. M. Skerker, J. M. Gladden and J. K. Magnuson | Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in Rhodosporidium toruloides | Frontiers in Bioengineering and Biotechnology | 8 |
| 2021 | 10.1016/j.ymben.2021.02.002 | Kim, J., E. E. K. Baidoo, B. Amer, A. Mukhopadhyay, P. D. Adams, B. A. Simmons and T. S. Lee | Engineering Saccharomyces cerevisiae for isoprenol production | Metabolic Engineering | 64 154–66 |
| 2021 | 10.1038/s41467-021-23698-5 | Kieft, K., Z. Zhou, R. E. Anderson, A. Buchan, B. J. Campbell, S. J. Hallam, M. Hess, M. B. Sullivan, D. A. Walsh, S. Roux and K. Anantharaman | Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages | Nature Communications | 12(1) 3503 |
| 2021 | 10.1016/j.celrep.2021.109471 | Kieft, K., A. M. Breister, P. Huss, A. M. Linz, E. Zanetakos, Z. Zhou, J. Rahlff, S. P. Esser, A. J. Probst, S. Raman, S. Roux and K. Anantharaman | Virus-associated organosulfur metabolism in human and environmental systems | Cell Reports | 36(5) 109471 |
| 2021 | 10.1038/s42003-021-02057-6 | Kiefer, J. S. T., S. Batsukh, E. Bauer, B. Hirota, B. Weiss, J. C. Wierz, T. Fukatsu, M. Kaltenpoth and T. Engl | Inhibition of a nutritional endosymbiont by glyphosate abolishes mutualistic benefit on cuticle synthesis in Oryzaephilus surinamensis | Communications Biology | 4(1) 554 |
| 2021 | 10.1002/wsbm.1500 | Kichuk, T. C., C. Carrasco-López and J. L. Avalos | Lights up on organelles: Optogenetic tools to control subcellular structure and organization | WIREs Mechanisms of Disease | 13(1) |
| 2021 | 10.1038/s42003-021-02464-9 | Khlystov, N. A., Y. Yoshikuni, S. Deutsch and E. S. Sattely | A plant host, Nicotiana benthamiana, enables the production and study of fungal lignin-degrading enzymes | Communications Biology | 4(1) 1027 |
| 2021 | 10.1038/s42003-021-02464-9 | Khlystov, N. A., Y. Yoshikuni, S. Deutsch and E. S. Sattely | A plant host, Nicotiana benthamiana, enables the production and study of fungal lignin-degrading enzymes | Communications Biology | 4(1) |
| 2021 | 10.1086/713026 | Khanna, M., D. Rajagopal and D. Zilberman | Lessons Learned from US Experience with Biofuels: Comparing the Hype with the Evidence | Review of Environmental Economics and Policy | 15(1) 67–86 |
| 2021 | 10.1111/ajae.12189 | Khanna, M., X. Chen, W. Wang and A. Oliver | Repeal of the Clean Power Plan: Social Cost and Distributional Implications | American Journal of Agricultural Economics | 104(1) 33–51 |
| 2021 | 10.1111/gcbb.12877 | Khanna, M., L. Chen, B. Basso, X. Cai, J. L. Field, K. Guan, C. Jiang, T. J. Lark, T. L. Richard, S. A. Spawn-Lee, P. Yang and K. Y. Zipp | Redefining marginal land for bioenergy crop production | GCB Bioenergy | 13(10) 1590–609 |
| 2021 | 10.1093/plphys/kiab197 | Khakhar, A., C. Wang, R. Swanson, S. Stokke, F. Rizvi, S. Sarup, J. Hobbs and D. F. Voytas | VipariNama: RNA viral vectors to rapidly elucidate the relationship between gene expression and phenotype | Plant Physiology | 186(4) 2222-2238 |
| 2021 | 10.1128/mSystems.01307-20 | Khadempour, L., J. E. Kyle, B.-J. M. Webb-Robertson, C. D. Nicora, F. B. Smith, R. D. Smith, M. S. Lipton, C. R. Currie, E. S. Baker and K. E. Burnum-Johnson | From Plants to Ants: Fungal Modification of Leaf Lipids for Nutrition and Communication in the Leaf-Cutter Ant Fungal Garden Ecosystem | mSystems | 6(2) e01307-20 |
| 2021 | 10.1002/rcm.9010 | Kertesz, V., J. F. Cahill, B. R. Srijanto, C. P. Collier, M. Vavrek and B. Chen | Absolute quantitation of propranolol from 200-μm regions of mouse brain and liver thin tissues using laser ablation-dropletProbe-mass spectrometry | Rapid Commun Mass Spectrom | 35(5) e9010 |
| 2021 | 10.1007/s00216-020-02964-3 | Kertesz, V. and J. F. Cahill | Spatially resolved absolute quantitation in thin tissue by mass spectrometry | Analytical and Bioanalytical Chemistry | 413(10) 2619-2636 |
| 2021 | 10.1016/j.mib.2021.05.010 | Kennedy, N. W., C. E. Mills, T. M. Nichols, C. H. Abrahamson and D. Tullman-Ercek | Bacterial microcompartments: tiny organelles with big potential | Current Opinion in Microbiology | 63 36-42 |
| 2021 | 10.1016/j.jmb.2020.11.020 | Kennedy, N. W., S. P. Ikonomova, M. Slininger Lee, H. W. Raeder and D. Tullman-Ercek | Self-assembling Shell Proteins PduA and PduJ have Essential and Redundant Roles in Bacterial Microcompartment Assembly | Journal of Molecular Biology | 433(2) 166721 |
| 2021 | 10.1111/gcbb.12826 | Kemmerling, L. R., S. R. Griffin and N. M. Haddad | Optimizing pollinator conservation and crop yield among perennial bioenergy crops | GCB Bioenergy | 13(7) 1030–42 |
| 2021 | 10.1016/j.soilbio.2021.108226 | Kelly, C. N., G. W. Schwaner, J. R. Cumming and T. P. Driscoll | Metagenomic reconstruction of nitrogen and carbon cycling pathways in forest soil: Influence of different hardwood tree species | Soil Biology and Biochemistry | 156 108226 |
| 2021 | 10.1186/s40168-021-01031-y | Keller-Costa, T., A. Lago-Lestón, J. P. Saraiva, R. Toscan, S. G. Silva, J. Gonçalves, C. J. Cox, N. Kyrpides, U. Nunes da Rocha and R. Costa | Metagenomic insights into the taxonomy, function, and dysbiosis of prokaryotic communities in octocorals | Microbiome | 9(1) 72 |
| 2021 | 10.1038/s41579-021-00577-w | Keasling, J., H. Garcia Martin, T. S. Lee, A. Mukhopadhyay, S. W. Singer and E. Sundstrom | Microbial production of advanced biofuels | Nature Reviews Microbiology | 19(11) 701–15 |
| 2021 | 10.1016/j.tibtech.2020.07.008 | Ke, J., B. Wang and Y. Yoshikuni | Microbiome Engineering: Synthetic Biology of Plant-Associated Microbiomes in Sustainable Agriculture | Trends in Biotechnology | 39(3) 244–261 |
| 2021 | 10.3389/fpls.2021.669064 | Kates, H. R., J. R. Doby, C. M. Siniscalchi, R. LaFrance, D. E. Soltis, P. S. Soltis, R. P. Guralnick and R. A. Folk | The Effects of Herbarium Specimen Characteristics on Short-Read NGS Sequencing Success in Nearly 8000 Specimens: Old, Degraded Samples Have Lower DNA Yields but Consistent Sequencing Success | Frontiers in Plant Science | 12 |
| 2021 | Katari, M. S., S. Tyagi and D. Shasha | Statistics is easy case studies on real scientific datasets | Synthesis Lectures on Mathematics and Statistics | 13 26665 | |
| 2021 | 10.1016/j.jenvman.2021.113562 | Kasak, K., M. Espenberg, T. L. Anthony, S. G. Tringe, A. C. Valach, K. S. Hemes, W. L. Silver, Ü. Mander, K. Kill, G. McNicol, D. Szutu, J. Verfaillie and D. D. Baldocchi | Restoring wetlands on intensive agricultural lands modifies nitrogen cycling microbial communities and reduces N2O production potential | Journal of Environmental Management | 299 113562 |
| 2021 | 10.1128/AEM.00546-21 | Karthikeyan, S., L. H. Orellana, E. R. Johnston, J. K. Hatt, F. E. Löffler, H. L. Ayala-del-Río, G. González and K. T. Konstantinidis | Metagenomic Characterization of Soil Microbial Communities in the Luquillo Experimental Forest (Puerto Rico) and Implications for Nitrogen Cycling | Applied and Environmental Microbiology | 87(12) |
| 2021 | 10.1073/pnas.2010003118 | Kamei, M., A. J. Ameri, A. R. Ferraro, Y. Bar-Peled, F. Zhao, C. L. Ethridge, K. Lail, M. Amirebrahimi, A. Lipzen, V. Ng, I. V. Grigoriev, R. J. Schmitz, Y. Liu and Z. A. Lewis | IMITATION SWITCH is required for normal chromatin structure and gene repression in PRC2 target domains | Proceedings of the National Academy of Sciences | 118(4) e2010003118 |
| 2021 | 10.1038/s41598-021-01533-7 | Juyal, A., A. Guber, M. Oerther, M. Quigley and A. Kravchenko | Pore architecture and particulate organic matter in soils under monoculture switchgrass and restored prairie in contrasting topography | Scientific Reports | 11(1) 21998 |
| 2021 | 10.1038/s41396-021-01143-1 | Jurgensen, S. K., S. Roux, S. M. Schwenck, F. J. Stewart, M. B. Sullivan and J. R. Brum | Viral community analysis in a marine oxygen minimum zone indicates increased potential for viral manipulation of microbial physiological state | The ISME Journal | 16(4) 972-982 |
| 2021 | 10.1093/femsec/fiab003 | Junier, P., G. Cailleau, I. Palmieri, C. Vallotton, O. C. Trautschold, et al. | Democratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi | FEMS Microbiology Ecology | 97(2) fiab003 |
| 2021 | 10.1007/s11242-021-01654-7 | Jung, H. and C. Meile | Pore-scale numerical investigation of evolving porosity and permeability driven by biofilm growth | Transport in Porous Media | 139(2) 203-221 |
| 2021 | 10.1128/MRA.00412-21 | Joshi, S., P. T. Podar, F. E. Dewhirst and M. Podar | Complete Genome Sequence of Human Oral Actinomyces sp. HMT175 Strain ORNL0102, a Host of the Saccharibacterium (TM7) HMT957 | Microbiology Resource Announcements | 10(23) e00412-21 |
| 2021 | 10.1021/acsomega.1c00997 | Joshi, R. P., A. McNaughton, D. G. Thomas, C. S. Henry, S. R. Canon, L. A. McCue and N. Kumar | Quantum Mechanical Methods Predict Accurate Thermodynamics of Biochemical Reactions | ACS Omega | 6(14) 9948–59 |
| 2021 | 10.1111/nph.17583 | Joo, Y., H. Kim, M. Kang, G. Lee, S. Choung, H. Kaur, S. Oh, J. W. Choi, J. Ralph, I. T. Baldwin and S.-G. Kim | Pith-specific lignification in Nicotiana attenuata as a defense against a stem-boring herbivore | New Phytologist | 232(1) 332–44 |
| 2021 | 10.1128/mra.00284-21 | Jones, L. B., C. Myoung-Hwan, V. Lakshmanan, I. Torres-Jerez, Y. Tang, M. Sparks, N. R. Shapiro, K. D. Craven and M. K. Udvardi | Draft Genome Sequences of Switchgrass Diazotrophs | Microbiology Resource Announcements | 10(21) |
| 2021 | 10.1016/j.envsoft.2021.105111 | Jones, C. D., A. D. Reddy, J. Jeong, J. R. Williams, S. K. Hamilton, M. Z. Hussain, V. Bandaru and R. C. Izaurralde | Improved hydrological modeling with APEX and EPIC: Model description, testing, and assessment of bioenergy producing landscape scenarios | Environmental Modelling & Software | 143 105111 |
| 2021 | 10.1002/rcm.8958 | Jones, C. and D. A. Fike | A statistical model of secondary ion emission and attenuation clarifies disparities in quasi-simultaneous arrival coefficients measured with secondary ion mass spectrometry | Rapid Commun Mass Spectrom | 35(1) e8958 |
| 2021 | 10.1016/bs.mie.2021.01.046 | Johnson, Z. J., D. D. Krutkin, P. Bohutskyi and M. G. Kalyuzhnaya | Metals and methylotrophy: Via global gene expression studies | Methods in Enzymology | 650 185-213 |
| 2021 | 10.1021/acs.jproteome.0c00813 | Johnson, A., M. Stadlmeier and M. Wühr | TMTpro Complementary Ion Quantification Increases Plexing and Sensitivity for Accurate Multiplexed Proteomics at the MS2 Level | Journal of Proteome Research | 20(6) 3043–52 |
| 2021 | 10.1002/pld3.309 | Jing, B., T. Ishikawa, N. Soltis, N. Inada, Y. Liang, et al. | The Arabidopsis thaliana nucleotide sugar transporter GONST2 is a functional homolog of GONST1 | Plant Direct | 5(3) e00309 |
| 2021 | 10.1093/jxb/eraa609 | Jiang, S.-C., N. L. Engle, Z. Z. Banday, N. M. Cecchini, H. W. Jung, T. J. Tschaplinski and J. T. Greenberg | ALD1 accumulation in Arabidopsis epidermal plastids confers local and non-autonomous disease resistance | Journal of Experimental Botany | 72(7) 2710–26 |
| 2021 | 10.1039/D0GC03664A | Jiang, H. J., S. Miao, S. Imberti, B. A. Simmons, R. Atkin and G. G. Warr | Liquid nanostructure of choline lysinate with water and a model lignin residue | Green Chemistry | 23(2) 856–66 |
| 2021 | 10.5194/essd-13-281-2021 | Jiang, C., K. Guan, G. Wu, B. Peng and S. Wang | A daily, 250M and real-time gross primary productivity product (2000–present) covering the contiguous United States | Earth System Science Data | 13(2) 281–98 |
| 2021 | 10.1021/acs.est.1c02236 | Jiang, C., K. Guan, M. Khanna, L. Chen and J. Peng | Assessing Marginal Land Availability Based on Land Use Change Information in the Contiguous United States | Environmental Science & Technology | 55(15) 10794–804 |
| 2021 | 10.1111/gcb.15795 | Jian, J., B. Bond-Lamberty, D. Hao, B. N. Sulman, K. F. Patel, J. Zheng, K. Dorheim, S. C. Pennington, M. D. Hartman, D. Warner and W. R. Wieder | Leveraging observed soil heterotrophic respiration fluxes as a novel constraint on global-scale models | Global Change Biology | 27(20) 5392-5403 |
| 2021 | 10.1214/20-AOAS1431 | Jernigan, R., K. Jia, Z. Ren and W. Zhou | Large-scale multiple inference of collective dependence with applications to protein function | Annals of Applied Statistics | 15(2) 902-924 |
| 2021 | 10.1021/jacs.1c01885 | Jellen, M. J., I. Liepuoniute, M. Jin, C. G. Jones, S. Yang, X. Jiang, H. M. Nelson, K. N. Houk and M. A. Garcia-Garibay | Enhanced Gearing Fidelity Achieved through Macrocyclization of a Solvated Molecular Spur Gear | Journal of the American Chemical Society | 143(20) 7740-7747 |
| 2021 | 10.1007/s00253-021-11213-1 | Jayakody, L. N. and Y.-S. Jin | In-depth understanding of molecular mechanisms of aldehyde toxicity to engineer robust Saccharomyces cerevisiae | Applied Microbiology and Biotechnology | 105(7) 2675–92 |
| 2021 | 10.3389/fpls.2021.652319 | Jarvis, B. A., T. B. Romsdahl, M. G. McGinn, T. J. Nazarenus, E. B. Cahoon, K. D. Chapman and J. C. Sedbrook | CRISPR/Cas9-Induced fad2 and rod1 Mutations Stacked With fae1 Confer High Oleic Acid Seed Oil in Pennycress (Thlaspi arvense L.) | Frontiers in Plant Science | 12 |
| 2021 | 10.1099/ijsem.0.005100 | Jansson, M. K., S. Hering and M. E. J. Buhl | Parvimonas parva sp. nov., derived from a human genito-urinary lesion | International Journal of Systematic and Evolutionary Microbiology | 71(12) |
| 2021 | 10.1093/jxb/erab176 | Jaikumar, N. S., S. S. Stutz, S. B. Fernandes, A. D. B. Leakey, C. J. Bernacchi, P. J. Brown and S. P. Long | Can improved canopy light transmission ameliorate loss of photosynthetic efficiency in the shade? An investigation of natural variation in Sorghum bicolor | Journal of Experimental Botany | 72(13) 4965–80 |
| 2021 | 10.1007/s00253-021-11549-8 | Jagtap, S. S., A. Deewan, J.-J. Liu, H. E. Walukiewicz, E. J. Yun, Y.-S. Jin and C. V. Rao | Integrating transcriptomic and metabolomic analysis of the oleaginous yeast Rhodosporidium toruloides IFO0880 during growth under different carbon sources | Applied Microbiology and Biotechnology | 105(19) 7411–25 |
| 2021 | 10.1186/s13068-021-02039-0 | Jagtap, S. S., A. A. Bedekar, V. Singh, Y.-S. Jin and C. V. Rao | Metabolic engineering of the oleaginous yeast Yarrowia lipolytica PO1f for production of erythritol from glycerol | Biotechnology for Biofuels | 14(1) 188 |
| 2021 | 10.1146/annurev-micro-060621-043448 | Jacobson, T. B., M. M. Callaghan and D. Amador-Noguez | Hostile Takeover: How Viruses Reprogram Prokaryotic Metabolism | Annual Review of Microbiology | 75(1) 515–39 |
| 2021 | 10.3390/ijms22157880 | Jabusch, L. K., P. W. Kim, D. Chiniquy, Z. Zhao, B. Wang, B. Bowen, A. J. Kang, Y. Yoshikuni, A. M. Deutschbauer, A. K. Singh and T. R. Northen | Microfabrication of a Chamber for High-Resolution, In Situ Imaging of the Whole Root for Plant–Microbe Interactions | International Journal of Molecular Sciences | 22(15) 7880 |
| 2021 | 10.1111/nph.17062 | Jabre, I., S. Chaudhary, W. Guo, M. Kalyna, A. S. N. Reddy, W. Chen, R. Zhang, C. Wilson and N. H. Syed | Differential nucleosome occupancy modulates alternative splicing in Arabidopsis thaliana | New Phytologist | 229(4) 1937-1945 |
| 2021 | 10.1038/s41598-021-91756-5 | Iwata, M., A. Gutiérrez, G. Marques, G. Sabat, P. J. Kersten, et al. | Omics analyses and biochemical study of Phlebiopsis gigantea elucidate its degradation strategy of wood extractives | Scientific Reports | 11(1) 12528 |
| 2021 | 10.1111/nph.17713 | Irving, T. B., B. Alptekin, B. Kleven and J. M. Ané | A critical review of 25 years of glomalin research: a better mechanical understanding and robust quantification techniques are required | New Phytologist | 232(4) 1572-1581 |
| 2021 | 10.3389/fbioe.2021.724304 | Ingle, A. T., N. W. Fortney, K. A. Walters, T. J. Donohue and D. R. Noguera | Mixed Acid Fermentation of Carbohydrate-Rich Dairy Manure Hydrolysate | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1038/s41598-021-91181-8 | Ing, N., K. Deng, Y. Chen, M. Aulitto, J. W. Gin, T. L. M. Pham, C. J. Petzold, S. W. Singer, B. Bowen, K. L. Sale, B. A. Simmons, A. K. Singh, P. D. Adams and T. R. Northen | A multiplexed nanostructure-initiator mass spectrometry (NIMS) assay for simultaneously detecting glycosyl hydrolase and lignin modifying enzyme activities | Scientific Reports | 11(1) 11803 |
| 2021 | 10.3390/plants10122611 | Im, J. H., S. Son, J.-H. Ko, K.-H. Kim, C. S. An and K.-H. Han | Nuclear Translocation of Soybean MPK6, GmMPK6, Is Mediated by Hydrogen Peroxide in Salt Stress | Plants | 10(12) 2611 |
| 2021 | 10.1371/journal.pgen.1009510 | Im, J. H., J.-H. Ko, W.-C. Kim, B. Crain, D. Keathley and K.-H. Han | Mitogen-activated protein kinase 6 negatively regulates secondary wall biosynthesis by modulating MYB46 protein stability in Arabidopsis thaliana | PLoS Genetics | 17(4) e1009510 |
| 2021 | 10.1515/hf-2021-0015 | Ikeda, T., N. Takata, S. Sakamoto, S. Hu, Nuoendagula, S. Hishiyama, N. Mitsuda, W. Boerjan, J. Ralph and S. Kajita | Improved chemical pulping and saccharification of a natural mulberry mutant deficient in cinnamyl alcohol dehydrogenase | Holzforschung | 75(10) 968–77 |
| 2021 | 10.1016/j.cub.2021.01.018 | Iha, C., K. E. Dougan, J. A. Varela, V. Avila, C. J. Jackson, et al. | Genomic adaptations to an endolithic lifestyle in the coral-associated alga Ostreobium | Current Biology | 31(7) 1393-1402.e5 |
| 2021 | 10.1016/j.micres.2020.126640 | Igiehon, N. O., O. O. Babalola, X. Cheseto and B. Torto | Effects of rhizobia and arbuscular mycorrhizal fungi on yield, size distribution and fatty acid of soybean seeds grown under drought stress | Microbiological Research | 242 126640 |
| 2021 | 10.1038/s41438-021-00606-y | Hyden, B., C. H. Carlson, F. E. Gouker, J. Schmutz, K. Barry, A. Lipzen, A. Sharma, L. Sandor, G. A. Tuskan, G. Feng, M. S. Olson, S. P. DiFazio and L. B. Smart | Integrative genomics reveals paths to sex dimorphism in Salix purpurea L | Horticulture Research | 8 170 |
| 2021 | 10.1038/s41438-021-00606-y | Hyden, B., C. H. Carlson, F. E. Gouker, J. Schmutz, K. Barry, A. Lipzen, A. Sharma, L. Sandor, G. A. Tuskan, G. Feng, M. S. Olson, S. P. DiFazio and L. B. Smart | Integrative genomics reveals paths to sex dimorphism in Salix purpurea L | Horticulture Research | 8 |
| 2021 | 10.1007/s00248-020-01638-y | Hutchinson, M. I., T. A. S. Bell, L. V. Gallegos-Graves, J. Dunbar and M. Albright | Merging Fungal and Bacterial Community Profiles via an Internal Control | Microbial Ecology | 82(2) 484–97 |
| 2021 | 10.1038/s41598-021-99877-7 | Hussain, M. Z., S. K. Hamilton, G. P. Robertson and B. Basso | Phosphorus availability and leaching losses in annual and perennial cropping systems in an upper US Midwest landscape | Scientific Reports | 11(1) 20367 |
| 2021 | 10.7554/eLife.63775 | Huss, P., A. Meger, M. Leander, K. Nishikawa and S. Raman | Mapping the functional landscape of the receptor binding domain of T7 bacteriophage by deep mutational scanning | eLife | 10 e63775 |
| 2021 | 10.1126/sciadv.abc8998 | Hurley, S. J., B. A. Wing, C. E. Jasper, N. C. Hill and J. C. Cameron | Carbon isotope evidence for the global physiology of Proterozoic cyanobacteria | Sci Adv | 7(2) |
| 2021 | 10.1128/mbio.03432-20 | Hurley, A., M. G. Chevrette, D. D. Acharya, G. L. Lozano, M. Garavito, et al. | Tiny Earth: A Big Idea for STEM Education and Antibiotic Discovery | mBio | 12(1) |
| 2021 | 10.1016/j.mimet.2021.106294 | Hunt, K. A., J. Forbes, F. Taub, N. Elliott, J. Hardwicke, R. Petersen, N. Stopnisek, D. A. C. Beck and D. A. Stahl | An automated multiplexed turbidometric and data collection system for measuring growth kinetics of anaerobes dependent on gaseous substrates | Journal of Microbiological Methods | 188 106294 |
| 2021 | 10.1128/mBio.00466-21 | Hungate, B. A., J. C. Marks, M. E. Power, E. Schwartz, K. J. v. Groenigen, et al. | The Functional Significance of Bacterial Predators | mBio | 12(2) e00466-21 |
| 2021 | 10.1128/msphere.00564-21 | Huberman, L. B., V. W. Wu, J. Lee, C. Daum, R. C. O’Malley and N. L. Glass | Aspects of the Neurospora crassa Sulfur Starvation Response Are Revealed by Transcriptional Profiling and DNA Affinity Purification Sequencing | mSphere | 6(5) |
| 2021 | 10.1073/pnas.2009501118 | Huberman, L. B., V. W. Wu, D. J. Kowbel, J. Lee, C. Daum, I. V. Grigoriev, R. C. O’Malley and N. L. Glass | DNA affinity purification sequencing and transcriptional profiling reveal new aspects of nitrogen regulation in a filamentous fungus | Proceedings of the National Academy of Sciences | 118(13) e2009501118 |
| 2021 | 10.1021/acssuschemeng.1c04836 | Huang, K., X. Peng, L. Kong, W. Wu, Y. Chen and C. T. Maravelias | Greenhouse Gas Emission Mitigation Potential of Chemicals Produced from Biomass | ACS Sustainable Chemistry & Engineering | 9(43) 14480–7 |
| 2021 | 10.1039/D1GC01727F | Huang, K., M. Mohan, A. George, B. A. Simmons, Y. Xu and J. M. Gladden | Integration of acetic acid catalysis with one-pot protic ionic liquid configuration to achieve high-efficient biorefinery of poplar biomass | Green Chemistry | 23(16) 6036–49 |
| 2021 | 10.1038/s41557-021-00801-3 | Huang, J., Z. Liu, B. J. Bloomer, D. S. Clark, A. Mukhopadhyay, J. D. Keasling and J. F. Hartwig | Unnatural biosynthesis by an engineered microorganism with heterologously expressed natural enzymes and an artificial metalloenzyme | Nature Chemistry | 13(12) 1186–91 |
| 2021 | 10.3390/cells10061526 | Hu, Z., Z. Nie, C. Yan, H. Huang, X. Ma, Y. Wang, N. Ye, G. A. Tuskan, X. Yang and H. Yin | Transcriptome and Degradome Profiling Reveals a Role of miR530 in the Circadian Regulation of Gene Expression in Kalanchoë marnieriana | Cells | 10(6) 1526 |
| 2021 | 10.1038/s41438-021-00570-7 | Hu, X.-L., H. Lu, M. M. Hassan, J. Zhang, G. Yuan, P. E. Abraham, H. K. Shrestha, M. I. Villalobos Solis, J.-G. Chen, T. J. Tschaplinski, M. J. Doktycz, G. A. Tuskan, Z.-M. Cheng and X. Yang | Advances and perspectives in discovery and functional analysis of small secreted proteins in plants | Horticulture Research | 8(1) 130 |
| 2021 | 10.1007/978-1-0716-1115-9_15 | Hu, D., Y. Cui, L. M. Markillie, W. B. Chrisler, Q. Wang, R. Hatzenpichler and G. Orr | Counting mRNA Copies in Intact Bacterial Cells by Fluctuation Localization Imaging-Based Fluorescence In Situ Hybridization (fliFISH) | Fluorescence In-Situ Hybridization (FISH) for Microbial Cells: Methods and Concepts | 237-247 |
| 2021 | 10.1002/pei3.10056 | Hsieh, J.-F., S. T. Krause, D. Kainer, J. Degenhardt, W. J. Foley and C. Külheim | Characterization of terpene biosynthesis in Melaleuca quinquenervia and ecological consequences of terpene accumulation during myrtle rust infection | Plant-Environment Interactions | 2(4) 177–93 |
| 2021 | 10.1038/s41477-021-00877-2 | Horton, P., S. P. Long, P. Smith, S. A. Banwart and D. J. Beerling | Technologies to deliver food and climate security through agriculture | Nature Plants | 7(3) 250–5 |
| 2021 | 10.48550/arXiv.2107.08046 | Holman, H.-Y. N., W. Zhao, J. D. Nill, L. Chen, S. R. Narayanasamy and T. Jeoh | An Open-channel Microfluidic Membrane Device for In situ Hyperspectral mapping of enzymatic cellulose hydrolysis | arXiv:2107.08046v1 | |
| 2021 | 10.1186/s13068-021-02008-7 | Hoffman, S. M., M. Alvarez, G. Alfassi, D. M. Rein, S. Garcia-Echauri, Y. Cohen and J. L. Avalos | Cellulosic biofuel production using emulsified simultaneous saccharification and fermentation (eSSF) with conventional and thermotolerant yeasts | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1007/s11103-021-01136-w | Hodgson-Kratky, K., V. Perlo, A. Furtado, H. Choudhary, J. M. Gladden, B. A. Simmons, F. Botha and R. J. Henry | Association of gene expression with syringyl to guaiacyl ratio in sugarcane lignin | Plant Molecular Biology | 106(1) 173–92 |
| 2021 | 10.1002/btpr.3172 | Hillman, E. T., M. Li, C. A. Hooker, J. A. Englaender, I. Wheeldon and K. V. Solomon | Hydrolysis of lignocellulose by anaerobic fungi produces free sugars and organic acids for two-stage fine chemical production with Kluyveromyces marxianus | Biotechnology Progress | 37(5) |
| 2021 | 10.3390/microorganisms9091986 | Hillman, E. T., E. M. Frazier, E. K. Shank, A. N. Ortiz-Velez, J. A. Englaender and K. V. Solomon | Anaerobic fungal mevalonate pathway genomic biases lead to heterologous toxicity underpredicted by codon adaptation indices | Microorganisms | 9(9) |
| 2021 | 10.3389/fpls.2020.573767 | Heyduk, K., E. V. McAssey, J. Grimwood, S. Shu, J. Schmutz, M. R. McKain and J. Leebens-Mack | Hybridization History and Repetitive Element Content in the Genome of a Homoploid Hybrid, Yucca gloriosa (Asparagaceae) | Frontiers in Plant Science | 11 |
| 2021 | 10.1111/nph.17527 | Hestrin, R., P. K. Weber, J. Pett-Ridge and J. Lehmann | Plants and mycorrhizal symbionts acquire substantial soil nitrogen from gaseous ammonia transport | New Phytologist | 231(5) 1746–57 |
| 2021 | 10.1094/pbiomes-04-20-0029-fi | Hestrin, R., M. R. Lee, B. K. Whitaker and J. Pett-Ridge | The Switchgrass Microbiome: A Review of Structure, Function, and Taxonomic Distribution | Phytobiomes Journal | 5(1) 14–28 |
| 2021 | 10.3390/microorganisms9050985 | Hervé, V., A. Simon, F. Randevoson, G. Cailleau, G. Rajoelison, H. Razakamanarivo, S. Bindschedler, E. Verrecchia and P. Junier | Functional Diversity of the Litter-Associated Fungi from an Oxalate-Carbonate Pathway Ecosystem in Madagascar | Microorganisms | 9(5) 985 |
| 2021 | 10.1099/ijsem.0.004977 | Hering, S., M. K. Jansson and M. E. J. Buhl | Eikenella glucosivorans sp. nov., isolated from a human throat swab, and emendation of the genus Eikenella to include saccharolytic species | International Journal of Systematic and Evolutionary Microbiology | 71(9) |
| 2021 | 10.3389/fpls.2021.657796 | Henningsen, E. C., V. Omidvar, R. Della Coletta, J.-M. Michno, E. Gilbert, F. Li, M. E. Miller, C. L. Myers, S. P. Gordon, J. P. Vogel, B. J. Steffenson, S. F. Kianian, C. D. Hirsch and M. Figueroa | Identification of Candidate Susceptibility Genes to Puccinia graminis f. sp. tritici in Wheat | Frontiers in Plant Science | 12 |
| 2021 | 10.3390/metabo11030168 | Hendry, J. I., H. V. Dinh, D. Sarkar, L. Wang, A. Bandyopadhyay, H. B. Pakrasi and C. D. Maranas | A genome-scale metabolic model of anabaena 33047 to guide genetic modifications to overproduce nylon monomers | Metabolites | 11(3) |
| 2021 | 10.3389/fmicb.2021.739005 | Hempel, P. P., J. L. Keffer and J. A. Maresca | RNA-Seq Reveals that Light and Darkness Are Different Stimuli in Freshwater Heterotrophic Actinobacteria | Frontiers in Microbiology | 12 |
| 2021 | 10.1111/1365-2656.13407 | Helms, J. A., IV, K. A. Roeder, S. E. Ijelu, I. Ratcliff and N. M. Haddad | Bioenergy landscapes drive trophic shifts in generalist ants | Journal of Animal Ecology | 90(3) 738–50 |
| 2021 | 10.3390/jof7100854 | Heeger, F., E. C. Bourne, C. Wurzbacher, E. Funke, A. Lipzen, G. He, V. Ng, I. V. Grigoriev, D. Schlosser and M. T. Monaghan | Evidence for Lignocellulose-Decomposing Enzymes in the Genome and Transcriptome of the Aquatic Hyphomycete Clavariopsis aquatica | Journal of Fungi | 7(10) 854 |
| 2021 | 10.3389/fmicb.2021.695517 | Hebdon, S. D., A. T. Gerritsen, Y. P. Chen, J. G. Marcano and K. J. Chou | Genome-Wide Transcription Factor DNA Binding Sites and Gene Regulatory Networks in Clostridium thermocellum | Frontiers in Microbiology | 12 695517 |
| 2021 | 10.1038/s42003-021-02009-0 | Healey, A. L., M. Shepherd, G. J. King, J. B. Butler, J. S. Freeman, et al. | Pests, diseases, and aridity have shaped the genome of Corymbia citriodora | Communications Biology | 4(1) 537 |
| 2021 | 10.1128/mBio.03620-20 | He, X., G. L. Chadwick, C. P. Kempes, V. J. Orphan and C. Meile | Controls on interspecies electron transport and size limitation of anaerobically methane-oxidizing microbial consortia | mBio | 12(3) |
| 2021 | 10.1002/celc.202100425 | He, X., G. Chadwick, F. Jiménez Otero, V. Orphan and C. Meile | Spatially resolved electron transport through anode-respiring Geobacter sulfurreducens biofilms: Controls and constraints | ChemElectroChem | 8(10) 1697 |
| 2021 | 10.1111/jipb.13163 | Hawkins, C., D. Ginzburg, K. Zhao, W. Dwyer, B. Xue, A. Xu, S. Rice, B. Cole, S. Paley, P. Karp and S. Y. Rhee | Plant Metabolic Network 15: A resource of genome-wide metabolism databases for 126 plants and algae | Journal of Integrative Plant Biology | 63(11) 1888-1905 |
| 2021 | 10.1016/j.jbc.2021.101029 | Haviland, Z. K., D. Nong, K. L. Vasquez Kuntz, T. J. Starr, D. Ma, M. Tien, C. T. Anderson and W. O. Hancock | Nanoscale dynamics of cellulose digestion by the cellobiohydrolase TrCel7A | Journal of Biological Chemistry | 297(3) 101029 |
| 2021 | 10.1016/j.tplants.2021.06.015 | Hassan, M. M., Y. Zhang, G. Yuan, K. De, J.-G. Chen, W. Muchero, G. A. Tuskan, Y. Qi and X. Yang | Construct design for CRISPR/Cas-based genome editing in plants | Trends in Plant Science | 26(11) 1133–52 |
| 2021 | 10.1128/mra.01035-19 | Harris, C. R., D. M. Akob, M. Fabisch, F. Beulig, T. Woyke, N. Shapiro, A. Lapidus, H.-P. Klenk and K. Küsel | Draft Genome Sequence of Bordetella sp. Strain FB-8, Isolated from a Former Uranium Mining Area in Germany | Microbiology Resource Announcements | 10(14) |
| 2021 | 10.1002/9783527815128.ch8 | Harnden, K. A., Y. Wang, L. Vo, H. Zhao and Y. Lu | Engineering Artificial Metalloenzymes | Protein Engineering: Tools and Applications | 177–205 |
| 2021 | 10.1186/s13068-021-01908-y | Harman-Ware, A. E., D. Macaya-Sanz, C. R. Abeyratne, C. Doeppke, K. Haiby, G. A. Tuskan, B. Stanton, S. P. DiFazio and M. F. Davis | Accurate determination of genotypic variance of cell wall characteristics of a Populus trichocarpa pedigree using high-throughput pyrolysis-molecular beam mass spectrometry | Biotechnology for Biofuels | 14(1) 59 |
| 2021 | 10.1039/D1GC02744A | Haridevan, H., D. A. C. Evans, A. J. Ragauskas, D. J. Martin and P. K. Annamalai | Valorisation of technical lignin in rigid polyurethane foam: a critical evaluation on trends, guidelines and future perspectives | Green Chemistry | 23(22) 8725–53 |
| 2021 | 10.1002/bbb.2185 | Happs, R. M., A. W. Bartling, C. Doeppke, A. E. Harman-Ware, R. Clark, E. G. Webb, M. J. Biddy, J.-G. Chen, G. A. Tuskan, M. F. Davis, W. Muchero and B. H. Davison | Cover Image, Volume 15, Issue 1 | Biofuels, Bioproducts and Biorefining | 15(1) i-i |
| 2021 | 10.1002/bbb.2148 | Happs, R. M., A. W. Bartling, C. Doeppke, A. E. Harman-Ware, R. Clark, E. G. Webb, M. J. Biddy, J.-G. Chen, G. A. Tuskan, M. F. Davis, W. Muchero and B. H. Davison | Economic impact of yield and composition variation in bioenergy crops: Populus trichocarpa | Biofuels, Bioproducts and Biorefining | 15(1) 176–88 |
| 2021 | 10.1186/s13068-021-01897-y | Happs, R. M., B. Addison, C. Doeppke, B. S. Donohoe, M. F. Davis and A. E. Harman-Ware | Comparison of methodologies used to determine aromatic lignin unit ratios in lignocellulosic biomass | Biotechnology for Biofuels | 14(1) 58 |
| 2021 | 10.1186/s12870-021-02842-9 | Hao, Z., S. Yogiswara, T. Wei, V. T. Benites, A. Sinha, G. Wang, E. E. K. Baidoo, P. C. Ronald, H. V. Scheller, D. Loqué and A. Eudes | Expression of a bacterial 3-dehydroshikimate dehydratase (QsuB) reduces lignin and improves biomass saccharification efficiency in switchgrass (Panicum virgatum L.) | BMC Plant Biology | 21(1) 56 |
| 2021 | 10.1101/gr.270033.120 | Hao, Y., M. E. Mabry, P. P. Edger, M. Freeling, C. Zheng, et al. | The contributions from the progenitor genomes of the mesopolyploid Brassiceae are evolutionarily distinct but functionally compatible | Genome Research | 31(5) 799-810 |
| 2021 | 10.1073/pnas.2023348118 | Hanson, A. D., D. R. McCarty, C. S. Henry, X. Xian, J. Joshi, J. A. Patterson, J. D. García-García, S. D. Fleischmann, N. D. Tivendale and A. H. Millar | The number of catalytic cycles in an enzyme’s lifetime and why it matters to metabolic engineering | Proceedings of the National Academy of Sciences | 118(13) e2023348118 |
| 2021 | 10.1128/msystems.00765-21 | Handakumbura, P. P., A. R. Ubach and A. K. Battu | Visualizing the Hidden Half: Plant-Microbe Interactions in the Rhizosphere | mSystems | 6(5) |
| 2021 | 10.1186/s43008-021-00072-0 | Hagestad, O. C., L. Hou, J. H. Andersen, E. H. Hansen, B. Altermark, et al. | Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation | IMA Fungus | 12(1) 21 |
| 2021 | 10.1111/1462-2920.15423 | Hage, H., S. Miyauchi, M. Virágh, E. Drula, B. Min, et al. | Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay | Environmental Microbiology | 23(10) 5716-5732 |
| 2021 | 10.1093/genetics/iyaa012 | Haase, M. A. B., J. Kominek, D. A. Opulente, X.-X. Shen, A. L. LaBella, X. Zhou, J. DeVirgilio, A. B. Hulfachor, C. P. Kurtzman, A. Rokas and C. T. Hittinger | Repeated horizontal gene transfer of GALactose metabolism genes violates Dollo’s law of irreversible loss | Genetics | 217(2) |
| 2021 | 10.1016/bs.aecr.2021.01.003 | Haan, N. L., B. G. Iuliano, C. Gratton and D. A. Landis | Designing agricultural landscapes for arthropod-based ecosystem services in North America | Advances in Ecological Research | 64 191–250 |
| 2021 | 10.1039/D1CB00112D | Ha, N. S., M. de Raad, L. Z. Han, A. Golini, C. J. Petzold and T. R. Northen | Faster, better, and cheaper: harnessing microfluidics and mass spectrometry for biotechnology | RSC Chemical Biology | 2(5) 1331–51 |
| 2021 | 10.1111/nph.17383 | Ha, C. M., X. Rao, G. Saxena and R. A. Dixon | Growth–defense trade-offs and yield loss in plants with engineered cell walls | New Phytologist | 231(1) 60–74 |
| 2021 | 10.3390/genes12020288 | Guo, Z., M. Xu, H. Nagano, L. V. Clark, E. J. Sacks and T. Yamada | Characterization of the Ghd8 Flowering Time Gene in a Mini-Core Collection of Miscanthus sinensis | Genes | 12(2) 288 |
| 2021 | 10.1093/bioinformatics/btab355 | Guo, Z., T. Wu, J. Liu, J. Hou and J. Cheng | Improving deep learning-based protein distance prediction in CASP14 | Bioinformatics | 37(19) 3190-3196 |
| 2021 | 10.34133/2021/9805489 | Guo, X., Y. Qiu, D. Nettleton, C. T. Yeh, Z. Zheng, S. Hey and P. S. Schnable | KAT4IA: K-means assisted training for image analysis of field-grown plant phenotypes | Plant Phenomics | 2021 |
| 2021 | 10.3390/ijms22095020 | Guo, Q., L. Liu, W. C. Yim, J. C. Cushman and B. J. Barkla | Membrane profiling by free flow electrophoresis and swath-ms to characterize subcellular compartment proteomes in Mesembryanthemum crystallinum | International Journal of Molecular Sciences | 22(9) |
| 2021 | 10.1186/s40168-020-00990-y | Guo, J., B. Bolduc, A. A. Zayed, A. Varsani, G. Dominguez-Huerta, T. O. Delmont, A. A. Pratama, M. C. Gazitúa, D. Vik, M. B. Sullivan and S. Roux | VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses | Microbiome | 9(1) |
| 2021 | 10.1093/g3journal/jkab398 | Guerreiro, M. A., S. Ahrendt, J. Pangilinan, C. Chen, M. Yan, A. Lipzen, K. Barry, I. V. Grigoriev, D. Begerow and M. Nowrousian | Draft genome sequences of strains CBS6241 and CBS6242 of the basidiomycetous yeast Filobasidium floriforme | G3 Genes|Genomes|Genetics | 12(2) jkab398 |
| 2021 | 10.1111/ejss.13005 | Guber, A., T. Kutlu, M. Rivers and A. Kravchenko | Mass-balance approach to quantify water distribution in soils based on X-ray computed tomography images | European Journal of Soil Science | 72(2) 578–92 |
| 2021 | 10.1016/j.soilbio.2021.108225 | Guber, A., E. Blagodatskaya, A. Juyal, B. S. Razavi, Y. Kuzyakov and A. Kravchenko | Time-lapse approach to correct deficiencies of 2D soil zymography | Soil Biology and Biochemistry | 157 108225 |
| 2021 | 10.1016/j.xplc.2021.100209 | Grzybowski, M., N. K. Wijewardane, A. Atefi, Y. Ge and J. C. Schnable | Hyperspectral reflectance-based phenotyping for quantitative genetics in crops: Progress and challenges | Plant Communications | 2(4) |
| 2021 | 10.1093/jxb/erab437 | Griffiths, M., X. Wang, K. Dhakal, H. Guo, A. Seethepalli, Y. Kang and L. M. York | Interactions among rooting traits for deep water and nitrogen uptake in upland and lowland ecotypes of switchgrass (Panicum virgatum L.) | Journal of Experimental Botany | 73(3) 967–79 |
| 2021 | 10.1002/saj2.20273 | Grace, P. and G. P. Robertson | Soil carbon sequestration potential and the identification of hotspots in the eastern Corn Belt of the United States | Soil Science Society of America Journal | 85(5) 1410–24 |
| 2021 | 10.1016/j.watres.2021.117426 | Gottshall, E. Y., S. J. Bryson, K. I. Cogert, M. Landreau, C. J. Sedlacek, D. A. Stahl, H. Daims and M. Winkler | Sustained nitrogen loss in a symbiotic association of Comammox Nitrospira and Anammox bacteria | Water Research | 202 |
| 2021 | 10.1186/s12859-021-04232-2 | Goren, E., C. Wang, Z. He, A. M. Sheflin, D. Chiniquy, J. E. Prenni, S. Tringe, D. P. Schachtman and P. Liu | Feature selection and causal analysis for microbiome studies in the presence of confounding using standardization | BMC Bioinformatics | 22(1) |
| 2021 | 10.1186/s12951-021-01178-8 | González-Grandío, E., G. S. Demirer, C. T. Jackson, D. Yang, S. Ebert, K. Molawi, H. Keller and M. P. Landry | Carbon nanotube biocompatibility in plants is determined by their surface chemistry | Journal of Nanobiotechnology | 19(1) |
| 2021 | 10.1039/D0GC03855E | Gong, C., N. Bryant, X. Meng, S. Bhagia, Y. Pu, D. Xin, C. Bender Koch, C. Felby, L. G. Thygesen, A. Ragauskas and S. T. Thomsen | Double bonus: surfactant-assisted biomass pelleting benefits both the pelleting process and subsequent enzymatic saccharification of the pretreated pellets | Green Chemistry | 23(2) 1050–61 |
| 2021 | 10.1038/s41598-021-85992-y | Gonçalves, D. R. P., U. Mishra, S. Wills and S. Gautam | Regional environmental controllers influence continental scale soil carbon stocks and future carbon dynamics | Scientific Reports | 11(1) 6474 |
| 2021 | 10.1515/hf-2020-0130 | Goacher, R. E., Y. Mottiar and S. D. Mansfield | ToF-SIMS imaging reveals that p-hydroxybenzoate groups specifically decorate the lignin of fibres in the xylem of poplar and willow | Holzforschung | 75(5) 452–62 |
| 2021 | 10.1007/s00425-021-03774-2 | Gleadow, R. M., B. A. McKinley, C. K. Blomstedt, A. C. Lamb, B. L. Møller and J. E. Mullet | Regulation of dhurrin pathway gene expression during Sorghum bicolor development | Planta | 254(6) 119 |
| 2021 | 10.1016/j.copbio.2020.12.020 | Glasgow, E., K. Vander Meulen, N. Kuch and B. G. Fox | Multifunctional cellulases are potent, versatile tools for a renewable bioeconomy | Current Opinion in Biotechnology | 67 141–8 |
| 2021 | 10.1128/mSystems.00933-20 | Glanville, D. G., C. Mullineaux-Sanders, C. J. Corcoran, B. T. Burger, S. Imam, T. J. Donohue and A. T. Ulijasz | A High-Throughput Method for Identifying Novel Genes That Influence Metabolic Pathways Reveals New Iron and Heme Regulation in Pseudomonas aeruginosa | mSystems | 6(1) e00933-20 |
| 2021 | 10.1038/s42003-021-01767-1 | Gimeno, A., C. E. Stanley, Z. Ngamenie, M.-H. Hsung, F. Walder, S. S. Schmieder, S. Bindschedler, P. Junier, B. Keller and S. Vogelgsang | A versatile microfluidic platform measures hyphal interactions between Fusarium graminearum and Clonostachys rosea in real-time | Communications Biology | 4(1) 262 |
| 2021 | 10.1016/j.enpol.2021.112159 | Giarola, S., A. Molar-Cruz, K. Vaillancourt, O. Bahn, L. Sarmiento, A. Hawkes and M. Brown | The role of energy storage in the uptake of renewable energy: A model comparison approach | Energy Policy | 151 |
| 2021 | 10.1016/j.apenergy.2021.117539 | Geissler, C. H. and C. T. Maravelias | Economic, energetic, and environmental analysis of lignocellulosic biorefineries with carbon capture | Applied Energy | 302 117539 |
| 2021 | 10.3389/fmicb.2020.597818 | Gavrilov, S. N., D. G. Zavarzina, I. M. Elizarov, T. V. Tikhonova, N. I. Dergousova, et al. | Novel Extracellular Electron Transfer Channels in a Gram-Positive Thermophilic Bacterium | Frontiers in Microbiology | 11 |
| 2021 | 10.1111/1751-7915.13832 | Gauttam, R., A. Mukhopadhyay, B. A. Simmons and S. W. Singer | Development of dual-inducible duet-expression vectors for tunable gene expression control and CRISPR interference-based gene repression in Pseudomonas putida KT2440 | Microbial Biotechnology | 14(6) 2659–78 |
| 2021 | 10.1073/pnas.2022838118 | Garruss, A. S., K. M. Collins and G. M. Church | Deep representation learning improves prediction of LacI-mediated transcriptional repression | Proceedings of the National Academy of Sciences of the United States of America | 118(27) |
| 2021 | 10.1007/s00253-021-11614-2 | Gardner, J. G. and H. J. Schreier | Unifying themes and distinct features of carbon and nitrogen assimilation by polysaccharide-degrading bacteria: a summary of four model systems | Applied Microbiology and Biotechnology | 105(21-22) 8109-8127 |
| 2021 | 10.1016/j.ymben.2021.07.009 | Garcia, S. and C. T. Trinh | Computational design and analysis of modular cells for large libraries of exchangeable product synthesis modules | Metabolic Engineering | 67 453–63 |
| 2021 | 10.1016/j.mec.2021.e00162 | Garcia, D. C., J. L. N. Dinglasan, H. Shrestha, P. E. Abraham, R. L. Hettich and M. J. Doktycz | A lysate proteome engineering strategy for enhancing cell-free metabolite production | Metabolic Engineering Communications | 12 e00162 |
| 2021 | 10.1007/s00253-021-11322-x | Garcia, C. A. and J. G. Gardner | Bacterial α-diglucoside metabolism: perspectives and potential for biotechnology and biomedicine | Applied Microbiology and Biotechnology | 105(10) 4033-4052 |
| 2021 | 10.1016/j.mimet.2021.106337 | Garcia, C. A. and J. G. Gardner | Development and evaluation of an agar capture system (ACS) for high-throughput screening of insoluble particulate substrates with bacterial growth and enzyme activity assays | Journal of Microbiological Methods | 190 |
| 2021 | 10.1016/j.csbj.2021.10.029 | Garcia, B. J., R. Simha, M. Garvin, A. Furches, P. Jones, J. G. F. M. Gazolla, P. D. Hyatt, C. W. Schadt, D. Pelletier and D. Jacobson | A k-mer based approach for classifying viruses without taxonomy identifies viral associations in human autism and plant microbiomes | Computational and Structural Biotechnology Journal | 19 5911–9 |
| 2021 | 10.1109/MLHPC54614.2021.00010 | Gao, M., P. Lund-Andersen, A. Morehead, S. Mahmud, C. Chen, et al. | High-Performance Deep Learning Toolbox for Genome-Scale Prediction of Protein Structure and Function | Proceedings of MLHPC 2021: Workshop on Machine Learning in High Performance Computing Environments, Held in conjunction with SC 2021: The International Conference for High Performance Computing, Networking, Storage and Analysis | 46-57 |
| 2021 | 10.1038/s41396-021-01024-7 | Gao, C., M. Garren, K. Penn, V. I. Fernandez, J. R. Seymour, J. R. Thompson, J.-B. Raina and R. Stocker | Coral mucus rapidly induces chemokinesis and genome-wide transcriptional shifts toward early pathogenesis in a bacterial coral pathogen | The ISME Journal | 15(12) 3668-3682 |
| 2021 | 10.3390/biology10040309 | Ganie, S. A. and A. S. N. Reddy | Stress-induced changes in alternative splicing landscape in rice: Functional significance of splice isoforms in stress tolerance | Biology | 10(4) |
| 2021 | 10.1073/pnas.2017714118 | Gallaher, S. D., R. J. Craig, I. Ganesan, S. O. Purvine, S. R. McCorkle, et al. | Widespread polycistronic gene expression in green algae | Proceedings of the National Academy of Sciences of the United States of America | 118(7) |
| 2021 | 10.1021/acssuschemeng.0c07020 | Galebach, P. H., M. Beussman, J. Johnson, T. Fredriksen, C. Wang, M. P. Lanci and G. W. Huber | Catalytic Conversion of Pyrolysis Oil to Alcohols and Alkanes in Supercritical Methanol over the CuMgAlOx Catalyst | ACS Sustainable Chemistry and Engineering | 9(5) 2067-2079 |
| 2021 | 10.1002/cpz1.204 | Gahm, N. A., C. T. Rueden, E. L. Evans III, G. Selzer, M. C. Hiner, J. V. Chacko, D. Gao, N. M. Sherer and K. W. Eliceiri | New Extensibility and Scripting Tools in the ImageJ Ecosystem | Current Protocols | 1(8) e204 |
| 2021 | 10.1073/pnas.2025689118 | Gabriel, R., N. Thieme, Q. Liu, F. Li, L. T. Meyer, et al. | The F-box protein gene exo-1 is a target for reverse engineering enzyme hypersecretion in filamentous fungi | Proceedings of the National Academy of Sciences | 118(26) e2025689118 |
| 2021 | 10.1186/s13068-021-02018-5 | Gabriel, R., R. Mueller, L. Floerl, C. Hopson, S. Harth, T. Schuerg, A. Fleissner and S. W. Singer | CAZymes from the thermophilic fungus Thermoascus aurantiacus are induced by C5 and C6 sugars | Biotechnology for Biofuels | 14(1) 169 |
| 2021 | 10.1021/acs.jpclett.1c00661 | Gabel, M., B. T. O'Callahan, C. Groome, C. F. Wang, R. Ragan, Y. Gu and P. Z. El-Khoury | Mapping Molecular Adsorption Configurations with <5 nm Spatial Resolution through Ambient Tip-Enhanced Raman Imaging | J Phys Chem Lett | 12(14) 3586-3590 |
| 2021 | 10.1038/s41561-021-00725-0 | Fullerton, K. M., M. O. Schrenk, M. Yücel, E. Manini, M. Basili, et al. | Effect of tectonic processes on biosphere–geosphere feedbacks across a convergent margin | Nature Geoscience | 14(5) 301-306 |
| 2021 | 10.1111/nph.17572 | Freschet, G. T., L. Pagès, C. M. Iversen, L. H. Comas, B. Rewald, et al. | A starting guide to root ecology: strengthening ecological concepts and standardising root classification, sampling, processing and trait measurements | New Phytologist | 232(3) 973–1122 |
| 2021 | 10.1038/s41396-021-00928-8 | Francis, T. B., D. Bartosik, T. Sura, A. Sichert, J.-H. Hehemann, S. Markert, T. Schweder, B. M. Fuchs, H. Teeling, R. I. Amann and D. Becher | Changing expression patterns of TonB-dependent transporters suggest shifts in polysaccharide consumption over the course of a spring phytoplankton bloom | The ISME Journal | 15(8) 2336-2350 |
| 2021 | 10.1128/AEM.02541-20 | Fracchia, F., L. Mangeot-Peter, L. Jacquot, F. Martin, C. Veneault-Fourrey and A. Deveau | Colonization of Naive Roots from Populus tremula x alba Involves Successive Waves of Fungi and Bacteria with Different Trophic Abilities | Applied and Environmental Microbiology | 87(6) e02541-20 |
| 2021 | 10.1016/j.copbio.2020.11.010 | Foster, C. J., L. Wang, H. V. Dinh, P. F. Suthers and C. D. Maranas | Building kinetic models for metabolic engineering | Current Opinion in Biotechnology | 67 35–41 |
| 2021 | 10.1128/MSYSTEMS.01325-20 | Foster, C., K. Charubin, E. T. Papoutsakis and C. D. Maranasa | Modeling growth kinetics, interspecies cell fusion, and metabolism of a Clostridium acetobutylicum/Clostridium ljungdahlii syntrophic coculture | mSystems | 6(1) |
| 2021 | 10.3389/fbioe.2021.695306 | Fortney, N. W., N. J. Hanson, P. R. F. Rosa, T. J. Donohue and D. R. Noguera | Diverse Profile of Fermentation Byproducts From Thin Stillage | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1002/aps3.11410 | Folk, R. A., H. R. Kates, R. LaFrance, D. E. Soltis, P. S. Soltis and R. P. Guralnick | High-throughput methods for efficiently building massive phylogenies from natural history collections | Applications in Plant Sciences | 9(2) |
| 2021 | 10.1093/molbev/msaa221 | Foflonker, F. and C. E. Blaby-Haas | Colocality to Cofunctionality: Eukaryotic Gene Neighborhoods as a Resource for Function Discovery | Molecular Biology and Evolution | 38(2) 650–62 |
| 2021 | 10.1038/s41396-021-00992-0 | Flieder, M., J. Buongiorno, C. W. Herbold, B. Hausmann, T. Rattei, K. G. Lloyd, A. Loy and K. Wasmund | Novel taxa of Acidobacteriota implicated in seafloor sulfur cycling | The ISME Journal | 15(11) 3159–80 |
| 2021 | 10.3389/fmicb.2021.729289 | Fischer, M. S., F. G. Stark, T. D. Berry, N. Zeba, T. Whitman and M. F. Traxler | Pyrolyzed substrates induce aromatic compound metabolism in the post-fire fungus, Pyronema domesticum | Frontiers in Microbiology | 12 |
| 2021 | 10.1111/mec.15823 | Fischer, E. K., Y. Song, K. A. Hughes, W. Zhou and K. L. Hoke | Nonparallel transcriptional divergence during parallel adaptation | Molecular Ecology | 30(6) 1516-1530 |
| 2021 | 10.1525/elementa.2021.00124 | Finks, S. S., C. Weihe, S. Kimball, S. D. Allison, A. C. Martiny, K. K. Treseder and J. B. H. Martiny | Microbial community response to a decade of simulated global changes depends on the plant community | Elementa | 9(1) |
| 2021 | 10.1038/s41589-020-00710-5 | Filsinger, G. T., T. M. Wannier, F. B. Pedersen, I. D. Lutz, J. Zhang, et al. | Characterizing the portability of phage-encoded homologous recombination proteins | Nature Chemical Biology | 17(4) 394-402 |
| 2021 | 10.3389/fclim.2021.603239 | Field, J. L. | Revisiting “Additional Carbon”: Tracking Atmosphere–Ecosystem Carbon Exchange to Establish Mitigation and Negative Emissions From Bio-Based Systems | Frontiers in Climate | 3 |
| 2021 | 10.1128/JVI.01868-20 | Ferrero, S., M. D. Flores, C. Short, C. A. Vazquez, L. E. Clark, et al. | Antibody-based inhibition of pathogenic new world hemorrhagic fever mammarenaviruses by steric occlusion of the human transferrin receptor 1 apical domain | Journal of Virology | 95(17) |
| 2021 | 10.1128/JB.00204-21 | Ferrer-Gonzalez, E., H. Huh, H. M. Al-Tameemi, J. M. Boyd, S. H. Lee and D. S. Pilch | Impact of FtsZ Inhibition on the Localization of the Penicillin Binding Proteins in Methicillin-Resistant Staphylococcus aureus | J Bacteriol | |
| 2021 | 10.3389/fevo.2021.639852 | Ferreira, L. S. d. S., A. C. d. A. Butarelli, R. d. C. Sousa, M. A. d. Oliveira, P. H. G. Moraes, et al. | High-Quality Draft Genome Sequence of Pantanalinema sp. GBBB05, a Cyanobacterium From Cerrado Biome | Frontiers in Ecology and Evolution | 9 |
| 2021 | 10.3390/toxins13120892 | Ferrara, M., A. Gallo, C. Cervini, L. Gambacorta, M. Solfrizzo, S. E. Baker and G. Perrone | Evidence of the Involvement of a Cyclase Gene in the Biosynthesis of Ochratoxin A in Aspergillus carbonarius | Toxins | 13(12) 892 |
| 2021 | 10.1128/AEM.01598-21 | Fernandes-Martins, M. C., L. M. Keller, M. Munro-Ehrlich, K. R. Zimlich, M. K. Mettler, A. M. England, R. Clare, K. Surya, E. L. Shock, D. R. Colman and E. S. Boyd | Ecological Dichotomies Arise in Microbial Communities Due to Mixing of Deep Hydrothermal Waters and Atmospheric Gas in a Circumneutral Hot Spring | Applied and Environmental Microbiology | 87(23) e01598-21 |
| 2021 | 10.1021/acs.est.0c04358 | Ferin, K. M., L. Chen, J. Zhong, S. Acquah, E. A. Heaton, M. Khanna and A. VanLoocke | Water Quality Effects of Economically Viable Land Use Change in the Mississippi River Basin under the Renewable Fuel Standard | Environmental Science & Technology | 55(3) 1566–75 |
| 2021 | 10.3389/fmicb.2021.628308 | Fenton, C. A., Q. Tang, D. G. Olson, M. I. Maloney, J. L. Bose, L. R. Lynd and A. W. Fenton | Inhibition of Pyruvate Kinase From Thermoanaerobacterium saccharolyticum by IMP Is Independent of the Extra-C Domain | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.copbio.2020.09.010 | Fenster, J. A. and C. A. Eckert | High-Throughput Functional Genomics for Energy Production | Current Opinion in Biotechnology | 67 7–14 |
| 2021 | 10.1016/j.str.2021.02.004 | Feng, Z., J. D. Westbrook, R. Sala, O. S. Smart, G. Bricogne, M. Matsubara, I. Yamada, S. Tsuchiya, K. F. Aoki-Kinoshita, J. C. Hoch, G. Kurisu, S. Velankar, S. K. Burley and J. Y. Young | Enhanced validation of small-molecule ligands and carbohydrates in the Protein Data Bank | Structure | 29(4) 393-400.e1 |
| 2021 | 10.1186/s13068-021-01958-2 | Felczak, M. M., R. M. Bowers, T. Woyke and M. A. TerAvest | Zymomonas diversity and potential for biofuel production | Biotechnology for Biofuels | 14(1) 112 |
| 2021 | 10.1186/s13068-021-01958-2 | Felczak, M. M., R. M. Bowers, T. Woyke and M. A. TerAvest | Zymomonas diversity and potential for biofuel production | Biotechnology for Biofuels | 14(1) 112 |
| 2021 | 10.1007/s10482-021-01633-4 | Fasusi, O. A., A. E. Amoo and O. O. Babalola | Characterization of plant growth-promoting rhizobacterial isolates associated with food plants in South Africa | Antonie van Leeuwenhoek | 114(10) 1683–708 |
| 2021 | 10.1016/j.molp.2021.01.001 | Farmer, A., S. Thibivilliers, K. H. Ryu, J. Schiefelbein and M. Libault | Single-nucleus RNA and ATAC sequencing reveals the impact of chromatin accessibility on gene expression in Arabidopsis roots at the single-cell level | Molecular Plant | 14(3) 372-383 |
| 2021 | 10.1039/d0gc03597a | Fang, Z., M. G. Flynn, J. E. Jackson and E. L. Hegg | Thio-assisted reductive electrolytic cleavage of lignin β-O-4 models and authentic lignin | Green Chemistry | 23(1) 412–21 |
| 2021 | 10.3389/fpls.2021.626168 | Fanelli, A., D. M. Rancour, M. Sullivan, S. D. Karlen, J. Ralph, D. M. Riaño-Pachón, R. Vicentini, T. d. F. Silva, A. Ferraz, R. D. Hatfield and E. Romanel | Overexpression of a Sugarcane BAHD Acyltransferase Alters Hydroxycinnamate Content in Maize Cell Wall | Frontiers in Plant Science | 12 |
| 2021 | 10.3390/v13010074 | Faleye, T. O. C., E. Driver, D. Bowes, S. Adhikari, D. Adams, A. Varsani, R. U. Halden and M. Scotch | Pan-Enterovirus Amplicon-Based High-Throughput Sequencing Detects the Complete Capsid of a EVA71 Genotype C1 Variant via Wastewater-Based Epidemiology in Arizona | Viruses | 13(1) 74 |
| 2021 | 10.1186/s12879-021-06526-5 | Faleye, T. O. C., D. Adams, S. Adhikari, H. Sandrolini, R. U. Halden, A. Varsani and M. Scotch | Use of hemagglutinin and neuraminidase amplicon-based high-throughput sequencing with variant analysis to detect co-infection and resolve identical consensus sequences of seasonal influenza in a university setting | BMC Infectious Diseases | 21(1) 810 |
| 2021 | 10.1146/annurev-chembioeng-120120-021122 | Fackler, N., B. D. Heijstra, B. J. Rasor, H. Brown, J. Martin, et al. | Stepping on the Gas to a Circular Economy: Accelerating Development of Carbon-Negative Chemical Production from Gas Fermentation | Annual Review of Chemical and Biomolecular Engineering | 12(Volume 12, 2021) 439-470 |
| 2021 | 10.1093/synbio/ysab008 | Fackler, N., J. Heffernan, A. Juminaga, D. Doser, S. Nagaraju, R. A. Gonzalez-Garcia, S. D. Simpson, E. Marcellin and M. Köpke | Transcriptional control of Clostridium autoethanogenum using CRISPRi | Synthetic Biology | 6(1) ysab008 |
| 2021 | 10.1073/pnas.2020024118 | Ewens, S. D., A. F. S. Gomberg, T. P. Barnum, M. A. Borton, H. K. Carlson, K. C. Wrighton and J. D. Coates | The diversity and evolution of microbial dissimilatory phosphite oxidation | Proceedings of the National Academy of Sciences of the United States of America | 118(11) |
| 2021 | 10.1128/AEM.02795-20 | Ettinger, C. L., L. E. Vann and J. A. Eisen | Global Diversity and Biogeography of the Zostera marina Mycobiome | Applied and Environmental Microbiology | 87(12) e02795-20 |
| 2021 | 10.1073/pnas.2101177118 | Eshel, G., V. Araus, S. Undurraga, D. C. Soto, C. Moraga, et al. | Plant ecological genomics at the limits of life in the Atacama Desert | Proceedings of the National Academy of Sciences of the United States of America | 118(46) |
| 2021 | 10.1073/pnas.2022241118 | Epihov, D. Z., K. Saltonstall, S. A. Batterman, L. O. Hedin, J. S. Hall, M. van Breugel, J. R. Leake and D. J. Beerling | Legume–microbiome interactions unlock mineral nutrients in regrowing tropical forests | Proceedings of the National Academy of Sciences | 118(11) e2022241118 |
| 2021 | 10.1016/j.ymben.2021.04.015 | Eng, T., D. Banerjee, A. K. Lau, E. Bowden, R. A. Herbert, J. Trinh, J.-P. Prahl, A. Deutschbauer, D. Tanjore and A. Mukhopadhyay | Engineering Pseudomonas putida for efficient aromatic conversion to bioproduct using high throughput screening in a bioreactor | Metabolic Engineering | 66 229–238 |
| 2021 | 10.1038/s41396-021-00920-2 | Emmett, B. D., V. Lévesque-Tremblay and M. J. Harrison | Conserved and reproducible bacterial communities associate with extraradical hyphae of arbuscular mycorrhizal fungi | ISME Journal | 15(8) 2276-2288 |
| 2021 | 10.1038/s41467-021-25983-9 | Emerson, J. B., R. K. Varner, M. Wik, D. H. Parks, R. B. Neumann, et al. | Diverse sediment microbiota shape methane emission temperature sensitivity in Arctic lakes | Nature Communications | 12(1) |
| 2021 | 10.1093/nar/gkab990 | Eloe-Fadrosh, E. A., F. Ahmed, Anubhav, M. Babinski, J. Baumes, et al. | The National Microbiome Data Collaborative Data Portal: an integrated multi-omics microbiome data resource | Nucleic Acids Research | 50(D1) D828–36 |
| 2021 | 10.21769/BioProtoc.4156 | Ellis-Guardiola, K., J. Soule and R. T. Clubb | Methods for the extraction of heme prosthetic groups from hemoproteins | Bio-protocol | 11(18) |
| 2021 | 10.3389/fmicb.2020.607679 | Ellis-Guardiola, K., B. J. Mahoney and R. T. Clubb | NEAr Transporter (NEAT) Domains: Unique Surface Displayed Heme Chaperones That Enable Gram-Positive Bacteria to Capture Heme-Iron From Hemoglobin | Frontiers in Microbiology | 11 |
| 2021 | 10.1021/jacsau.0c00103 | Ellis, E. S., D. J. Hinchen, A. Bleem, L. Bu, S. J. B. Mallinson, et al. | Engineering a Cytochrome P450 for Demethylation of Lignin-Derived Aromatic Aldehydes | JACS Au | 1(3) 252–61 |
| 2021 | 10.3389/fpls.2021.642848 | Elder, T., J. Rencoret, J. C. del Río, H. Kim and J. Ralph | Radical Coupling Reactions of Hydroxystilbene Glucosides and Coniferyl Alcohol: A Density Functional Theory Study | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fgeed.2021.654996 | Eid, A., C. Mohan, S. Sanchez, D. Wang and F. Altpeter | Multiallelic, Targeted Mutagenesis of Magnesium Chelatase With CRISPR/Cas9 Provides a Rapidly Scorable Phenotype in Highly Polyploid Sugarcane | Frontiers in Genome Editing | 3 |
| 2021 | 10.1111/gcbb.12870 | Edmonds, P., K. J. Franz, E. A. Heaton, A. L. Kaleita, M. L. Soupir and A. VanLoocke | Planting miscanthus instead of row crops may increase the productivity and economic performance of farmed potholes | GCB Bioenergy | 13(9) 1481–97 |
| 2021 | 10.1002/csc2.20392 | Edmé, S. J., G. Sarath, N. Palmer, G. Y. Yuen, A. A. Muhle, R. Mitchell, S. Tatineni and C. Tobias | Genetic (co)variation and accuracy of selection for resistance to viral mosaic disease and production traits in an inter-ecotypic switchgrass breeding population | Crop Science | 61(3) 1652-1665 |
| 2021 | 10.1016/j.jinorgbio.2021.111496 | Eckert, P., A. Johs, J. D. Semrau, A. A. DiSpirito, J. Richardson, R. Sarangi, E. Herndon, B. Gu and E. M. Pierce | Spectroscopic and computational investigations of organometallic complexation of group 12 transition metals by methanobactins from Methylocystis sp. SB2 | Journal of Inorganic Biochemistry | 223 |
| 2021 | 10.1093/g3journal/jkab074 | Ecale Zhou, C. L., J. Kimbrel, R. Edwards, K. McNair, B. A. Souza and S. Malfatti | MultiPhATE2: code for functional annotation and comparison of phage genomes | G3 Genes|Genomes|Genetics | 11(5) |
| 2021 | 10.1007/s11104-021-05103-8 | Dykes, G. E., M. A. Limmer and A. L. Seyfferth | Silicon-rich soil amendments impact microbial community composition and the composition of arsM bearing microbes | Plant and Soil | 468(1) 147-164 |
| 2021 | 10.1128/mra.00178-21 | Dykes, G. E., C. S. Chan and A. L. Seyfferth | 16S rRNA Gene Amplicon Sequencing Data from Flooded Rice Paddy Mesocosms Treated with Different Silicon-Rich Soil Amendments | Microbiology Resource Announcements | 10(27) |
| 2021 | 10.1016/j.coviro.2021.10.011 | Dutilh, B. E., A. Varsani, Y. Tong, P. Simmonds, S. Sabanadzovic, et al. | Perspective on taxonomic classification of uncultivated viruses | Current Opinion in Virology | 51 207-215 |
| 2021 | 10.1038/s41596-021-00593-3 | Dukovski, I., D. Bajić, J. M. Chacón, M. Quintin, J. C. C. Vila, S. Sulheim, A. R. Pacheco, D. B. Bernstein, W. J. Riehl, K. S. Korolev, A. Sanchez, W. R. Harcombe and D. Segrè | A metabolic modeling platform for the computation of microbial ecosystems in time and space (COMETS) | Nature Protocols | 16(11) 5030–82 |
| 2021 | 10.1073/pnas.2021683118 | Drott, M. T., T. A. Rush, T. R. Satterlee, R. J. Giannone, P. E. Abraham, C. Greco, N. Venkatesh, J. M. Skerker, N. L. Glass, J. L. Labbé, M. G. Milgroom and N. P. Keller | Microevolution in the pansecondary metabolome of Aspergillus flavus and its potential macroevolutionary implications for filamentous fungi | Proceedings of the National Academy of Sciences | 118(21) e2021683118 |
| 2021 | 10.1016/j.hal.2021.102037 | Dreher, T. W., E. W. Davis, R. S. Mueller and T. G. Otten | Comparative genomics of the ADA clade within the Nostocales | Harmful Algae | 104 102037 |
| 2021 | 10.1093/oso/9780197534755.001.0001 | Drahos, P. | Survival governance: Energy and climate in the Chinese century | ||
| 2021 | 10.1128/MRA.00864-20 | Doyle, D. A., K. E. Duncan and R. S. Tanner | Genome Sequence of Clostridium sp. Strain P21, a CO-Fermenting Acetogen Isolated from Old Hay | Microbiology Resource Announcements | 10(11) |
| 2021 | 10.3389/feduc.2021.711535 | Dow, E. G., E. M. Wood-Charlson, S. J. Biller, T. Paustian, A. Schirmer, C. S. Sheik, J. M. Whitham, R. Krebs, C. C. Goller, B. Allen, Z. Crockett and A. P. Arkin | Bioinformatic Teaching Resources – For Educators, by Educators – Using KBase, a Free, User-Friendly, Open Source Platform | Frontiers in Education | 6 |
| 2021 | 10.1128/mSphere.01316-20 | Dove, N. C., A. M. Veach, W. Muchero, T. Wahl, J. C. Stegen, C. W. Schadt and M. A. Cregger | Assembly of the Populus Microbiome Is Temporally Dynamic and Determined by Selective and Stochastic Factors | mSphere | 6(3) e01316-20 |
| 2021 | 10.1038/s41467-021-22408-5 | Dove, N. C., M. S. Torn, S. C. Hart and N. Taş | Metabolic capabilities mute positive response to direct and indirect impacts of warming throughout the soil profile | Nature Communications | 12(1) 2089 |
| 2021 | 10.1111/nph.17248 | Dove, N. C., D. M. Klingeman, A. A. Carrell, M. A. Cregger and C. W. Schadt | Fire alters plant microbiome assembly patterns: integrating the plant and soil microbial response to disturbance | New Phytologist | 230(6) 2433–46 |
| 2021 | 10.1016/j.xpro.2021.101025 | Dorone, Y., S. Boeynaems and S. Y. Rhee | Live imaging Arabidopsis thaliana embryos under different hydration conditions | STAR Protocols | 2(4) |
| 2021 | 10.1016/j.cell.2021.06.009 | Dorone, Y., S. Boeynaems, E. Flores, B. Jin, S. Hateley, et al. | A prion-like protein regulator of seed germination undergoes hydration-dependent phase separation | Cell | 184(16) 4284-4298.e27 |
| 2021 | 10.1073/pnas.2004834117 | Dong, O. X. and P. C. Ronald | Targeted DNA insertion in plants | Proceedings of the National Academy of Sciences | 118(22) e2004834117 |
| 2021 | 10.1371/journal.pone.0240390 | Dong, H., L. V. Clark, X. Jin, K. Anzoua, L. Bagmet, et al. | Managing flowering time in Miscanthus and sugarcane to facilitate intra- and intergeneric crosses | PLoS One | 16(1) e0240390 |
| 2021 | 10.1002/bit.27896 | Dong, C., Z. Shi, L. Huang, H. Zhao, Z. Xu and J. Lian | Cloning and characterization of a panel of mitochondrial targeting sequences for compartmentalization engineering in Saccharomyces cerevisiae | Biotechnology and Bioengineering | 118(11) 4269–77 |
| 2021 | 10.1016/j.ymben.2021.03.005 | Dong, C., J. C. Schultz, W. Liu, J. Lian, L. Huang, Z. Xu and H. Zhao | Identification of novel metabolic engineering targets for S-adenosyl-L-methionine production in Saccharomyces cerevisiae via genome-scale engineering | Metabolic Engineering | 66 319-327 |
| 2021 | 10.1093/femsyr/foab002 | Domenzain, I., F. Li, E. J. Kerkhoven and V. Siewers | Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species | FEMS Yeast Research | 21(1) |
| 2021 | 10.1038/s41589-020-00729-8 | Dolberg, T. B., A. T. Meger, J. D. Boucher, W. K. Corcoran, E. E. Schauer, A. N. Prybutok, S. Raman and J. N. Leonard | Computation-guided optimization of split protein systems | Nature Chemical Biology | 17(5) 531–9 |
| 2021 | 10.1039/d0an02022b | Do, H., S. R. Kwon, S. Baek, C. S. Madukoma, M. K. Smiley, L. E. Dietrich, J. D. Shrout and P. W. Bohn | Redox cycling-based detection of phenazine metabolites secreted from Pseudomonas aeruginosa in nanopore electrode arrays | Analyst | 146(4) 1346–54 |
| 2021 | 10.3791/62852 | Dinglasan, J. L. N., D. T. Reeves, R. L. Hettich and M. J. Doktycz | Liquid Chromatography Coupled to Refractive Index or Mass Spectrometric Detection for Metabolite Profiling in Lysate-based Cell-free Systems | Journal of Visualized Experiments | (175) e62852 |
| 2021 | 10.1016/j.copbio.2021.05.010 | Ding, Y., T. R. Northen, A. Khalil, A. Huffaker and E. A. Schmelz | Getting back to the grass roots: harnessing specialized metabolites for improved crop stress resilience | Current Opinion in Biotechnology | 70 174–186 |
| 2021 | 10.1111/pce.13872 | Ding, N., R. Huertas, I. Torres-Jerez, W. Liu, B. Watson, W. R. Scheible and M. Udvardi | Transcriptional, metabolic, physiological and developmental responses of switchgrass to phosphorus limitation | Plant, Cell & Environment | 44(1) 186–202 |
| 2021 | 10.1111/tpj.15141 | DiMario, R. J., A. N. Kophs, V. S. Pathare, J. C. Schnable and A. B. Cousins | Kinetic variation in grass phosphoenolpyruvate carboxylases provides opportunity to enhance C4 photosynthetic efficiency | The Plant Journal | 105(6) 1677-1688 |
| 2021 | 10.7554/eLife.57088 | Dierschke, T., E. Flores-Sandoval, M. I. Rast-Somssich, F. Althoff, S. Zachgo and J. L. Bowman | Gamete expression of TALE class HD genes activates the diploid sporophyte program in Marchantia polymorpha | eLife | 10 e57088 |
| 2021 | 10.1093/nar/gkab765 | Dibaeinia, P. and S. Sinha | Deciphering enhancer sequence using thermodynamics-based models and convolutional neural networks | Nucleic Acids Research | 49(18) 10309–27 |
| 2021 | 10.3390/ijms222413199 | Di Costanzo, F., V. Di Dato, L. J. van Zyl, A. Cutignano, F. Esposito, M. Trindade and G. Romano | Three Novel Bacteria Associated with Two Centric Diatom Species from the Mediterranean Sea, Thalassiosira rotula and Skeletonema marinoi | International Journal of Molecular Sciences | 22(24) 13199 |
| 2021 | 10.1016/j.jplph.2021.153541 | Dhungana, S. R. and D. M. Braun | Sugar transporters in grasses: Function and modulation in source and storage tissues | Journal of Plant Physiology | 266 |
| 2021 | 10.3390/plants10020411 | Dewhirst, R. A., J. Lei, C. A. Afseth, C. Castanha, C. M. Wistrom, J. C. Mortimer and K. J. Jardine | Are Methanol-Derived Foliar Methyl Acetate Emissions a Tracer of Acetate-Mediated Drought Survival in Plants? | Plants | 10(2) 411 |
| 2021 | 10.1021/acsearthspacechem.0c00299 | Dewhirst, R. A., P. Handakumbura, C. S. Clendinen, E. Arm, K. Tate, W. Wang, N. M. Washton, R. P. Young, J. C. Mortimer, N. G. McDowell and K. J. Jardine | High Temperature Acclimation of Leaf Gas Exchange, Photochemistry, and Metabolomic Profiles in Populus trichocarpa | ACS Earth and Space Chemistry | 5(8) 1813–28 |
| 2021 | 10.3390/ijms22168843 | Devireddy, A. R., T. J. Tschaplinski, G. A. Tuskan, W. Muchero and J.-G. Chen | Role of Reactive Oxygen Species and Hormones in Plant Responses to Temperature Changes | International Journal of Molecular Sciences | 22(16) 8843 |
| 2021 | 10.1038/s41598-021-02180-8 | Destan, E., B. Yuksel, B. B. Tolar, E. Ayan, S. Deutsch, Y. Yoshikuni, S. Wakatsuki, C. A. Francis and H. DeMirci | Structural insights into bifunctional thaumarchaeal crotonyl-CoA hydratase and 3-hydroxypropionyl-CoA dehydratase from Nitrosopumilus maritimus | Scientific Reports | 11(1) 22849 |
| 2021 | 10.1016/j.csbj.2021.01.004 | Desmet, S., Y. Saeys, K. Verstaen, R. Dauwe, H. Kim, C. Niculaes, A. Fukushima, G. Goeminne, R. Vanholme, J. Ralph, W. Boerjan and K. Morreel | Maize specialized metabolome networks reveal organ-preferential mixed glycosides | Computational and Structural Biotechnology Journal | 19 1127–44 |
| 2021 | 10.1128/AEM.00286-21 | Dershwitz, P., N. L. Bandow, J. Yang, J. D. Semrau, M. T. McEllistrem, et al. | Oxygen generation via water splitting by a novel biogenic metal ion-binding compound | Applied and Environmental Microbiology | 87(14) 45671 |
| 2021 | 10.1038/s41565-021-00854-y | Demirer, G. S., T. N. Silva, C. T. Jackson, J. B. Thomas, D. W. Ehrhardt, S. Y. Rhee, J. C. Mortimer and M. P. Landry | Nanotechnology to advance CRISPR–Cas genetic engineering of plants | Nature Nanotechnology | 16(3) 243–50 |
| 2021 | 10.1016/j.jcat.2021.03.013 | Demir, B., T. Kropp, E. B. Gilcher, M. Mavrikakis and J. A. Dumesic | Effects of water on the kinetics of acetone hydrogenation over Pt and Ru catalysts | Journal of Catalysis | 403 215–27 |
| 2021 | 10.1021/acssynbio.0c00591 | Delorenzo, D. M., J. Diao, R. Carr, Y. Hu and T. S. Moon | An Improved CRISPR Interference Tool to Engineer Rhodococcus opacus | ACS Synthetic Biology | 10(4) 786-798 |
| 2021 | 10.1128/MRA.00060-21 | Dell’Anno, F., L. J. v. Zyl, M. Trindade, C. Brunet, A. Dell’Anno, A. Ianora and C. Sansone | Genome Sequence of an Alkaliphilus Species Isolated from Historically Contaminated Sediments of the Gulf of Naples (Mediterranean Sea) | Microbiology Resource Announcements | 10(11) e00060-21 |
| 2021 | 10.1093/g3journal/jkab210 | Dell’Anno, F., L. J. van Zyl, M. Trindade, C. Brunet, A. Dell’Anno, A. Ianora and C. Sansone | Metagenome-assembled genome (MAG) of Oceancaulis alexandrii NP7 isolated from Mediterranean Sea polluted marine sediments and its bioremediation potential | G3 Genes|Genomes|Genetics | 11(9) |
| 2021 | 10.1002/9781119545958.ch7 | del Río, J. C., J. Rencoret, A. Gutiérrez, W. Lan, H. Kim and J. Ralph | Lignin Monomers Derived from the Flavonoid and Hydroxystilbene Biosynthetic Pathways | Recent Advances in Polyphenol Research | 177–206 |
| 2021 | 10.1073/pnas.2017381118 | del Cerro, C., E. Erickson, T. Dong, A. R. Wong, E. K. Eder, et al. | Intracellular pathways for lignin catabolism in white-rot fungi | Proceedings of the National Academy of Sciences | 118(9) e2017381118 |
| 2021 | 10.1093/plphys/kiab546 | de Vries, L., H. A. MacKay, R. A. Smith, Y. Mottiar, S. D. Karlen, F. Unda, E. Muirragui, C. Bingman, K. Vander Meulen, E. T. Beebe, B. G. Fox, J. Ralph and S. D. Mansfield | pHBMT1, a BAHD-family monolignol acyltransferase, mediates lignin acylation in poplar | Plant Physiology | 188(2) 1014–1027 |
| 2021 | 10.1186/s13068-021-02010-z | de Vries, L., S. Guevara-Rozo, M. Cho, L.-Y. Liu, S. Renneckar and S. D. Mansfield | Tailoring renewable materials via plant biotechnology | Biotechnology for Biofuels | 14(1) 167 |
| 2021 | 10.1111/pbi.13651 | de Vries, L., M. Brouckaert, A. Chanoca, H. Kim, M. R. Regner, et al. | CRISPR-Cas9 editing of CAFFEOYL SHIKIMATE ESTERASE 1 and 2 shows their importance and partial redundancy in lignification in Populus tremula × P. alba | Plant Biotechnology Journal | 19(11) 2221–34 |
| 2021 | 10.1016/j.agee.2020.107150 | De Antoni Migliorati, M., W. J. Parton, M. J. Bell, W. Wang and P. R. Grace | Soybean fallow and nitrification inhibitors: Strategies to reduce N2O emission intensities and N losses in Australian sugarcane cropping systems | Agriculture, Ecosystems & Environment | 306 |
| 2021 | 10.1038/s41467-021-22736-6 | De Anda, V., L.-X. Chen, N. Dombrowski, Z.-S. Hua, H.-C. Jiang, J. F. Banfield, W.-J. Li and B. J. Baker | Brockarchaeota, a novel archaeal phylum with unique and versatile carbon cycling pathways | Nature Communications | 12(1) 2404 |
| 2021 | 10.1111/1462-2920.15752 | Dauphin, B., M. de Freitas Pereira, A. Kohler, I. V. Grigoriev, K. Barry, H. Na, M. Amirebrahimi, A. Lipzen, F. Martin, M. Peter and D. Croll | Cryptic genetic structure and copy-number variation in the ubiquitous forest symbiotic fungus Cenococcum geophilum | Environmental Microbiology | 23(11) 6536-6556 |
| 2021 | 10.1021/acssuschemeng.0c07925 | Das, L., E. C. Achinivu, C. A. Barcelos, E. Sundstrom, B. Amer, E. E. K. Baidoo, B. A. Simmons, N. Sun and J. M. Gladden | Deconstruction of Woody Biomass via Protic and Aprotic Ionic Liquid Pretreatment for Ethanol Production | ACS Sustainable Chemistry & Engineering | 9(12) 4422–32 |
| 2021 | 10.1016/j.cell.2021.05.002 | Danko, D., D. Bezdan, E. E. Afshin, S. Ahsanuddin, C. Bhattacharya, et al. | A global metagenomic map of urban microbiomes and antimicrobial resistance | Cell | 184(13) 3376-3393.e17 |
| 2021 | 10.3389/fpls.2021.687652 | Dale, R., S. Oswald, A. Jalihal, M.-F. LaPorte, D. M. Fletcher, A. Hubbard, S.-H. Shiu, A. D. L. Nelson and A. Bucksch | Overcoming the Challenges to Enhancing Experimental Plant Biology With Computational Modeling | Frontiers in Plant Science | 12 |
| 2021 | 10.1007/s11120-020-00806-y | Dahlgren, K. K., C. Gates, T. Lee and J. C. Cameron | Proximity-based proteomics reveals the thylakoid lumen proteome in the cyanobacterium Synechococcus sp. PCC 7002 | Photosynthesis Research | 147(2) 177–95 |
| 2021 | 10.1117/12.2576583 | D. Wang, L. P., D. Chen, S. Ly, T. Laurence, J. Lee, M. Ammons, P. K. Weber | Adaptive optics for imaging through soil minerals | SPIE Photonics West | 11652-4 |
| 2021 | 10.1093/molbev/msab111 | Cusack, S. A., P. Wang, S. G. Lotreck, B. M. Moore, F. Meng, J. K. Conner, P. J. Krysan, M. D. Lehti-Shiu and S.-H. Shiu | Predictive Models of Genetic Redundancy in Arabidopsis thaliana | Molecular Biology and Evolution | 38(8) 3397–414 |
| 2021 | 10.1016/bs.adioch.2021.02.003 | Cui, Y., S. L. Goes and S. S. Stahl | Sequential oxidation-depolymerization strategies for lignin conversion to low molecular weight aromatic chemicals | Advances in Inorganic Chemistry | 77 99–136 |
| 2021 | 10.3390/plants10081536 | Cui, Y., D. Chen, Y. Jiang, D. Xu, P. Balint-Kurti and G. Stacey | Variation in gene expression between two sorghum bicolor lines differing in innate immunity response | Plants | 10(8) |
| 2021 | 10.1038/s41598-021-99994-3 | Cuevas, H. E., C. M. Cruet-Burgos, L. K. Prom, J. E. Knoll, L. R. Stutts and W. Vermerris | The inheritance of anthracnose (Colletotrichum sublineola) resistance in sorghum differential lines QL3 and IS18760 | Scientific Reports | 11(1) |
| 2021 | 10.3389/fpls.2021.737690 | Crowe, J. D., P. Hao, S. Pattathil, H. Pan, S.-Y. Ding, D. B. Hodge and J. K. Jensen | Xylan Is Critical for Proper Bundling and Alignment of Cellulose Microfibrils in Plant Secondary Cell Walls | Frontiers in Plant Science | 12 |
| 2021 | 10.1128/MRA.00040-21 | Cross, K. L., F. Dewhirst and M. Podar | Complete Genome Sequence of Human Oral Actinomyces sp. HMT897 Strain ORNL0104, a Host of the Saccharibacterium (TM7) HMT351 | Microbiology Resource Announcements | 10(14) e00040-21 |
| 2021 | 10.1094/pbiomes-01-20-0009-fi | Cregger, M. A., D. L. Carper, S. Christel, M. J. Doktycz, J. Labbé, et al. | Plant–Microbe Interactions: From Genes to Ecosystems Using Populus as a Model System | Phytobiomes Journal | 5(1) 29–38 |
| 2021 | 10.1128/mra.00320-21 | Couceiro, J. F., T. Keller-Costa, M. Marques, N. C. Kyrpides, T. Woyke, W. B. Whitman and R. Costa | The Roseibium album (Labrenzia alba) Genome Possesses Multiple Symbiosis Factors Possibly Underpinning Host-Microbe Relationships in the Marine Benthos | Microbiology Resource Announcements | 10(34) |
| 2021 | 10.3389/fpls.2021.639769 | Coleman, H. D., A. M. Brunner and C.-J. Tsai | Synergies and Entanglement in Secondary Cell Wall Development and Abiotic Stress Response in Trees | Frontiers in Plant Science | 12 |
| 2021 | 10.1038/s41477-021-00915-z | Cole, B. J. and S. G. Tringe | Different threats, same response | Nature Plants | 7(5) 544-545 |
| 2021 | 10.1038/s42003-021-02477-4 | Cole, B., D. Bergmann, C. E. Blaby-Haas, I. K. Blaby, K. E. Bouchard, et al. | Plant single-cell solutions for energy and the environment | Communications Biology | 4(1) 962 |
| 2021 | 10.1080/19490976.2020.1869502 | Coker, J. K., O. Moyne, D. A. Rodionov and K. Zengler | Carbohydrates great and small, from dietary fiber to sialic acids: How glycans influence the gut microbiome and affect human health | Gut Microbes | 13(1) 45675 |
| 2021 | 10.1038/s41564-020-00814-7 | Cohen, N. R., M. R. McIlvin, D. M. Moran, N. A. Held, J. K. Saunders, N. J. Hawco, M. Brosnahan, G. R. DiTullio, C. Lamborg, J. P. McCrow, C. L. Dupont, A. E. Allen and M. A. Saito | Dinoflagellates alter their carbon and nutrient metabolic strategies across environmental gradients in the central Pacific Ocean | Nature Microbiology | 6(2) 173-186 |
| 2021 | 10.1038/s41592-021-01146-y | Cohen, A. E. | A new era of synchrotron-enabled macromolecular crystallography | Nature Methods | 18(5) 433-434 |
| 2021 | 10.1016/j.coviro.2021.05.003 | Coclet, C. and S. Roux | Global overview and major challenges of host prediction methods for uncultivated phages | Current Opinion in Virology | 49 117-126 |
| 2021 | 10.1128/msystems.00804-20 | Clum, A., M. Huntemann, B. Bushnell, B. Foster, B. Foster, et al. | DOE JGI Metagenome Workflow | mSystems | 6(3) |
| 2021 | 10.1016/j.isci.2021.102290 | Ciobanu, D., A. Clum, S. Ahrendt, W. B. Andreopoulos, A. Salamov, et al. | A single-cell genomics pipeline for environmental microbial eukaryotes | iScience | 24(4) 102290 |
| 2021 | 10.1016/j.jbc.2021.100431 | Chundawat, S. P. S., B. Nemmaru, M. Hackl, S. K. Brady, M. A. Hilton, M. M. Johnson, S. Chang, M. J. Lang, H. Huh, S.-H. Lee, J. M. Yarbrough, C. A. López and S. Gnanakaran | Molecular origins of reduced activity and binding commitment of processive cellulases and associated carbohydrate-binding proteins to cellulose III | Journal of Biological Chemistry | 296 100431 |
| 2021 | 10.1093/femsmc/xtab020 | Chuckran, P. F., B. A. Hungate, E. Schwartz and P. Dijkstra | Variation in genomic traits of microbial communities among ecosystems | FEMS Microbes | 2 xtab020 |
| 2021 | 10.1128/mSystems.00161-21 | Chuckran, P. F., V. Fofanov, B. A. Hungate, E. M. Morrissey, E. Schwartz, J. Walkup and P. Dijkstra | Rapid Response of Nitrogen Cycling Gene Transcription to Labile Carbon Amendments in a Soil Microbial Community | mSystems | 6(3) e00161-21 |
| 2021 | 10.1111/1751-7915.13790 | Chroumpi, T., M. Peng, M. V. Aguilar-Pontes, A. Müller, M. Wang, J. Yan, A. Lipzen, V. Ng, I. V. Grigoriev, M. R. Mäkelä and R. P. de Vries | Revisiting a ‘simple’ fungal metabolic pathway reveals redundancy, complexity and diversity | Microbial Biotechnology | 14(6) 2525-2537 |
| 2021 | 10.1038/s42255-021-00453-0 | Chou, A., S. H. Lee, F. Zhu, J. M. Clomburg and R. Gonzalez | An orthogonal metabolic framework for one-carbon utilization | Nature Metabolism | 3(10) 1385-1399 |
| 2021 | 10.1111/jpy.13132 | Chorazyczewski, A. M., I.-S. Huang, H. Abdulla, X. Mayali and P. V. Zimba | The Influence of Bacteria on the Growth, Lipid Production, and Extracellular Metabolite Accumulation by Phaeodactylum tricornutum (Bacillariophyceae) | Journal of Phycology | 57(3) 931–40 |
| 2021 | 10.1021/jasms.1c00013 | Choe, K., P. Xue, H. Zhao and J. V. Sweedler | macroMS: Image-Guided Analysis of Random Objects by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 32(5) 1180–8 |
| 2021 | 10.1186/s13068-021-02029-2 | Cho, J.-S., M.-H. Kim, E.-K. Bae, Y.-I. Choi, H.-W. Jeon, K.-H. Han and J.-H. Ko | Field evaluation of transgenic hybrid poplars with desirable wood properties and enhanced growth for biofuel production by bicistronic expression of PdGA20ox1 and PtrMYB3 in wood-forming tissue | Biotechnology for Biofuels | 14(1) 177 |
| 2021 | 10.3389/fmicb.2021.598180 | Chiniquy, D., E. M. Barnes, J. Zhou, K. Hartman, X. Li, A. Sheflin, A. Pella, E. Marsh, J. Prenni, A. M. Deutschbauer, D. P. Schachtman and S. G. Tringe | Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes | Frontiers in Microbiology | 12 |
| 2021 | 10.3389/fmicb.2021.598180 | Chiniquy, D., E. M. Barnes, J. Zhou, K. Hartman, X. Li, A. Sheflin, A. Pella, E. Marsh, J. Prenni, A. M. Deutschbauer, D. P. Schachtman and S. G. Tringe | Microbial Community Field Surveys Reveal Abundant Pseudomonas Population in Sorghum Rhizosphere Composed of Many Closely Related Phylotypes | Frontiers in Microbiology | 12 |
| 2021 | 10.1016/j.mib.2021.08.006 | Chiappino-Pepe, A., V. Pandey and O. Billker | Genome reconstructions of metabolism of Plasmodium RBC and liver stages | Current Opinion in Microbiology | 63 259-266 |
| 2021 | 10.1021/acssuschemeng.1c01629 | Cheng, M.-H., B. S. Dien, Y.-S. Jin, S. Thompson, J. Shin, P. J. Watson Slininger, N. Qureshi and V. Singh | Conversion of High-Solids Hydrothermally Pretreated Bioenergy Sorghum to Lipids and Ethanol Using Yeast Cultures | ACS Sustainable Chemistry & Engineering | 9(25) 8515–25 |
| 2021 | 10.1111/mec.15773 | Cheng, J., Y. Yang, M. M. Yuan, Q. Gao, L. Wu, Z. Qin, Z. J. Shi, E. A. G. Schuur, J. R. Cole, J. M. Tiedje and J. Zhou | Winter warming rapidly increases carbon degradation capacities of fungal communities in tundra soil: Potential consequences on carbon stability | Molecular Ecology | 30(4) 926-937 |
| 2021 | 10.1038/s41467-021-25678-1 | Chen, Y., Y. Wang, D. Paez-Espino, M. F. Polz and T. Zhang | Prokaryotic viruses impact functional microorganisms in nutrient removal and carbon cycle in wastewater treatment plants | Nature Communications | 12(1) 5398 |
| 2021 | 10.1038/s41598-021-90303-6 | Chen, X., J. Liu, Z. Guo, T. Wu, J. Hou and J. Cheng | Protein model accuracy estimation empowered by deep learning and inter-residue distance prediction in CASP14 | Scientific Reports | 11(1) |
| 2021 | 10.1016/j.xplc.2021.100215 | Chen, T.-C., M. Chern, M. Steinwand, D. Ruan, Y. Wang, A. Isharani and P. Ronald | Paladin, a tyrosine phosphatase-like protein, is required for XA21-mediated immunity in rice | Plant Communications | 2(4) 100215 |
| 2021 | 10.1099/ijsem.0.004801 | Chen, S., S. Zheng, D. Zhang, B. Hetharua, J. Gui, X. An and H. Xu | Isolation of Thalassobius mangrovi sp. nov., a novel bacterium in the family Rhodobacteraceae, from marine mangrove sediment | International Journal of Systematic and Evolutionary Microbiology | 71(5) |
| 2021 | 10.1029/2020MS002284 | Chen, P., Y. Yuan, W. Li, S. D. LeDuc, T. J. Lark, X. Zhang and C. Clark | Assessing the Impacts of Recent Crop Expansion on Water Quality in the Missouri River Basin Using the Soil and Water Assessment Tool | Journal of Advances in Modeling Earth Systems | 13(6) e2020MS002284 |
| 2021 | 10.1021/acs.nanolett.0c05038 | Chen, P., Y. Li, Y. Nishiyama, S. V. Pingali, H. M. O’Neill, Q. Zhang and L. A. Berglund | Small Angle Neutron Scattering Shows Nanoscale PMMA Distribution in Transparent Wood Biocomposites | Nano Letters | 21(7) 2883–90 |
| 2021 | 10.1038/s41592-021-01303-3 | Chen, L., W. Lu, L. Wang, X. Xing, Z. Chen, et al. | Metabolite discovery through global annotation of untargeted metabolomics data | Nature Methods | 18(11) 1377–85 |
| 2021 | 10.1088/1748-9326/abd7af | Chen, L., D. Debnath, J. Zhong, K. Ferin, A. VanLoocke and M. Khanna | The economic and environmental costs and benefits of the renewable fuel standard | Environmental Research Letters | 16(3) 034021 |
| 2021 | 10.1021/acs.est.0c06133 | Chen, L., E. Blanc-Betes, T. W. Hudiburg, D. Hellerstein, S. Wallander, E. H. DeLucia and M. Khanna | Assessing the Returns to Land and Greenhouse Gas Savings from Producing Energy Crops on Conservation Reserve Program Land | Environmental Science & Technology | 55(2) 1301–9 |
| 2021 | 10.3868/11-00559-001 | Chen, J. | Biophysical Models and Applications in Ecosystem Analysis | Michigan State University Press | |
| 2021 | 10.1093/nar/gkaa939 | Chen, I. A., K. Chu, K. Palaniappan, A. Ratner, J. Huang, et al. | The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities | Nucleic Acids Research | 49(D1) D751–63 |
| 2021 | 10.1186/s13068-020-01865-y | Chen, F., C. Zhuo, X. Xiao, T. H. Pendergast and K. M. Devos | A rapid thioacidolysis method for biomass lignin composition and tricin analysis | Biotechnology for Biofuels | 14(1) 18 |
| 2021 | 10.1002/prot.26052 | Chen, C., T. Wu, Z. Guo and J. Cheng | Combination of deep neural network with attention mechanism enhances the explainability of protein contact prediction | Proteins: Structure, Function and Bioinformatics | 89(6) 697-707 |
| 2021 | 10.1137/19m129961x | Chen, C., S. Reiz, C. D. Yu, H. J. Bungartz and G. Biros | Fast Approximation of the Gauss--Newton Hessian Matrix for the Multilayer Perceptron | SIAM Journal on Matrix Analysis and Applications | 42(1) 165–84 |
| 2021 | 10.1186/s12859-020-03952-1 | Chen, C., J. Hou, X. Shi, H. Yang, J. A. Birchler and J. Cheng | DeepGRN: prediction of transcription factor binding site across cell-types using attention-based deep neural networks | BMC Bioinformatics | 22(1) |
| 2021 | 10.1093/bioinformatics/btaa902 | Chen, C., J. Hou, X. Shi, H. Yang, J. A. Birchler and J. Cheng | GNET2: an R package for constructing gene regulatory networks from transcriptomic data | Bioinformatics | 37(14) 2068–9 |
| 2021 | 10.1073/pnas.2106480118 | Chen, C., V. S. Boorla, D. Banerjee, R. Chowdhury, V. S. Cavener, R. H. Nissly, A. Gontu, N. R. Boyle, K. Vandegrift, M. S. Nair, S. V. Kuchipudi and C. D. Maranas | Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2 | Proceedings of the National Academy of Sciences | 118(42) e2106480118 |
| 2021 | 10.1007/978-981-16-3595-3_6 | Chellappan, M. and M. T. Ranjith | Metagenomic Approaches for Insect Symbionts | Microbial Approaches for Insect Pest Management | 271–313 |
| 2021 | 10.1073/pnas.2101254118 | Chase, A. B., C. Weihe and J. B. H. Martiny | Adaptive differentiation and rapid evolution of a soil bacterium along a climate gradient | Proceedings of the National Academy of Sciences of the United States of America | 118(18) |
| 2021 | 10.1038/s41598-021-82607-4 | Chang, Y., D. A. Rochon, S. Sekimoto, Y. Wang, M. Chovatia, L. Sandor, A. Salamov, I. V. Grigoriev, J. E. Stajich and J. W. Spatafora | Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi | Scientific Reports | 11(1) 3217 |
| 2021 | 10.1128/AEM.02301-20 | Chang, J., D. D. Kim, J. D. Semrau, J. Y. Lee, H. Heo, W. Gu and S. Yoon | Enhancement of Nitrous Oxide Emissions in Soil Microbial Consortia via Copper Competition between Proteobacterial Methanotrophs and Denitrifiers | Applied and Environmental Microbiology | 87(5) 45672 |
| 2021 | 10.1039/d1gc02865k | Chang, H., M. S. Kim, G. W. Huber and J. A. Dumesic | Design of closed-loop recycling production of a Diels-Alder polymer from a biomass-derived difuran as a functional additive for polyurethanes | Green Chemistry | 23(23) 9479-9488 |
| 2021 | 10.1039/D1GC00311A | Chang, H., I. Bajaj, A. H. Motagamwala, A. Somasundaram, G. W. Huber, C. T. Maravelias and J. A. Dumesic | Sustainable production of 5-hydroxymethyl furfural from glucose for process integration with high fructose corn syrup infrastructure | Green Chemistry | 23(9) 3277–88 |
| 2021 | 10.1186/s13068-021-02033-6 | Chandrasekar, M., L. Joshi, K. Krieg, S. Chipkar, E. Burke, D. J. Debrauske, K. D. Thelen, T. K. Sato and R. G. Ong | A high solids field-to-fuel research pipeline to identify interactions between feedstocks and biofuel production | Biotechnology for Biofuels | 14(1) 179 |
| 2021 | 10.1111/pce.14004 | Chai, Y. N., Y. Ge, V. Stoerger and D. P. Schachtman | High-resolution phenotyping of sorghum genotypic and phenotypic responses to low nitrogen and synthetic microbial communities | Plant, Cell & Environment | 44(5) 1611-1626 |
| 2021 | 10.3390/cryst11101227 | Chai, L., P. Zhu, J. Chai, C. Pang, B. Andi, S. McSweeney, J. Shanklin and Q. Liu | AlphaFold Protein Structure Database for Sequence-Independent Molecular Replacement | Crystals | 11(10) 1227 |
| 2021 | 10.3390/s21041201 | Chacko, J. V., H. N. Lee, W. Wu, M. S. Otegui and K. W. Eliceiri | Hyperdimensional Imaging Contrast Using an Optical Fiber | Sensors (Basel) | 21(4) |
| 2021 | 10.1111/1462-2920.15785 | Cha, G., K. A. Meinhardt, L. H. Orellana, J. K. Hatt, M. W. Pannu, D. A. Stahl and K. T. Konstantinidis | The influence of alfalfa-switchgrass intercropping on microbial community structure and function | Environmental Microbiology | 23(11) 6828-6843 |
| 2021 | 10.1021/acssynbio.0c00471 | Cetnar, D. P. and H. M. Salis | Systematic quantification of sequence and structural determinants controlling mRNA stability in bacterial operons | ACS Synthetic Biology | 10(2) 318-332 |
| 2021 | 10.1186/s40168-021-01042-9 | Ceja-Navarro, J. A., Y. Wang, D. Ning, A. Arellano, L. Ramanculova, M. M. Yuan, A. Byer, K. D. Craven, M. C. Saha, E. L. Brodie, J. Pett-Ridge and M. K. Firestone | Protist diversity and community complexity in the rhizosphere of switchgrass are dynamic as plants develop | Microbiome | 9(1) |
| 2021 | 10.1002/ecs2.3638 | Cates, A. M., B. D. Wills, T. N. Kim, D. A. Landis, C. Gratton, H. W. Read and R. D. Jackson | No evidence of top-down effects by ants on litter decomposition in a temperate grassland | Ecosphere | 12(7) e03638 |
| 2021 | 10.1002/ppj2.20014 | Casto, A. L., H. Schuhl, J. C. Tovar, Q. Wang, R. S. Bart, N. Fahlgren and M. A. Gehan | Picturing the future of food | Plant Phenome Journal | 4(1) |
| 2021 | 10.1002/csc2.20609 | Casto, A. L., K. M. Murphy and M. A. Gehan | Coping with cold: Sorghum cold stress from germination to maturity | Crop Science | 61(6) 3894-3907 |
| 2021 | 10.1128/MRA.00759-21 | Castillo, D. J., M. W. V. Goethem and T. P. Makhalanyane | Three Draft Single-Cell Genome Sequences of Novel SAR324 Strains Isolated from the Abyssopelagic Southern Ocean | Microbiology Resource Announcements | 10(39) e00759-21 |
| 2021 | 10.1007/s12010-021-03594-w | Castaño, J. D., M. Zhou and J. Schilling | Towards an Understanding of Oxidative Damage in an α-L-Arabinofuranosidase of Trichoderma reesei: a Molecular Dynamics Approach | Applied Biochemistry and Biotechnology | 193(10) 3287-3300 |
| 2021 | 10.1128/mBio.02040-21 | Castaño, J., J. Zhang, M. Zhou, C. F. Tsai, J. Y. Lee, C. Nicora and J. Schilling | A fungal secretome adapted for stress enabled a radical wood decay mechanism | mBio | 12(4) |
| 2021 | 10.1007/s10664-021-09940-0 | Cashman, M., J. Firestone, M. B. Cohen, T. Thianniwet and W. Niu | An empirical investigation of organic software product lines | Empirical Software Engineering | 26(3) 44 |
| 2021 | 10.3389/fmicb.2021.791089 | Carruthers, D. N. and T. S. Lee | Diversifying Isoprenoid Platforms via Atypical Carbon Substrates and Non-model Microorganisms | Frontiers in Microbiology | 12 |
| 2021 | 10.1038/s41396-021-01136-0 | Carrell, A. A., D. Veličković, T. J. Lawrence, B. P. Bowen, K. B. Louie, et al. | Novel metabolic interactions and environmental conditions mediate the boreal peatmoss-cyanobacteria mutualism | The ISME Journal | 16(4) 1074-1085 |
| 2021 | 10.1128/mSystems.01306-20 | Carper, D. L., D. J. Weston, A. Barde, C. M. Timm, T.-Y. Lu, et al. | Cultivating the Bacterial Microbiota of Populus Roots | mSystems | 6(3) e01306-20 |
| 2021 | 10.1038/s41396-021-00921-1 | Carim, S., A. L. Azadeh, A. E. Kazakov, M. N. Price, P. J. Walian, L. M. Lui, T. N. Nielsen, R. Chakraborty, A. M. Deutschbauer, V. K. Mutalik and A. P. Arkin | Systematic discovery of pseudomonad genetic factors involved in sensitivity to tailocins | The ISME Journal | 15(8) 2289–305 |
| 2021 | 10.1126/sciadv.abh2488 | Carey, S. B., J. Jenkins, J. T. Lovell, F. Maumus, A. Sreedasyam, et al. | Gene-rich UV sex chromosomes harbor conserved regulators of sexual development | Science Advances | 7(27) eabh2488 |
| 2021 | 10.1038/s41594-021-00646-x | Cao, Q., D. R. Boyer, M. R. Sawaya, R. Abskharon, L. Saelices, B. A. Nguyen, J. Lu, K. A. Murray, F. Kandeel and D. S. Eisenberg | Cryo-EM structures of hIAPP fibrils seeded by patient-extracted fibrils reveal new polymorphs and conserved fibril cores | Nature Structural and Molecular Biology | 28(9) 724-730 |
| 2021 | 10.1016/j.copbio.2021.01.005 | Candry, P. and R. Ganigué | Chain elongators, friends, and foes | Current Opinion in Biotechnology | 67 99-110 |
| 2021 | 10.1146/annurev-biodatasci-012221-095114 | Call, L., S. Nayfach and N. C. Kyrpides | Illuminating the Virosphere Through Global Metagenomics | Annual Review of Biomedical Data Science | 4(4) 369-391 |
| 2021 | 10.1038/s42003-021-01859-y | Calhoun, S., T. A. S. Bell, L. R. Dahlin, Y. Kunde, K. LaButti, et al. | A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology | Communications Biology | 4(1) 333 |
| 2021 | 10.3389/fmicb.2021.679894 | Čadež, N., N. Bellora, R. Ulloa, M. Tome, H. Petković, M. Groenewald, C. T. Hittinger and D. Libkind | Hanseniaspora smithiae sp. nov., a Novel Apiculate Yeast Species From Patagonian Forests That Lacks the Typical Genomic Domestication Signatures for Fermentative Environments | Frontiers in Microbiology | 12 |
| 2021 | 10.1073/pnas.2022982118 | Busta, L., E. Schmitz, D. K. Kosma, J. C. Schnable and E. B. Cahoon | A co-opted steroid synthesis gene, maintained in sorghum but not maize, is associated with a divergence in leaf wax chemistry | Proceedings of the National Academy of Sciences of the United States of America | 118(12) |
| 2021 | 10.1093/nar/gkaa1038 | Burley, S. K., C. Bhikadiya, C. Bi, S. Bittrich, L. Chen, et al. | RCSB Protein Data Bank: Powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences | Nucleic Acids Research | 49(1) D437-D451 |
| 2021 | 10.1016/j.str.2021.04.010 | Burley, S. K. and H. M. Berman | Open-access data: A cornerstone for artificial intelligence approaches to protein structure prediction | Structure | 29(6) 515-520 |
| 2021 | 10.1016/j.jbc.2021.100559 | Burley, S. K. | Impact of structural biologists and the Protein Data Bank on small-molecule drug discovery and development | Journal of Biological Chemistry | 296 |
| 2021 | 10.3390/ijms22062845 | Burjoski, V. and A. S. N. Reddy | The landscape of rna-protein interactions in plants: Approaches and current status | International Journal of Molecular Sciences | 22(6) 45683 |
| 2021 | 10.3390/genes12101609 | Bueno de Mesquita, C. P., J. Zhou, S. M. Theroux and S. G. Tringe | Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern | Genes | 12(10) 1609 |
| 2021 | 10.1021/acssuschemeng.0c08829 | Brunner, M., S. Imberti, B. A. Simmons, G. G. Warr and R. Atkin | Liquid Nanostructure of Cholinium Argininate Biomass Solvents | ACS Sustainable Chemistry & Engineering | 9(7) 2880–90 |
| 2021 | 10.1016/j.jpdc.2020.11.006 | Brunn, M., N. Himthani, G. Biros, M. Mehl and A. Mang | Fast GPU 3D diffeomorphic image registration | Journal of Parallel and Distributed Computing | 149 149–62 |
| 2021 | 10.1016/j.tig.2021.04.011 | Bruckbauer, S. T. and M. M. Cox | Experimental evolution of extremophile resistance to ionizing radiation | Trends in Genetics | 37(9) 830-845 |
| 2021 | 10.1186/s13068-021-02083-w | Brown, J. L., C. L. Swift, S. J. Mondo, S. Seppala, A. Salamov, et al. | Co‑cultivation of the anaerobic fungus Caecomyces churrovis with Methanobacterium bryantii enhances transcription of carbohydrate binding modules, dockerins, and pyruvate formate lyases on specific substrates | Biotechnology for Biofuels | 14(1) 234 |
| 2021 | 10.1186/s13068-021-02083-w | Brown, J. L., C. L. Swift, S. J. Mondo, S. Seppala, A. Salamov, et al. | Co‑cultivation of the anaerobic fungus Caecomyces churrovis with Methanobacterium bryantii enhances transcription of carbohydrate binding modules, dockerins, and pyruvate formate lyases on specific substrates | Biotechnology for Biofuels | 14(1) |
| 2021 | 10.1128/mra.00495-21 | Brown, I., S. G. Tringe, N. Ivanova, L. Goodwin, N. Shapiro, J. Alcorta, D. Pan, A. Chistoserdov, S. Sarkisova and T. Woyke | High-Quality Draft Genome Sequence of the Siderophilic and Thermophilic Leptolyngbyaceae Cyanobacterium JSC-12 | Microbiology Resource Announcements | 10(25) 10.1128/mra.00495-21 |
| 2021 | 10.1128/mSystems.00835-21 | Brisson, V., X. Mayali, B. Bowen, A. Golini, M. Thelen, R. K. Stuart and T. R. Northen | Identification of Effector Metabolites Using Exometabolite Profiling of Diverse Microalgae | mSystems | 6(6) e00835-21 |
| 2021 | 10.1128/MRA.01427-20 | Bridges, C. M., M. C. Nelson, J. Graf and D. J. Gage | Draft Genome Sequences of Dysgonomonas sp. Strains BGC7 and HGC4, Isolated from the Hindgut of a Lower Termite | Microbiology Resource Announcements | 10(4) e01427-20 |
| 2021 | 10.1128/MRA.00079-21 | Bridges, C. M. and D. J. Gage | Draft Genome Sequences of Dysgonomonas sp. Strains GY75 and GY617, Isolated from the Hindgut of Reticulitermes flavipes | Microbiology Resource Announcements | 10(12) e00079-21 |
| 2021 | 10.1097/ebp.0000000000001228 | Brewington, J., J. Cloud, C. Johansson, D. Olson and J. Smiley | In patients with Clostridium difficile infection, is fecal microbiota transplant better than vancomycin for resolving diarrhea? | Evidence-Based Practice | 24(10) 39–40 |
| 2021 | 10.1002/biot.202100237 | Brant, E. J., M. C. Baloglu, A. Parikh and F. Altpeter | CRISPR/Cas9 mediated targeted mutagenesis of LIGULELESS-1 in sorghum provides a rapidly scorable phenotype by altering leaf inclination angle | Biotechnology Journal | 16(11) 2100237 |
| 2021 | 10.1039/D1GC01591E | Brandner, D. G., J. S. Kruger, N. E. Thornburg, G. G. Facas, J. K. Kenny, et al. | Flow-through solvolysis enables production of native-like lignin from biomass | Green Chemistry | 23(15) 5437–41 |
| 2021 | 10.1186/s12864-021-07957-9 | Braga, L. P. P., R. V. Pereira, L. F. Martins, L. M. S. Moura, F. B. Sanchez, J. S. L. Patané, A. M. da Silva and J. C. Setubal | Genome-resolved metagenome and metatranscriptome analyses of thermophilic composting reveal key bacterial players and their metabolic interactions | BMC Genomics | 22(1) 652 |
| 2021 | 10.1007/s10533-021-00789-5 | Bradford, M. A., S. A. Wood, E. T. Addicott, E. P. Fenichel, N. Fields, J. González-Rivero, F. V. Jevon, D. S. Maynard, E. E. Oldfield, A. Polussa, E. B. Ward and W. R. Wieder | Quantifying microbial control of soil organic matter dynamics at macrosystem scales | Biogeochemistry | 156(1) 19-40 |
| 2021 | 10.1094/pbiomes-07-20-0051-r | Bowsher, A. W., G. M. N. Benucci, G. Bonito and A. Shade | Seasonal Dynamics of Core Fungi in the Switchgrass Phyllosphere, and Co-Occurrence with Leaf Bacteria | Phytobiomes Journal | 5(1) 60–68 |
| 2021 | 10.3389/fmars.2021.593566 | Bowman, J. S., B. A. S. Van Mooy, D. P. Lowenstein, H. F. Fredricks, C. M. Hansel, R. Gast, J. R. Collins, N. Couto and H. W. Ducklow | Whole Community Metatranscriptomes and Lipidomes Reveal Diverse Responses Among Antarctic Phytoplankton to Changing Ice Conditions | Frontiers in Marine Science | 8 |
| 2021 | 10.1073/pnas.2106818118 | Bowman, E. K., J. M. Wagner, S.-F. Yuan, M. Deaner, C. M. Palmer, S. D’Oelsnitz, L. Cordova, X. Li, F. F. Craig and H. S. Alper | Sorting for secreted molecule production using a biosensor-in-microdroplet approach | Proceedings of the National Academy of Sciences | 118(36) e2106818118 |
| 2021 | 10.1038/s41396-021-01178-4 | Bowers, R. M., S. Nayfach, F. Schulz, S. P. Jungbluth, I. A. Ruhl, A. Sheremet, J. Lee, D. Goudeau, E. A. Eloe-Fadrosh, R. Stepanauskas, R. R. Malmstrom, N. C. Kyrpides, P. F. Dunfield and T. Woyke | Dissecting the dominant hot spring microbial populations based on community-wide sampling at single-cell genomic resolution | The ISME Journal | 16(5) 1337-1347 |
| 2021 | 10.3389/fmars.2021.611937 | Bourbonnais, A., C. Frey, X. Sun, L. A. Bristow, A. Jayakumar, N. E. Ostrom, K. L. Casciotti and B. B. Ward | Protocols for Assessing Transformation Rates of Nitrous Oxide in the Water Column | Frontiers in Marine Science | 8 |
| 2021 | 10.1128/MRA.01485-20 | Borre, I. and E. C. Sonnenschein | Draft Genome Sequences of Nine Environmental Bacterial Isolates Colonizing Plastic | Microbiology Resource Announcements | 10(11) e01485-20 |
| 2021 | 10.1002/tpg2.20114 | Bornowski, N., K. J. Michel, J. P. Hamilton, S. Ou, A. S. Seetharam, et al. | Genomic variation within the maize stiff-stalk heterotic germplasm pool | Plant Genome | 14(3) |
| 2021 | 10.3389/fenrg.2021.781552 | Bomble, Y. J. and M. C. Jewett | Editorial: Cell Free Biocatalysis for the Production of Bioproducts | Frontiers in Energy Research | 9 |
| 2021 | 10.1038/s43705-021-00083-3 | Bolduc, B., O. Zablocki, J. Guo, A. A. Zayed, D. Vik, P. Dehal, E. M. Wood-Charlson, A. Arkin, N. Merchant, J. Pett-Ridge, S. Roux, M. Vaughn and M. B. Sullivan | iVirus 2.0: Cyberinfrastructure-supported tools and data to power DNA virus ecology | ISME Communications | 1(1) 77 |
| 2021 | 10.1002/cbic.202000452 | Bogart, J. W., M. D. Cabezas, B. Vögeli, D. A. Wong, A. S. Karim and M. C. Jewett | Cell-Free Exploration of the Natural Product Chemical Space | ChemBioChem | 22(1) 84-91 |
| 2021 | 10.1186/s40168-021-01119-5 | Boeuf, D., J. M. Eppley, D. R. Mende, R. R. Malmstrom, T. Woyke and E. F. DeLong | Metapangenomics reveals depth-dependent shifts in metabolic potential for the ubiquitous marine bacterial SAR324 lineage | Microbiome | 9(1) 172 |
| 2021 | 10.1186/s40168-020-00983-x | Blaustein, R. A., L. M. Michelitsch, A. J. Glawe, H. Lee, S. Huttelmaier, N. Hellgeth, S. Ben Maamar and E. M. Hartmann | Toothbrush microbiomes feature a meeting ground for human oral and environmental microbiota | Microbiome | 9(1) 32 |
| 2021 | 10.1111/gcbb.12757 | Blanc-Betes, E., I. B. Kantola, N. Gomez-Casanovas, M. D. Hartman, W. J. Parton, A. L. Lewis, D. J. Beerling and E. H. DeLucia | In silico assessment of the potential of basalt amendments to reduce N2O emissions from bioenergy crops | GCB Bioenergy | 13(1) 224–41 |
| 2021 | 10.1073/pnas.2100281118 | Blaby-Haas, C. E. | Cyanobacteria provide a new paradigm in the regulation of cofactor dependence | Proceedings of the National Academy of Sciences | 118(7) e2100281118 |
| 2021 | 10.1038/s41592-021-01100-y | Biswas, S., G. Khimulya, E. C. Alley, K. M. Esvelt and G. M. Church | Low-N protein engineering with data-efficient deep learning | Nature Methods | 18(4) 389-396 |
| 2021 | 10.1111/1758-2229.12943 | Bing, R. G., D. B. Sulis, J. P. Wang, M. W. W. Adams and R. M. Kelly | Thermophilic microbial deconstruction and conversion of natural and transgenic lignocellulose | Environmental Microbiology Reports | 13(3) 272-293 |
| 2021 | 10.1371/journal.pone.0248607 | Bible, A. N., M. Chang and J. L. Morrell-Falvey | Identification of a diguanylate cyclase expressed in the presence of plants and its application for discovering candidate gene products involved in plant colonization by Pantoea sp. YR343 | PLoS ONE | 16(7) e0248607 |
| 2021 | 10.1128/MRA.00884-20 | Bhattacharjee, A., L. N. Anderson, T. Alfaro, A. Porras-Alfaro, A. Jumpponen, K. S. Hofmockel, J. K. Jansson, C. R. Anderton and W. C. Nelson | Draft Genome Sequence of Fusarium sp. Strain DS 682, a Novel Fungal Isolate from the Grass Rhizosphere | Microbiology Resource Announcements | 10(1) e00884-20 |
| 2021 | 10.1016/j.scitotenv.2020.144429 | Bhatia, S. K., S. S. Jagtap, A. A. Bedekar, R. K. Bhatia, K. Rajendran, A. Pugazhendhi, C. V. Rao, A. E. Atabani, G. Kumar and Y. H. Yang | Renewable biohydrogen production from lignocellulosic biomass using fermentation and integration of systems with other energy generation technologies | Science of the Total Environment | 765 144429 |
| 2021 | 10.1021/acssuschemeng.1c05441 | Bhagwat, S. S., Y. Li, Y. R. Cortés-Peña, E. C. Brace, T. A. Martin, H. Zhao and J. S. Guest | Sustainable Production of Acrylic Acid via 3-Hydroxypropionic Acid from Lignocellulosic Biomass | ACS Sustainable Chemistry & Engineering | 9(49) 16659–69 |
| 2021 | 10.1021/acssuschemeng.0c04240 | Berstis, L., T. Elder, R. Dixon, M. Crowley and G. T. Beckham | Coupling of Flavonoid Initiation Sites with Monolignols Studied by Density Functional Theory | ACS Sustainable Chemistry & Engineering | 9(4) 1518–28 |
| 2021 | 10.1016/j.ohx.2021.e00208 | Berry, T. D., C. Creelman, N. Nickerson, A. Enders and T. Whitman | An open-source, automated, gas sampling peripheral for laboratory incubation experiments using cavity ring-down spectroscopy | HardwareX | 10 |
| 2021 | 10.1186/s13059-021-02289-z | Bernstein, D. B., S. Sulheim, E. Almaas and D. Segrè | Addressing uncertainty in genome-scale metabolic model reconstruction and analysis | Genome Biology | 22(1) 64 |
| 2021 | 10.1186/s13068-020-01867-w | Beri, D., C. D. Herring, S. Blahova, S. Poudel, R. J. Giannone, R. L. Hettich and L. R. Lynd | Coculture with hemicellulose-fermenting microbes reverses inhibition of corn fiber solubilization by Clostridium thermocellum at elevated solids loadings | Biotechnology for Biofuels | 14(1) 24 |
| 2021 | 10.1038/s41579-021-00574-z | Berg, M. and S. Roux | Extreme dimensions — how big (or small) can tailed phages be? | Nature Reviews Microbiology | 19(7) 407 |
| 2021 | 10.1038/s41396-020-00870-1 | Berg, M., D. Goudeau, C. Olmsted, K. D. McMahon, S. Yitbarek, J. L. Thweatt, D. A. Bryant, E. A. Eloe-Fadrosh, R. R. Malmstrom and S. Roux | Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions | The ISME Journal | 15(6) 1569-1584 |
| 2021 | 10.1038/s41598-021-91394-x | Benedict, A. B., P. Ghosh, S. M. Scott and J. S. Griffitts | A conserved rhizobial peptidase that interacts with host-derived symbiotic peptides | Scientific Reports | 11(1) 11779 |
| 2021 | 10.1002/agg2.20214 | Bendorf, J., S. Hubbard, C. J. Kucharik and A. VanLoocke | Rapid changes in agricultural land use and hydrology in the Driftless Region | Agrosystems, Geosciences & Environment | 4(4) e20214 |
| 2021 | 10.1098/rspb.2021.0621 | Bell-Dereske, L. P. and S. E. Evans | Contributions of environmental and maternal transmission to the assembly of leaf fungal endophyte communities | Proceedings of the Royal Society B: Biological Sciences | 288(1956) 20210621 |
| 2021 | 10.5194/soil-7-47-2021 | Belanger, M. A., C. Vizza, G. P. Robertson and S. S. Roley | Quantifying and correcting for pre-assay CO2 loss in short-term carbon mineralization assays | SOIL | 7(1) 47–52 |
| 2021 | 10.1128/mSystems.00906-21 | Beach, N. K., K. S. Myers, B. R. Owen, M. Seib, T. J. Donohue and D. R. Noguera | Exploring the Meta-regulon of the CRP/FNR Family of Global Transcriptional Regulators in a Partial-Nitritation Anammox Microbiome | mSystems | 6(5) e00906-21 |
| 2021 | 10.1038/s41592-021-01312-2 | Baumgart, L. A., J. E. Lee, A. Salamov, D. J. Dilworth, H. Na, M. Mingay, M. J. Blow, Y. Zhang, Y. Yoshinaga, C. G. Daum and R. C. O’Malley | Persistence and plasticity in bacterial gene regulation | Nature Methods | 18(12) 1499-1505 |
| 2021 | 10.1371/journal.ppat.1009223 | Bauer, S., D. Yu, A. W. Lawson, I. M. L. Saur, L. Frantzeskakis, B. Kracher, E. Logemann, J. Chai, T. Maekawa and P. Schulze-Lefert | The leucine-rich repeats in allelic barley MLA immune receptors define specificity towards sequence-unrelated powdery mildew avirulence effectors with a predicted common RNase-like fold | PLOS Pathogens | 17(2) e1009223 |
| 2021 | 10.1021/acs.biochem.1c00613 | Bathe, U., B. J. Leong, D. R. McCarty, C. S. Henry, P. E. Abraham, M. A. Wilson and A. D. Hanson | The Moderately (D)efficient Enzyme: Catalysis-Related Damage In Vivo and Its Repair | Biochemistry | 60(47) 3555–65 |
| 2021 | 10.1093/plcell/koaa016 | Bastiaanse, H., I. M. Henry, H. Tsai, M. Lieberman, C. Canning, L. Comai and A. Groover | A systems genetics approach to deciphering the effect of dosage variation on leaf morphology in Populus | Plant Cell | 33(4) 940-960 |
| 2021 | 10.1038/s41467-021-21763-7 | Basso, B., R. A. Martinez-Feria, L. Rill and J. T. Ritchie | Contrasting long-term temperature trends reveal minor changes in projected potential evapotranspiration in the US Midwest | Nature Communications | 12(1) 1476 |
| 2021 | 10.1016/j.agsy.2021.103244 | Basso, B., J. W. Jones, J. Antle, R. A. Martinez-Feria and B. Verma | Enabling circularity in grain production systems with novel technologies and policy | Agricultural Systems | 193 103244 |
| 2021 | 10.1038/s43016-021-00283-z | Basso, B. | Precision conservation for a changing climate | Nature Food | 2(5) 322–3 |
| 2021 | 10.1039/D1EE01642C | Bartling, A. W., M. L. Stone, R. J. Hanes, A. Bhatt, Y. Zhang, et al. | Techno-economic analysis and life cycle assessment of a biorefinery utilizing reductive catalytic fractionation | Energy & Environmental Science | 14(8) 4147–68 |
| 2021 | 10.1089/crispr.2021.29126.rba | Barrangou, R. | The CRISPR Chronicles and the Power of Storytelling | The CRISPR Journal | 4(2) 158–9 |
| 2021 | 10.1073/pnas.2115292118 | Barnett, S. E., N. D. Youngblut, C. N. Koechli and D. H. Buckley | Multisubstrate DNA stable isotope probing reveals guild structure of bacteria that mediate soil carbon cycling | Proceedings of the National Academy of Sciences of the United States of America | 118(47) |
| 2021 | 10.1021/acssuschemeng.0c07920 | Barcelos, C. A., A. M. Oka, J. Yan, L. Das, E. C. Achinivu, et al. | High-Efficiency Conversion of Ionic Liquid-Pretreated Woody Biomass to Ethanol at the Pilot Scale | ACS Sustainable Chemistry & Engineering | 9(11) 4042–53 |
| 2021 | 10.1111/1365-2656.13541 | Barbour, M. A. and J. P. Gibert | Genetic and plastic rewiring of food webs under climate change | Journal of Animal Ecology | 90(8) 1814-1830 |
| 2021 | 10.1021/acssuschemeng.1c03772 | Baral, N. R., M. Yang, B. G. Harvey, B. A. Simmons, A. Mukhopadhyay, T. S. Lee and C. D. Scown | Production Cost and Carbon Footprint of Biomass-Derived Dimethylcyclooctane as a High-Performance Jet Fuel Blendstock | ACS Sustainable Chemistry & Engineering | 9(35) 11872–82 |
| 2021 | 10.1016/j.jclepro.2020.123593 | Baral, N. R., Z. D. Asher, D. Trinko, E. Sproul, C. Quiroz-Arita, J. C. Quinn and T. H. Bradley | Biomass feedstock transport using fuel cell and battery electric trucks improves lifecycle metrics of biofuel sustainability and economy | Journal of Cleaner Production | 279 123593 |
| 2021 | 10.3389/fbioe.2021.766674 | Banerjee, D., T. Eng, Y. Sasaki, A. Srinivasan, A. Oka, R. A. Herbert, J. Trinh, V. R. Singan, N. Sun, D. Putnam, C. D. Scown, B. Simmons and A. Mukhopadhyay | Genomics Characterization of an Engineered Corynebacterium glutamicum in Bioreactor Cultivation Under Ionic Liquid Stress | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.3389/fbioe.2021.766674 | Banerjee, D., T. Eng, Y. Sasaki, A. Srinivasan, A. Oka, R. A. Herbert, J. Trinh, V. R. Singan, N. Sun, D. Putnam, C. D. Scown, B. Simmons and A. Mukhopadhyay | Genomics Characterization of an Engineered Corynebacterium glutamicum in Bioreactor Cultivation Under Ionic Liquid Stress | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1128/mbio.03408-21 | Bandyopadhyay, A., Z. Ye, Z. Benedikty, M. Trtilek and H. B. Pakrasi | Antenna Modification Leads to Enhanced Nitrogenase Activity in a High Light-Tolerant Cyanobacterium | mBio | 12(6) |
| 2021 | 10.1002/cpz1.153 | Balasubramanian, V. K., S. O. Purvine, Y. Liang, R. T. Kelly, L. Pasa-Tolic, W. B. Chrisler, E. Blumwald, C. N. Stewart, Y. Zhu and A. H. Ahkami | Cell-Type-Specific Proteomics Analysis of a Small Number of Plant Cells by Integrating Laser Capture Microdissection with a Nanodroplet Sample Processing Platform | Current Protocols | 1(5) |
| 2021 | 10.1094/pbiomes-09-19-0050-fi | Bahulikar, R. A., S. R. Chaluvadi, I. Torres-Jerez, J. Mosali, J. L. Bennetzen and M. Udvardi | Nitrogen Fertilization Reduces Nitrogen Fixation Activity of Diverse Diazotrophs in Switchgrass Roots | Phytobiomes Journal | 5(1) 80–7 |
| 2021 | 10.1093/plcell/koaa021 | Baetsen-Young, A., H. Chen, S. H. Shiu and B. Day | Contrasting transcriptional responses to Fusarium virguliforme colonization in symptomatic and asymptomatic hosts | The Plant Cell | 33(2) 224–47 |
| 2021 | 10.1002/bit.27603 | Badr, K., W. Whelan, Q. P. He and J. Wang | Fast and easy quantitative characterization of methanotroph–photoautotroph cocultures | Biotechnology and Bioengineering | 118(2) 703-714 |
| 2021 | 10.1038/s41396-021-00989-9 | Bachy, C., C. C. M. Yung, D. M. Needham, M. C. Gazitúa, S. Roux, A. J. Limardo, C. J. Choi, D. M. Jorgens, M. B. Sullivan and A. Z. Worden | Viruses infecting a warm water picoeukaryote shed light on spatial co-occurrence dynamics of marine viruses and their hosts | The ISME Journal | 15(11) 3129-3147 |
| 2021 | 10.1007/s00425-021-03718-w | Babst, B. A., A. Karve, A. Sementilli, I. Dweikat and D. M. Braun | Physiology and whole-plant carbon partitioning during stem sugar accumulation in sweet dwarf sorghum | Planta | 254(4) |
| 2021 | 10.1128/MRA.00954-20 | Babalola, O. O., R. R. Molefe and A. E. Amoo | Metagenome Assembly and Metagenome-Assembled Genome Sequences from the Rhizosphere of Maize Plants in Mafikeng, South Africa | Microbiology Resource Announcements | 10(8) e00954-20 |
| 2021 | 10.1128/MRA.00029-21 | Babalola, O. O., O. A. Fasusi, A. E. Amoo and A. S. Ayangbenro | Draft Genomic Analysis of Pseudomonas sp. Strain OA3, a Potential Plant Growth-Promoting Rhizospheric Bacterium | Microbiology Resource Announcements | 10(11) e00029-21 |
| 2021 | 10.1016/j.rhisph.2021.100342 | Babalola, O. O., O. A. Fasusi, A. E. Amoo and A. S. Ayangbenro | Genomic analysis of a Pseudomonas strain with multiple plant growth promoting properties | Rhizosphere | 18 100342 |
| 2021 | 10.1128/MRA.00482-21 | Babalola, O. O., B. S. Adeleke and A. S. Ayangbenro | Draft Genome Sequencing of Stenotrophomonas indicatrix BOVIS40 and Stenotrophomonas maltophilia JVB5, Two Strains with Identifiable Genes Involved in Plant Growth Promotion | Microbiology Resource Announcements | 10(28) e00482-21 |
| 2021 | 10.1038/s41467-021-21449-0 | Azeez, A., Y. C. Zhao, R. K. Singh, Y. S. Yordanov, M. Dash, P. Miskolczi, K. Stojkovič, S. H. Strauss, R. P. Bhalerao and V. B. Busov | EARLY BUD-BREAK 1 and EARLY BUD-BREAK 3 control resumption of poplar growth after winter dormancy | Nature Communications | 12(1) |
| 2021 | 10.1038/s41467-021-25950-4 | Avila-Magaña, V., B. Kamel, M. DeSalvo, K. Gómez-Campo, S. Enríquez, H. Kitano, R. V. Rohlfs, R. Iglesias-Prieto and M. Medina | Elucidating gene expression adaptation of phylogenetically divergent coral holobionts under heat stress | Nature Communications | 12(1) 5731 |
| 2021 | 10.1128/MRA.01411-20 | Ateba, T. P., K. A. Alayande and M. Mwanza | Metagenomes and Assembled Genomes from Diarrhea-Affected Cattle (Bos taurus) | Microbiology Resource Announcements | 10(7) e01411-20 |
| 2021 | 10.1016/j.isci.2021.103405 | Ataeian, M., A. Vadlamani, M. Haines, D. Mosier, X. Dong, M. Kleiner, M. Strous and A. K. Hawley | Proteome and strain analysis of cyanobacterium Candidatus “Phormidium alkaliphilum” reveals traits for success in biotechnology | iScience | 24(12) |
| 2021 | 10.1016/j.copbio.2021.05.004 | Arnolds, K. L., L. R. Dahlin, L. Ding, C. Wu, J. Yu, W. Xiong, C. Zuniga, Y. Suzuki, K. Zengler, J. G. Linger and M. T. Guarnieri | Biotechnology for secure biocontainment designs in an emerging bioeconomy | Current Opinion in Biotechnology | 71 25-31 |
| 2021 | 10.1073/pnas.2103175118 | Arellano-Saab, A., M. Bunsick, H. Al Galib, W. Zhao, S. Schuetz, et al. | Three mutations repurpose a plant karrikin receptor to a strigolactone receptor | Proceedings of the National Academy of Sciences | 118(30) e2103175118 |
| 2021 | 10.1089/ast.2020.2313 | Angelos, E., D. K. Ko, S. Zemelis-Durfee and F. Brandizzi | Relevance of the Unfolded Protein Response to Spaceflight-Induced Transcriptional Reprogramming in Arabidopsis | Astrobiology | 21(3) 367–80 |
| 2021 | 10.1093/nar/gkab1115 | Andreopoulos, W. B., A. M. Geller, M. Lucke, J. Balewski, A. Clum, N. N. Ivanova and A. Levy | Deeplasmid: deep learning accurately separates plasmids from bacterial chromosomes | Nucleic Acids Research | 50(3) e17 |
| 2021 | 10.3389/fmicb.2021.719703 | Andreani, J., F. Schulz, F. Di Pinto, A. Levasseur, T. Woyke and B. La Scola | Morphological and Genomic Features of the New Klosneuvirinae Isolate Fadolivirus IHUMI-VV54 | Frontiers in Microbiology | 12 |
| 2021 | 10.1039/D1GC03022A | Ando, D., F. Lu, H. Kim, A. Eugene, Y. Tobimatsu, R. Vanholme, T. J. Elder, W. Boerjan and J. Ralph | Incorporation of catechyl monomers into lignins: lignification from the non-phenolic end via Diels–Alder cycloaddition? | Green Chemistry | 23(22) 8995–9013 |
| 2021 | 10.3389/fpls.2021.708902 | Anaokar, S., H. Liu, J. Keereetaweep, Z. Zhai and J. Shanklin | Mobilizing Vacuolar Sugar Increases Vegetative Triacylglycerol Accumulation | Frontiers in Plant Science | 12 |
| 2021 | 10.3389/fbioe.2021.613307 | Amer, B. and E. E. K. Baidoo | Omics-Driven Biotechnology for Industrial Applications | Frontiers in Bioengineering and Biotechnology | 9 |
| 2021 | 10.1099/ijsem.0.004627 | Altamia, M. A., J. R. Shipway, D. Stein, M. A. Betcher, J. M. Fung, G. Jospin, J. Eisen, M. G. Haygood and D. L. Distel | Teredinibacter haidensis sp. nov., Teredinibacter purpureus sp. nov. and Teredinibacter franksiae sp. nov., marine, cellulolytic endosymbiotic bacteria isolated from the gills of the wood-boring mollusc Bankia setacea (Bivalvia: Teredinidae) and emended description of the genus Teredinibacter | International Journal of Systematic and Evolutionary Microbiology | 71(2) |
| 2021 | 10.1126/science.abj6856 | Altae-Tran, H., S. Kannan, F. E. Demircioglu, R. Oshiro, S. P. Nety, L. J. McKay, M. Dlakić, W. P. Inskeep, K. S. Makarova, R. K. Macrae, E. V. Koonin and F. Zhang | The widespread IS200/IS605 transposon family encodes diverse programmable RNA-guided endonucleases | Science | 374(6563) 57-65 |
| 2021 | 10.3389/fmicb.2021.655987 | Alster, C. J., S. D. Allison, S. I. Glassman, A. C. Martiny and K. K. Treseder | Exploring Trait Trade-Offs for Fungal Decomposers in a Southern California Grassland | Frontiers in Microbiology | 12 |
| 2021 | 10.1007/s12571-021-01156-w | Allee, A., L. R. Lynd and V. Vaze | Cross-national analysis of food security drivers: comparing results based on the Food Insecurity Experience Scale and Global Food Security Index | Food Security | 13(5) 1245–61 |
| 2021 | 10.1021/acscentsci.1c00729 | Alherech, M., S. Omolabake, C. M. Holland, G. E. Klinger, E. L. Hegg and S. S. Stahl | From Lignin to Valuable Aromatic Chemicals: Lignin Depolymerization and Monomer Separation via Centrifugal Partition Chromatography | ACS Central Science | 7(11) 1831–37 |
| 2021 | 10.1002/prot.26247 | Alexander, L. T., R. Lepore, A. Kryshtafovych, A. Adamopoulos, M. Alahuhta, et al. | Target highlights in CASP14: Analysis of models by structure providers | Proteins: Structure, Function, and Bioinformatics | 89(12) 1647–72 |
| 2021 | 10.1186/s40168-021-01021-0 | Albanese, D., C. Coleine, O. Rota-Stabelli, S. Onofri, S. G. Tringe, J. E. Stajich, L. Selbmann and C. Donati | Pre-Cambrian roots of novel Antarctic cryptoendolithic bacterial lineages | Microbiome | 9(1) 63 |
| 2021 | 10.1128/mra.00262-21 | Ahmed, M. A., S. J. Lim and B. J. Campbell | Metagenomes, Metatranscriptomes, and Metagenome-Assembled Genomes from Chesapeake and Delaware Bay (USA) Water Samples | Microbiology Resource Announcements | 10(21) |
| 2021 | 10.3389/fpls.2021.762067 | Ahlawat, Y. K., A. Nookaraju, A. E. Harman-Ware, C. Doeppke, A. K. Biswal and C. P. Joshi | Genetic Modification of KNAT7 Transcription Factor Expression Enhances Saccharification and Reduces Recalcitrance of Woody Biomass in Poplars | Frontiers in Plant Science | 12 762067 |
| 2021 | 10.1099/mic.0.001126 | Adler, B. A., A. E. Kazakov, C. Zhong, H. Liu, E. Kutter, L. M. Lui, T. N. Nielsen, H. Carion, A. M. Deutschbauer, V. K. Mutalik and A. P. Arkin | The genetic basis of phage susceptibility, cross-resistance and host-range in Salmonella | Microbiology | 167(12) |
| 2021 | 10.3389/fpls.2021.675208 | Adhikari, P., S. X. Mideros and T. M. Jamann | Differential Regulation of Maize and Sorghum Orthologs in Response to the Fungal Pathogen Exserohilum turcicum | Frontiers in Plant Science | 12 |
| 2021 | 10.1094/mpmi-10-20-0272-sc | Adeniji, A. A., A. S. Ayangbenro and O. O. Babalola | Genomic Exploration of Bacillus thuringiensis MORWBS1.1, Candidate Biocontrol Agent, Predicts Genes for Biosynthesis of Zwittermicin, 4,5-DOPA Dioxygenase Extradiol, and Quercetin 2,3-Dioxygenase | Molecular Plant-Microbe Interactions | 34(6) 602–5 |
| 2021 | 10.3390/plants10091776 | Adeleke, B. S., A. S. Ayangbenro and O. O. Babalola | Genomic Analysis of Endophytic Bacillus cereus T4S and Its Plant Growth-Promoting Traits | Plants | 10(9) 1776 |
| 2021 | 10.1038/s42003-021-02112-2 | Acinas, S. G., P. Sánchez, G. Salazar, F. M. Cornejo-Castillo, M. Sebastián, et al. | Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities | Communications Biology | 4(1) 604 |
| 2021 | 10.1039/D1GC01186C | Achinivu, E. C., M. Mohan, H. Choudhary, L. Das, K. Huang, H. D. Magurudeniya, V. R. Pidatala, A. George, B. A. Simmons and J. M. Gladden | A predictive toolset for the identification of effective lignocellulosic pretreatment solvents: a case study of solvents tailored for lignin extraction | Green Chemistry | 23(18) 7269–89 |
| 2021 | 10.1039/D1GC02667D | Achinivu, E. C., S. Frank, N. R. Baral, L. Das, M. Mohan, P. Otoupal, E. Shabir, S. Utan, C. D. Scown, B. A. Simmons and J. Gladden | Alkanolamines as Dual Functional Solvents for Biomass Deconstruction and Bioenergy Production | Green Chemistry | 23(21) 8611–31 |
| 2021 | 10.1039/D0EE02870C | Abu-Omar, M. M., K. Barta, G. T. Beckham, J. S. Luterbacher, J. Ralph, R. Rinaldi, Y. Román-Leshkov, J. S. M. Samec, B. F. Sels and F. Wang | Guidelines for performing lignin-first biorefining | Energy & Environmental Science | 14(1) 262–92 |
| 2021 | 10.1093/femsec/fiaa260 | Abramov, A., T. Vishnivetskaya and E. Rivkina | Are permafrost microorganisms as old as permafrost? | FEMS Microbiology Ecology | 97(2) |
| 2021 | 10.1088/1748-9326/ac1815 | Abraha, M., J. Chen, S. K. Hamilton, P. Sciusco, C. Lei, G. Shirkey, J. Yuan and G. P. Robertson | Albedo-induced global warming impact of Conservation Reserve Program grasslands converted to annual and perennial bioenergy crops | Environmental Research Letters | 16(8) 084059 |
| 2021 | 10.1016/j.bbrc.2021.02.046 | Abdelhamid, A. G. and N. K. El-Dougdoug | Comparative genomics of the gut commensal Bifidobacterium bifidum reveals adaptation to carbohydrate utilization | Biochemical and Biophysical Research Communications | 547 155–61 |
| 2022 | 10.1093/ve/veac070 | Zucker, F., V. Bischoff, E. Olo Ndela, B. Heyerhoff, A. Poehlein, H. M. Freese, S. Roux, M. Simon, F. Enault and C. Moraru | New Microviridae isolated from Sulfitobacter reveals two cosmopolitan subfamilies of single-stranded DNA phages infecting marine and terrestrial Alphaproteobacteria | Virus Evolution | 8(2) veac070 |
| 2022 | 10.1016/j.isci.2022.104562 | Zomorrodi, A. R., C. Hemez, P. Arranz-Gibert, T. Wu, F. J. Isaacs and D. Segrè | Computational design and engineering of an Escherichia coli strain producing the nonstandard amino acid para-aminophenylalanine | iScience | 25(7) 104562 |
| 2022 | 10.1126/sciadv.abm8145 | Zhuo, C., X. Wang, M. Docampo-Palacios, B. C. Sanders, N. L. Engle, T. J. Tschaplinski, J. I. Hendry, C. D. Maranas, F. Chen and R. A. Dixon | Developmental changes in lignin composition are driven by both monolignol supply and laccase specificity | Science Advances | 8(10) eabm8145 |
| 2022 | 10.1093/plcell/koab251 | Zhu, F., S. Alseekh, K. Koper, H. Tong, Z. Nikoloski, T. Naake, H. Liu, J. Yan, Y. Brotman, W. Wen, H. Maeda, Y. Cheng and A. R. Fernie | Genome-wide association of the metabolic shifts underpinning dark-induced senescence in Arabidopsis | Plant Cell | 34(1) 557-578 |
| 2022 | 10.1186/s40168-022-01424-7 | Zhou, Z., E. St. John, K. Anantharaman and A.-L. Reysenbach | Global patterns of diversity and metabolism of microbial communities in deep-sea hydrothermal vent deposits | Microbiome | 10(1) 241 |
| 2022 | 10.1038/s41467-022-29555-3 | Zhou, Y., G. E. Klinger, E. L. Hegg, C. M. Saffron and J. E. Jackson | Skeletal Ni electrode-catalyzed C-O cleavage of diaryl ethers entails direct elimination via benzyne intermediates | Nature Communications | 13(1) 2050 |
| 2022 | 10.1002/jaa2.23 | Zhong, J. and M. Khanna | Assessing the efficiency implications of renewable fuel policy design in the United States | Journal of the Agricultural and Applied Economics Association | 1(3) 222–35 |
| 2022 | 10.1126/science.abm1483 | Zheng, W., S. Zhao, Y. Yin, H. Zhang, D. M. Needham, E. D. Evans, C. L. Dai, P. J. Lu, E. J. Alm and D. A. Weitz | High-throughput, single-microbe genomics with strain resolution, applied to a human gut microbiome | Science | 376(6597) eabm1483 |
| 2022 | 10.1016/j.geoderma.2021.115565 | Zheng, H., A. K. Guber, Y. Kuzyakov, W. Zhang and A. N. Kravchenko | Plant species and plant neighbor identity affect associations between plant assimilated C inputs and soil pores | Geoderma | 407 115565 |
| 2022 | 10.1002/biot.202000427 | Zheng, A. O., A. Sher, D. Fridman, C. J. Musante and J. D. Young | Pool size measurements improve precision of flux estimates but increase sensitivity to unmodeled reactions outside the core network in isotopically nonstationary metabolic flux analysis (INST-MFA) | Biotechnology Journal | 17(3) 2000427 |
| 2022 | 10.1016/j.biortech.2021.126367 | Zhao, Z.-M., X. Meng, B. Scheidemantle, Y. Pu, Z.-H. Liu, B.-Z. Li, C. E. Wyman, C. M. Cai and A. J. Ragauskas | Cosolvent enhanced lignocellulosic fractionation tailoring lignin chemistry and enhancing lignin bioconversion | Bioresource Technology | 347 126367 |
| 2022 | 10.1038/s41579-022-00795-w | Zhao, Z. and Y. Yoshikuni | Discovering untapped biochemistry in microorganisms from hidden corners | Nature Reviews Microbiology | 20(11) 639 |
| 2022 | 10.1016/j.xpro.2022.101546 | Zhao, Z., J.-F. Cheng and Y. Yoshikuni | Chromosomal integration of complex DNA constructs using CRAGE and CRAGE-Duet systems | STAR Protocols | 3(3) 101546 |
| 2022 | 10.3390/ijms23105581 | Zhao, Y., Y. Zhang, W. Zhang, Y. Shi, C. Jiang, X. Song, G. A. Tuskan, W. Zeng, J. Zhang and M. Lu | The PagKNAT2/6b-PagBOP1/2a Regulatory Module Controls Leaf Morphogenesis in Populus | International Journal of Molecular Sciences | 23(10) 5581 |
| 2022 | 10.1016/j.pbi.2022.102222 | Zhao, K. and S. Y. Rhee | Omics-guided metabolic pathway discovery in plants: Resources, approaches, and opportunities | Current Opinion in Plant Biology | 67 |
| 2022 | 10.1021/acscatal.1c04518 | Zhang, Z., C. E. Berdugo-Díaz, D. T. Bregante, H. Zhang and D. W. Flaherty | Aldol Condensation and Esterification over Ti-Substituted *BEA Zeolite: Mechanisms and Effects of Pore Hydrophobicity | ACS Catalysis | 12(2) 1481–96 |
| 2022 | 10.1128/mra.00564-22 | Zhang, Y., K. S. Myers, M. Place, J. Serate, D. Xie, E. Pohlmann, A. L. Reau, R. Landick and T. K. Sato | Transcriptomic Data Sets for Zymomonas mobilis 2032 during Fermentation of Ammonia Fiber Expansion (AFEX)-Pretreated Corn Stover and Switchgrass Hydrolysates | Microbiology Resource Announcements | 11(9) e00564-22 |
| 2022 | 10.1038/s41467-021-27852-x | Zhang, Y., J. D. Cortez, S. K. Hammer, C. Carrasco-López, S. Á. García Echauri, J. B. Wiggins, W. Wang and J. L. Avalos | Biosensor for branched-chain amino acid metabolism in yeast and applications in isobutanol and isopentanol production | Nature Communications | 13(1) |
| 2022 | 10.1002/cssc.202201230 | Zhang, X., J. Zhang, H. Yang, C. He, Y. Ke, S. Singh and G. Cheng | Determination of the Structures of Lignin Subunits and Nanoparticles in Solution by Small-Angle Neutron Scattering: Towards Improving Lignin Valorization | ChemSusChem | 15(19) e202201230 |
| 2022 | 10.1186/s13059-022-02711-0 | Zhang, R., R. Kuo, M. Coulter, C. P. G. Calixto, J. C. Entizne, et al. | A high-resolution single-molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis | Genome Biology | 23(1) |
| 2022 | 10.1038/s42003-022-03359-z | Zhang, N., E. M. Mattoon, W. McHargue, B. Venn, D. Zimmer, et al. | Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii | Communications Biology | 5(1) 460 |
| 2022 | 10.1007/s00122-022-04096-x | Zhang, L., A. MacQueen, X. Weng, K. D. Behrman, J. Bonnette, J. L. Reilley, F. M. Rouquette, P. A. Fay, Y. Wu, F. B. Fritschi, R. B. Mitchell, D. B. Lowry, A. R. Boe and T. E. Juenger | The genetic basis for panicle trait variation in switchgrass (Panicum virgatum) | Theoretical and Applied Genetics | 135(8) 2577–92 |
| 2022 | 10.1002/advs.202203887 | Zhang, J., J. Shin, N. Tague, H. Lin, M. Zhang, X. Ge, W. Wong, M. J. Dunlop and J. X. Cheng | Visualization of a limonene synthesis metabolon inside living bacteria by hyperspectral SRS microscopy | Advanced Science | |
| 2022 | 10.1016/j.jare.2021.09.008 | Zhang, J., N. Shen, C. Li, X. Xiang, G. Liu, et al. | Population genomics provides insights into the genetic basis of adaptive evolution in the mushroom-forming fungus Lentinula edodes | Journal of Advanced Research | 38 91-106 |
| 2022 | 10.1016/j.fgb.2022.103673 | Zhang, J., L. Meng Markillie, H. D. Mitchell, M. J. Gaffrey, G. Orr and J. S. Schilling | Distinctive carbon repression effects in the carbohydrate-selective wood decay fungus Rhodonia placenta | Fungal Genetics and Biology | 159 |
| 2022 | 10.7150/thno.72581 | Zhang, H., X. Su, S. K. Burley and X. F. Steven Zheng | mTOR regulates aerobic glycolysis through NEAT1 and nuclear paraspeckle-mediated mechanism in hepatocellular carcinoma | Theranostics | 12(8) 3518-3533 |
| 2022 | 10.1038/s41565-021-01018-8 | Zhang, H., N. S. Goh, J. W. Wang, R. L. Pinals, E. González-Grandío, G. S. Demirer, S. Butrus, S. C. Fakra, A. Del Rio Flores, R. Zhai, B. Zhao, S. J. Park and M. P. Landry | Nanoparticle cellular internalization is not required for RNA delivery to mature plant leaves | Nature Nanotechnology | 17(2) 197-205 |
| 2022 | 10.1111/nph.17940 | Zhang, F., A. Labourel, M. Haon, M. Kemppainen, E. Da Silva Machado, N. Brouilly, C. Veneault-Fourrey, A. Kohler, M.-N. Rosso, A. Pardo, B. Henrissat, J.-G. Berrin and F. Martin | The ectomycorrhizal basidiomycete Laccaria bicolor releases a GH28 polygalacturonase that plays a key role in symbiosis establishment | New Phytologist | 233(6) 2534–47 |
| 2022 | 10.1016/j.jbc.2022.101761 | Zhang, B., G. R. Munske, V. I. Timokhin, J. Ralph, D. R. Davydov, W. Vermerris, S. E. Sattler and C. Kang | Functional and structural insight into the flexibility of cytochrome P450 reductases from Sorghum bicolor and its implications for lignin composition | Journal of Biological Chemistry | 298(4) 101761 |
| 2022 | 10.1128/mra.00351-22 | Zepernick, B. N., E. R. Denison, J. D. Chaffin, G. S. Bullerjahn, C. P. Pennacchio, T. Frenken, D. H. Peck, J. T. Anderson, D. Niles, A. Zastepa, R. M. L. McKay and S. W. Wilhelm | Metatranscriptomic Sequencing of Winter and Spring Planktonic Communities from Lake Erie, a Laurentian Great Lake | Microbiology Resource Announcements | 11(7) e00351-22 |
| 2022 | 10.1109/TGRS.2022.3141907 | Zarei, A., E. Gonzalez, N. Merchant, D. Pauli, E. Lyons and K. Barnard | MegaStitch: Robust Large-Scale Image Stitching | IEEE Transactions on Geoscience and Remote Sensing | 60 |
| 2022 | 10.1002/pro.4200 | Zardecki, C., S. Dutta, D. S. Goodsell, R. Lowe, M. Voigt and S. K. Burley | PDB-101: Educational resources supporting molecular explorations through biology and medicine | Protein Science | 31(1) 129-140 |
| 2022 | 10.1111/gcbb.12903 | Zahorec, A., M. L. Reid, L. K. Tiemann and D. A. Landis | Perennial grass bioenergy cropping systems: Impacts on soil fauna and implications for soil carbon accrual | GCB Bioenergy | 14(1) 4–23 |
| 2022 | 10.1016/j.copbio.2022.102709 | Yunus, I. S. and T. S. Lee | Applications of targeted proteomics in metabolic engineering: advances and opportunities | Current Opinion in Biotechnology | 75 102709 |
| 2022 | 10.1039/D2RE00160H | Yun, D., Z. Zhang and D. W. Flaherty | Catalyst and reactor design considerations for selective production of acids by oxidative cleavage of alkenes and unsaturated fatty acids with H2O2 | Reaction Chemistry & Engineering | 7 2054–65 |
| 2022 | 10.3390/cells11162467 | Yuan, G., S. Martin, M. M. Hassan, G. A. Tuskan and X. Yang | PARA: A New Platform for the Rapid Assembly of gRNA Arrays for Multiplexed CRISPR Technologies | Cells | 11(16) 2467 |
| 2022 | 10.1093/hr/uhac077 | Yuan, G., H. Lu, D. J. Weston, S. Jawdy, T. J. Tschaplinski, G. A. Tuskan and X. Yang | Reporter genes confer new-to-nature ornamental traits in plants | Horticulture Research | 9 uhac077 |
| 2022 | 10.1021/acssynbio.1c00507 | Yuan, G., H. Lu, K. De, M. M. Hassan, Y. Liu, Y. Li, W. Muchero, P. E. Abraham, G. A. Tuskan and X. Yang | An Intein-Mediated Split–nCas9 System for Base Editing in Plants | ACS Synthetic Biology | 11(7) 2513–7 |
| 2022 | 10.1111/tpj.15960 | Yu, K. M. J., J. Oliver, B. McKinley, B. Weers, H. T. Fabich, N. Evetts, M. S. Conradi, S. A. Altobelli, A. Marshall-Colon and J. Mullet | Bioenergy sorghum stem growth regulation: intercalary meristem localization, development, and gene regulatory network analysis | The Plant Journal | 112(2) 476–492 |
| 2022 | 10.1128/aem.02109-21 | Yu, H., D. R. Speth, S. A. Connon, D. Goudeau, R. R. Malmstrom, T. Woyke and V. J. Orphan | Community Structure and Microbial Associations in Sediment-Free Methanotrophic Enrichment Cultures from a Marine Methane Seep | Applied and Environmental Microbiology | 88(11) e02109-21 |
| 2022 | 10.1038/s41396-021-01047-0 | Yu, H., C. T. Skennerton, G. L. Chadwick, A. O. Leu, M. Aoki, G. W. Tyson and V. J. Orphan | Sulfate differentially stimulates but is not respired by diverse anaerobic methanotrophic archaea | ISME Journal | 16(1) 168-177 |
| 2022 | 10.1093/plphys/kiac154 | Young, D. Y., N. Pang and Y. Shachar-Hill | 13C-labeling reveals how membrane lipid components contribute to triacylglycerol accumulation in Chlamydomonas | Plant Physiology | 189(3) 1326-1344 |
| 2022 | 10.1016/j.copbio.2022.102682 | York, L. M., M. Griffiths and T. M. Maaz | Whole-plant phenotypic engineering: moving beyond ratios for multi-objective optimization of nutrient use efficiency | Current Opinion in Biotechnology | 75 102682 |
| 2022 | 10.1002/ppj2.20028 | York, L. M., J. R. Cumming, A. Trusiak, G. Bonito, A. C. von Haden, et al. | Bioenergy Underground: Challenges and opportunities for phenotyping roots and the microbiome for sustainable bioenergy crop production | The Plant Phenome Journal | 5(1) e20028 |
| 2022 | 10.1002/tpg2.20209 | Yoon, S., J. Bragg, S. Aucar-Yamato, L. Chanbusarakum, K. Dluge, P. Cheng, E. Blumwald, Y. Gu and C. M. Tobias | Haploidy and aneuploidy in switchgrass mediated by misexpression of CENH3 | Plant Genome | |
| 2022 | 10.1021/acssynbio.1c00030 | Yoo, J. I., T. A. Navaratna, P. Kolence and M. A. O’Malley | GPCR-FEX: A Fluoride-Based Selection System for Rapid GPCR Screening and Engineering | ACS Synthetic Biology | 11(1) 39-45 |
| 2022 | 10.1038/s41929-022-00836-w | Yilmaz, S., A. Nyerges, J. van der Oost, G. M. Church and N. J. Claassens | Towards next-generation cell factories by rational genome-scale engineering | Nature Catalysis | 5(9) 751-765 |
| 2022 | 10.3390/life12040510 | Yi, X. and H. S. Alper | Considering Strain Variation and Non-Type Strains for Yeast Metabolic Engineering Applications | Life | 12(4) 510 |
| 2022 | 10.1128/mra.00360-22 | Yerlan, A., R. A. Daly, R. K. Afshar, M. Shaffer, K. C. Wrighton and B. B. McGivern | Draft Metagenome-Assembled Genome Sequences of Three Novel Ammonia-Oxidizing Nitrososphaera Strains Recovered from Agricultural Soils in Western Colorado | Microbiology Resource Announcements | 11(9) e00360-22 |
| 2022 | 10.1038/s41559-022-01750-x | Ye, N., W. Han, A. Toseland, Y. Wang, X. Fan, et al. | The role of zinc in the adaptive evolution of polar phytoplankton | Nature Ecology & Evolution | 6(7) 965-978 |
| 2022 | 10.1016/j.foodres.2022.111190 | Yasir, M., I. A. Al-Zahrani, F. Bibi, M. Abd El Ghany and E. I. Azhar | New insights of bacterial communities in fermented vegetables from shotgun metagenomics and identification of antibiotic resistance genes and probiotic bacteria | Food Research International | 157 111190 |
| 2022 | Yarbrough, J., D. Stich, D. Chung, N. Hengge, T. Vinzant, S. Huang, Y. Zeng, B. Donohoe, M. Himmel, Y. Bomble and G. A. Tuskan | Leveraging Super High Optical Resolution Microscopy to Probe the Interaction Zone Between Clostridium thermocellum and Biomass | Integration 2020: Visualizing the Proteome | ||
| 2022 | 10.3389/fenrg.2021.804086 | Yao, L., H. Yang, X. Meng and A. J. Ragauskas | Toward a Fundamental Understanding of the Role of Lignin in the Biorefinery Process | Frontiers in Energy Research | 9 |
| 2022 | 10.1021/acssuschemeng.1c06276 | Yang, Z., M. B. Foston, H. O’Neill, V. S. Urban, A. Ragauskas, B. R. Evans, B. H. Davison and S. V. Pingali | Structural Reorganization of Noncellulosic Polymers Observed In Situ during Dilute Acid Pretreatment by Small-Angle Neutron Scattering | ACS Sustainable Chemistry & Engineering | 10(1) 314–22 |
| 2022 | 10.1128/msphere.00931-21 | Yang, Y., T. Schubert, Y. Lv, X. Li and J. Yan | Comparative Genomic Analysis Reveals Preserved Features in Organohalide-Respiring Sulfurospirillum Strains | mSphere | 7(1) e00931-21 |
| 2022 | 10.1016/j.molcel.2022.03.001 | Yang, Y., S. Liu, S. Egloff, C. D. Eichhorn, T. Hadjian, J. Zhen, T. Kiss, Z. H. Zhou and J. Feigon | Structural basis of RNA conformational switching in the transcriptional regulator 7SK RNP | Molecular Cell | 82(9) 1724-1736.e7 |
| 2022 | 10.1016/j.tibtech.2022.09.007 | Yang, Y., T. A. Chaffin, A. H. Ahkami, E. Blumwald and C. N. Stewart, Jr. | Plant synthetic biology innovations for biofuels and bioproducts | Trends in Biotechnology | 40(12) 1454–68 |
| 2022 | 10.1021/acs.est.1c07747 | Yang, P., X. Piao and X. Cai | Water Availability for Biorefineries in the Contiguous United States and the Implications for Bioenergy Production Distribution | Environmental Science & Technology | 56(6) 3748–57 |
| 2022 | 10.1016/j.rser.2022.112745 | Yang, P., X. Cai, X. Hu, Q. Zhao, Y. Lee, M. Khanna, Y. R. Cortés-Peña, J. S. Guest, J. Kent, T. W. Hudiburg, E. Du, S. John and F. Iutzi | An agent-based modeling tool supporting bioenergy and bio-product community communication regarding cellulosic bioeconomy development | Renewable and Sustainable Energy Reviews | 167 112745 |
| 2022 | 10.1094/pbiomes-09-21-0054-a | Yang, P., N. Bokros, S. Debolt, Z. Zhao and Y. Xia | Genome Sequence Source of Bacillus amyloliquefaciens Strain GD4a, a Bacterial Endophyte Associated with Switchgrass Plants | Phytobiomes Journal | 6(4) 354–7 |
| 2022 | 10.1073/pnas.2122309119 | Yang, M., D. Liu, N. R. Baral, C.-Y. Lin, B. A. Simmons, J. M. Gladden, A. Eudes and C. D. Scown | Comparing in planta accumulation with microbial routes to set targets for a cost-competitive bioeconomy | Proceedings of the National Academy of Sciences | 119(30) e2122309119 |
| 2022 | 10.1515/hf-2021-0224 | Yang, L., J. Wang, C. Wang, F. Yue and F. Lu | A tailored fast thioacidolysis method incorporating multi-reaction monitoring mode of GC-MS for higher sensitivity on lignin monomer quantification | Holzforschung | 76(7) 604-610 |
| 2022 | 10.1128/spectrum.02116-21 | Yang, J., J. Lee, J. Choi, L. Ma, E. A. Heaton and A. Howe | Response of Total (DNA) and Metabolically Active (RNA) Microbial Communities in Miscanthus × Giganteus Cultivated Soil to Different Nitrogen Fertilization Rates | Microbiology Spectrum | 10(1) e0211621 |
| 2022 | 10.1007/s11783-023-1650-z | Yan, X., X. Shen, J. Wang, J. Zhuang, Y. Wang, J. Yao, H. Liu, Y. Liu, J. P. Shapleigh and W. Li | Higher N2O production in sequencing batch reactors compared to continuous stirred tank reactors: effect of feast-famine cycles | Frontiers of Environmental Science & Engineering | 17(4) 50 |
| 2022 | 10.1038/s41467-022-29218-3 | Yan, Q., W. T. Cordell, M. A. Jindra, D. K. Courtney, M. K. Kuckuk, X. Chen and B. F. Pfleger | Metabolic engineering strategies to produce medium-chain oleochemicals via acyl-ACP:CoA transacylase activity | Nature Communications | 13(1) 1619 |
| 2022 | 10.1111/nph.18053 | Yan, H., J. Lee, Q. Song, Q. Li, J. Schiefelbein, B. Zhao and S. Li | Identification of new marker genes from plant single-cell RNA-seq data using interpretable machine learning methods | New Phytologist | 234(4) 1507-1520 |
| 2022 | 10.1128/mra.00453-21 | Yamamoto, K., Y. Yoneda, A. Makino, Y. Tanaka, X.-Y. Meng, et al. | Draft Genome Sequence of Bryobacteraceae Strain F-183 | Microbiology Resource Announcements | 11(1) e00453-21 |
| 2022 | 10.1128/mra.00455-21 | Yamamoto, K., Y. Yoneda, A. Makino, Y. Tanaka, X.-Y. Meng, et al. | Complete Genome Sequence of Luteitalea sp. Strain TBR-22 | Microbiology Resource Announcements | 11(2) e00455-21 |
| 2022 | 10.1038/s41598-022-06530-y | Xue, S., S. Pattathil, L. da Costa Sousa, B. Ubanwa, B. Dale, A. D. Jones and V. Balan | Understanding the structure and composition of recalcitrant oligosaccharides in hydrolysate using high-throughput biotin-based glycome profiling and mass spectrometry | Scientific Reports | 12(1) |
| 2022 | 10.34133/2022/9879610 | Xu, Z., L. M. York, A. Seethepalli, B. Bucciarelli, H. Cheng and D. A. Samac | Objective Phenotyping of Root System Architecture Using Image Augmentation and Machine Learning in Alfalfa (Medicago sativa L.) | Plant Phenomics | 2022 9879610 |
| 2022 | 10.1186/s13068-022-02214-x | Xu, Z., B. Peng, R. B. Kitata, C. D. Nicora, K. K. Weitz, Y. Pu, T. Shi, J. R. Cort, A. J. Ragauskas and B. Yang | Understanding of bacterial lignin extracellular degradation mechanisms by Pseudomonas putida KT2440 via secretomic analysis | Biotechnology for Biofuels and Bioproducts | 15(1) 117 |
| 2022 | 10.1093/jxb/erac003 | Xu, C. and J. Fan | Links between autophagy and lipid droplet dynamics | Journal of Experimental Botany | 73(9) 2848–58 |
| 2022 | US11473086B2 | Xie, M., J.-G. Chen, L. E. Gunter, S. S. Jawdy, W. Muchero, G. Tuskan and J. Zhang | Loss of function alleles of PtEPSP-TF and its regulatory targets in rice | United States Patent | U.S. Department of Energy, UT Battelle LLC |
| 2022 | 10.1038/s41589-022-01091-7 | Xiao, T., A. Khan, Y. Shen, L. Chen and J. D. Rabinowitz | Glucose feeds the tricarboxylic acid cycle via excreted ethanol in fermenting yeast | Nature Chemical Biology | 18(12) 1380–7 |
| 2022 | 10.1073/pnas.2109995119 | Xiao, N., A. Zhou, M. L. Kempher, B. Y. Zhou, Z. J. Shi, M. Yuan, X. Guo, L. Wu, D. Ning, J. V. Nostrand, M. K. Firestone and J. Zhou | Disentangling direct from indirect relationships in association networks | Proceedings of the National Academy of Sciences | 119(2) e2109995119 |
| 2022 | 10.1016/j.oneear.2022.03.010 | Wu, R., G. Trubl, N. Taş and J. K. Jansson | Permafrost as a potential pathogen reservoir | One Earth | 5(4) 351–60 |
| 2022 | 10.1038/s41467-022-32993-8 | Wu, R., C. A. Smith, G. W. Buchko, I. K. Blaby, D. Paez-Espino, N. C. Kyrpides, Y. Yoshikuni, J. E. McDermott, K. S. Hofmockel, J. R. Cort and J. K. Jansson | Structural characterization of a soil viral auxiliary metabolic gene product – a functional chitosanase | Nature Communications | 13(1) 5485 |
| 2022 | 10.1111/nph.18457 | Wu, Q., Y. Cui, X. Jin, G. Wang, L. Yan, et al. | The CC–NB–LRR protein BSR1 from Brachypodium confers resistance to Barley stripe mosaic virus in gramineous plants by recognising TGB1 movement protein | New Phytologist | 236(6) 2233-2248 |
| 2022 | 10.1038/s41564-022-01147-3 | Wu, L., Y. Zhang, X. Guo, D. Ning, X. Zhou, et al. | Reduction of microbial diversity in grassland soil is driven by long-term climate warming | Nature Microbiology | 7(7) 1054-1062 |
| 2022 | 10.1111/mec.16319 | Wu, L., F. Yang, J. Feng, X. Tao, Q. Qi, C. Wang, E. A. G. Schuur, R. Bracho, Y. Huang, J. R. Cole, J. M. Tiedje and J. Zhou | Permafrost thaw with warming reduces microbial metabolic capacities in subsurface soils | Molecular Ecology | 31(5) 1403-1415 |
| 2022 | 10.1111/nph.17858 | Wu, G., S. Miyauchi, E. Morin, A. Kuo, E. Drula, et al. | Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales | New Phytologist | 233(3) 1383-1400 |
| 2022 | 10.1016/j.agrformet.2022.109046 | Wu, G., K. Guan, C. Jiang, H. Kimm, G. Miao, C. J. Bernacchi, C. E. Moore, E. A. Ainsworth, X. Yang, J. A. Berry, C. Frankenberg and M. Chen | Attributing differences of solar-induced chlorophyll fluorescence (SIF)-gross primary production (GPP) relationships between two C4 crops: corn and miscanthus | Agricultural and Forest Meteorology | 323 109046 |
| 2022 | 10.1021/acssynbio.1c00189 | Wu, C., J. Yu, M. Guarnieri and W. Xiong | Computational Framework for Machine-Learning-Enabled 13C Fluxomics | ACS Synthetic Biology | 11(1) 103–15 |
| 2022 | 10.1093/femsec/fiac069 | Woolet, J., E. Whitman, M. A. Parisien, D. K. Thompson, M. D. Flannigan and T. Whitman | Effects of short-interval reburns in the boreal forest on soil bacterial communities compared to long-interval reburns | FEMS Microbiology Ecology | 98(8) |
| 2022 | 10.1073/pnas.2103527119 | Wong-Bajracharya, J., V. R. Singan, R. Monti, K. L. Plett, V. Ng, I. V. Grigoriev, F. M. Martin, I. C. Anderson and J. M. Plett | The ectomycorrhizal fungus Pisolithus microcarpus encodes a microRNA involved in cross-kingdom gene silencing during symbiosis | Proceedings of the National Academy of Sciences | 119(3) e2103527119 |
| 2022 | 10.3390/metabo12080767 | Wong, T. M., J. H. Sullivan and E. Eisenstein | Acclimation and Compensating Metabolite Responses to UV-B Radiation in Natural and Transgenic Populus spp. Defective in Lignin Biosynthesis | Metabolites | 12(8) |
| 2022 | 10.1128/mbio.02949-21 | Wong, E. O.-Y., E. J. E. Brownlie, K. M. Ng, S. Kathirgamanathan, F. B. Yu, B. D. Merrill, K. C. Huang, A. Martin, C. Tropini and W. W. Navarre | The CIAMIB: a Large and Metabolically Diverse Collection of Inflammation-Associated Bacteria from the Murine Gut | mBio | 13(2) e02949-21 |
| 2022 | 10.3389/fbioe.2022.820384 | Wise, L., S. Marecos, K. Randolph, M. Hassan, E. Nshimyumukiza, J. Strouse, F. Salimijazi and B. Barstow | Thermodynamic Constraints on Electromicrobial Protein Production | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1093/molbev/msab372 | Wint, R., A. Salamov and I. V. Grigoriev | Kingdom-Wide Analysis of Fungal Protein-Coding and tRNA Genes Reveals Conserved Patterns of Adaptive Evolution | Molecular Biology and Evolution | 39(2) msab372 |
| 2022 | 10.1093/femsec/fiac091 | Windler, M., R. Stuart, J. S. Deutzmann, X. Mayali, A. Navid, P. D'haeseleer, O. E. Marcu, M. Lipton, C. Nicora and A. M. Spormann | Bacterial exometabolites influence Chlamydomonas cell cycle and double algal productivity | FEMS Microbiology Ecology | 98(9) fiac091 |
| 2022 | 10.1016/j.molcel.2022.01.026 | Wimmer, F., I. Mougiakos, F. Englert and C. L. Beisel | Rapid cell-free characterization of multi-subunit CRISPR effectors and transposons | Molecular Cell | 82(6) 1210-1224.e6 |
| 2022 | 10.1007/978-1-0716-1998-8_24 | Wimmer, F., F. Englert and C. L. Beisel | A TXTL-Based Assay to Rapidly Identify PAMs for CRISPR-Cas Systems with Multi-Protein Effector Complexes | Cell-Free Gene Expression: Methods and Protocols | 391-411 |
| 2022 | 10.1016/j.scitotenv.2021.152757 | Wilson, R. M., M. A. Hough, B. A. Verbeke, S. B. Hodgkins, G. Tyson, et al. | Plant organic matter inputs exert a strong control on soil organic matter decomposition in a thawing permafrost peatland | Science of the Total Environment | 820 |
| 2022 | 10.1111/ppl.13812 | Willick, I. R. and D. B. Lowry | Cold acclimation threshold induction temperatures of switchgrass ecotypes grown under a long and short photoperiod | Physiologia Plantarum | 174(6) e13812 |
| 2022 | 10.1111/1462-2920.16026 | Williams, T. J., M. A. Allen, P. Panwar and R. Cavicchioli | Into the darkness: the ecologies of novel ‘microbial dark matter’ phyla in an Antarctic lake | Environmental Microbiology | 24(5) 2576-2603 |
| 2022 | 10.1016/j.soilbio.2021.108472 | Wilhelm, R. C., H. M. van Es and D. H. Buckley | Predicting measures of soil health using the microbiome and supervised machine learning | Soil Biology and Biochemistry | 164 |
| 2022 | 10.1016/j.soilbio.2022.108681 | Wilhelm, R. C., L. Lynch, T. M. Webster, S. Schweizer, T. M. Inagaki, M. M. Tfaily, R. Kukkadapu, C. Hoeschen, D. H. Buckley and J. Lehmann | Susceptibility of new soil organic carbon to mineralization during dry-wet cycling in soils from contrasting ends of a precipitation gradient | Soil Biology and Biochemistry | 169 |
| 2022 | 10.1016/j.soilbio.2022.108755 | Whitman, T., J. Woolet, M. Sikora, D. B. Johnson and E. Whitman | Resilience in soil bacterial communities of the boreal forest from one to five years after wildfire across a severity gradient | Soil Biology and Biochemistry | 172 |
| 2022 | 10.1007/s00248-021-01836-2 | Whitaker, B. K., H. Giauque, C. Timmerman, N. Birk and C. V. Hawkes | Local Plants, Not Soils, Are the Primary Source of Foliar Fungal Community Assembly in a C4 Grass | Microbial Ecology | 84(1) 122–30 |
| 2022 | 10.1111/gcb.16413 | Whalen, E. D., A. S. Grandy, N. W. Sokol, M. Keiluweit, J. Ernakovich, R. G. Smith and S. D. Frey | Clarifying the evidence for microbial- and plant-derived soil organic matter, and the path toward a more quantitative understanding | Global Change Biology | 28(24) 7167–85 |
| 2022 | 10.1016/j.jmb.2022.167599 | Westbrook, J. D., J. Y. Young, C. Shao, Z. Feng, V. Guranovic, et al. | PDBx/mmCIF Ecosystem: Foundational semantic tools for structural biology: PDBx/mmCIF ecosystem: Foundational semantic tools | Journal of Molecular Biology | 434(11) |
| 2022 | West, C. G., S. E. Honig, L. M. Lui and L. Raschke | Integration of Authentic STEM Practices in Real-World Education and Research Environments: Lessons from the PDP | Leaders in Effective and Inclusive STEM: Twenty Years of the Institute for Scientist & Engineer Educators | 341–58 | |
| 2022 | 10.1093/molbev/msac203 | Weng, X., T. Haque, L. Zhang, S. Razzaque, J. T. Lovell, J. D. Palacio-Mejía, P. Duberney, J. Lloyd-Reilley, J. Bonnette and T. E. Juenger | A Pleiotropic Flowering Time QTL Exhibits Gene-by-Environment Interaction for Fitness in a Perennial Grass | Molecular Biology and Evolution | 39(10) msac203 |
| 2022 | 10.1371/journal.pcbi.1009906 | Wendering, P. and Z. Nikoloski | COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions | PLoS Computational Biology | 18(3) e1009906 |
| 2022 | 10.1016/j.protis.2021.125853 | Weiner, A. K. M., B. Cullison, S. V. Date, T. Tyml, J.-M. Volland, T. Woyke, L. A. Katz and R. S. Sleith | Examining the Relationship Between the Testate Amoeba Hyalosphenia papilio (Arcellinida, Amoebozoa) and its Associated Intracellular Microalgae Using Molecular and Microscopic Methods | Protist | 173(1) 125853 |
| 2022 | 10.1016/j.aca.2021.339400 | Wei, B., M. A. Zenaidee, C. Lantz, R. R. Ogorzalek Loo and J. A. Loo | Towards understanding the formation of internal fragments generated by collisionally activated dissociation for top-down mass spectrometry | Analytica Chimica Acta | 1194 |
| 2022 | 10.1016/j.cbpa.2022.102207 | Wegner, S. A., R. M. Barocio-Galindo and J. L. Avalos | The bright frontiers of microbial metabolic optogenetics | Current Opinion in Chemical Biology | 71 |
| 2022 | 10.3389/fmicb.2022.914472 | Wang, Y., R. C. Wilhelm, T. L. Swenson, A. Silver, P. F. Andeer, A. Golini, S. M. Kosina, B. P. Bowen, D. H. Buckley and T. R. Northen | Substrate Utilization and Competitive Interactions Among Soil Bacteria Vary With Life-History Strategies | Frontiers in Microbiology | 13 914472 |
| 2022 | 10.1111/nph.18485 | Wang, Y., S. S. Stutz, C. J. Bernacchi, R. A. Boyd, D. R. Ort and S. P. Long | Increased bundle-sheath leakiness of CO2 during photosynthetic induction shows a lack of coordination between the C4 and C3 cycles | New Phytologist | 236(5) 1661–75 |
| 2022 | 10.1038/s41579-022-00693-1 | Wang, Y. and T. R. Northen | Small partners, big impacts | Nature Reviews Microbiology | 20(3) 127 |
| 2022 | 10.1186/s13068-022-02235-6 | Wang, X., E. E. K. Baidoo, R. Kakumanu, S. Xie, A. Mukhopadhyay and T. S. Lee | Engineering isoprenoids production in metabolically versatile microbial host Pseudomonas putida | Biotechnology for Biofuels and Bioproducts | 15(1) 137 |
| 2022 | 10.1038/s41559-022-01795-y | Wang, W., K. Tang, P. Wang, Z. Zeng, T. Xu, W. Zhan, T. Liu, Y. Wang and X. Wang | The coral pathogen Vibrio coralliilyticus kills non-pathogenic holobiont competitors by triggering prophage induction | Nature Ecology & Evolution | 6(8) 1132–44 |
| 2022 | 10.1016/j.pbi.2021.102171 | Wang, P., A. M. Schumacher and S.-H. Shiu | Computational prediction of plant metabolic pathways | Current Opinion in Plant Biology | 66 102171 |
| 2022 | 10.1111/nph.18056 | Wang, P., F. Meng, P. Donaldson, S. Horan, N. L. Panchy, E. Vischulis, E. Winship, J. K. Conner, P. J. Krysan, S.-H. Shiu and M. D. Lehti-Shiu | High-throughput measurement of plant fitness traits with an object detection method using Faster R-CNN | New Phytologist | 234(4) 1521–33 |
| 2022 | 10.1016/j.vetmic.2022.109379 | Wang, H., L. Zhang, L. Cao, X. Zeng, B. Gillespie and J. Lin | Isolation and characterization of Escherichia albertii originated from the broiler farms in Mississippi and Alabama | Veterinary Microbiology | 267 109379 |
| 2022 | 10.1111/gcb.16036 | Wang, G., Q. Gao, Y. Yang, S. E. Hobbie, P. B. Reich and J. Zhou | Soil enzymes as indicators of soil function: A step toward greater realism in microbial ecological modeling | Global Change Biology | 28(5) 1935-1950 |
| 2022 | 10.1364/AO.442957 | Wang, D., L. A. Poyneer, D. Chen, S. Mark Ammons, K. D. Morrison, J. Lee, S. S. Ly, T. A. Laurence and P. K. Weber | Wavefront shaping with a Hadamard basis for scattering soil imaging | Applied Optics | 61(9) F47–F54 |
| 2022 | 10.1021/acs.jpclett.2c01993 | Wang, C.-F. and P. Z. El-Khoury | Multimodal (Non)Linear Optical Nanoimaging and Nanospectroscopy | The Journal of Physical Chemistry Letters | 13(31) 7350–4 |
| 2022 | 10.1021/acs.jpca.2c04120 | Wang, C.-F. and P. Z. El-Khoury | Resonant Coherent Raman Scattering from WSe2 | The Journal of Physical Chemistry A | 126(34) 5832–36 |
| 2022 | 10.1021/acs.analchem.1c05338 | Wang, B. and J. D. Young | 13C-Isotope-Assisted Assessment of Metabolic Quenching during Sample Collection from Suspension Cell Cultures | Analytical Chemistry | 94(22) 7787-7794 |
| 2022 | 10.3389/fevo.2022.841824 | Wang, B. and S. D. Allison | Climate-Driven Legacies in Simulated Microbial Communities Alter Litter Decomposition Rates | Frontiers in Ecology and Evolution | 10 |
| 2022 | 10.1021/jasms.2c00081 | Walton, C. L., M. Khalid, A. N. Bible, V. Kertesz, S. T. Retterer, J. Morrell-Falvey and J. F. Cahill | In Situ Detection of Amino Acids from Bacterial Biofilms and Plant Root Exudates by Liquid Microjunction Surface-Sampling Probe Mass Spectrometry | Journal of the American Society for Mass Spectrometry | 33(9) 1615–25 |
| 2022 | 10.1038/s41396-022-01269-w | Walters, K. E., J. K. Capocchi, M. B. N. Albright, Z. Hao, E. L. Brodie and J. B. H. Martiny | Routes and rates of bacterial dispersal impact surface soil microbiome composition and functioning | ISME Journal | 16(10) 2295-2304 |
| 2022 | 10.1128/mra.00293-22 | Walters, K. A., K. S. Myers, H. Wang, N. W. Fortney, A. T. Ingle, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenomes and Metagenome-Assembled Genomes from Microbial Communities Fermenting Ultrafiltered Milk Permeate | Microbiology Resource Announcements | 11(7) e00293-22 |
| 2022 | 10.1128/msystems.00348-22 | Walker, C., S. Ryu, S. Garcia, D. Dooley, B. Mendoza and C. T. Trinh | Gene Coexpression Connectivity Predicts Gene Targets Underlying High Ionic-Liquid Tolerance in Yarrowia lipolytica | mSystems | 7(4) e00348-22 |
| 2022 | 10.1128/msystems.00348-22 | Walker, C., S. Ryu, S. Garcia, D. Dooley, B. Mendoza and C. T. Trinh | Gene Coexpression Connectivity Predicts Gene Targets Underlying High Ionic-Liquid Tolerance in Yarrowia lipolytica | mSystems | 7(4) |
| 2022 | 10.1016/j.csbj.2022.06.037 | Walker, A. M., A. Cliff, J. Romero, M. B. Shah, P. Jones, J. G. Felipe Machado Gazolla, D. A. Jacobson and D. Kainer | Evaluating the performance of random forest and iterative random forest based methods when applied to gene expression data | Computational and Structural Biotechnology Journal | 20 3372–86 |
| 2022 | 10.1007/s11104-021-05239-7 | Waldo, N. B., L. Chistoserdova, D. Hu, H. L. Gough and R. B. Neumann | Impacts of The Wetland Sedge Carex aquatilis on Microbial Community and Methane Metabolisms | Plant and Soil | 471(1) 491-506 |
| 2022 | 10.1111/mec.16640 | Wagner, R., L. Montoya, C. Gao, J. R. Head, J. Remais and J. W. Taylor | The air mycobiome is decoupled from the soil mycobiome in the California San Joaquin Valley | Molecular Ecology | |
| 2022 | 10.1186/s13068-022-02168-0 | Wadler, C. S., J. F. Wolters, N. W. Fortney, K. O. Throckmorton, Y. Zhang, C. R. Miller, R. M. Schneider, E. Wendt-Pienkowski, C. R. Currie, T. J. Donohue, D. R. Noguera, C. T. Hittinger and M. G. Thomas | Utilization of lignocellulosic biofuel conversion residue by diverse microorganisms | Biotechnology for Biofuels and Bioproducts | 15(1) 70 |
| 2022 | 10.1126/science.abb3634 | Volland, J.-M., S. Gonzalez-Rizzo, O. Gros, T. Tyml, N. Ivanova, et al. | A centimeter-long bacterium with DNA contained in metabolically active, membrane-bound organelles | Science | 376(6600) 1453–1458 |
| 2022 | 10.1038/s41467-022-30571-6 | Vögeli, B., L. Schulz, S. Garg, K. Tarasava, J. M. Clomburg, et al. | Cell-free prototyping enables implementation of optimized reverse β-oxidation pathways in heterotrophic and autotrophic bacteria | Nature Communications | 13(1) 3058 |
| 2022 | 10.1089/ast.2021.0137 | Vishnivetskaya, T. A., V. A. Mironov, A. A. Abramov, V. A. Shcherbakova and E. M. Rivkina | Biogeochemical Characteristics of Earth's Volcanic Permafrost: An Analog of Extraterrestrial Environments | Astrobiology | 22(7) 812-828 |
| 2022 | 10.3389/ffunb.2022.808578 | Villalobos Solis, M. I., N. L. Engle, M. K. Spangler, S. Cottaz, S. Fort, J. Maeda, J.-M. Ané, T. J. Tschaplinski, J. L. Labbé, R. L. Hettich, P. E. Abraham and T. A. Rush | Expanding the Biological Role of Lipo-Chitooligosaccharides and Chitooligosaccharides in Laccaria bicolor Growth and Development | Frontiers in Fungal Biology | 3 |
| 2022 | 10.1186/s13068-022-02125-x | Villalobos Solis, M. I., P. Chirania and R. L. Hettich | In silico evaluation of a targeted metaproteomics strategy for broad screening of cellulolytic enzyme capacities in anaerobic microbiome bioreactors | Biotechnology for Biofuels and Bioproducts | 15(1) 32 |
| 2022 | 10.1038/s41579-022-00727-8 | Villada, J. C. and F. Schulz | The endosymbiotic box of protective tricks | Nature Reviews Microbiology | 20(5) 255 |
| 2022 | 10.1038/s41396-022-01220-z | Viacava, K., J. Qiao, A. Janowczyk, S. Poudel, N. Jacquemin, K. L. Meibom, H. K. Shrestha, M. C. Reid, R. L. Hettich and R. Bernier-Latmani | Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium | The ISME Journal | 16(7) 1740–9 |
| 2022 | 10.1016/j.jbc.2022.102627 | Vermaas, J. V., M. F. Crowley and G. T. Beckham | Molecular simulation of lignin-related aromatic compound permeation through gram-negative bacterial outer membranes | Journal of Biological Chemistry | 298(12) |
| 2022 | 10.1099/mgen.0.000853 | Venturini, A. M., J. B. Gontijo, J. A. Mandro, F. S. Paula, C. A. Yoshiura, A. G. da França and S. M. Tsai | Genome-resolved metagenomics reveals novel archaeal and bacterial genomes from Amazonian forest and pasture soils | Microbial Genomics | 8(7) |
| 2022 | 10.1021/acs.est.2c03566 | Vega, M. A. P., R. C. Scholes, A. R. Brady, R. A. Daly, A. B. Narrowe, L. B. Bosworth, K. C. Wrighton, D. L. Sedlak and J. O. Sharp | Pharmaceutical biotransformation is influenced by photosynthesis and microbial nitrogen cycling in a benthic wetland biomat | Environmental Science and Technology | 56(20) 14462-14477 |
| 2022 | 10.1093/nar/gkac025 | Vasileva, Delyana P., Jared C. Streich, Leah H. Burdick, Dawn M. Klingeman, H. B. Chhetri, Christa M. Brelsford, J. C. Ellis, D. M. Close, Daniel A. Jacobson and Joshua K. Michener | Protoplast fusion in Bacillus species produces frequent, unbiased, genome-wide homologous recombination | Nucleic Acids Research | 50(11) 6211–23 |
| 2022 | 10.1098/rsta.2021.0022 | Varner, R. K., P. M. Crill, S. Frolking, C. K. McCalley, S. A. Burke, J. P. Chanton, M. E. Holmes, S. Saleska and M. W. Palace | Permafrost thaw driven changes in hydrology and vegetation cover increase trace gas emissions and climate forcing in Stordalen Mire from 1970 to 2014 | Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences | 380(2215) |
| 2022 | 10.3390/rs14215333 | Varela, S., X. Zheng, J. N. Njuguna, E. J. Sacks, D. P. Allen, J. Ruhter and A. D. B. Leakey | Deep Convolutional Neural Networks Exploit High-Spatial- and -Temporal-Resolution Aerial Imagery to Phenotype Key Traits in Miscanthus | Remote Sensing | 14(21) 5333 |
| 2022 | 10.3390/rs14030733 | Varela, S., T. L. Pederson and A. D. B. Leakey | Implementing Spatio-Temporal 3D-Convolution Neural Networks and UAV Time Series Imagery to Better Predict Lodging Damage in Sorghum | Remote Sensing | 14(3) 733 |
| 2022 | 10.1016/j.pbi.2021.102152 | VanWallendael, A., D. B. Lowry and J. A. Hamilton | One hundred years into the study of ecotypes, new advances are being made through large-scale field experiments in perennial plant systems | Current Opinion in Plant Biology | 66 102152 |
| 2022 | 10.1371/journal.pbio.3001681 | VanWallendael, A., G. M. N. Benucci, P. B. da Costa, L. Fraser, A. Sreedasyam, F. Fritschi, T. E. Juenger, J. T. Lovell, G. Bonito and D. B. Lowry | Host genotype controls ecological change in the leaf fungal microbiome | PLoS Biology | 20(8) e3001681 |
| 2022 | 10.1021/acs.analchem.1c05216 | Vandergrift, G. W., W. Kew, J. K. Lukowski, A. Bhattacharjee, A. V. Liyu, E. A. Shank, L. Paša-Tolić, V. Prabhakaran and C. R. Anderton | Imaging and Direct Sampling Capabilities of Nanospray Desorption Electrospray Ionization with Absorption-Mode 21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometry | Analytical Chemistry | 94(8) 3629-3636 |
| 2022 | 10.1021/acssynbio.1c00522 | VanArsdale, E., J. Pitzer, S. Wang, K. Stephens, C.-y. Chen, G. F. Payne and W. E. Bentley | Electrogenetic Signal Transmission and Propagation in Coculture to Guide Production of a Small Molecule, Tyrosine | ACS Synthetic Biology | 11(2) 877–87 |
| 2022 | 10.1093/femsyr/foac036 | Vanacloig-Pedros, E., K. J. Fisher, L. Liu, D. J. Debrauske, M. K. M. Young, M. Place, C. T. Hittinger, T. K. Sato and A. P. Gasch | Comparative chemical genomic profiling across plant-based hydrolysate toxins reveals widespread antagonism in fitness contributions | FEMS Yeast Research | 22(1) foac036 |
| 2022 | 10.1021/acsestwater.1c00436 | Van Houghton, B. D., S. M. Acharya, J. S. Rosenblum, R. Chakraborty, S. G. Tringe and T. Y. Cath | Membrane Bioreactor Pretreatment of High-Salinity O&G Produced Water | ACS ES&T Water | 2(3) 484-494 |
| 2022 | 10.3389/frai.2022.959470 | van Dijk, A. D. J., S.-H. Shiu and D. de Ridder | Editorial: Artificial Intelligence and Machine Learning Applications in Plant Genomics and Genetics | Frontiers in Artificial Intelligence | 5 |
| 2022 | 10.1038/s42003-022-04336-2 | Valencia, L. E., M. R. Incha, M. Schmidt, A. N. Pearson, M. G. Thompson, J. B. Roberts, M. Mehling, K. Yin, N. Sun, A. Oka, P. M. Shih, L. M. Blank, J. Gladden and J. D. Keasling | Engineering Pseudomonas putida KT2440 for chain length tailored free fatty acid and oleochemical production | Communications Biology | 5(1) 1363 |
| 2022 | 10.1139/facets-2021-0109 | Valadez-Cano, C., K. Hawkes, R. Calvaruso, A. Reyes-Prieto and J. Lawrence | Amplicon-based and metagenomic approaches provide insights into toxigenic potential in understudied Atlantic Canadian lakes | FACETS | 7 194–214 |
| 2022 | 10.15252/msb.202110785 | Vaiana, C. A., H. Kim, J. Cottet, K. Oai, Z. Ge, K. Conforti, A. M. King, A. J. Meyer, H. Chen, C. A. Voigt and C. R. Buie | Characterizing chemical signaling between engineered “microbial sentinels” in porous microplates | Molecular Systems Biology | 18(3) e10785 |
| 2022 | 10.1111/nph.18136 | Unda, F., Y. Mottiar, E. L. Mahon, S. D. Karlen, K. H. Kim, D. Loqué, A. Eudes, J. Ralph and S. D. Mansfield | A new approach to zip-lignin: 3,4-dihydroxybenzoate is compatible with lignification | New Phytologist | 235(1) 234–46 |
| 2022 | 10.3389/fceng.2022.1036084 | Umana, G. E., J. M. Perez, F. Unda, C.-Y. Lin, C. Sener, S. D. Karlen, S. D. Mansfield, A. Eudes, J. Ralph, T. J. Donohue and D. R. Noguera | Biological funneling of phenolics from transgenic plants engineered to express the bacterial 3-dehydroshikimate dehydratase (qsuB) gene | Frontiers in Chemical Engineering | 4 |
| 2022 | 10.1016/j.soilbio.2022.108753 | Ulbrich, T. C., A. Rivas-Ubach, L. K. Tiemann, M. L. Friesen and S. E. Evans | Plant root exudates and rhizosphere bacterial communities shift with neighbor context | Soil Biology and Biochemistry | 172 108753 |
| 2022 | 10.1126/sciadv.ade5155 | Uchiyama, T., T. Uchihashi, T. Ishida, A. Nakamura, J. V. Vermaas, M. F. Crowley, M. Samejima, G. T. Beckham and K. Igarashi | Lytic polysaccharide monooxygenase increases cellobiohydrolases activity by promoting decrystallization of cellulose surface | Science Advances | 8(51) eade5155 |
| 2022 | 10.1016/j.scitotenv.2022.155492 | Trutschel, L. R., G. L. Chadwick, B. Kruger, J. G. Blank, W. J. Brazelton, E. R. Dart and A. R. Rowe | Investigation of microbial metabolisms in an extremely high pH marine-like terrestrial serpentinizing system: Ney Springs | Science of The Total Environment | 836 155492 |
| 2022 | 10.1021/acs.analchem.1c03243 | Trujillo, E. A., A. S. Hebert, J. C. Rivera Vazquez, D. R. Brademan, M. Tatli, D. Amador-Noguez, J. G. Meyer and J. J. Coon | Rapid Targeted Quantitation of Protein Overexpression with Direct Infusion Shotgun Proteome Analysis (DISPA-PRM) | Analytical Chemistry | 94(4) 1965–73 |
| 2022 | 10.1128/mra.00938-21 | Trubitsyn, V., E. Rivkina and V. Shcherbakova | Draft Genome Sequence of a Methanogenic Archaeon from West Spitsbergen Permafrost | Microbiology Resource Announcements | 11(2) e00938-21 |
| 2022 | 10.1093/plphys/kiab447 | Triozzi, P. M., T. B. Irving, H. W. Schmidt, Z. P. Keyser, S. Chakraborty, K. Balmant, W. J. Pereira, C. Dervinis, K. S. Mysore, J. Wen, J. M. Ané, M. Kirst and D. Conde | Spatiotemporal cytokinin response imaging and ISOPENTENYLTRANSFERASE 3 function in Medicago nodule development | Plant Physiology | 188(1) 560-575 |
| 2022 | 10.1038/s41579-022-00747-4 | Tringe, S. G. | A toolkit for microbial community editing | Nature Reviews Microbiology | 20(7) 383 |
| 2022 | 10.1186/s13068-022-02241-8 | Trieu, A., M. B. Belaffif, P. Hirannaiah, S. Manjunatha, R. Wood, Y. Bathula, R. L. Billingsley, A. Arpan, E. J. Sacks, T. E. Clemente, S. P. Moose, N. A. Reichert and K. Swaminathan | Transformation and gene editing in the bioenergy grass Miscanthus | Biotechnology for Biofuels and Bioproducts | 15(1) 148 |
| 2022 | 10.1038/s41467-022-30118-9 | Treen, D. G. C., M. Wang, S. Xing, K. B. Louie, T. Huan, P. C. Dorrestein, T. R. Northen and B. P. Bowen | SIMILE enables alignment of tandem mass spectra with statistical significance | Nature Communications | 13(1) 2510 |
| 2022 | 10.3389/fmars.2022.846656 | Traving, S. J., J. P. Balmonte, D. Seale, C. Arnosti, R. N. Glud, S. J. Hallam and M. Middelboe | On Single-Cell Enzyme Assays in Marine Microbial Ecology and Biogeochemistry | Frontiers in Marine Science | 9 |
| 2022 | 10.1093/plphys/kiac579 | Tomaž, Š., M. Petek, T. Lukan, K. Pogačar, K. Stare, et al. | A mini-TGA protein modulates gene expression through heterogeneous association with transcription factors | Plant Physiology | 191(3) 1934–52 |
| 2022 | 10.1186/s40168-022-01377-x | Tom, L. M., M. Aulitto, Y.-W. Wu, K. Deng, Y. Gao, et al. | Low-abundance populations distinguish microbiome performance in plant cell wall deconstruction | Microbiome | 10(1) 183 |
| 2022 | 10.1128/spectrum.00049-22 | Tinker, K., D. Lipus, J. Gardiner, M. Stuckman and D. Gulliver | The Microbial Community and Functional Potential in the Midland Basin Reveal a Community Dominated by Both Thiosulfate and Sulfate-Reducing Microorganisms | Microbiology Spectrum | 10(4) e00049-22 |
| 2022 | 10.1002/glr2.12007 | Tilhou, N. W., S. M. Kaeppler and M. D. Casler | Strong parallel evidence of selection during switchgrass sward establishment in hybrid and lowland ecotypes | Grassland Research | 1(1) 31–42 |
| 2022 | 10.1111/gcbb.12983 | Tilhou, N. W. and M. D. Casler | Biomass yield improvement in switchgrass through genomic prediction of flowering time | GCB Bioenergy | 14(9) 1023–34 |
| 2022 | 10.1007/s10722-021-01282-6 | Tilhou, N. W. and M. D. Casler | Surveying Grassland Islands: the genetics and performance of Appalachian switchgrass (Panicum virgatum L.) collections | Genetic Resources and Crop Evolution | 69(3) 1039–55 |
| 2022 | 10.1002/glr2.12035 | Tilhou, N. W. and M. D. Casler | Switchgrass sward establishment selection is consistent across multiple environments and fertilization levels | Grassland Research | 1(4) 252–61 |
| 2022 | 10.1002/csc2.20767 | Tilhou, N. W. and M. Casler | Genetic correlations between switchgrass performance in sward conditions and surrogate measures | Crop Science | 62(4) 1511–21 |
| 2022 | 10.1021/acssensors.2c00859 | Tien, T., S. C. Saccomano, P. A. Martin, M. S. Armstrong, R. K. Prud’homme and K. J. Cash | Sensors in a Flash! Oxygen Nanosensors for Microbial Metabolic Monitoring Synthesized by Flash Nanoprecipitation | ACS Sensors | 7(9) 2606–14 |
| 2022 | 10.1128/mbio.00800-22 | Tiedje, J. M., M. A. Bruns, A. Casadevall, C. S. Criddle, E. Eloe-Fadrosh, D. M. Karl, N. K. Nguyen and J. Zhou | Microbes and Climate Change: a Research Prospectus for the Future | mBio | 13(3) e00800-22 |
| 2022 | 10.1111/nph.18443 | Tiedge, K., X. Li, A. T. Merrill, D. Davisson, Y. Chen, P. Yu, D. J. Tantillo, R. L. Last and P. Zerbe | Comparative transcriptomics and metabolomics reveal specialized metabolite drought stress responses in switchgrass (Panicum virgatum) | New Phytologist | 236(4) 1393–1408 |
| 2022 | 10.1186/s13007-022-00903-0 | Tiedge, K., J. Destremps, J. Solano-Sanchez, M. L. Arce-Rodriguez and P. Zerbe | Foxtail mosaic virus-induced gene silencing (VIGS) in switchgrass (Panicum virgatum L.) | Plant Methods | 18(1) |
| 2022 | 10.1038/s41540-022-00259-0 | Tibocha-Bonilla, J. D., C. Zuñiga, A. Lekbua, C. Lloyd, K. Rychel, K. Short and K. Zengler | Predicting stress response and improved protein overproduction in Bacillus subtilis | npj Systems Biology and Applications | 8(1) 50 |
| 2022 | Tibocha-Bonilla, J. D., R. Santibanez, B. Estefan, B. Arianpour, K. Patel, C. Zuniga and K. Zengler | IMAGINE BioSecurity: Modeling Bacterial Metabolism and Expression To Develop Biocontainment Strategies | DOE Genomic Sciences Program Annual Meeting | ||
| 2022 | 10.1021/acssuschemeng.2c01160 | Tian, Y., M. Yang, C.-Y. Lin, J.-H. Park, C.-Y. Wu, et al. | Expression of Dehydroshikimate Dehydratase in Sorghum Improves Biomass Yield, Accumulation of Protocatechuate, and Biorefinery Economics | ACS Sustainable Chemistry & Engineering | 10(38) 12520–8 |
| 2022 | 10.3390/microorganisms10051055 | Thomas, P. E., C. Gates, W. Campodonico-Burnett and J. C. Cameron | Zam is a redox-regulated member of the RNB-family required for optimal photosynthesis in cyanobacteria | Microorganisms | 10(5) |
| 2022 | 10.1016/j.tplants.2021.11.005 | Therby-Vale, R., B. Lacombe, S. Y. Rhee, L. Nussaume and H. Rouached | Mineral nutrient signaling controls photosynthesis: focus on iron deficiency-induced chlorosis | Trends in Plant Science | 27(5) 502-509 |
| 2022 | 10.1094/pbiomes-05-21-0033-mr | The Inter-BRC Microbiome Workshop Consortium, A. Howe, G. Bonito, M.-Y. Chou, M. A. Cregger, A. Fedders, J. L. Field, H. G. Martin, J. L. Labbé, M. E. Mechan-Llontop, T. R. Northen, A. Shade and T. J. Tschaplinski | Frontiers and Opportunities in Bioenergy Crop Microbiome Research Networks | Phytobiomes Journal | 6(2) 118–26 |
| 2022 | 10.1093/nar/gkac1049 | Terlouw, B. R., K. Blin, J. C. Navarro-Muñoz, N. E. Avalon, M. G. Chevrette, et al. | MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters | Nucleic Acids Research | 51(D1) D603-D610 |
| 2022 | 10.1186/s40168-022-01229-8 | ter Horst, A. M., C. Santos-Medellín, J. W. Sorensen, L. A. Zinke, R. M. Wilson, E. R. Johnston, G. Trubl, J. Pett-Ridge, S. J. Blazewicz, P. J. Hanson, J. P. Chanton, C. W. Schadt, J. E. Kostka and J. B. Emerson | Correction to: Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations (Microbiome, (2021), 9, 1, (233), 10.1186/s40168-021-01156-0) | Microbiome | 10(1) |
| 2022 | 10.1093/jxb/erac382 | Tejera, M., N. N. Boersma, S. V. Archontoulis, F. E. Miguez, A. VanLoocke and E. A. Heaton | Photosynthetic decline in aging perennial grass is not fully explained by leaf nitrogen | Journal of Experimental Botany | 73(22) 7582–95 |
| 2022 | 10.7554/eLife.76523 | Tatli, M., S. Moraïs, O. E. Tovar-Herrera, Y. J. Bomble, E. A. Bayer, O. Medalia and I. Mizrahi | Nanoscale resolution of microbial fiber degradation in action | eLife | 11 e76523 |
| 2022 | 10.1128/mra.00528-22 | Taş, N., B. Dafflon, C. Ulrich, Y. Wu, S. G. Tringe and J. K. Jansson | Metagenomes from Arctic Soil Microbial Communities from the Barrow Environmental Observatory, Utqiaġvik, AK, USA | Microbiology Resource Announcements | 11(8) e00528-22 |
| 2022 | 10.1093/nar/gkac1075 | Tao, X. B., S. LaFrance, Y. Xing, A. A. Nava, Hector G. Martin, Jay D. Keasling and Tyler W. H. Backman | ClusterCAD 2.0: an updated computational platform for chimeric type I polyketide synthase and nonribosomal peptide synthetase design | Nucleic Acids Research | 51(D1) D532–8 |
| 2022 | 10.1128/aem.00401-22 | Tao, X., A. Zhou, M. L. Kempher, J. Liu, M. Peng, Y. Li, J. P. Michael, R. Chakraborty, A. M. Deutschbauer, A. P. Arkin and J. Zhou | Development of a Markerless Deletion Mutagenesis System in Nitrate-Reducing Bacterium Rhodanobacter denitrificans | Applied and Environmental Microbiology | 88(14) e00401-22 |
| 2022 | 10.1093/femsyr/foac032 | Tan, L.-R., J.-J. Liu, A. Deewan, J. W. Lee, P.-F. Xia, C. V. Rao, Y.-S. Jin and S.-G. Wang | Genome-wide transcriptional regulation in Saccharomyces cerevisiae in response to carbon dioxide | FEMS Yeast Research | 22(1) foac032 |
| 2022 | 10.1107/S1600576722008998 | Tan, L., M. D. Smith, H. L. Scott, A. Yahya, J. G. Elkins, J. Katsaras, H. M. O'Neill, S. V. Pingali, J. C. Smith, B. H. Davison and J. D. Nickels | Modeling the partitioning of amphiphilic molecules and co-solvents in biomembranes | Journal of Applied Crystallography | 55 1401–12 |
| 2022 | 10.1016/j.ces.2022.117482 | Taifan, G. S. P. and C. T. Maravelias | Generalized optimization-based synthesis of membrane systems for multicomponent gas mixture separation | Chemical Engineering Science | 252 117482 |
| 2022 | 10.1002/btpr.3276 | Suthers, P. F. and C. D. Maranas | Examining organic acid production potential and growth-coupled strategies in Issatchenkia orientalis using constraint-based modeling | Biotechnology Progress | 38(5) e3276 |
| 2022 | 10.1021/acsami.1c25032 | Suri, M., Z. Mohamed, S. F. Bint E Naser, X. Mao, P. Chen, S. Daniel and T. Hanrath | Bioelectronic Platform to Investigate Charge Transfer between Photoexcited Quantum Dots and Microbial Outer Membranes | ACS Applied Materials & Interfaces | 14(13) 15799-15810 |
| 2022 | 10.3390/jof8030311 | Sun, Y.-F., A. Lebreton, J.-H. Xing, Y.-X. Fang, J. Si, et al. | Phylogenomics and Comparative Genomics Highlight Specific Genetic Features in Ganoderma Species | Journal of Fungi | 8(3) 311 |
| 2022 | 10.1038/s41477-022-01139-5 | Sun, Y., D. H. Oh, L. Duan, P. Ramachandran, A. Ramirez, A. Bartlett, K. N. Tran, G. Wang, M. Dassanayake and J. R. Dinneny | Divergence in the ABA gene regulatory network underlies differential growth control | Nature Plants | 8(5) 549-560 |
| 2022 | 10.1186/s12859-022-05052-8 | Sun, J., Z. Qiu, R. Egan, H. Ho, Y. Li and Z. Wang | Persistent memory as an effective alternative to random access memory in metagenome assembly | BMC Bioinformatics | 23(1) 513 |
| 2022 | 10.1038/s41467-022-35507-8 | Sun, G., N. Wase, S. Shu, J. Jenkins, B. Zhou, et al. | Genome of Paspalum vaginatum and the role of trehalose mediated autophagy in increasing maize biomass | Nature Communications | 13(1) 7731 |
| 2022 | 10.1021/acssuschemeng.2c01375 | Sumer, Z. and R. C. Van Lehn | Data-Centric Development of Lignin Structure–Solubility Relationships in Deep Eutectic Solvents Using Molecular Simulations | ACS Sustainable Chemistry & Engineering | 10(31) 10144–56 |
| 2022 | 10.1111/tpj.15948 | Strenkert, D., A. Yildirim, J. Yan, Y. Yoshinaga, M. Pellegrini, R. C. O'Malley, S. S. Merchant and J. G. Umen | The landscape of Chlamydomonas histone H3 lysine 4 methylation reveals both constant features and dynamic changes during the diurnal cycle | Plant Journal | (2) 352-368 |
| 2022 | 10.1002/pld3.392 | Strenkert, D., M. Mingay, S. Schmollinger, C. Chen, R. C. O'Malley and S. S. Merchant | An optimized ChIP-Seq framework for profiling histone modifications in Chromochloris zofingiensis | Plant Direct | 6(3) e392 |
| 2022 | 10.1002/pld3.392 | Strenkert, D., M. Mingay, S. Schmollinger, C. Chen, R. C. O'Malley and S. S. Merchant | An optimized ChIP-Seq framework for profiling histone modifications in Chromochloris zofingiensis | Plant Direct | 6(3) |
| 2022 | 10.1016/j.joule.2022.08.005 | Stone, M. L., M. S. Webber, W. P. Mounfield, III, D. C. Bell, E. Christensen, A. R. C. Morais, Y. Li, E. M. Anderson, J. S. Heyne, G. T. Beckham and Y. Román-Leshkov | Continuous hydrodeoxygenation of lignin to jet-range aromatic hydrocarbons | Joule | 6(10) 2324–37 |
| 2022 | 10.1111/nph.18407 | Steindorff, A. S., K. Seong, A. Carver, S. Calhoun, M. S. Fischer, et al. | Diversity of genomic adaptations to the post-fire environment in Pezizales fungi points to crosstalk between charcoal tolerance and sexual development | New Phytologist | 236(3) 1154-1167 |
| 2022 | 10.1126/sciadv.abn0105 | Steenwyk, J. L., M. A. Phillips, F. Yang, S. S. Date, T. R. Graham, J. Berman, C. T. Hittinger and A. Rokas | An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function | Science Advances | 8(18) eabn0105 |
| 2022 | 10.1021/acssuschemeng.1c05916 | Starace, A. K., D. D. Lee, K. T. Hietala, Y. Kim, S. Kim, A. E. Harman-Ware and D. L. Carpenter | Predicting Catalytic Pyrolysis Aromatic Selectivity from Pyrolysis Vapor Composition Using Mass Spectra Coupled with Statistical Analysis | ACS Sustainable Chemistry & Engineering | 10(1) 234–44 |
| 2022 | 10.1111/gcb.16321 | Sridhar, B., R. C. Wilhelm, S. J. Debenport, T. J. Fahey, D. H. Buckley and C. L. Goodale | Microbial community shifts correspond with suppression of decomposition 25 years after liming of acidic forest soils | Global Change Biology | 28(18) 5399-5415 |
| 2022 | 10.1111/1462-2920.16119 | Sridhar, B., G. B. Lawrence, S. J. Debenport, T. J. Fahey, D. H. Buckley, R. C. Wilhelm and C. L. Goodale | Watershed-scale liming reveals the short- and long-term effects of pH on the forest soil microbiome and carbon cycling | Environmental Microbiology | |
| 2022 | 10.1002/yea.3679 | Spurley, W. J., K. J. Fisher, Q. K. Langdon, K. V. Buh, M. Jarzyna, et al. | Substrate, temperature, and geographical patterns among nearly 2000 natural yeast isolates | Yeast | 39(1–2) 55–68 |
| 2022 | 10.1038/s41396-022-01222-x | Speth, D. R., F. B. Yu, S. A. Connon, S. Lim, J. S. Magyar, M. E. Peña-Salinas, S. R. Quake and V. J. Orphan | Microbial communities of Auka hydrothermal sediments shed light on vent biogeography and the evolutionary history of thermophily | ISME Journal | 16(7) 1750-1764 |
| 2022 | 10.1525/elementa.2021.00076 | Sorouri, B. and S. D. Allison | Microbial extracellular enzyme activity with simulated climate change | Elementa | 10(1) |
| 2022 | 10.1111/mec.16369 | Sønstebø, J. H., E. Trucchi, J. Nordén, I. Skrede, O. Miettinen, S. Haridas, J. Pangilinan, I. V. Grigoriev, F. Martin, H. Kauserud and S. Maurice | Population genomics of a forest fungus reveals high gene flow and climate adaptation signatures | Molecular Ecology | 31(7) 1963-1979 |
| 2022 | 10.1007/s10570-022-04551-4 | Song, Y., X. Meng, W. Jiang, B. R. Evans, H. Ben, Y. Zhang, Y. Pu, S. V. Pingali, B. H. Davison, S. Zhang, G. Han and A. J. Ragauskas | Deuterium incorporation into cellulose: a mini-review of biological and chemical methods | Cellulose | 29(8) 4269–86 |
| 2022 | 10.1002/prot.26269 | Soltanikazemi, E., F. Quadir, R. S. Roy, Z. Guo and J. Cheng | Distance-based reconstruction of protein quaternary structures from inter-chain contacts | Proteins: Structure, Function and Bioinformatics | 90(3) 720-731 |
| 2022 | 10.1111/1365-2435.14040 | Sokol, N. W., E. D. Whalen, A. Jilling, C. Kallenbach, J. Pett-Ridge and K. Georgiou | Global distribution, formation and fate of mineral-associated soil organic matter under a changing climate: A trait-based perspective | Functional Ecology | 36(6) 1411–29 |
| 2022 | 10.1038/s41579-022-00695-z | Sokol, N. W., E. Slessarev, G. L. Marschmann, A. Nicolas, S. J. Blazewicz, et al. | Life and death in the soil microbiome: how ecological processes influence biogeochemistry | Nature Reviews Microbiology | 20(7) 415–30 |
| 2022 | 10.1002/lol2.10258 | Sofen, L. E., O. A. Antipova, M. J. Ellwood, N. E. Gilbert, G. R. LeCleir, M. C. Lohan, C. Mahaffey, E. L. Mann, D. C. Ohnemus, S. W. Wilhelm and B. S. Twining | Trace metal contents of autotrophic flagellates from contrasting open-ocean ecosystems | Limnology and Oceanography Letters | 7(4) 354-362 |
| 2022 | 10.1021/jacs.2c07422 | Snodgrass, H. M., D. Mondal and J. C. Lewis | Directed Evolution of Flavin-Dependent Halogenases for Site- and Atroposelective Halogenation of 3-Aryl-4(3H)-Quinazolinones via Kinetic or Dynamic Kinetic Resolution | Journal of the American Chemical Society | 144(36) 16676-16682 |
| 2022 | 10.1186/s40793-022-00440-2 | Smrhova, T., K. Jani, P. Pajer, G. Kapinusova, T. Vylita, J. Suman, M. Strejcek and O. Uhlik | Prokaryotes of renowned Karlovy Vary (Carlsbad) thermal springs: phylogenetic and cultivation analysis | Environmental Microbiome | 17(1) 48 |
| 2022 | 10.1093/pcp/pcac031 | Smith, R. A., F. Lu, F. Muro-Villanueva, J. C. Cusumano, C. Chapple and J. Ralph | Manipulation of Lignin Monomer Composition Combined with the Introduction of Monolignol Conjugate Biosynthesis Leads to Synergistic Changes in Lignin Structure | Plant and Cell Physiology | 63(6) 744–54 |
| 2022 | 10.1093/plphys/kiac035 | Smith, R. A., E. T. Beebe, C. A. Bingman, K. Vander Meulen, A. Eugene, A. J. Steiner, S. D. Karlen, J. Ralph and B. G. Fox | Identification and characterization of a set of monocot BAHD monolignol transferases | Plant Physiology | 189(1) 37–48 |
| 2022 | 10.1021/acsmaterialsau.2c00006 | Smith, P. J., T. M. Curry, J.-Y. Yang, W. J. Barnes, S. J. Ziegler, A. Mittal, K. W. Moremen, W. S. York, Y. J. Bomble, M. J. Peña and B. R. Urbanowicz | Enzymatic Synthesis of Xylan Microparticles with Tunable Morphologies | ACS Materials Au | |
| 2022 | 10.1128/mra.00337-22 | Smith, A., N. Kaiser, A. Yanez, T. Perleberg, A. Elyaderani, P. Skidmore, S. Adhikari, E. M. Driver, R. U. Halden, A. Varsani, M. Scotch and T. O. C. Faleye | Genome Sequence of a Microvirus Recovered from Wastewater in Arizona, USA, in October 2020, Encodes a Previously Undescribed DNA-Binding Protein | Microbiology Resource Announcements | 11(10) e00337-22 |
| 2022 | 10.1007/s10533-021-00859-8 | Slessarev, E. W., O. A. Chadwick, N. W. Sokol, E. E. Nuccio and J. Pett-Ridge | Rock weathering controls the potential for soil carbon storage at a continental scale | Biogeochemistry | 157(1) 1–13 |
| 2022 | 10.1039/D2NP00017B | Sirirungruang, S., K. Markel and P. M. Shih | Plant-based engineering for production of high-valued natural products | Natural Product Reports | 39(7) 1492–509 |
| 2022 | 10.1128/mra.00201-22 | Sipes, K., R. Paul, T. C. Onstott, T. A. Vishnivetskaya and K. G. Lloyd | Draft Genome Sequences of 10 Pseudomonas sp. Isolates from the Active Layer of Permafrost in Ny Ålesund, Svalbard, Norway | Microbiology Resource Announcements | 11(6) e00201-22 |
| 2022 | 10.3389/fmicb.2021.757812 | Sipes, K., R. Paul, A. Fine, P. Li, R. Liang, J. Boike, T. C. Onstott, T. A. Vishnivetskaya, S. Schaeffer and K. G. Lloyd | Permafrost active layer microbes from Ny Ålesund, Svalbard (79°N) show autotrophic and heterotrophic metabolisms with diverse carbon-degrading enzymes | Frontiers in Microbiology | 12 |
| 2022 | 10.1002/aocs.12633 | Singh, R., B. S. Dien and V. Singh | Solvent-free enzymatic esterification of free fatty acids with glycerol for biodiesel application: Optimized using the Taguchi experimental method | Journal of the American Oil Chemists' Society | 99(9) 781–90 |
| 2022 | 10.1016/j.fgb.2021.103655 | Singh, P., S. Y. Huang, A. G. Hernandez, P. Adhikari, T. M. Jamann and S. X. Mideros | Genomic regions associated with virulence in Setosphaeria turcica identified by linkage mapping in a biparental population | Fungal Genetics and Biology | 159 |
| 2022 | 10.1007/s00294-022-01247-x | Singh, A. K., M. Kumari, N. Sharma, A. K. Rai and S. P. Singh | Metagenomic views on taxonomic and functional profiles of the Himalayan Tsomgo cold lake and unveiling its deterzome potential | Current Genetics | 68(5) 565–79 |
| 2022 | 10.1007/s11274-022-03311-7 | Singh, A. K., R. K. Gupta, H. J. Purohit and A. A. Khardenavis | Genomic characterization of denitrifying methylotrophic Pseudomonas aeruginosa strain AAK/M5 isolated from municipal solid waste landfill soil | World Journal of Microbiology and Biotechnology | 38(8) 140 |
| 2022 | 10.3390/genes13010022 | Singer, E., E. M. Carpenter, J. Bonnette, T. Woyke and T. E. Juenger | Impact of harvest on switchgrass leaf microbial communities | Genes | 13(1) |
| 2022 | 10.1016/bs.mie.2022.07.039 | Simpson, J. and C. Chapple | Tag you're it: Application of stable isotope labeling and LC-MS to identify the precursors of specialized metabolites in plants | Methods in Enzymology | 676 279-303 |
| 2022 | 10.1016/j.rse.2022.112938 | Shuai, G. and B. Basso | Subfield maize yield prediction improves when in-season crop water deficit is included in remote sensing imagery-based models | Remote Sensing of Environment | 272 112938 |
| 2022 | 10.3389/fpls.2022.893610 | Shrestha, V., H. B. Chhetri, D. Kainer, Y. Xu, L. Hamilton, C. Piasecki, B. Wolfe, X. Wang, M. Saha, D. Jacobson, R. J. Millwood, M. Mazarei and C. N. Stewart | The Genetic Architecture of Nitrogen Use Efficiency in Switchgrass (Panicum virgatum L.) | Frontiers in Plant Science | 13 |
| 2022 | 10.3389/fpls.2022.908649 | Shrestha, H. K., Y. Fichman, N. L. Engle, T. J. Tschaplinski, R. Mittler, R. A. Dixon, R. L. Hettich, J. Barros and P. E. Abraham | Multi-omic characterization of bifunctional peroxidase 4-coumarate 3-hydroxylase knockdown in Brachypodium distachyon provides insights into lignin modification-associated pleiotropic effects | Frontiers in Plant Science | 13 908649 |
| 2022 | 10.1016/j.agrformet.2022.109175 | Shirkey, G., R. John, J. Chen, K. Dahlin, M. Abraha, P. Sciusco, C. Lei and D. E. Reed | Fine resolution remote sensing spectra improves estimates of gross primary production of croplands | Agricultural and Forest Meteorology | 326 109175 |
| 2022 | 10.1021/acsomega.2c00483 | Shin, J., E. J. South and M. J. Dunlop | Transcriptional tuning of mevalonate pathway enzymes to identify the impact on limonene production in Escherichia coli | ACS Omega | 7(22) 18331-18338 |
| 2022 | 10.3389/fpls.2022.805101 | Sheng, X., C. Y. Hsu, C. Ma and A. M. Brunner | Functional Diversification of Populus FLOWERING LOCUS D-LIKE3 Transcription Factor and Two Paralogs in Shoot Ontogeny, Flowering, and Vegetative Phenology | Frontiers in Plant Science | 13 |
| 2022 | 10.1111/nph.18429 | Shaw, A. J., B. Piatkowski, A. M. Duffy, B. Aguero, K. Imwattana, et al. | Phylogenomic structure and speciation in an emerging model: the Sphagnum magellanicum complex (Bryophyta) | New Phytologist | 236(4) 1497-1511 |
| 2022 | 10.1038/s41467-022-31542-7 | Sharon, I., S. Pinus, M. Grogg, N. Moitessier, D. Hilvert and T. M. Schmeing | A cryptic third active site in cyanophycin synthetase creates primers for polymerization | Nature Communications | 13(1) 3923 |
| 2022 | 10.1021/acschembio.1c01007 | Sharon, I., M. Grogg, D. Hilvert and T. M. Schmeing | Structure and Function of the β-Asp-Arg Polymerase Cyanophycin Synthetase 2 | ACS Chemical Biology | 17(3) 670-679 |
| 2022 | 10.1016/j.jenvman.2022.114569 | Sharma, N., R. Kumari, M. Thakur, A. K. Rai and S. P. Singh | Molecular dissemination of emerging antibiotic, biocide, and metal co-resistomes in the Himalayan hot springs | Journal of Environmental Management | 307 114569 |
| 2022 | 10.1111/gcbb.12929 | Sharma, B. P., N. Zhang, D. Lee, E. Heaton, E. H. Delucia, E. J. Sacks, I. B. Kantola, N. N. Boersma, S. P. Long, T. B. Voigt and M. Khanna | Responsiveness of miscanthus and switchgrass yields to stand age and nitrogen fertilization: A meta-regression analysis | GCB Bioenergy | 14(5) 539–57 |
| 2022 | 10.1007/s40820-022-00922-5 | Sharifi, S., N. N. Mahmoud, E. Voke, M. P. Landry and M. Mahmoudi | Importance of Standardizing Analytical Characterization Methodology for Improved Reliability of the Nanomedicine Literature | Nano-Micro Letters | 14(1) |
| 2022 | 10.1016/j.str.2021.10.003 | Shao, C., J. D. Westbrook, C. Lu, C. Bhikadiya, E. Peisach, J. Y. Young, J. M. Duarte, R. Lowe, S. Wang, Y. Rose, Z. Feng and S. K. Burley | Simplified quality assessment for small-molecule ligands in the Protein Data Bank | Structure | 30(2) 252-262.e4 |
| 2022 | 10.1016/j.str.2022.08.004 | Shao, C., S. Bittrich, S. Wang and S. K. Burley | Assessing PDB macromolecular crystal structure confidence at the individual amino acid residue level | Structure | 30(10) 1385-1394.e3 |
| 2022 | 10.1101/gr.276358.121 | Shalev, T. J., O. Gamal El-Dien, M. M. S. Yuen, S. Shengqiang, S. D. Jackman, et al. | The western redcedar genome reveals low genetic diversity in a self-compatible conifer | Genome Research | 32(10) 1952-1964 |
| 2022 | 10.1002/pro.4257 | Shahpasand-Kroner, H., J. Portillo, C. Lantz, P. M. Seidler, N. Sarafian, J. A. Loo and G. Bitan | Three-repeat and four-repeat tau isoforms form different oligomers | Protein Science | 31(3) 613-627 |
| 2022 | 10.1016/j.devcel.2022.01.008 | Shahan, R., C.-W. Hsu, T. M. Nolan, B. J. Cole, I. W. Taylor, L. Greenstreet, S. Zhang, A. Afanassiev, A. H. C. Vlot, G. Schiebinger, P. N. Benfey and U. Ohler | A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants | Developmental Cell | 57(4) 543-560.e9 |
| 2022 | 10.1016/j.gca.2022.04.028 | Shabtai, I. A., S. Das, T. M. Inagaki, B. Azimzadeh, B. Richards, C. E. Martínez, I. Kögel-Knabner and J. Lehmann | Soil organic carbon accrual due to more efficient microbial utilization of plant inputs at greater long-term soil moisture | Geochimica et Cosmochimica Acta | 327 170-185 |
| 2022 | 10.1016/j.xgen.2022.100213 | Seshadri, R., S. Roux, K. J. Huber, D. Wu, S. Yu, et al. | Expanding the genomic encyclopedia of Actinobacteria with 824 isolate reference genomes | Cell Genomics | 2(12) 100213 |
| 2022 | 10.1186/s40168-022-01340-w | Seong, H. J., S. Roux, C. Y. Hwang and W. J. Sul | Marine DNA methylation patterns are associated with microbial community composition and inform virus-host dynamics | Microbiome | 10(1) 157 |
| 2022 | 10.1016/j.ymben.2022.05.003 | Seo, H., R. J. Giannone, Y.-H. Yang and C. T. Trinh | Proteome reallocation enables the selective de novo biosynthesis of non-linear, branched-chain acetate esters | Metabolic Engineering | 73 38-49 |
| 2022 | 10.1007/s10534-021-00359-0 | Sen, S., N. Mondal, W. Ghosh and R. Chakraborty | Inducible boron resistance via active efflux in Lysinibacillus and Enterococcus isolates from boron-contaminated agricultural soil | BioMetals | 35(2) 215–28 |
| 2022 | 10.1109/SC41404.2022.00006 | Selvitopi, O., S. Ekanayake, G. Guidi, M. G. Awan, G. A. Pavlopoulos, A. Azad, N. Kyrpides, L. Oliker, K. Yelick and A. Buluç | Extreme-Scale Many-against-Many Protein Similarity Search | SC22: International Conference for High Performance Computing, Networking, Storage and Analysis | 45669 |
| 2022 | 10.1128/aem.00226-22 | Seitz, V. A., B. B. McGivern, R. A. Daly, J. M. Chaparro, M. A. Borton, A. M. Sheflin, S. Kresovich, L. Shields, M. E. Schipanski, K. C. Wrighton and J. E. Prenni | Variation in root exudate composition influences soil microbiome membership and function | Applied and Environmental Microbiology | 88(11) e00226-22 |
| 2022 | 10.1038/s43705-022-00104-9 | Seidel, L., M. Ketzer, E. Broman, S. Shahabi-Ghahfarokhi, M. Rahmati-Abkenar, S. Turner, M. Ståhle, K. Bergström, L. Manoharan, A. Ali, A. Forsman, S. Hylander and M. Dopson | Weakened resilience of benthic microbial communities in the face of climate change | ISME Communications | 2(1) 21 |
| 2022 | 10.1093/bioinformatics/btac317 | Segura, J., Y. Rose, S. Bittrich, S. K. Burley and J. M. Duarte | RCSB Protein Data Bank 1D3D module: displaying positional features on macromolecular assemblies | Bioinformatics | 38(12) 3304-3305 |
| 2022 | 10.1039/D2CY00288D | Seemala, B. and C. E. Wyman | Relationship between ZSM-5 pore modifications and gallium proximity and liquid hydrocarbon number distribution from ethanol oligomerization | Catalysis Science & Technology | 12(15) 4903–16 |
| 2022 | 10.1111/gcb.16073 | See, C. R., A. B. Keller, S. E. Hobbie, P. G. Kennedy, P. K. Weber and J. Pett-Ridge | Hyphae move matter and microbes to mineral microsites: Integrating the hyphosphere into conceptual models of soil organic matter stabilization | Global Change Biology | 28(8) 2527–40 |
| 2022 | 10.3389/fpls.2022.839446 | Sebesta, J., W. Xiong, M. T. Guarnieri and J. Yu | Biocontainment of Genetically Engineered Algae | Frontiers in Plant Science | 13 |
| 2022 | 10.1038/s41587-022-01248-8 | Scown, C. D. and J. D. Keasling | Sustainable manufacturing with synthetic biology | Nature Biotechnology | 40(3) 304–7 |
| 2022 | 10.1016/j.tibtech.2022.09.004 | Scown, C. D. | Prospects for carbon-negative biomanufacturing | Trends in Biotechnology | 40(12) 1415–24 |
| 2022 | 10.1111/tpj.15878 | Scott, S., E. B. Cahoon and L. Busta | Variation on a Theme: The Structures and Biosynthesis of Specialized Fatty Acid Natural Products in Plants | The Plant Journal | 11(4) |
| 2022 | 10.3390/land11020283 | Sciusco, P., J. Chen, V. Giannico, M. Abraha, C. Lei, G. Shirkey, J. Yuan and G. P. Robertson | Albedo-Induced Global Warming Impact at Multiple Temporal Scales within an Upper Midwest USA Watershed | Land | 11(2) 283 |
| 2022 | 10.1038/s41522-022-00267-2 | Schweitzer, H. D., H. J. Smith, E. P. Barnhart, L. J. McKay, R. Gerlach, A. B. Cunningham, R. R. Malmstrom, D. Goudeau and M. W. Fields | Subsurface hydrocarbon degradation strategies in low- and high-sulfate coal seam communities identified with activity-based metagenomics | npj Biofilms and Microbiomes | 8(1) 7 |
| 2022 | 10.1146/annurev-arplant-072221-092913 | Schwechheimer, C., P. M. Schröder and C. E. Blaby-Haas | Plant GATA Factors: Their Biology, Phylogeny, and Phylogenomics | Annual Review of Plant Biology | 73 123–48 |
| 2022 | 10.1038/s41579-022-00754-5 | Schulz, F., C. Abergel and T. Woyke | Giant virus biology and diversity in the era of genome-resolved metagenomics | Nature Reviews Microbiology | 20(12) 721-736 |
| 2022 | 10.1186/s12934-022-01750-3 | Schultz, J. C., S. Mishra, E. Gaither, A. Mejia, H. Dinh, C. Maranas and H. Zhao | Metabolic engineering of Rhodotorula toruloides IFO0880 improves C16 and C18 fatty alcohol production from synthetic media | Microbial Cell Factories | 21(1) 26 |
| 2022 | 10.1038/s41893-021-00827-y | Schulte, L. A., B. E. Dale, S. Bozzetto, M. Liebman, G. M. Souza, N. Haddad, T. L. Richard, B. Basso, R. C. Brown, J. A. Hilbert and J. G. Arbuckle | Meeting global challenges with regenerative agriculture producing food and energy | Nature Sustainability | 5(5) 384–8 |
| 2022 | Schroeder, W., D. Olson and C. D. Maranas | Building Bottom-up Kinetic Models for Optimizing Cell-Free Lignocellulose Degradation Systems | AIChE Annual Meeting | ||
| 2022 | Schroeder, W., T. Kuil, D. Olson and C. D. Maranas | Tracking Pyrophosphate Metabolism and Evaluating Its Significance in the Bioprocessing of Lignocellulosic Biomass By Clostridium Thermocellum | AIChE Annual Meeting | ||
| 2022 | 10.1111/nph.18390 | Scholz, P., K. D. Chapman, R. T. Mullen and T. Ischebeck | Finding new friends and revisiting old ones – how plant lipid droplets connect with other subcellular structures | New Phytologist | 236(3) 833-838 |
| 2022 | 10.1128/aem.02430-21 | Schmidt, M., A. N. Pearson, M. R. Incha, M. G. Thompson, E. E. K. Baidoo, R. Kakumanu, A. Mukhopadhyay, P. M. Shih, A. M. Deutschbauer, L. M. Blank and J. D. Keasling | Nitrogen Metabolism in Pseudomonas putida: Functional Analysis Using Random Barcode Transposon Sequencing | Applied and Environmental Microbiology | 88(7) e02430-21 |
| 2022 | 10.1007/s12155-021-10272-6 | Schetter, A., C. H. Lin, C. Zumpf, C. Jang, L. Hoffmann, W. Rooney and D. K. Lee | Genotype-Environment-Management Interactions in Biomass Yield and Feedstock Composition of Photoperiod-Sensitive Energy Sorghum | BioEnergy Research | 15(2) 1017–32 |
| 2022 | 10.1093/genetics/iyac146 | Scarlett, V. T., J. T. Lovell, M. Shao, J. Phillips, S. Shu, et al. | Multiple origins, one evolutionary trajectory: gradual evolution characterizes distinct lineages of allotetraploid Brachypodium | Genetics | 223(2) iyac146 |
| 2022 | 10.1128/mra.01151-21 | Scarborough, M. J., K. S. Myers, N. W. Fortney, A. T. Ingle, T. J. Donohue and D. R. Noguera | Metagenome-Assembled Genomes from a Microbiome Converting Xylose to Medium-Chain Carboxylic Acids | Microbiology Resource Announcements | 11(4) e01151-21 |
| 2022 | 10.1128/aem.02429-21 | Scales, N. C., A. B. Chase, S. S. Finks, A. A. Malik, C. Weihe, S. D. Allison, A. C. Martiny and J. B. H. Martiny | Differential Response of Bacterial Microdiversity to Simulated Global Change | Applied and Environmental Microbiology | 88(6) |
| 2022 | 10.1038/s41467-022-33812-w | Sawada, D., Y. Nishiyama, R. Shah, V. T. Forsyth, E. Mossou, H. M. O’Neill, M. Wada and P. Langan | Untangling the threads of cellulose mercerization | Nature Communications | 13(1) 6189 |
| 2022 | 10.1073/pnas.2200014119 | Saunders, J. K., M. R. McIlvin, C. L. Dupont, D. Kaul, D. M. Moran, T. Horner, S. M. Laperriere, E. A. Webb, T. Bosak, A. E. Santoro and M. A. Saito | Microbial functional diversity across biogeochemical provinces in the central Pacific Ocean | Proceedings of the National Academy of Sciences | 119(37) e2200014119 |
| 2022 | 10.1038/s43705-022-00141-4 | Sauk, A. H. and L. A. Hug | Substrate-restricted methanogenesis and limited volatile organic compound degradation in highly diverse and heterogeneous municipal landfill microbial communities | ISME Communications | 2(1) 58 |
| 2022 | 10.1016/j.ymben.2022.01.005 | Sasaki, Y. and Y. Yoshikuni | Metabolic engineering for valorization of macroalgae biomass | Metabolic Engineering | 71 42-61 |
| 2022 | 10.1021/acschembio.2c00293 | Sarkar, S., W. Gu and E. W. Schmidt | Applying Promiscuous RiPP Enzymes to Peptide Backbone N-Methylation Chemistry | ACS Chemical Biology | 17(8) 2165-2178 |
| 2022 | 10.1016/j.geoderma.2022.115854 | Sanford, G. R., R. D. Jackson, Y. Rui and C. J. Kucharik | Land use-land cover gradient demonstrates the importance of perennial grasslands with intact soils for building soil carbon in the fertile Mollisols of the North Central US | Geoderma | 418 115854 |
| 2022 | 10.1111/tpj.15650 | Sancho, R., L. A. Inda, A. Díaz-Pérez, D. L. Des Marais, S. Gordon, J. P. Vogel, J. Lusinska, R. Hasterok, B. Contreras-Moreira and P. Catalán | Tracking the ancestry of known and ‘ghost’ homeologous subgenomes in model grass Brachypodium polyploids | The Plant Journal | 109(6) 1535-1558 |
| 2022 | 10.1111/mec.16661 | Sancho, R., P. Catalán, B. Contreras-Moreira, T. E. Juenger and D. L. Des Marais | Patterns of pan-genome occupancy and gene coexpression under water-deficit in Brachypodium distachyon | Molecular Ecology | 31(20) 5285-5306 |
| 2022 | 10.1016/j.jmb.2022.167556 | Sanchez-Garcia, R., J. R. Macias, C. O. S. Sorzano, J. M. Carazo and J. Segura | BIPSPI+: Mining Type-Specific Datasets of Protein Complexes to Improve Protein Binding Site Prediction | Journal of Molecular Biology | 434(11) |
| 2022 | 10.1002/cbic.202200396 | Samanta, N., Y. B. Ruiz-Blanco, Z. Fetahaj, D. Gnutt, C. Lantz, J. A. Loo, E. Sanchez-Garcia and S. Ebbinghaus | Superoxide Dismutase 1 folding stability as a target for molecular tweezers in SOD1-Related Amyotrophic Lateral Sclerosis | ChemBioChem | |
| 2022 | 10.1016/j.fuel.2022.124638 | Sakai, S. and D. Rothamer | Relative particle emission tendencies of 2-methyl-3-buten-2-ol–gasoline, isobutanol–gasoline, and ethanol–gasoline blends from premixed combustion in a spark-ignition engine | Fuel | 324(Part C) 124638 |
| 2022 | 10.1128/mra.00246-22 | Saito, D., L. N. Lemos, A. T. R. N. Ferreira, C. P. B. Saito, R. F. d. Oliveira, F. d. S. Cannavan and S. M. Tsai | Draft Genome Sequences of Five Putatively Novel Saccharibacteria Species Assembled from the Human Oral Metagenome | Microbiology Resource Announcements | 11(7) e00246-22 |
| 2022 | 10.3390/microorganisms10010080 | Saini, M. K., S. Yoshida, A. Sebastian, E. Hara, H. Tamaki, N. T. Soulier, I. Albert, S. Hanada, M. Tank and D. A. Bryant | Elioraea tepida, sp. nov., a Moderately Thermophilic Aerobic Anoxygenic Phototrophic Bacterium Isolated from the Mat Community of an Alkaline Siliceous Hot Spring in Yellowstone National Park, WY, USA | Microorganisms | 10(1) 80 |
| 2022 | 10.1021/acs.chemrev.1c00879 | Saha, A., S. S. Nia and J. A. Rodríguez | Electron Diffraction of 3D Molecular Crystals | Chemical Reviews | 122(17) 13883-13914 |
| 2022 | 10.1002/eco.2475 | Saha, A., E. H. Boughton, H. Li, G. Sonniér, N. Gomez-Casanovas, N. McMillan and X. Zhang | Evapotranspiration in a subtropical wetland savanna using low-cost lysimeter, eddy covariance and modelling approaches | Ecohydrology | |
| 2022 | 10.1186/s40643-021-00491-2 | Sacko, O., N. L. Engle, T. J. Tschaplinski, S. Kumar and J. W. Lee | Ozonized biochar filtrate effects on the growth of Pseudomonas putida and cyanobacteria Synechococcus elongatus PCC 7942 | Bioresources and Bioprocessing | 9(1) 2 |
| 2022 | 10.1039/D1AN01855H | Saccomano, S. C. and K. J. Cash | A near-infrared optical nanosensor for measuring aerobic respiration in microbial systems | Analyst | 147(1) 120–9 |
| 2022 | 10.1128/mra.00586-22 | Sabat, G., S. Ahrendt, B. Wu, J. Gaskell, B. W. Held, et al. | Proteome of the Wood Decay Fungus Fomitopsis pinicola Is Altered by Substrate | Microbiology Resource Announcements | 11(9) e00586-22 |
| 2022 | 10.1093/nar/gkac142 | Rybnicky, G. A., N. A. Fackler, A. S. Karim, M. Köpke and M. C. Jewett | Spacer2PAM: A computational framework to guide experimental determination of functional CRISPR-Cas system PAM sequences | Nucleic Acids Research | 50(6) 3523-3534 |
| 2022 | 10.1021/acssynbio.1c00503 | Rybnicky, G. A., R. A. Dixon, R. M. Kuhn, A. S. Karim and M. C. Jewett | Development of a Freeze-Dried CRISPR-Cas12 Sensor for Detecting Wolbachia in the Secondary Science Classroom | ACS Synthetic Biology | 11(2) 835-842 |
| 2022 | 10.1021/acssynbio.1c00503 | Rybnicky, G. A., R. A. Dixon, R. M. Kuhn, A. S. Karim and M. C. Jewett | Development of a Freeze-Dried CRISPR-Cas12 Sensor for Detecting Wolbachia in the Secondary Science Classroom | ACS Synthetic Biology | 11(2) 835-842 |
| 2022 | 10.1128/msystems.01052-22 | Rush, T. A., J. Tannous, M. J. Lane, M. G. Meena, A. A. Carrell, et al. | Lipo-Chitooligosaccharides Induce Specialized Fungal Metabolite Profiles That Modulate Bacterial Growth | mSystems | 7(6) e01052-22 |
| 2022 | 10.3389/fmicb.2021.787651 | Ruhl, I. A., A. Sheremet, C. C. Furgason, S. Krause, R. M. Bowers, J. K. Jarett, T. M. Tran, S. E. Grasby, T. Woyke and P. F. Dunfield | GAL08, an Uncultivated Group of Acidobacteria, Is a Dominant Bacterial Clade in a Neutral Hot Spring | Frontiers in Microbiology | 12 |
| 2022 | 10.1038/s41564-021-01014-7 | Rubin, B. E., S. Diamond, B. F. Cress, A. Crits-Christoph, Y. C. Lou, et al. | Species- and site-specific genome editing in complex bacterial communities | Nature Microbiology | 7(1) 34–47 |
| 2022 | 10.1016/j.tim.2022.05.003 | Roux, S. and J. B. Emerson | Diversity in the soil virosphere: to infinity and beyond? | Trends in Microbiology | 30(11) 1025-1035 |
| 2022 | 10.1021/acssynbio.2c00385 | Rostain, W., T. Zaplana, M. Boutard, C. Baum, S. Tabuteau, M. Sanitha, M. Ramya, A. Guss, L. Ettwiller and A. C. Tolonen | Tuning of Gene Expression in Clostridium phytofermentans Using Synthetic Promoters and CRISPRi | ACS Synthetic Biology | 11(12) 4077–4088 |
| 2022 | 10.1038/s41564-022-01208-7 | Rosconi, F., E. Rudmann, J. Li, D. Surujon, J. Anthony, M. Frank, D. S. Jones, C. Rock, J. W. Rosch, C. D. Johnston and T. van Opijnen | A bacterial pan-genome makes gene essentiality strain-dependent and evolvable | Nature Microbiology | 7(10) 1580–92 |
| 2022 | 10.1080/00275514.2022.2031780 | Romero-Jiménez, M.-J., J. A. Rudgers, A. Jumpponen, J. Herrera, M. Hutchinson, C. Kuske, J. Dunbar, D. G. Knapp, G. M. Kovács and A. Porras-Alfaro | Darksidea phi, sp. nov., a dark septate root-associated fungus in foundation grasses in North American Great Plains | Mycologia | 114(2) 254–69 |
| 2022 | 10.1099/ijsem.0.005294 | Roldán, D. M., A. Costa, S. Králová, H.-J. Busse, V. Amarelle, E. Fabiano and R. J. Menes | Paenibacillus farraposensis sp. nov., isolated from a root nodule of Arachis villosa | International Journal of Systematic and Evolutionary Microbiology | 72(3) |
| 2022 | 10.1038/s41396-022-01331-7 | Rogers, T. J., J. Buongiorno, G. L. Jessen, M. O. Schrenk, J. A. Fordyce, J. M. de Moor, C. J. Ramírez, P. H. Barry, M. Yücel, M. Selci, A. Cordone, D. Giovannelli and K. G. Lloyd | Chemolithoautotroph distributions across the subsurface of a convergent margin | ISME Journal | |
| 2022 | 10.1128/msystems.00516-22 | Rodríguez-Ramos, J. A., M. A. Borton, B. B. McGivern, G. J. Smith, L. M. Solden, M. Shaffer, R. A. Daly, S. O. Purvine, C. D. Nicora, E. K. Eder, M. Lipton, D. W. Hoyt, J. C. Stegen and K. C. Wrighton | Genome-Resolved Metaproteomics Decodes the Microbial and Viral Contributions to Coupled Carbon and Nitrogen Cycling in River Sediments | mSystems | 7(4) e00516-22 |
| 2022 | 10.1016/j.anaerobe.2022.102519 | Rodríguez-Pallares, S., P. Fernández-Palacios, E. Jurado-Tarifa, F. Arroyo, M. A. Rodríguez-Iglesias and F. Galán-Sánchez | Transmission of toxigenic Clostridiodes difficile between a pet dog with diarrhea and a 10-month-old infant | Anaerobe | 74 102519 |
| 2022 | 10.3389/fmicb.2021.761869 | Rodríguez-Gijón, A., J. K. Nuy, M. Mehrshad, M. Buck, F. Schulz, T. Woyke and S. L. Garcia | A Genomic Perspective Across Earth’s Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy | Frontiers in Microbiology | 12 |
| 2022 | 10.3389/fmicb.2022.847964 | Rocca, J. D., A. Yammine, M. Simonin and J. P. Gibert | Protist predation influences the temperature response of bacterial communities | Frontiers in Microbiology | 13 |
| 2022 | 10.3389/fgene.2021.821715 | Robinson, A. J., H. E. Daligault, J. M. Kelliher, E. S. LeBrun and P. S. G. Chain | Multiple Cases of Bacterial Sequence Erroneously Incorporated Into Publicly Available Chloroplast Genomes | Frontiers in Genetics | 12 |
| 2022 | 10.1111/gcb.16267 | Robertson, G. P., S. K. Hamilton, K. Paustian and P. Smith | Land-based climate solutions for the United States | Global Change Biology | 28(16) 4912–9 |
| 2022 | 10.1093/nar/gkac985 | Roberts, A., M. A. Nethery and R. Barrangou | Functional characterization of diverse type I-F CRISPR-associated transposons | Nucleic Acids Research | 50(20) 11670–81 |
| 2022 | 10.12688/f1000research.54449.2 | Roach, M., K. McNair, M. Michalczyk, S. Giles, L. Inglis, E. Pargin, J. Barylski, S. Roux, P. Decewicz and R. Edwards | Philympics 2021: Prophage Predictions Perplex Programs | F1000Research | 10(758) |
| 2022 | 10.1099/ijsem.0.005680 | Riesco, R., M. Ortúzar, B. Román-Ponce, F. Sánchez-Juanes, J. M. Igual and M. E. Trujillo | Six novel Micromonospora species associated with the phyllosphere and roots of leguminous plants: Micromonospora alfalfae sp. nov., Micromonospora cabrerizensis sp. nov., Micromonospora foliorum sp. nov., Micromonospora hortensis sp. nov., Micromonospora salmantinae sp. nov., and Micromonospora trifolii sp. nov | International Journal of Systematic and Evolutionary Microbiology | 72(11) |
| 2022 | 10.1016/j.soilbio.2022.108857 | Ridgeway, J. R., E. M. Morrissey and E. R. Brzostek | Plant litter traits control microbial decomposition and drive soil carbon stabilization | Soil Biology and Biochemistry | 175 108857 |
| 2022 | 10.1128/mra.01065-21 | Reichart, N. J., R. M. Bowers, T. Woyke and R. Hatzenpichler | Metagenomes and Metagenome-Assembled Genomes from Substrate-Amended Hot Spring Sediment Incubations from Yellowstone National Park | Microbiology Resource Announcements | 11(4) e01065-21 |
| 2022 | 10.3389/fpls.2022.739133 | Razar, R. M., P. Qi, K. M. Devos and A. M. Missaoui | Genotyping-by-Sequencing and QTL Mapping of Biomass Yield in Two Switchgrass F1 Populations (Lowland x Coastal and Coastal x Upland) | Frontiers in Plant Science | 13 739133 |
| 2022 | 10.1007/978-1-0716-1998-8_12 | Rasor, B. J., B. Vögeli, M. C. Jewett and A. S. Karim | Cell-Free Protein Synthesis for High-Throughput Biosynthetic Pathway Prototyping | Methods in Molecular Biology | 2433 199-215 |
| 2022 | 10.1128/msystems.01270-21 | Rasmussen, A. N. and C. A. Francis | Genome-Resolved Metagenomic Insights into Massive Seasonal Ammonia-Oxidizing Archaea Blooms in San Francisco Bay | mSystems | 7(1) e01270-21 |
| 2022 | 10.3389/fpls.2022.998400 | Ranaweera, T., B. N. I. Brown, P. Wang and S.-H. Shiu | Temporal regulation of cold transcriptional response in switchgrass | Frontiers in Plant Science | 13 |
| 2022 | 10.7717/peerj.12632 | Ramnarine, S., J. Jayaraman and A. Ramsubhag | Comparative genomics of the black rot pathogen Xanthomonas campestris pv. campestris and non-pathogenic co-inhabitant Xanthomonas melonis from Trinidad reveal unique pathogenicity determinants and secretion system profiles | PeerJ | 9 e12632 |
| 2022 | 10.1016/j.fuel.2021.122459 | Rahaman, M. S., S. Tulaphol, M. A. Hossain, J. B. Jasinski, N. Sun, A. George, B. A. Simmons, T. Maihom, M. Crocker and N. Sathitsuksanoh | Cooperative Brønsted-Lewis acid sites created by phosphotungstic acid encapsulated metal–organic frameworks for selective glucose conversion to 5-hydroxymethylfurfural | Fuel | 310 122459 |
| 2022 | 10.1128/mra.00041-22 | Quintela, I. A., A. Hwang, T. Vasse, A. Salvador, Y. Zhang, Y.-T. Liao and V. C. H. Wu | Whole-Genome Analysis of Escherichia Phage vB_EcoM-S1P5QW, Isolated from Manures Collected from Cattle Farms in Maine | Microbiology Resource Announcements | 11(4) e00041-22 |
| 2022 | 10.1093/bioinformatics/btac782 | Qiao, Z., E. Barnes, S. Tringe, D. P. Schachtman and P. Liu | Poisson hurdle model-based method for clustering microbiome features | Bioinformatics | 39(1) btac782 |
| 2022 | 10.1038/s41396-022-01245-4 | Qi, M., J. C. Berry, K. W. Veley, L. O’Connor, O. M. Finkel, et al. | Identification of beneficial and detrimental bacteria impacting sorghum responses to drought using multi-scale and multi-system microbiome comparisons | ISME Journal | 16(8) 1957-1969 |
| 2022 | 10.3389/fenvs.2021.821882 | Putt, A. D., E. R. Kelly, K. A. Lowe, M. Rodriguez and T. C. Hazen | Effects of Cone Penetrometer Testing on Shallow Hydrogeology at a Contaminated Site | Frontiers in Environmental Science | 9 |
| 2022 | 10.1016/j.ymben.2021.11.003 | Purdy, H. M., B. F. Pfleger and J. L. Reed | Introduction of NADH-dependent nitrate assimilation in Synechococcus sp. PCC 7002 improves photosynthetic production of 2-methyl-1-butanol and isobutanol | Metabolic Engineering | 69 87-97 |
| 2022 | 10.1016/j.chom.2022.02.001 | Pudlo, N. A., G. V. Pereira, J. Parnami, M. Cid, S. Markert, et al. | Diverse events have transferred genes for edible seaweed digestion from marine to human gut bacteria | Cell Host & Microbe | 30(3) 314-328.e11 |
| 2022 | 10.1371/journal.pgen.1010156 | Price, M. N., A. M. Deutschbauer and A. P. Arkin | Filling gaps in bacterial catabolic pathways with computation and high-throughput genetics | PLoS Genetics | 18(4) e1010156 |
| 2022 | 10.1128/msystems.00705-22 | Price, M. N. and A. P. Arkin | Interactive Analysis of Functional Residues in Protein Families | mSystems | 7(6) e00705-22 |
| 2022 | 10.1007/s00425-021-03814-x | Poosapati, S., E. Poretsky, K. Dressano, M. Ruiz, A. Vazquez, et al. | A sorghum genome-wide association study (GWAS) identifies a WRKY transcription factor as a candidate gene underlying sugarcane aphid (Melanaphis sacchari) resistance | Planta | 255(2) 37 |
| 2022 | 10.1016/j.mec.2022.e00203 | Pomraning, K. R., Z. Dai, N. Munoz, Y.-M. Kim, Y. Gao, et al. | Itaconic acid production is regulated by LaeA in Aspergillus pseudoterreus | Metabolic Engineering Communications | 15 e00203 |
| 2022 | 10.1016/j.jbc.2021.101396 | Pollard, M. and Y. Shachar-Hill | Kinetic complexities of triacylglycerol accumulation in developing embryos from Camelina sativa provide evidence for multiple biosynthetic systems | Journal of Biological Chemistry | 298(1) |
| 2022 | 10.1128/mbio.02379-21 | Podowski, J. C., S. F. Paver, R. J. Newton and M. L. Coleman | Genome Streamlining, Proteorhodopsin, and Organic Nitrogen Metabolism in Freshwater Nitrifiers | mBio | 13(3) e02379-21 |
| 2022 | 10.1111/1462-2920.16115 | Plett, J. M., J. Sabotic, E. Vogt, F. Snijders, A. Kohler, U. N. Nielsen, M. Kunzler, F. Martin and C. Veneault-Fourrey | Mycorrhiza-induced mycocypins of Laccaria bicolor are potent protease inhibitors with nematotoxic and collembola antifeedant activity | Environmental Microbiology | 24(10) 4607–22 |
| 2022 | 10.3390/metabo12040303 | Placido, D., N. Dong, B. Amer, C. Dong, G. Ponciano, T. Kahlon, M. Whalen, E. E. K. Baidoo and C. McMahan | Downregulation of Squalene Synthase Broadly Impacts Isoprenoid Biosynthesis in Guayule | Metabolites | 12(4) 303 |
| 2022 | 10.3390/cancers14215369 | Pietrzak, B., K. Tomela, A. Olejnik-Schmidt, Ł. Galus, J. Mackiewicz, M. Kaczmarek, A. Mackiewicz and M. Schmidt | A Clinical Outcome of the Anti-PD-1 Therapy of Melanoma in Polish Patients Is Mediated by Population-Specific Gut Microbiome Composition | Cancers | 14(21) 5369 |
| 2022 | 10.1038/s41564-022-01157-1 | Piel, D., M. Bruto, Y. Labreuche, F. Blanquart, D. Goudenège, et al. | Phage–host coevolution in natural populations | Nature Microbiology | 7(7) 1075-1086 |
| 2022 | 10.1128/mra.00400-22 | Piatkowski, B. T., D. L. Carper, A. A. Carrell, I.-M. A. Chen, A. Clum, et al. | Draft Metagenome Sequences of the Sphagnum (Peat Moss) Microbiome from Ambient and Warmed Environments across Europe | Microbiology Resource Announcements | 11(10) e00400-22 |
| 2022 | 10.3389/fenrg.2022.863153 | Pham, L. T. M., H. Choudhary, R. Gauttam, S. W. Singer, J. M. Gladden, B. A. Simmons, S. Singh and K. L. Sale | Revisiting Theoretical Tools and Approaches for the Valorization of Recalcitrant Lignocellulosic Biomass to Value-Added Chemicals | Frontiers in Energy Research | 10 |
| 2022 | 10.1038/s41592-021-01339-5 | Petras, D., V. V. Phelan, D. Acharya, A. E. Allen, A. T. Aron, et al. | GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser | Nature Methods | 19(2) 134–6 |
| 2022 | 10.3389/fpls.2022.912080 | Petlewski, A. R., D. A. Hauser, M. Kim, J. Schmutz, J. Grimwood and F.-W. Li | Re-evaluating the Systematics of Dendrolycopodium Using Restriction-Site Associated DNA-Sequencing | Frontiers in Plant Science | 13 |
| 2022 | 10.1029/2022JG006948 | Perryman, C. R., C. K. McCalley, J. G. Ernakovich, L. J. Lamit, J. H. Shorter, E. Lilleskov and R. K. Varner | Microtopography Matters: Belowground CH4 Cycling Regulated by Differing Microbial Processes in Peatland Hummocks and Lawns | Journal of Geophysical Research: Biogeosciences | 127(8) e2022JG006948 |
| 2022 | 10.1002/fes3.421 | Perlo, V., A. Furtado, F. C. Botha, G. R. A. Margarido, K. Hodgson-Kratky, H. Choudhary, J. Gladden, B. Simmons and R. J. Henry | Transcriptome and metabolome integration in sugarcane through culm development | Food and Energy Security | 11(4) e421 |
| 2022 | 10.1038/s41467-022-34105-y | Perez-Coronel, E. and J. Michael Beman | Multiple sources of aerobic methane production in aquatic ecosystems include bacterial photosynthesis | Nature Communications | 13(1) 6454 |
| 2022 | 10.1039/D1GC03774A | Pérez Pimienta, J. A., G. Papa, J. Sun, V. Stavila, A. Sanchez, J. M. Gladden and B. A. Simmons | One-pot ethanol production under optimized pretreatment conditions using agave bagasse at high solids loading with low-cost biocompatible protic ionic liquid | Green Chemistry | 24(1) 207–17 |
| 2022 | 10.1039/D1GC03592D | Perez, J. M., C. Sener, S. Misra, G. E. Umana, J. Coplien, D. Haak, Y. Li, C. T. Maravelias, S. D. Karlen, J. Ralph, T. J. Donohue and D. R. Noguera | Integrating lignin depolymerization with microbial funneling processes using agronomically relevant feedstocks | Green Chemistry | 24(7) 2795–811 |
| 2022 | 10.1111/nph.18006 | Pereira, W. J., S. Knaack, S. Chakraborty, D. Conde, R. A. Folk, P. M. Triozzi, K. M. Balmant, C. Dervinis, H. W. Schmidt, J. M. Ané, S. Roy and M. Kirst | Functional and comparative genomics reveals conserved noncoding sequences in the nitrogen-fixing clade | New Phytologist | 234(2) 634-649 |
| 2022 | 10.1128/AEM.01793-21 | Peng, P., C. S. Kang-Yun, J. Chang, W. Gu, A. A. Dispirito and J. D. Semrau | Two TonB-dependent transporters in Methylosinus trichosporium OB3b are responsible for uptake of different forms of methanobactin and are involved in the canonical "copper switch" | Applied and Environmental Microbiology | 88(1) |
| 2022 | 10.1128/spectrum.02591-21 | Peng, M., D. Wang, L. M. Lui, T. Nielsen, R. Tian, et al. | Genomic Features and Pervasive Negative Selection in Rhodanobacter Strains Isolated from Nitrate and Heavy Metal Contaminated Aquifer | Microbiology Spectrum | 10(1) e02591-21 |
| 2022 | 10.1016/j.watres.2021.117933 | Pelivano, B., S. Bryson, K. A. Hunt, M. Denecke, D. A. Stahl and M. Winkler | Application of pyritic sludge with an anaerobic granule consortium for nitrate removal in low carbon systems | Water Research | 209 117933 |
| 2022 | 10.3389/fmicb.2022.1060160 | Pelicaen, R., S. Weckx, D. Gonze and L. De Vuyst | Application of comparative genomics of Acetobacter species facilitates genome-scale metabolic reconstruction of the Acetobacter ghanensis LMG 23848T and Acetobacter senegalensis 108B cocoa strains | Frontiers in Microbiology | 13 |
| 2022 | 10.1002/pld3.419 | Payyavula, R. S., R. Badmi, S. S. Jawdy, M. Rodriguez Jr, L. Gunter, R. W. Sykes, K. A. Winkeler, C. M. Collins, W. H. Rottmann, J.-G. Chen, X. Yang, G. A. Tuskan and U. C. Kalluri | Biomass formation and sugar release efficiency of Populus modified by altered expression of a NAC transcription factor | Plant Direct | 6(8) e419 |
| 2022 | 10.1016/j.ymben.2022.01.015 | Pavan, M., K. Reinmets, S. Garg, A. P. Mueller, E. Marcellin, M. Köpke and K. Valgepea | Advances in systems metabolic engineering of autotrophic carbon oxide-fixing biocatalysts towards a circular economy | Metabolic Engineering | 71 117-141 |
| 2022 | 10.1186/s12859-022-04593-2 | Paul, H. M., D. D. Istanto, J. Heldenbrand and M. E. Hudson | CROPSR: an automated platform for complex genome-wide CRISPR gRNA design and validation | BMC Bioinformatics | 23(1) 74 |
| 2022 | 10.1111/nph.18427 | Pathare, V. S., R. J. DiMario, N. Koteyeva and A. B. Cousins | Mesophyll conductance response to short-term changes in pCO2 is related to leaf anatomy and biochemistry in diverse C4 grasses | New Phytologist | 236(4) 1281-1295 |
| 2022 | 10.1016/j.celrep.2022.110834 | Pasquini, M., N. Grosjean, K. K. Hixson, C. D. Nicora, E. F. Yee, M. Lipton, I. K. Blaby, J. D. Haley and C. E. Blaby-Haas | Zng1 is a GTP-dependent zinc transferase needed for activation of methionine aminopeptidase | Cell Reports | 39(7) 110834 |
| 2022 | 10.1038/s41598-022-21365-3 | Parker, C. W., J. M. Senko, A. S. Auler, I. D. Sasowsky, F. Schulz, T. Woyke and H. A. Barton | Enhanced terrestrial Fe(II) mobilization identified through a novel mechanism of microbially driven cave formation in Fe(III)-rich rocks | Scientific Reports | 12(1) 17062 |
| 2022 | 10.1128/mra.00987-21 | Park, M.-R., B. Fong, T. Tofaha, B. A. Simmons and S. Singer | Complete Genome Sequences of Five Isolated Pseudomonas Strains that Catabolize Pentose Sugars and Aromatic Compounds Obtained from Lignocellulosic Biomass | Microbiology Resource Announcements | 11(4) e00987-21 |
| 2022 | 10.1109/BigData55660.2022.10021099 | Park, G., S. McCorkle, C. Soto, I. Blaby and S. Yoo | Extracting Protein-Protein Interactions (PPIs) from Biomedical Literature using Attention-based Relational Context Information | 2022 IEEE International Conference on Big Data (Big Data) | 2052-2061 |
| 2022 | 10.1111/gwat.13132 | Paradis, C. J., J. I. Miller, J.-W. Moon, S. J. Spencer, L. M. Lui, J. D. Van Nostrand, D. Ning, A. D. Steen, L. D. McKay, A. P. Arkin, J. Zhou, E. J. Alm and T. C. Hazen | Sustained Ability of a Natural Microbial Community to Remove Nitrate from Groundwater | Groundwater | 60(1) 99–111 |
| 2022 | 10.1007/978-981-33-4221-7 | Papa, G., B. A. Simmons and N. Sun | Scale-Up of the Ionic Liquid-Based Biomass Conversion Processes | Encyclopedia of Ionic Liquids | |
| 2022 | 10.1186/s40168-022-01404-x | Panwar, P., T. J. Williams, M. A. Allen and R. Cavicchioli | Population structure of an Antarctic aquatic cyanobacterium | Microbiome | 10(1) 207 |
| 2022 | 10.1111/gcb.15986 | Pan, D., I. Gelfand, L. Tao, M. Abraha, K. Sun, X. Guo, J. Chen, G. P. Robertson and M. A. Zondlo | A new open-path eddy covariance method for nitrous oxide and other trace gases that minimizes temperature corrections | Global Change Biology | 28(4) 1446–57 |
| 2022 | 10.1126/sciadv.abq3235 | Palumbo, R. J., N. McKean, E. Leatherman, K. E. W. Namitz, L. Connell, A. Wolfe, K. Moody, C. Gostinčar, N. Gunde-Cimerman, A. Bah and S. D. Hanes | Coevolution of the Ess1-CTD axis in polar fungi suggests a role for phase separation in cold tolerance | Science Advances | 8(36) eabq3235 |
| 2022 | 10.1021/acs.nanolett.2c03563 | Pálmai, M., J. S. Beckwith, N. T. Emerson, T. Zhao, E. B. Kim, et al. | Parabolic Potential Surfaces Localize Charge Carriers in Nonblinking Long-Lifetime “Giant” Colloidal Quantum Dots | Nano Letters | 22(23) 9470–6 |
| 2022 | 10.3390/jof8030254 | Palma, M., S. Mondo, M. Pereira, É. Vieira, I. V. Grigoriev and I. Sá-Correia | Genome Sequence and Analysis of the Flavinogenic Yeast Candida membranifaciens IST 626 | Journal of Fungi | 8(3) 254 |
| 2022 | 10.1515/hf-2021-0149 | Padmakshan, D., V. I. Timokhin, F. Lu, P. F. Schatz, R. Vanholme, W. Boerjan and J. Ralph | Synthesis of hydroxycinnamoyl shikimates and their role in monolignol biosynthesis | Holzforschung | 76(2) 133–44 |
| 2022 | 10.1128/msystems.00659-22 | Pacheco, A. R., C. Pauvert, D. Kishore and D. Segrè | Toward FAIR Representations of Microbial Interactions | mSystems | 7(5) e00659-22 |
| 2022 | 10.3389/fpls.2021.806949 | Paape, T., B. Heiniger, M. Santo Domingo, M. R. Clear, M. M. Lucas and J. J. Pueyo | Genome-Wide Association Study Reveals Complex Genetic Architecture of Cadmium and Mercury Accumulation and Tolerance Traits in Medicago truncatula | Frontiers in Plant Science | 12 |
| 2022 | 10.3389/fbioe.2022.965614 | Otten, J. K., Y. Zou and E. T. Papoutsakis | The potential of caproate (hexanoate) production using Clostridium kluyveri syntrophic cocultures with Clostridium acetobutylicum or Clostridium saccharolyticum | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1186/s12934-022-01977-0 | Otoupal, P. B., G. M. Geiselman, A. M. Oka, C. A. Barcelos, H. Choudhary, et al. | Advanced one-pot deconstruction and valorization of lignocellulosic biomass into triacetic acid lactone using Rhodosporidium toruloides | Microbial Cell Factories | 21(1) 254 |
| 2022 | 10.1038/s41598-022-21731-1 | Otani, H., D. W. Udwary and N. J. Mouncey | Comparative and pangenomic analysis of the genus Streptomyces | Scientific Reports | 12(1) 18909 |
| 2022 | 10.1038/s41467-022-31191-w | Otani, H. and N. J. Mouncey | RIViT-seq enables systematic identification of regulons of transcriptional machineries | Nature Communications | 13(1) 3502 |
| 2022 | 10.1038/s41564-022-01093-0 | Ostrowski, M. P., S. L. La Rosa, B. J. Kunath, A. Robertson, G. Pereira, et al. | Mechanistic insights into consumption of the food additive xanthan gum by the human gut microbiota | Nature Microbiology | 7(4) 556-569 |
| 2022 | 10.1021/acssuschemeng.2c03341 | Østby, H., A. Várnai, R. Gabriel, P. Chylenski, S. J. Horn, S. W. Singer and V. G. H. Eijsink | Substrate-Dependent Cellulose Saccharification Efficiency and LPMO Activity of Cellic CTec2 and a Cellulolytic Secretome from Thermoascus aurantiacus and the Impact of H2O2-Producing Glucose Oxidase | ACS Sustainable Chemistry & Engineering | 10(44) 14433–44 |
| 2022 | 10.1007/s43393-022-00136-1 | Orr, J. S., E. Zen, X. Wang and C. V. Rao | Emulsion-based evolution of Escherichia coli for higher growth yield on D-xylose identifies central role of cyclic AMP | Systems Microbiology and Biomanufacturing | |
| 2022 | 10.1093/ve/veac123 | Olo Ndela, E., S. Roux, C. Henke, A. Sczyrba, T. Sime Ngando, A. Varsani and F. Enault | Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages | Virus Evolution | 9(1) veac123 |
| 2022 | 10.1051/medsci/2022166 | Olo Ndela, E., L. M. Cobigo, S. Roux and F. Enault | A better understanding of Earth's viruses thanks to metagenomes | médecine/sciences | 38(12) 999-1007 |
| 2022 | 10.1038/s41540-022-00212-1 | Ohnuki, S., I. Ogawa, K. Itto-Nakama, F. Lu, A. Ranjan, et al. | High-throughput platform for yeast morphological profiling predicts the targets of bioactive compounds | npj Systems Biology and Applications | 8(1) 3 |
| 2022 | 10.1038/s41598-022-25735-9 | Odion, R. A. and T. Vo-Dinh | Optical recognition of constructs using hyperspectral imaging and detection (ORCHID) | Scientific Reports | 12(1) 21141 |
| 2022 | 10.1021/acs.jpclett.2c00574 | O’Callahan, B. T. and P. Z. El-Khoury | A Closer Look at Tip-Enhanced Raman Chemical Reaction Nanoimages | The Journal of Physical Chemistry Letters | 13(17) 3886–89 |
| 2022 | 10.1016/j.compchemeng.2022.107724 | O'Neill, E. G., R. A. Martinez-Feria, B. Basso and C. T. Maravelias | Integrated spatially explicit landscape and cellulosic biofuel supply chain optimization under biomass yield uncertainty | Computers & Chemical Engineering | 160 107724 |
| 2022 | 10.1002/ecs2.3968 | Nugent, A. and S. D. Allison | A framework for soil microbial ecology in urban ecosystems | Ecosphere | 13(3) |
| 2022 | 10.1186/s40168-022-01391-z | Nuccio, E. E., S. J. Blazewicz, M. Lafler, A. N. Campbell, A. Kakouridis, J. A. Kimbrel, J. Wollard, D. Vyshenska, R. Riley, A. Tomatsu, R. Hestrin, R. R. Malmstrom, M. Firestone and J. Pett-Ridge | HT-SIP: a semi-automated stable isotope probing pipeline identifies cross-kingdom interactions in the hyphosphere of arbuscular mycorrhizal fungi | Microbiome | 10(1) 199 |
| 2022 | 10.1093/gigascience/giac089 | Novichkov, P. S., J.-M. Chandonia and A. P. Arkin | CORAL: A framework for rigorous self-validated data modeling and integrative, reproducible data analysis | GigaScience | 11 giac089 |
| 2022 | 10.1128/mra.00447-22 | Noonan, A. J. C., Y. Qiu, B. Kieft, S. Formby, T. Liu, K. Dofher, M. Koch and S. J. Hallam | Metagenome-Assembled Genomes for “Candidatus Phormidium sp. Strain AB48” and Co-occurring Microorganisms from an Industrial Photobioreactor Environment | Microbiology Resource Announcements | 11(12) e00447-22 |
| 2022 | 10.3389/fbioe.2022.932363 | Nogle, R., S. Nagaraju, S. M. Utturkar, R. J. Giannone, V. Reynoso, C. Leang, R. L. Hettich, W. P. Mitchell, S. D. Simpson, M. C. Jewett, M. Köpke and S. D. Brown | Clostridium autoethanogenum isopropanol production via native plasmid pCA replicon | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1007/s00497-021-00432-1 | Noble, J. A., A. Seddon, S. Uygun, A. Bright, S. E. Smith, S.-h. Shiu and R. Palanivelu | The SEEL motif and members of the MYB-related REVEILLE transcription factor family are important for the expression of LORELEI in the synergid cells of the Arabidopsis female gametophyte | Plant Reproduction | 35(1) 61–76 |
| 2022 | 10.1128/msystems.01249-21 | No, J. H., S. D. Nishu, J.-K. Hong, E. S. Lyou, M. S. Kim, G. N. Wee and T. K. Lee | Raman-Deuterium Isotope Probing and Metagenomics Reveal the Drought Tolerance of the Soil Microbiome and Its Promotion of Plant Growth | mSystems | 7(1) e01249-21 |
| 2022 | 10.1016/j.xpro.2022.101184 | Niu, P., M. J. Soto, B.-J. Yoon, E. R. Dougherty, F. J. Alexander, I. Blaby and X. Qian | Protocol for condition-dependent metabolite yield prediction using the TRIMER pipeline | STAR Protocols | 3(1) 101184 |
| 2022 | 10.3389/fmolb.2022.1011981 | Nickels, J. D., K. S. Bonifer, R. R. Tindall, A. Yahya, L. Tan, C. Do, B. H. Davison and J. G. Elkins | Improved chemical and isotopic labeling of biomembranes in Bacillus subtilis by leveraging CRISPRi inhibition of beta-ketoacyl-ACP synthase (fabF) | Frontiers in Molecular Biosciences | 9 |
| 2022 | 10.1073/pnas.2206744119 | Nethery, M. A., C. Hidalgo-Cantabrana, A. Roberts and R. Barrangou | CRISPR-based engineering of phages for in situ bacterial base editing | Proceedings of the National Academy of Sciences | 119(46) e2206744119 |
| 2022 | 10.1016/j.cell.2022.08.023 | Neri, U., Y. I. Wolf, S. Roux, A. P. Camargo, B. Lee, et al. | Expansion of the global RNA virome reveals diverse clades of bacteriophages | Cell | 185(21) 4023-4037.e18 |
| 2022 | 10.1038/s42003-022-03348-2 | Nemati, S., A. Singh, S. D. Dhuey, A. McDonald, D. M. Weinreich and A. E. Vasdekis | Density fluctuations, homeostasis, and reproduction effects in bacteria | Communications Biology | 5(1) 397 |
| 2022 | 10.1038/s41564-022-01203-y | Nelson, A. R., A. B. Narrowe, C. C. Rhoades, T. S. Fegel, R. A. Daly, et al. | Wildfire-dependent changes in soil microbiome diversity and function | Nature Microbiology | 7(9) 1419-1430 |
| 2022 | 10.1038/s41564-022-01174-0 | Needham, D. M., C. Poirier, C. Bachy, E. E. George, S. Wilken, C. C. M. Yung, A. J. Limardo, M. Morando, L. Sudek, R. R. Malmstrom, P. J. Keeling, A. E. Santoro and A. Z. Worden | The microbiome of a bacterivorous marine choanoflagellate contains a resource-demanding obligate bacterial associate | Nature Microbiology | 7(9) 1466–1479 |
| 2022 | 10.3390/microorganisms10030540 | Naylor, D., R. McClure and J. Jansson | Trends in Microbial Community Composition and Function by Soil Depth | Microorganisms | 10(3) 540 |
| 2022 | 10.3390/plants11040566 | Nayak, S., H. Bhandari, M. C. Saha, S. Ali, C. Sams and V. Pantalone | Identification of QTL Associated with Regrowth Vigor Using the Nested Association Mapping Population in Switchgrass | Plants | 11(4) |
| 2022 | 10.1007/978-1-0716-1585-0_14 | Navid, A. | Curating COBRA Models of Microbial Metabolism | Microbial Systems Biology: Methods and Protocols | 321–38 |
| 2022 | 10.1007/978-1-0716-1585-0_15 | Navid, A. | A Beginner’s Guide to the COBRA Toolbox | Microbial Systems Biology: Methods and Protocols | 339–65 |
| 2022 | 10.1093/g3journal/jkac084 | Navarrete, T. G., C. Arias, E. Mukundi, A. P. Alonso and E. Grotewold | Natural variation and improved genome annotation of the emerging biofuel crop field pennycress (Thlaspi arvense) | G3: Genes, Genomes, Genetics | 12(6) |
| 2022 | 10.1073/pnas.2118879119 | Napier, J. D., P. P. Grabowski, J. T. Lovell, J. Bonnette, S. Mamidi, et al. | A generalist–specialist trade-off between switchgrass cytotypes impacts climate adaptation and geographic range | Proceedings of the National Academy of Sciences | 119(15) e2118879119 |
| 2022 | 10.3390/rs14061435 | Namoi, N., C. Jang, Z. Robins, C. H. Lin, S. H. Lim, T. Voigt and D. Lee | Aerial Imagery Can Detect Nitrogen Fertilizer Effects on Biomass and Stand Health of Miscanthus × giganteus | Remote Sensing | 14(6) |
| 2022 | Namoi, N., C. Jang, Z. Robins, C.-H. Lin, S.-H. Lim, T. Voigt and D. Lee | Aerial Imagery Can Detect Nitrogen Fertilizer Effects on Biomass and Stand Health of Miscanthus x giganteus | Remote Sensing | 14(6) 1435 | |
| 2022 | 10.1099/ijsem.0.005469 | Nadal-Jimenez, P., S. Siozios, C. L. Frost, R. Court, E. Chrostek, G. C. Drew, J. D. Evans, D. J. Hawthorne, J. B. Burritt and G. D. D. Hurst | Arsenophonus apicola sp. nov., isolated from the honeybee Apis mellifera | International Journal of Systematic and Evolutionary Microbiology | 72(8) |
| 2022 | 10.1007/978-1-0716-1720-5_12 | Myers, K. S., P. Behari Lal, D. R. Noguera and T. J. Donohue | Using Genome Scale Mutant Libraries to Identify Essential Genes | Essential Genes and Genomes: Methods and Protocols | 215–36 |
| 2022 | 10.1038/s41594-022-00774-y | Murray, K. A., M. P. Hughes, C. J. Hu, M. R. Sawaya, L. Salwinski, H. Pan, S. W. French, P. M. Seidler and D. S. Eisenberg | Identifying amyloid-related diseases by mapping mutations in low-complexity protein domains to pathologies | Nature Structural and Molecular Biology | 29(6) 529-536 |
| 2022 | 10.1021/acsnano.1c08043 | Murray, K. A., D. Evans, M. P. Hughes, M. R. Sawaya, C. J. Hu, K. N. Houk and D. Eisenberg | Extended β-Strands Contribute to Reversible Amyloid Formation | ACS Nano | 16(2) 2154-2163 |
| 2022 | 10.1093/plphys/kiac210 | Muro-Villanueva, F., H. Kim, J. Ralph and C. Chapple | H-lignin can be deposited independently of CINNAMYL ALCOHOL DEHYDROGENASE C and D in Arabidopsis | Plant Physiology | 189(4) 2015–28 |
| 2022 | 10.3389/fpls.2021.766506 | Munson, C. R., Y. Gao, J. C. Mortimer and D. T. Murray | Solid-State Nuclear Magnetic Resonance as a Tool to Probe the Impact of Mechanical Preprocessing on the Structure and Arrangement of Plant Cell Wall Polymers | Frontiers in Plant Science | 12 |
| 2022 | 10.1126/sciadv.abj4633 | Muleta, K. T., T. Felderhoff, N. Winans, R. Walstead, J. R. Charles, et al. | The recent evolutionary rescue of a staple crop depended on over half a century of global germplasm exchange | Science Advances | 8(6) eabj4633 |
| 2022 | 10.1093/nar/gkac974 | Mukherjee, S., D. Stamatis, Cindy T. Li, G. Ovchinnikova, J. Bertsch, Jagadish C. Sundaramurthi, M. Kandimalla, Paul A. Nicolopoulos, A. Favognano, I.-Min A. Chen, Nikos C. Kyrpides and T. B. K. Reddy | Twenty-five years of Genomes OnLine Database (GOLD): data updates and new features in v.9 | Nucleic Acids Research | 51(D1) D957-D963 |
| 2022 | 10.1007/s00705-022-05412-y | Muhle, A. A., N. A. Palmer, S. J. Edme, G. Sarath, G. Yuen, R. B. Mitchell and S. Tatineni | Effect of cultivar and temperature on the synergistic interaction between panicum mosaic virus and satellite panicum mosaic virus in switchgrass | Archives of Virology | 167(5) 1247-1256 |
| 2022 | Muchero, W., G. Tuskan, J.-G. Chen and L. E. Gunter | Methods for improving callus formation and regeneration in plants | Patent, U. S. | ||
| 2022 | 10.1002/yea.3699 | Mozzachiodi, S., F.-Y. Bai, P. Baldrian, G. Bell, K. Boundy-Mills, et al. | Yeasts from temperate forests | Yeast | 39(1–2) 4–24 |
| 2022 | 10.1186/s12934-022-01752-1 | Moyo, A. C., L. Dufossé, D. Giuffrida, L. J. van Zyl and M. Trindade | Structure and biosynthesis of carotenoids produced by a novel Planococcus sp. isolated from South Africa | Microbial Cell Factories | 21(1) 43 |
| 2022 | 10.1126/sciadv.abo0902 | Mou, Q., X. Xue, Y. Ma, M. Banik, V. Garcia, W. Guo, J. Wang, T. Song, L.-Q. Chen and Y. Lu | Efficient delivery of a DNA aptamer-based biosensor into plant cells for glucose sensing through thiol-mediated uptake | Science Advances | 8(26) eabo0902 |
| 2022 | 10.3389/fpls.2022.938083 | Mottiar, Y. and S. D. Mansfield | Lignin p-Hydroxybenzoylation Is Negatively Correlated With Syringyl Units in Poplar | Frontiers in Plant Science | 13 |
| 2022 | 10.1128/msphere.00231-22 | Morris, M. M., J. A. Kimbrel, H. Geng, M. B. Tran-Gyamfi, E. T. Yu, K. L. Sale, T. W. Lane and X. Mayali | Bacterial Community Assembly, Succession, and Metabolic Function during Outdoor Cultivation of Microchloropsis salina | mSphere | 7(4) e00231-22 |
| 2022 | 10.1016/j.rhisph.2022.100564 | Moran, J. J., T. J. Linley, C. N. Makarem, J. F. Kelly, E. D. Wilcox Freeburg, D. M. Cleary, M. L. Alexander and J. M. Kriesel | Spectroscopy-based isotopic (δ13C) analysis for high spatial resolution of carbon exchange in the rhizosphere | Rhizosphere | 23 100564 |
| 2022 | 10.3389/fmicb.2022.892227 | Morales, D. P., A. J. Robinson, A. C. Pawlowski, C. Ark, J. M. Kelliher, P. Junier, J. H. Werner and P. S. G. Chain | Advances and Challenges in Fluorescence in situ Hybridization for Visualizing Fungal Endobacteria | Frontiers in Microbiology | 13 |
| 2022 | 10.1039/D2GC00488G | Morais, A. R. C., J. Zhang, H. Dong, W. G. Otto, T. Mokomele, D. Hodge, V. Balan, B. E. Dale, R. M. Lukasik and L. da Costa Sousa | Development of an ammonia pretreatment that creates synergies between biorefineries and advanced biomass logistics models | Green Chemistry | 24(11) 4443–62 |
| 2022 | 10.1111/nph.18010 | Moore, J. A. M., P. E. Abraham, Joshua K. Michener, W. Muchero and Melissa A. Cregger | Ecosystem consequences of introducing plant growth promoting rhizobacteria to managed systems and potential legacy effects | New Phytologist | 234(6) 1914–8 |
| 2022 | 10.1088/1748-9326/ac661a | Moore, C. E., C. D. Gibson, G. Miao, E. C. Dracup, N. Gomez-Casanovas, M. D. Masters, J. Miller, A. C von Haden, T. Meyers, E. H. DeLucia and C. J. Bernacchi | Substantial carbon loss respired from a corn–soybean agroecosystem highlights the importance of careful management as we adapt to changing climate | Environmental Research Letters | 17(5) 054029 |
| 2022 | 10.1016/j.tibtech.2022.08.010 | Moon, T. S. | SynMADE: synthetic microbiota across diverse ecosystems | Trends in Biotechnology | |
| 2022 | 10.1016/j.ijfoodmicro.2022.109555 | Montso, P. K., C. C. Bezuidenhout, C. Mienie, Y. M. Somorin, O. A. Odeyemi, V. Mlambo and C. N. Ateba | Genetic diversity and whole genome sequence analysis data of multidrug resistant atypical enteropathogenic Escherichia coli O177 strains: An assessment of food safety and public health implications | International Journal of Food Microbiology | 365 109555 |
| 2022 | 10.1111/tpj.15501 | Montes, C. M., H. J. Demler, S. Li, D. G. Martin and E. A. Ainsworth | Approaches to investigate crop responses to ozone pollution: from O3-FACE to satellite-enabled modeling | The Plant Journal | 109(2) 432–46 |
| 2022 | 10.3389/fmicb.2022.975365 | Montero-Calasanz, M. d. C., A. Yaramis, M. Rohde, P. Schumann, H.-P. Klenk and J. P. Meier-Kolthoff | Genotype–phenotype correlations within the Geodermatophilaceae | Frontiers in Microbiology | 13 |
| 2022 | 10.1038/s41579-021-00600-0 | Montaño López, J., L. Duran and J. L. Avalos | Physiological limitations and opportunities in microbial metabolic engineering | Nature Reviews Microbiology | 20(1) 35-48 |
| 2022 | 10.1016/j.cej.2022.137117 | Mokomele, T., L. da Costa Sousa, A. Colbert, B. E. Dale, J. F. Görgens and V. Balan | Coupling AFEX and steam-exploded sugarcane residue pellets with a room temperature CIIII-activation step lowered enzyme dosage requirements for sugar conversion | Chemical Engineering Journal | 446 |
| 2022 | 10.1016/bs.mie.2021.11.023 | Mok, K. C., Z. F. Hallberg and M. E. Taga | Purification and detection of vitamin B12 analogs | Methods in Enzymology | 668 61-85 |
| 2022 | 10.1021/acssuschemeng.2c03373 | Mohan, M., K. L. Sale, R. S. Kalb, B. A. Simmons, J. M. Gladden and S. Singh | Multiscale Molecular Simulation Strategies for Understanding the Delignification Mechanism of Biomass in Cyrene | ACS Sustainable Chemistry & Engineering | 10(33) 11016–29 |
| 2022 | 10.1016/j.fluid.2022.113559 | Mohan, M., N. Kumar, V. V. Goud, B. A. Simmons, K. L. Sale, J. M. Gladden, S. Singh and T. Banerjee | Effect of cosolvent on the solubility of glucose in ionic liquids: Experimental and molecular dynamics simulations | Fluid Phase Equilibria | 562 113559 |
| 2022 | 10.1039/D1GC03464B | Mohan, M., J. D. Keasling, B. A. Simmons and S. Singh | In silico COSMO-RS predictive screening of ionic liquids for the dissolution of plastic | Green Chemistry | 24(10) 4140–52 |
| 2022 | 10.1039/D1GC03798F | Mohan, M., K. Huang, V. R. Pidatala, B. A. Simmons, S. Singh, K. L. Sale and J. M. Gladden | Prediction of solubility parameters of lignin and ionic liquids using multi-resolution simulation approaches | Green Chemistry | 24(3) 1165–76 |
| 2022 | 10.1371/journal.pbio.3001835 | Mock, T., W. Boulton, J.-P. Balmonte, K. Barry, S. Bertilsson, et al. | Multiomics in the central Arctic Ocean for benchmarking biodiversity change | PLOS Biology | 20(10) e3001835 |
| 2022 | 10.1253/circj.CJ-22-0036 | Minami, T., H. Kawano, T. Yoshimuta, S. Ikeda, C. Otsubo and K. Maemura | Nonbacterial thrombotic endocarditis progressed aortic stenosis of a bicuspid aortic valve in a patient with advanced cancer | Circulation journal : official journal of the Japanese Circulation Society | 86(10) 1589 |
| 2022 | 10.1038/s41467-022-31279-3 | Mills, C. E., C. Waltmann, A. G. Archer, N. W. Kennedy, C. H. Abrahamson, A. D. Jackson, E. W. Roth, S. Shirman, M. C. Jewett, N. M. Mangan, M. Olvera de la Cruz and D. Tullman-Ercek | Vertex protein PduN tunes encapsulated pathway performance by dictating bacterial metabolosome morphology | Nature Communications | 13(1) |
| 2022 | 10.1093/genetics/iyac063 | Michel, K. J., D. C. Lima, H. Hundley, V. Singan, Y. Yoshinaga, C. Daum, K. Barry, K. W. Broman, C. Robin Buell, N. de Leon and S. M. Kaeppler | Genetic mapping and prediction of flowering time and plant height in a maize Stiff Stalk MAGIC population | Genetics | 221(2) |
| 2022 | 10.1021/acsestengg.1c00207 | Michalsen, M. M., F. Kara Murdoch, F. E. Löffler, J. Wilson, P. B. Hatzinger, J. D. Istok, L. Mullins, A. Hill, R. W. Murdoch, C. Condee and K. H. Kucharzyk | Quantitative Proteomics and Quantitative PCR as Predictors of cis-1,2-Dichlorethene and Vinyl Chloride Reductive Dechlorination Rates in Bioaugmented Aquifer Microcosms | ACS ES&T Engineering | 2(1) 43–53 |
| 2022 | 10.1038/s41592-022-01431-4 | Meyer, F., A. Fritz, Z.-L. Deng, D. Koslicki, T. R. Lesker, et al. | Critical Assessment of Metagenome Interpretation: the second round of challenges | Nature Methods | 19(4) 429-440 |
| 2022 | 10.1007/s00122-022-04030-1 | Metcalfe, C. J., J. Li, B. Zheng, J. Stiller, A. Healey, N. Piperidis and K. S. Aitken | Isolation and sequencing of a single copy of an introgressed chromosome from a complex genome for gene and SNP identification | Theoretical and Applied Genetics | 135(4) 1279-1292 |
| 2022 | 10.1128/msystems.00176-22 | Metcalf, A. J. and N. R. Boyle | Rhythm of the Night (and Day): Predictive Metabolic Modeling of Diurnal Growth in Chlamydomonas | mSystems | 7(4) |
| 2022 | 10.1038/s41597-022-01762-z | Meslier, V., B. Quinquis, K. Da Silva, F. Plaza Oñate, N. Pons, H. Roume, M. Podar and M. Almeida | Benchmarking second and third-generation sequencing platforms for microbial metagenomics | Scientific Data | 9(1) 694 |
| 2022 | 10.1111/tpj.15651 | Meng, Y., K. Varshney, N. Incze, E. Badics, M. Kamran, et al. | KARRIKIN INSENSITIVE2 regulates leaf development, root system architecture and arbuscular-mycorrhizal symbiosis in Brachypodium distachyon | The Plant Journal | 109(6) 1559-1574 |
| 2022 | 10.1016/j.biortech.2021.126061 | Meng, X., C. G. Yoo, Y. Pu and A. J. Ragauskas | Opportunities and challenges for flow-through hydrothermal pretreatment in advanced biorefineries | Bioresource Technology | 343 126061 |
| 2022 | 10.1111/1751-7915.14025 | Meng, J., Z. Németh, M. Peng, E. Fekete, S. Garrigues, A. Lipzen, V. Ng, E. Savage, Y. Zhang, I. V. Grigoriev, M. R. Mäkelä, L. Karaffa and R. P. de Vries | GalR, GalX and AraR co-regulate d-galactose and l-arabinose utilization in Aspergillus nidulans | Microbial Biotechnology | 15(6) 1839-1851 |
| 2022 | 10.1016/j.agrformet.2022.109154 | Menefee, D., R. L. Scott, M. Abraha, J. G. Alfieri, J. Baker, et al. | Unraveling the effects of management and climate on carbon fluxes of U.S. croplands using the USDA Long-Term Agroecosystem (LTAR) network | Agricultural and Forest Meteorology | 326 109154 |
| 2022 | 10.34133/2022/9853416 | Melesse Vergara, M., J. Labbé and J. Tannous | Reflection on the Challenges, Accomplishments, and New Frontiers of Gene Drives | BioDesign Research | 2022 9853416 |
| 2022 | 10.1094/MPMI-10-21-0246-A | Medrano, E. G. and L. K. Prom | Genome Sequence Data of Bacillus sp. Strain LP16S, Which Is Capable of Inhibiting the Growth of Multiple Sorghum Fungal Pathogens | Molecular Plant-Microbe Interactions | 35(3) 290-292 |
| 2022 | 10.1128/mra.00874-22 | McLoon, A. L., T. T. Awad, M. F. Bogardus, M. G. Buono, K. A. Devine, et al. | Draft Genome Sequences for 6 Isolates of Endospore-Forming Class Bacilli Species Isolated from Soil from a Suburban, Wooded, Developed Space | Microbiology Resource Announcements | 11(11) e00874-22 |
| 2022 | 10.3389/fpls.2022.1062264 | McKinley, B. A., M. Thakran, S. Zemelis-Durfee, X. Huang, F. Brandizzi, W. L. Rooney, S. D. Mansfield and J. E. Mullet | Transcriptional regulation of the raffinose family oligosaccharides pathway in Sorghum bicolor reveals potential roles in leaf sucrose transport and stem sucrose accumulation | Frontiers in Plant Science | 13 |
| 2022 | 10.1093/g3journal/jkac295 | McKenzie, A. M., C. Henry, K. S. Myers, M. M. Place and J. L. Keck | Identification of genetic interactions with priB links the PriA/PriB DNA replication restart pathway to double-strand DNA break repair in Escherichia coli | G3 Genes|Genomes|Genetics | 12(12) |
| 2022 | 10.1038/s41396-021-01139-x | McKay, L. J., H. J. Smith, E. P. Barnhart, H. D. Schweitzer, R. R. Malmstrom, D. Goudeau and M. W. Fields | Activity-based, genome-resolved metagenomics uncovers key populations and pathways involved in subsurface conversions of coal to methane | The ISME Journal | 16(4) 915–26 |
| 2022 | 10.1038/s43705-022-00189-2 | McDaniel, E. A., J. J. M. van Steenbrugge, D. R. Noguera, K. D. McMahon, J. M. Raaijmakers, M. H. Medema and B. O. Oyserman | TbasCO: trait-based comparative ‘omics identifies ecosystem-level and niche-differentiating adaptations of an engineered microbiome | ISME Communications | 2(1) 111 |
| 2022 | 10.1007/s12041-022-01394-7 | McCluskey, K. and S. E. Baker | Identifying the gluc-1 and gluc-2 mutations in Neurospora crassa by genome resequencing | Journal of Genetics | 101(2) 50 |
| 2022 | 10.1128/msystems.00372-22 | McClure, R., Y. Farris, R. Danczak, W. Nelson, H.-S. Song, A. Kessell, J.-Y. Lee, S. Couvillion, C. Henry, J. K. Jansson and K. S. Hofmockel | Interaction Networks Are Driven by Community-Responsive Phenotypes in a Chitin-Degrading Consortium of Soil Microbes | mSystems | 7(5) e00372-22 |
| 2022 | 10.1128/msystems.01037-21 | McCausland, H. C., K. M. Wetmore, A. P. Arkin and A. Komeili | Global Analysis of Biomineralization Genes in Magnetospirillum magneticum AMB-1 | mSystems | 7(1) e01037-21 |
| 2022 | 10.1016/j.nbt.2021.12.003 | Mazzoli, R., D. G. Olson, A. M. Concu, E. K. Holwerda and L. R. Lynd | In vivo evolution of lactic acid hyper-tolerant Clostridium thermocellum | New Biotechnology | 67 46013 |
| 2022 | 10.1016/j.nbt.2021.12.003 | Mazzoli, R., D. G. Olson, A. M. Concu, E. K. Holwerda and L. R. Lynd | In vivo evolution of lactic acid hyper-tolerant Clostridium thermocellum | New Biotechnology | 67 12–22 |
| 2022 | 10.1016/j.ymben.2021.11.002 | Matson, M. M., M. M. Cepeda, A. Zhang, A. E. Case, E. S. Kavvas, X. Wang, A. L. Carroll, I. Tagkopoulos and S. Atsumi | Adaptive laboratory evolution for improved tolerance of isobutyl acetate in Escherichia coli | Metabolic Engineering | 69 50-58 |
| 2022 | 10.1007/s11104-021-05247-7 | Martínez-Hidalgo, P., E. A. Humm, D. W. Still, B. Shi, M. Pellegrini, et al. | Medicago root nodule microbiomes: insights into a complex ecosystem with potential candidates for plant growth promotion | Plant and Soil | 471(1) 507-526 |
| 2022 | 10.1088/1748-9326/ac541b | Martinez-Feria, R. A., B. Basso and S. Kim | Boosting climate change mitigation potential of perennial lignocellulosic crops grown on marginal lands | Environmental Research Letters | 17(4) 044004 |
| 2022 | 10.1016/j.jbc.2021.101464 | Martinez, O. E., B. J. Mahoney, A. K. Goring, S. W. Yi, D. P. Tran, D. Cascio, M. L. Phillips, M. M. Muthana, X. Chen, M. E. Jung, J. A. Loo and R. T. Clubb | Insight into the molecular basis of substrate recognition by the wall teichoic acid glycosyltransferase TagA | Journal of Biological Chemistry | 298(2) |
| 2022 | 10.1039/D1GC03854K | Martinez, D. V., A. Rodriguez, M. A. Juarros, E. J. Martinez, T. M. Alam, B. A. Simmons, K. L. Sale, S. W. Singer and M. S. Kent | Depolymerization of lignin for biological conversion through sulfonation and a chelator-mediated Fenton reaction | Green Chemistry | 24(4) 1627–43 |
| 2022 | 10.3389/fsoil.2022.917885 | Martin, T. and Christine D. Sprunger | Sensitive Measures of Soil Health Reveal Carbon Stability Across a Management Intensity and Plant Biodiversity Gradient | Frontiers in Soil Science | 2 |
| 2022 | 10.1007/978-981-16-9507-0_11 | Marqués-Gálvez, J. E., C. Veneault-Fourrey and A. Kohler | Ectomycorrhizal Symbiosis: From Genomics to Trans-Kingdom Molecular Communication and Signaling | Microbial Cross-talk in the Rhizosphere | 273–96 |
| 2022 | 10.1128/mbio.00628-22 | Marian, I. M., P. J. Vonk, I. D. Valdes, K. Barry, B. Bostock, et al. | The Transcription Factor Roc1 Is a Key Regulator of Cellulose Degradation in the Wood-Decaying Mushroom Schizophyllum commune | mBio | 13(3) e00628-22 |
| 2022 | 10.1038/s41477-022-01226-7 | Marchant, D. B., G. Chen, S. Cai, F. Chen, P. Schafran, et al. | Dynamic genome evolution in a model fern | Nature Plants | 8(9) 1038-1051 |
| 2022 | 10.1111/tpj.15669 | Maqbool, S., M. A. Hassan, X. Xia, L. M. York, A. Rasheed and Z. He | Root system architecture in cereals: progress, challenges and perspective | The Plant Journal | 110(1) 23–42 |
| 2022 | 10.1021/jacs.2c10132 | Mantilla, A. B. C., C.-F. Wang, Y. Gu, Z. D. Schultz and P. Z. El-Khoury | Multipolar Raman Scattering vs Interfacial Nanochemistry: Case of 4-Mercaptopyridine on Gold | Journal of the American Chemical Society | 144(45) 20561–5 |
| 2022 | 10.1128/mra.00804-22 | Mandro, J. A., F. M. Nakamura, J. B. Gontijo, S. M. Tsai and A. M. Venturini | Metagenome-Assembled Genomes from Amazonian Soil Microbial Consortia | Microbiology Resource Announcements | 11(11) e00804-22 |
| 2022 | 10.1128/mra.01097-21 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. O. Babalola and O. A. Aiyegoro | Whole-Genome Sequence of Paenibacillus polymyxa Strain SRT9.1, a Promising Plant Growth-Promoting Bacterium | Microbiology Resource Announcements | 11(1) e01097-21 |
| 2022 | 10.1128/mra.01125-21 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. A. Aiyegoro and O. O. Babalola | Draft Genome Sequence of Sweet Pepper Fruit Epiphyte-Associated Bacillus cereus HRT7.7 | Microbiology Resource Announcements | 11(2) e01125-21 |
| 2022 | 10.1094/mpmi-08-21-0211-r | Malvino, M. L., A. J. Bott, C. E. Green, T. Majumdar and S. R. Hind | Influence of Flagellin Polymorphisms, Gene Regulation, and Responsive Memory on the Motility of Xanthomonas Species That Cause Bacterial Spot Disease of Solanaceous Plants | Molecular Plant-Microbe Interactions | 35(2) 157–69 |
| 2022 | 10.1111/gcbb.12927 | Malmstrom, C. M., A. K. Busch, E. A. Cole, P. Trebicki, P. Bernardo, A. K. Brown, D. A. Landis and B. P. Werling | Emerging wild virus of native grass bioenergy feedstock is well-established in the Midwestern USA and associated with premature stand senescence | GCB Bioenergy | 14(4) 463–80 |
| 2022 | 10.1021/acssuschemeng.2c05327 | Maitra, S., M. B. Viswanathan, K. Park, B. Kannan, S. C. Alfanar, S. M. McCoy, E. B. Cahoon, F. Altpeter, A. D. B. Leakey and V. Singh | Bioprocessing, Recovery, and Mass Balance of Vegetative Lipids from Metabolically Engineered “Oilcane” Demonstrates Its Potential as an Alternative Feedstock for Drop-In Fuel Production | ACS Sustainable Chemistry & Engineering | 10(50) 16833–44 |
| 2022 | 10.1016/j.jclepro.2022.134383 | Maitra, S. and V. Singh | A consolidated bioprocess design to produce multiple high-value platform chemicals from lignocellulosic biomass and its technoeconomic feasibility | Journal of Cleaner Production | 377 134383 |
| 2022 | 10.3389/fenrg.2022.840418 | Maitra, S., S. P. Long and V. Singh | Optimizing Chemical-Free Pretreatment for Maximizing Oil/Lipid Recovery From Transgenic Bioenergy Crops and Its Rapid Analysis Using Time Domain-NMR | Frontiers in Energy Research | 10 |
| 2022 | 10.21926/cr.2203028 | Mai Pham, L. T., K. Deng, T. Northen, S. Singer, P. Adams, B. Simmons and K. Sale | Heterologous Expression, Characterization, and Comparison of Laccases from the White Rot Causing Basidiomycete Cerrena Unicolor | Catalysis Research | 2(3) 22 |
| 2022 | 10.1002/prot.26326 | Mahoney, B. J., A. Takayesu, A. Zhou, D. Cascio and R. T. Clubb | The structure of the Clostridium thermocellum RsgI9 ectodomain provides insight into the mechanism of biomass sensing | Proteins: Structure, Function and Bioinformatics | 90(7) 1457-1467 |
| 2022 | 10.1186/s12859-022-04829-1 | Mahmud, S., Z. Guo, F. Quadir, J. Liu and J. Cheng | Multi-head attention-based U-Nets for predicting protein domain boundaries using 1D sequence features and 2D distance maps | BMC Bioinformatics | 23(1) |
| 2022 | 10.3389/fbinf.2022.866850 | Mageeney, C. M., G. Trubl and K. P. Williams | Improved Mobilome Delineation in Fragmented Genomes | Frontiers in Bioinformatics | 2 |
| 2022 | 10.1128/msystems.01419-21 | Mackelprang, R., P. Vaishampayan and K. Fisher | Adaptation to Environmental Extremes Structures Functional Traits in Biological Soil Crust and Hypolithic Microbial Communities | mSystems | 7(4) e01419-21 |
| 2022 | 10.1021/acscentsci.1c01570 | Macdonald, S. S., J. H. Pereira, F. Liu, G. Tegl, A. DeGiovanni, J. F. Wardman, S. Deutsch, Y. Yoshikuni, P. D. Adams and S. G. Withers | A Synthetic Gene Library Yields a Previously Unknown Glycoside Phosphorylase That Degrades and Assembles Poly-β-1,3-GlcNAc, Completing the Suite of β-Linked GlcNAc Polysaccharides | ACS Central Science | 8(4) 430-440 |
| 2022 | 10.1007/s11103-020-01104-w | Lyons, J. B., J. V. Bredeson, B. N. Mansfeld, G. J. Bauchet, J. Berry, A. Boyher, L. A. Mueller, D. S. Rokhsar and R. S. Bart | Current status and impending progress for cassava structural genomics | Plant Molecular Biology | 109(3) 177-191 |
| 2022 | 10.1039/d1ee02540f | Lynd, L. R., G. T. Beckham, A. M. Guss, L. N. Jayakody, E. M. Karp, et al. | Toward low-cost biological and hybrid biological/catalytic conversion of cellulosic biomass to fuels | Energy & Environmental Science | 15(3) 938–90 |
| 2022 | 10.1002/bit.28219 | Lupish, B., J. Hall, C. Schwartz, A. Ramesh, C. Morrison and I. Wheeldon | Genome-wide CRISPR-Cas9 screen reveals a persistent null-hyphal phenotype that maintains high carotenoid production in Yarrowia lipolytica | Biotechnology and Bioengineering | 119(12) 3623-3631 |
| 2022 | 10.3389/fmicb.2022.822541 | Lupini, S., J. Peña-Bahamonde, G. Bonito and D. F. Rodrigues | Effect of Endosymbiotic Bacteria on Fungal Resistance Toward Heavy Metals | Frontiers in Microbiology | 13 |
| 2022 | 10.1186/s12896-022-00753-7 | Luo, G., V. D. Cao, B. Kannan, H. Liu, J. Shanklin and F. Altpeter | Metabolic engineering of energycane to hyperaccumulate lipids in vegetative biomass | BMC Biotechnology | 22(1) |
| 2022 | 10.1002/prot.26250 | Lubin, J. H., C. Zardecki, E. M. Dolan, C. Lu, Z. Shen, et al. | Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first 6 months of the COVID-19 pandemic | Proteins: Structure, Function and Bioinformatics | 90(5) 1054-1080 |
| 2022 | 10.7554/eLife.78526 | Lovell, J. T., A. Sreedasyam, M. E. Schranz, M. Wilson, J. W. Carlson, A. Harkess, D. Emms, D. M. Goodstein and J. Schmutz | GENESPACE tracks regions of interest and gene copy number variation across multiple genomes | eLife | 11 e78526 |
| 2022 | 10.1038/d41586-022-01368-w | Lovell, J. T. and J. Grimwood | The first complete human genome | Nature | 606(7914) 468-469 |
| 2022 | 10.1016/j.fgb.2022.103698 | Louet, C., C. Blot, E. Shelest, P. Guerillot, A. Salamov, F. Zannini, J. Pétrowski, I. V. Grigoriev, P. Frey and S. Duplessis | Annotation survey and life cycle transcriptomics of transcription factors in rust fungi (Pucciniales) identify a possible role for cold shock proteins in dormancy exit | Fungal Genetics and Biology | 161 103698 |
| 2022 | 10.1111/nph.17892 | Looney, B., S. Miyauchi, E. Morin, E. Drula, P. E. Courty, et al. | Evolutionary transition to the ectomycorrhizal habit in the genomes of a hyperdiverse lineage of mushroom-forming fungi | New Phytologist | 233(5) 2294–309 |
| 2022 | 10.1016/j.scitotenv.2022.157917 | Lobato, A., C. O. Souza, W. M. B. S. Martins, R. R. Barata, D. S. Camargo, L. M. G. Dutra, I. C. R. S. Carneiro, C. J. S. Costa and D. M. Brasiliense | Genomic characterization of BKC-1–producing Klebsiella pneumoniae strain belonging to high-risk clone sequence type 11 isolated from a river in Brazil | Science of The Total Environment | 850 157917 |
| 2022 | 10.1021/jacs.1c10975 | Liu, Z., J. Huang, Y. Gu, D. S. Clark, A. Mukhopadhyay, J. D. Keasling and J. F. Hartwig | Assembly and Evolution of Artificial Metalloenzymes within E. coli Nissle 1917 for Enantioselective and Site-Selective Functionalization of C─H and C═C Bonds | Journal of the American Chemical Society | 144(2) 883–90 |
| 2022 | 10.34133/2022/9863496 | Liu, Y., G. Yuan, M. M. Hassan, P. E. Abraham, J. C. Mitchell, et al. | Biological and Molecular Components for Genetically Engineering Biosensors in Plants | BioDesign Research | 2022 9863496 |
| 2022 | 10.1016/j.soilbio.2021.108541 | Liu, Y., S. E. Evans, M. L. Friesen and L. K. Tiemann | Root exudates shift how N mineralization and N fixation contribute to the plant-available N supply in low fertility soils | Soil Biology and Biochemistry | 165 108541 |
| 2022 | 10.1073/pnas.2208795119 | Liu, W. Y., C. P. Yu, C. K. Chang, H. J. Chen, M. Y. Li, Y. H. Chen, S. H. Shiu, M. S. B. Ku, S. L. Tu, M. Y. J. Lu and W. H. Li | Regulators of early maize leaf development inferred from transcriptomes of laser capture microdissection (LCM)-isolated embryonic leaf cells | Proceedings of the National Academy of Sciences of the United States of America | 119(35) |
| 2022 | 10.1038/s42003-022-03213-2 | Liu, W., M. Schoonen, T. Wang, S. McSweeney and Q. Liu | Cryo-EM structure of transmembrane AAA+ protease FtsH in the ADP state | Communications Biology | 5(1) 257 |
| 2022 | 10.1016/B978-0-12-824469-2.00013-0 | Liu, R., L. Liang, M. P. Lacerda, E. F. Freed and C. A. Eckert | Advances in protein engineering and its application in synthetic biology | New Frontiers and Applications of Synthetic Biology | 147–58 |
| 2022 | 10.1016/B978-0-12-824469-2.00029-4 | Liu, R., L. Liang, M. Habib, E. F. Freed and C. A. Eckert | Advances and application of CRISPR-Cas systems | New Frontiers and Applications of Synthetic Biology | 331–48 |
| 2022 | 10.1002/prot.26186 | Liu, J., T. Wu, Z. Guo, J. Hou and J. Cheng | Improving protein tertiary structure prediction by deep learning and distance prediction in CASP14 | Proteins: Structure, Function and Bioinformatics | 90(1) 58-72 |
| 2022 | 10.1099/ijsem.0.005401 | Liu, J., J. Li, J. Luo, Y. Li, Z. Yang, C. Huang, F. Sun and G. Wang | Sessilibacter corallicola gen. nov., sp. nov., a sessile bacterium isolated from coral Porites lutea | International Journal of Systematic and Evolutionary Microbiology | 72(5) |
| 2022 | 10.1016/bs.mie.2022.07.026 | Liu, H., P. Zhu, Q. Zhang, E. Lam and Q. Liu | Plant metacaspase: A case study of microcrystal structure determination and analysis | Methods in Enzymology | 676 103–31 |
| 2022 | 10.1038/s41598-022-11653-3 | Liu, H., M. A. Arbing and J. U. Bowie | Expanding the use of ethanol as a feedstock for cell-free synthetic biochemistry by implementing acetyl-CoA and ATP generating pathways | Scientific Reports | 12(1) |
| 2022 | 10.1111/tpj.15692 | Liu, F., M. Chern, R. Jain, J. A. Martin, W. S. Schakwitz and P. C. Ronald | Silencing of Dicer-like protein 2a restores the resistance phenotype in the rice mutant, sxi4 (uppressor of a21-mediated mmunity 4) | The Plant Journal | 110(3) 646-657 |
| 2022 | 10.1093/plphys/kiac588 | Liu, D., D. Tang, M. Xie, J. Zhang, L. Zhai, et al. | Agave REVEILLE1 regulates the onset and release of seasonal dormancy in Populus | Plant Physiology | 191(3) 1492–504 |
| 2022 | 10.1080/07388551.2021.1924112 | Liu, C.-L., K. Xue, Y. Yang, X. Liu, Y. Li, T. S. Lee, Z. Bai and T. Tan | Metabolic engineering strategies for sesquiterpene production in microorganism | Critical Reviews in Biotechnology | 42(1) 73–92 |
| 2022 | 10.1016/bs.abr.2022.02.002 | Liu, C.-J. and A. Eudes | Lignin synthesis and bioengineering approaches toward lignin modification | Advances in Botanical Research | 104 41–96 |
| 2022 | 10.1126/sciadv.adc9440 | Liu, A. K., J. H. Pereira, A. J. Kehl, D. J. Rosenberg, D. J. Orr, S. K. S. Chu, D. M. Banda, M. Hammel, P. D. Adams, J. B. Siegel and P. M. Shih | Structural plasticity enables evolution and innovation of RuBisCO assemblies | Science Advances | 8(34) eadc9440 |
| 2022 | 10.1002/csc2.20751 | Lipps, S., W. L. Rooney, S. X. Mideros and T. M. Jamann | Identification of quantitative trait loci for sorghum leaf blight resistance | Crop Science | 62(4) 1550-1558 |
| 2022 | 10.3390/metabo12040366 | Linz, A. M., Y. Ma, S. Scholz, D. R. Noguera and T. J. Donohue | iNovo479: Metabolic Modeling Provides a Roadmap to Optimize Bioproduct Yield from Deconstructed Lignin Aromatics by Novosphingobium aromaticivorans | Metabolites | 12(4) 366 |
| 2022 | 10.1186/s13068-022-02226-7 | Lin, H.-H., D. Mendez‐Perez, J. Park, X. Wang, Y. Cheng, J. Huo, A. Mukhopadhyay, T. S. Lee and B. H. Shanks | Precursor prioritization for p-cymene production through synergistic integration of biology and chemistry | Biotechnology for Biofuels and Bioproducts | 15(1) 126 |
| 2022 | 10.1016/j.mec.2022.e00207 | Lin, C.-Y., Y. Tian, K. Nelson-Vasilchik, J. Hague, R. Kakumanu, et al. | Engineering sorghum for higher 4-hydroxybenzoic acid content | Metabolic Engineering Communications | 15 e00207 |
| 2022 | 10.1186/s13068-022-02245-4 | Lin, C.-Y., G. M. Geiselman, D. Liu, H. D. Magurudeniya, A. Rodriguez, et al. | Evaluation of engineered low-lignin poplar for conversion into advanced bioproducts | Biotechnology for Biofuels and Bioproducts | 15(1) 145 |
| 2022 | 10.1016/j.ymben.2022.04.004 | Lim, H. G., K. Rychel, A. V. Sastry, G. J. Bentley, J. Mueller, H. S. Schindel, P. E. Larsen, P. D. Laible, A. M. Guss, W. Niu, C. W. Johnson, G. T. Beckham, A. M. Feist and B. O. Palsson | Machine-learning from Pseudomonas putida KT2440 transcriptomes reveals its transcriptional regulatory network | Metabolic Engineering | 72 297–310 |
| 2022 | 10.1038/s41587-021-01195-w | Liew, F. E., R. Nogle, T. Abdalla, B. J. Rasor, C. Canter, et al. | Carbon-negative production of acetone and isopropanol by gas fermentation at industrial pilot scale | Nature Biotechnology | 40(3) 335-344 |
| 2022 | 10.1038/s41598-022-07387-x | Liao, P., T. Lechon, T. Romsdahl, H. Woodfield, S. Fenyk, T. Fawcett, E. Wallington, R. E. Bates, M. L. Chye, K. D. Chapman, J. L. Harwood and S. Scofield | Transgenic manipulation of triacylglycerol biosynthetic enzymes in B. napus alters lipid-associated gene expression and lipid metabolism | Scientific Reports | 12(1) |
| 2022 | 10.1021/acssuschemeng.2c00948 | Liang, L., Y.-Y. Wang, S. Bhagia, V. Sethuraman, Z. Yang, et al. | Chemical and Morphological Structure of Transgenic Switchgrass Organosolv Lignin Extracted by Ethanol, Tetrahydrofuran, and γ-Valerolactone Pretreatments | ACS Sustainable Chemistry & Engineering | 10(28) 9041–52 |
| 2022 | 10.1107/s2059798321011761 | Lian, R., B. Huang, L. Wang, Q. Liu, Y. Lin and H. Ling | End-to-end orientation estimation from 2D cryo-EM images | Acta Crystallographica Section D: Structural Biology | 78(Pt 2) 174–86 |
| 2022 | 10.1016/j.jmva.2021.104806 | Li, Y., Y. Qiu and Y. Xu | From multivariate to functional data analysis: Fundamentals, recent developments, and emerging areas | Journal of Multivariate Analysis | 188 |
| 2022 | 10.1016/j.cub.2022.10.025 | Li, Y., H. Liu, J. L. Steenwyk, A. L. LaBella, M.-C. Harrison, M. Groenewald, X. Zhou, X.-X. Shen, T. Zhao, C. T. Hittinger and A. Rokas | Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum | Current Biology | 32(24) 5335–43.e4 |
| 2022 | 10.1093/gbe/evac089 | Li, Y., M. A. Altamia, J. R. Shipway, M. R. Brugler, A. F. Bernardino, T. L. de Brito, Z. Lin, F. A. da Silva Oliveira, P. Sumida, C. R. Smith, A. Trindade-Silva, K. M. Halanych and D. L. Distel | Contrasting Modes of Mitochondrial Genome Evolution in Sister Taxa of Wood-Eating Marine Bivalves (Teredinidae and Xylophagaidae) | Genome Biology and Evolution | 14(6) |
| 2022 | 10.1021/acs.jafc.2c01306 | Li, X., S. J. Sarma, L. W. Sumner, A. D. Jones and R. L. Last | Switchgrass Metabolomics Reveals Striking Genotypic and Developmental Differences in Specialized Metabolic Phenotypes | Journal of Agricultural and Food Chemistry | 70(26) 8010–23 |
| 2022 | 10.1111/pce.14433 | Li, S., C. A. Moller, N. G. Mitchell, D. G. Martin, E. J. Sacks, S. Saikia, N. R. Labonte, B. S. Baldwin, J. I. Morrison, J. N. Ferguson, A. D. B. Leakey and E. A. Ainsworth | The leaf economics spectrum of triploid and tetraploid C4 grass Miscanthus x giganteus | Plant, Cell & Environment | 45(12) 3462–75 |
| 2022 | 10.1111/gcb.16108 | Li, S., C. A. Moller, N. G. Mitchell, D. Lee, E. J. Sacks and E. A. Ainsworth | Testing unified theories for ozone response in C4 species | Global Change Biology | 28(10) 3379–93 |
| 2022 | 10.1039/d1gc03625d | Li, M., Y. Pu, X. Meng, F. Chen, R. A. Dixon and A. J. Ragauskas | Strikingly high amount of tricin-lignin observed from vanilla (Vanilla planifolia) aerial roots | Green Chemistry | 24(1) 259–70 |
| 2022 | 10.1016/j.cj.2022.04.005 | Li, J., D. P. Schachtman, C. F. Creech, L. Wang, Y. Ge and Y. Shi | Evaluation of UAV-derived multimodal remote sensing data for biomass prediction and drought tolerance assessment in bioenergy sorghum | Crop Journal | |
| 2022 | 10.1021/acs.iecr.2c01163 | Li, J., C. T. Maravelias and R. C. Van Lehn | Adaptive Conformer Sampling for Property Prediction Using the Conductor-like Screening Model for Real Solvents | Industrial & Engineering Chemistry Research | 61(25) 9025–36 |
| 2022 | 10.3390/jof8121315 | Li, J., T. Chroumpi, S. Garrigues, R. S. Kun, J. Meng, et al. | The Sugar Metabolic Model of Aspergillus niger Can Only Be Reliably Transferred to Fungi of Its Phylum | Journal of Fungi | 8(12) 1315 |
| 2022 | 10.1016/j.biotechadv.2021.107809 | Leynaud Kieffer Curran, L. M. C., L. T. M. Pham, K. L. Sale and B. A. Simmons | Review of advances in the development of laccases for the valorization of lignin to enable the production of lignocellulosic biofuels and bioproducts | Biotechnology Advances | 54 107809 |
| 2022 | 10.1073/pnas.2115635118 | Lewin, H. A., S. Richards, E. Lieberman Aiden, M. L. Allende, J. M. Archibald, et al. | The Earth BioGenome Project 2020: Starting the clock | Proceedings of the National Academy of Sciences | 119(4) e2115635118 |
| 2022 | 10.1073/pnas.2116637119 | Lewin, G. R., K. S. Stocke, R. J. Lamont and M. Whiteley | A quantitative framework reveals traditional laboratory growth is a highly accurate model of human oral infection | Proceedings of the National Academy of Sciences | 119(2) e2116637119 |
| 2022 | 10.1128/msystems.01519-21 | Lewin, G. R., N. M. Davis, B. R. McDonald, A. J. Book, M. G. Chevrette, S. Suh, A. Boll and C. R. Currie | Long-term cellulose enrichment selects for highly cellulolytic consortia and competition for public goods | mSystems | 7(2) |
| 2022 | 10.5194/soil-8-85-2022 | Levintal, E., Y. Ganot, G. Taylor, P. Freer-Smith, K. Suvocarev and H. E. Dahlke | An underground, wireless, open-source, low-cost system for monitoring oxygen, temperature, and soil moisture | SOIL | 8(1) 85-97 |
| 2022 | 10.3389/frans.2022.1020111 | Lenz, R. R., H. K. Shrestha, A. A. Carrell, J. Labbé, R. L. Hettich, P. E. Abraham and J. M. LeBoldus | Proteomics reveals pathways linked to septoria canker resistance and susceptibility in Populus trichocarpa | Frontiers in Analytical Science | 2 |
| 2022 | 10.1016/j.biortech.2022.127361 | Leggieri, P. A., M. T. Valentine and M. A. O'Malley | Biofilm disruption enhances growth rate and carbohydrate-active enzyme production in anaerobic fungi | Bioresource Technology | 358 127361 |
| 2022 | 10.1021/acs.jafc.2c04251 | Lee, Y.-G., C. Kim, N. Kuanyshev, N. K. Kang, Z. Fatma, Z.-Y. Wu, M.-H. Cheng, V. Singh, Y. Yoshikuni, H. Zhao and Y.-S. Jin | Cas9-Based Metabolic Engineering of Issatchenkia orientalis for Enhanced Utilization of Cellulosic Hydrolysates | Journal of Agricultural and Food Chemistry | 70(38) 12085–12094 |
| 2022 | 10.1007/s12257-022-0217-3 | Lee, Y.-G., Y. Ju, L. Sun, S. Park, Y.-S. Jin and S. R. Kim | Acetate-rich Cellulosic Hydrolysates and Their Bioconversion Using Yeasts | Biotechnology and Bioprocess Engineering | 27(6) 890–9 |
| 2022 | 10.1007/s12275-022-1647-5 | Lee, S.-Y., P. S. Kim, H. Sung, D.-W. Hyun and J.-W. Bae | Lysobacter ciconiae sp. nov., and Lysobacter avium sp. nov., isolated from the faeces of an Oriental stork | Journal of Microbiology | 60(5) 469–77 |
| 2022 | 10.1016/j.soilbio.2022.108569 | Lee, S., J. W. Sorensen, R. L. Walker, J. B. Emerson, G. W. Nicol and C. Hazard | Soil pH influences the structure of virus communities at local and global scales | Soil Biology and Biochemistry | 166 108569 |
| 2022 | 10.1038/s41396-022-01341-5 | Lee, S., E. T. Sieradzki, G. W. Nicol and C. Hazard | Propagation of viral genomes by replicating ammonia-oxidising archaea during soil nitrification | The ISME Journal | 17(2) 309-314 |
| 2022 | 10.1111/gcbb.12899 | Lee, M. S., R. A. Boyd and D. R. Ort | The photosynthetic response of C3 and C4 bioenergy grass species to fluctuating light | GCB Bioenergy | 14(1) 37-53 |
| 2022 | 10.3389/fmicb.2022.849573 | Lee, J. A., S. Stolyar and C. J. Marx | Aerobic Methoxydotrophy: Growth on Methoxylated Aromatic Compounds by Methylobacteriaceae | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.ymben.2021.12.001 | Lee, J.-W. and C. T. Trinh | Controlling selectivity of modular microbial biosynthesis of butyryl-CoA-derived designer esters | Metabolic Engineering | 69 262–274 |
| 2022 | 10.1021/acs.est.1c05818 | Lee, J., R. Hestrin, E. E. Nuccio, K. D. Morrison, C. E. Ramon, T. J. Samo, J. Pett-Ridge, S. S. Ly, T. A. Laurence and P. K. Weber | Label-Free Multiphoton Imaging of Microbes in Root, Mineral, and Soil Matrices with Time-Gated Coherent Raman and Fluorescence Lifetime Imaging | Environmental Science & Technology | 56(3) 1994–2008 |
| 2022 | 10.1111/nph.18143 | Lebreton, A., N. Tang, A. Kuo, K. LaButti, W. Andreopoulos, et al. | Comparative genomics reveals a dynamic genome evolution in the ectomycorrhizal milk-cap (Lactarius) mushrooms | New Phytologist | 235(1) 306-319 |
| 2022 | 10.7554/eLife.76968 | Larue, T., H. Lindner, A. Srinivas, M. Exposito-Alonso, G. Lobet and J. R. Dinneny | Uncovering natural variation in root system architecture and growth dynamics using a robotics-assisted phenomics platform | eLife | 11 |
| 2022 | 10.1073/pnas.2101084119 | Lark, T. J., N. P. Hendricks, A. Smith, N. Pates, S. A. Spawn-Lee, M. Bougie, E. G. Booth, C. J. Kucharik and H. K. Gibbs | Environmental outcomes of the US Renewable Fuel Standard | Proceedings of the National Academy of Sciences | 119(9) e2101084119 |
| 2022 | 10.1128/mmbr.00041-22 | Lankiewicz, T. S., S. P. Lillington and M. A. O’Malley | Enzyme Discovery in Anaerobic Fungi (Neocallimastigomycetes) Enables Lignocellulosic Biorefinery Innovation | Microbiology and Molecular Biology Reviews | 86(4) e00041–22 |
| 2022 | 10.1128/AEM.01531-21 | Lanahan, A., K. Zakowicz, L. Tian, D. G. Olson and L. R. Lynd | A Single Nucleotide Change in the polC DNA Polymerase III in Clostridium thermocellum Is Sufficient To Create a Hypermutator Phenotype | Applied and Environmental Microbiology | 88(1) e01531-21 |
| 2022 | 10.1128/AEM.01531-21 | Lanahan, A., K. Zakowicz, L. Tian, D. G. Olson and L. R. Lynd | A Single Nucleotide Change in the polC DNA Polymerase III in Clostridium thermocellum Is Sufficient To Create a Hypermutator Phenotype | Applied and Environmental Microbiology | 88(1) e01531-21 |
| 2022 | 10.1111/gcb.16103 | Lamour, J., K. J. Davidson, K. S. Ely, G. Le Moguédec, A. D. B. Leakey, Q. Li, S. P. Serbin and A. Rogers | An improved representation of the relationship between photosynthesis and stomatal conductance leads to more stable estimation of conductance parameters and improves the goodness-of-fit across diverse data sets | Global Change Biology | 28(11) 3537-3556 |
| 2022 | 10.1111/gcbb.12907 | Lamb, A., B. Weers, B. McKinley, W. Rooney, C. Morgan, A. Marshall-Colon and J. Mullet | Bioenergy sorghum’s deep roots: A key to sustainable biomass production on annual cropland | GCB Bioenergy | 14(2) 132–156 |
| 2022 | 10.1016/j.tplants.2021.11.014 | Lam, E. and T. P. Michael | Wolffia, a minimalist plant and synthetic biology chassis | Trends in Plant Science | 27(5) 430-439 |
| 2022 | 10.1007/978-1-0716-2233-9_5 | Lal, P. B., F. Wells and P. J. Kiley | Creation of Markerless Genome Modifications in a Nonmodel Bacterium by Fluorescence-Aided Recombineering | Recombineering: Methods and Protocols | 53–70 |
| 2022 | 10.1371/journal.pgen.1010270 | Lakey, B. D., K. S. Myers, F. Alberge, E. L. Mettert, P. J. Kiley, D. R. Noguera and T. J. Donohue | The essential Rhodobacter sphaeroides CenKR two-component system regulates cell division and envelope biosynthesis | PLoS Genetics | 18(6) e1010270 |
| 2022 | 10.1038/s41467-022-32829-5 | LaFleur, T. L., A. Hossain and H. M. Salis | Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria | Nature Communications | 13(1) |
| 2022 | 10.1016/j.ygeno.2022.01.003 | Kumaran, S., A. C. R. Ngo, F. P. J. Schultes, V. S. Saravanan and D. Tischler | In vitro and in silico analysis of Brilliant Black degradation by Actinobacteria and a Paraburkholderia sp. | Genomics | 114(2) 110266 |
| 2022 | 10.1128/aem.01857-21 | Kuil, T., S. Hon, J. Yayo, C. Foster, G. Ravagnan, C. D. Maranas, L. R. Lynd, D. G. Olson and A. J. A. v. Maris | Functional Analysis of H+-Pumping Membrane-Bound Pyrophosphatase, ADP-Glucose Synthase, and Pyruvate Phosphate Dikinase as Pyrophosphate Sources in Clostridium thermocellum | Applied and Environmental Microbiology | 88(4) e01857-21 |
| 2022 | 10.1186/s13068-022-02110-4 | Kubis, M. R., E. K. Holwerda and L. R. Lynd | Declining carbohydrate solubilization with increasing solids loading during fermentation of cellulosic feedstocks by Clostridium thermocellum: documentation and diagnostic tests | Biotechnology for Biofuels and Bioproducts | 15(1) 12 |
| 2022 | 10.1016/j.ymben.2021.12.010 | Kuatsjah, E., C. W. Johnson, D. Salvachúa, A. Z. Werner, M. Zahn, et al. | Debottlenecking 4-hydroxybenzoate hydroxylation in Pseudomonas putida KT2440 improves muconate productivity from p-coumarate | Metabolic Engineering | 70 31–42 |
| 2022 | 10.1093/jxb/erac184 | Kuang, W., S. Sanow, J. M. Kelm, M. Müller Linow, P. Andeer, D. Kohlheyer, T. Northen, J. P. Vogel, M. Watt and B. Arsova | N-dependent dynamics of root growth and nitrate and ammonium uptake are altered by the bacterium Herbaspirillum seropedicae in the cereal model Brachypodium distachyon | Journal of Experimental Botany | 73(15) 5306-5321 |
| 2022 | 10.1094/pbiomes-12-21-0076-r | Kristy, B., A. A. Carrell, E. Johnston, J. R. Cumming, D. M. Klingeman, K. Gwinn, K. C. Syring, C. Skalla, S. Emrich and M. A. Cregger | Chronic Drought Differentially Alters the Belowground Microbiome of Drought-Tolerant and Drought-Susceptible Genotypes of Populus trichocarpa | Phytobiomes Journal | 6(4) 317–30 |
| 2022 | 10.1021/acs.est.2c05403 | Kravchenko, A. N., J. A. Richardson, J. H. Lee and A. K. Guber | Distribution of Mn Oxidation States in Grassland Soils and Their Relationships with Soil Pores | Environmental Science & Technology | 56(22) 16462–72 |
| 2022 | 10.1093/molbev/msac202 | Krause, D. J. and C. T. Hittinger | Functional Divergence in a Multi-gene Family Is a Key Evolutionary Innovation for Anaerobic Growth in Saccharomyces cerevisiae | Molecular Biology and Evolution | 39(10) msac202 |
| 2022 | 10.1080/03772063.2020.1739571 | Koteswara Rao, S. | Bearings-only Passive Target Tracking: Range Uncertainty Ellipse Zone | IETE Journal of Research | 68(4) 2968-2978 |
| 2022 | 10.17776/csj.1195087 | Korkmaz, E. M. | The Complete Mitogenome of Redheaded Pine Sawfly, Neodiprion lecontei (Hymenoptera: Diprionidae): Duplication of trnR Gene and Rearrangement in the ARNS1EF Gene Cluster | Cumhuriyet Science Journal | 43(4) 577–83 |
| 2022 | 10.1080/10643389.2021.2024484 | Kopittke, P. M., A. A. Berhe, Y. Carrillo, T. R. Cavagnaro, D. Chen, et al. | Ensuring planetary survival: the centrality of organic carbon in balancing the multifunctional nature of soils | Critical Reviews in Environmental Science and Technology | 52(23) 4308–24 |
| 2022 | 10.1016/bs.mie.2022.07.034 | Koper, K., S. Hataya, A. G. Hall, T. E. Takasuka and H. A. Maeda | Biochemical characterization of plant aromatic aminotransferases | Methods in Enzymology | |
| 2022 | 10.1016/j.jbc.2022.102122 | Koper, K., S. W. Han, D. C. Pastor, Y. Yoshikuni and H. A. Maeda | Evolutionary origin and functional diversification of aminotransferases | Journal of Biological Chemistry | 298(8) |
| 2022 | 10.1016/j.jbc.2022.102122 | Koper, K., S.-W. Han, D. C. Pastor, Y. Yoshikuni and H. A. Maeda | Evolutionary origin and functional diversification of aminotransferases | Journal of Biological Chemistry | 298(8) 102122 |
| 2022 | 10.1128/mra.00294-22 | Kono, M., J. N. Martinez, T. Sato and S. Haruta | Draft Genome Sequence of the Thermophilic Unicellular Cyanobacterium Synechococcus sp. Strain C9 | Microbiology Resource Announcements | 11(8) e00294-22 |
| 2022 | 10.1128/mbio.03714-21 | Kolton, M., D. J. Weston, X. Mayali, P. K. Weber, K. J. McFarlane, J. Pett-Ridge, M. M. Somoza, J. Lietard, J. B. Glass, E. A. Lilleskov, A. J. Shaw, S. Tringe, P. J. Hanson and J. E. Kostka | Defining the Sphagnum Core Microbiome across the North American Continent Reveals a Central Role for Diazotrophic Methanotrophs in the Nitrogen and Carbon Cycles of Boreal Peatland Ecosystems | mBio | 13(1) e03714-21 |
| 2022 | 10.1038/s43705-022-00175-8 | Kohtz, A. J., Z. J. Jay, M. M. Lynes, V. Krukenberg and R. Hatzenpichler | Culexarchaeia, a novel archaeal class of anaerobic generalists inhabiting geothermal environments | ISME Communications | 2(1) 86 |
| 2022 | 10.3389/fbioe.2022.932695 | Koch, M., A. J. C. Noonan, Y. Qiu, K. Dofher, B. Kieft, S. Mottahedeh, M. Shastri and S. J. Hallam | The survivor strain: isolation and characterization of Phormidium yuhuli AB48, a filamentous phototactic cyanobacterium with biotechnological potential | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1038/s41477-022-01150-w | Ko, D. K. and F. Brandizzi | Transcriptional competition shapes proteotoxic ER stress resolution | Nature Plants | 8(5) 481–90 |
| 2022 | 10.1038/s42003-021-02964-8 | Ko, D. K. and F. Brandizzi | Advanced genomics identifies growth effectors for proteotoxic ER stress recovery in Arabidopsis thaliana | Communications Biology | 5(1) 16 |
| 2022 | 10.3390/plants11212863 | Knox, E. B. | DNA Sequence Analysis of an Inversion Hot Spot in Lobeliaceae Plastomes | Plants | 11(21) 2863 |
| 2022 | 10.1128/aem.02280-21 | Kittredge, H. A., K. M. Dougherty and S. E. Evans | Dead but Not Forgotten: How Extracellular DNA, Moisture, and Space Modulate the Horizontal Transfer of Extracellular Antibiotic Resistance Genes in Soil | Applied and Environmental Microbiology | 88(7) e02280-21 |
| 2022 | 10.1007/978-1-0716-1585-0_10 | Kimbrel, J. A., B. M. Jeffrey and C. S. Ward | Prokaryotic Genome Annotation | Microbial Systems Biology: Methods and Protocols | 193–214 |
| 2022 | 10.1016/j.biocontrol.2022.104920 | Kim, T. N., Y. V. Bukhman, M. A. Jusino, E. D. Scully, B. J. Spiesman and C. Gratton | Using high-throughput amplicon sequencing to determine diet of generalist lady beetles in agricultural landscapes | Biological Control | 170 104920 |
| 2022 | 10.3389/fmicb.2022.940610 | Kim, S. R., C. A. Eckert and R. Mazzoli | Editorial: Microorganisms for Consolidated 2nd Generation Biorefining | Frontiers in Microbiology | 13 940610 |
| 2022 | 10.1016/j.soilbio.2022.108565 | Kim, K., J. Gil, N. E. Ostrom, H. Gandhi, M. S. Oerther, Y. Kuzyakov, A. K. Guber and A. N. Kravchenko | Soil pore architecture and rhizosphere legacy define N2O production in root detritusphere | Soil Biology and Biochemistry | 166 108565 |
| 2022 | 10.1038/s41396-021-01147-x | Kim, H., J. A. Kimbrel, C. A. Vaiana, J. R. Wollard, X. Mayali and C. R. Buie | Bacterial response to spatial gradients of algal-derived nutrients in a porous microplate | The ISME Journal | 16(4) 1036–45 |
| 2022 | 10.1111/mec.16717 | Kiefer, J. S. T., G. Schmidt, R. Krüsemer, M. Kaltenpoth and T. Engl | Wolbachia causes cytoplasmic incompatibility but not male-killing in a grain pest beetle | Molecular Ecology | 31(24) 6570–87 |
| 2022 | 10.1094/pdis-01-22-0245-a | Khoulassa, S., B. Elmoualij, M. Benlyas, R. Meziani, E. D. T. Bouhlali, et al. | High-Quality Draft Nuclear and Mitochondrial Genome Sequence of Fusarium oxysporum f. sp. albedinis strain 9, the Causal Agent of Bayoud Disease on Date Palm | Plant Disease | 106(7) 1974-1976 |
| 2022 | 10.1016/j.soilbio.2022.108610 | Khosrozadeh, S., A. Guber, A. Kravchenko, N. Ghaderi and E. Blagodatskaya | Soil oxidoreductase zymography: Visualizing spatial distributions of peroxidase and phenol oxidase activities at the root-soil interface | Soil Biology and Biochemistry | 167 108610 |
| 2022 | 10.1111/1467-8489.12461 | Khanna, M. and R. Miao | Inducing the adoption of emerging technologies for sustainable intensification of food and renewable energy production: insights from applied economics | Australian Journal of Agricultural and Resource Economics | 66(1) 1–23 |
| 2022 | 10.1016/j.mib.2021.11.007 | Khana, D. B., M. M. Callaghan and D. Amador-Noguez | Novel computational and experimental approaches for investigating the thermodynamics of metabolic networks | Current Opinion in Microbiology | 66 21–31 |
| 2022 | 10.1007/s10529-021-03206-x | Khan, J. A., A. M. Guss and K. C. Kao | Enhancing transcription in Escherichia coli and Pseudomonas putida using bacteriophage lambda anti-terminator protein Q | Biotechnology Letters | 44(2) 253–8 |
| 2022 | 10.3389/fmicb.2022.847563 | Kevorkian, R. T., K. Sipes, R. Winstead, R. Paul and K. G. Lloyd | Cryptic Methane-Cycling by Methanogens During Multi-Year Incubation of Estuarine Sediment | Frontiers in Microbiology | 13 |
| 2022 | 10.3389/fmicb.2022.858366 | Keown, R. A., J. T. Dums, P. J. Brumm, J. MacDonald, D. A. Mead, B. D. Ferrell, R. M. Moore, A. O. Harrison, S. W. Polson and K. E. Wommack | Novel Viral DNA Polymerases From Metagenomes Suggest Genomic Sources of Strand-Displacing Biochemical Phenotypes | Frontiers in Microbiology | 13 |
| 2022 | 10.1039/D2RE00275B | Kenny, J. K., D. G. Brandner, S. R. Neefe, W. E. Michener, Y. Román-Leshkov, G. T. Beckham and J. W. Medlin | Catalyst choice impacts aromatic monomer yields and selectivity in hydrogen-free reductive catalytic fractionation | Reaction Chemistry & Engineering | 7 2527–33 |
| 2022 | 10.3389/fevo.2022.833170 | Kemmerling, L. R., C. E. Rutkoski, S. E. Evans, J. A. Helms, E. S. Cordova-Ortiz, J. D. Smith, J. A. Vázquez Custodio, C. Vizza and N. M. Haddad | Prairie Strips and Lower Land Use Intensity Increase Biodiversity and Ecosystem Services | Frontiers in Ecology and Evolution | 10 |
| 2022 | 10.1038/s41467-022-29603-y | Kellogg, R. M., M. A. Moosburner, N. R. Cohen, N. J. Hawco, M. R. McIlvin, D. M. Moran, G. R. DiTullio, A. V. Subhas, A. E. Allen and M. A. Saito | Adaptive responses of marine diatoms to zinc scarcity and ecological implications | Nature Communications | 13(1) |
| 2022 | 10.1186/s40168-022-01343-7 | Keller-Costa, T., L. Kozma, S. G. Silva, R. Toscan, J. Gonçalves, A. Lago-Lestón, N. C. Kyrpides, U. Nunes da Rocha and R. Costa | Metagenomics-resolved genomics provides novel insights into chitin turnover, metabolic specialization, and niche partitioning in the octocoral microbiome | Microbiome | 10(1) 151 |
| 2022 | 10.1016/j.ymben.2021.11.012 | Ke, J., Z. Zhao, C. R. Coates, M. Hadjithomas, A. Kuftin, K. Louie, D. Weller, L. Thomashow, N. J. Mouncey, T. R. Northen and Y. Yoshikuni | Development of platforms for functional characterization and production of phenazines using a multi-chassis approach via CRAGE | Metabolic Engineering | 69 188-197 |
| 2022 | 10.1016/j.chembiol.2021.08.009 | Ke, J., D. Robinson, Z.-Y. Wu, A. Kuftin, K. Louie, S. Kosina, T. Northen, J.-F. Cheng and Y. Yoshikuni | CRAGE-CRISPR facilitates rapid activation of secondary metabolite biosynthetic gene clusters in bacteria | Cell Chemical Biology | 29(4) 696-710.e4 |
| 2022 | 10.1021/acssynbio.1c00367 | Kassaw, T. K., A. J. Paton and G. Peers | Episome-Based Gene Expression Modulation Platform in the Model Diatom Phaeodactylum tricornutum | ACS Synthetic Biology | 11(1) 191-204 |
| 2022 | 10.1007/s10021-022-00758-5 | Kashi, N. N., E. A. Hobbie, R. K. Varner, A. S. Wymore, J. G. Ernakovich and R. Giesler | Nutrients Alter Methane Production and Oxidation in a Thawing Permafrost Mire | Ecosystems | |
| 2022 | 10.1016/j.virusres.2022.198902 | Karaynir, A., H. Salih, B. Bozdoğan, Ö. Güçlü and D. Keskin | Isolation and characterization of Brochothrix phage ADU4 | Virus Research | 321 198902 |
| 2022 | 10.1111/1462-2920.15871 | Karasz, D. C., A. I. Weaver, D. H. Buckley and R. C. Wilhelm | Conditional filamentation as an adaptive trait of bacteria and its ecological significance in soils | Environmental Microbiology | 24(1) 1–17 |
| 2022 | 10.1007/s11103-022-01255-y | Karannagoda, N., A. Spokevicius, S. Hussey, H. Cassan-Wang, J. Grima-Pettenati and G. Bossinger | Eucalyptus grandis AUX/INDOLE-3-ACETIC ACID 13 (EgrIAA13) is a novel transcriptional regulator of xylogenesis | Plant Molecular Biology | 109(1) 51-65 |
| 2022 | 10.1111/gcbb.12940 | Kantola, I. B., M. D. Masters, E. Blanc-Betes, N. Gomez-Casanovas and E. H. DeLucia | Long-term yields in annual and perennial bioenergy crops in the Midwestern United States | GCB Bioenergy | 14(6) 694–706 |
| 2022 | 10.1038/s41396-021-01062-1 | Kang-Yun, C. S., X. Liang, P. Dershwitz, W. Gu, A. Schepers, et al. | Evidence for methanobactin “Theft” and novel chalkophore production in methanotrophs: impact on methanotrophic-mediated methylmercury degradation | ISME Journal | 16(1) 211-220 |
| 2022 | 10.1128/mra.00188-22 | Kang-Yun, C. S., J. Chang and J. D. Semrau | Updated Genome Sequence of the Facultative Methanotroph Methylocystis sp. Strain SB2 | Microbiology Resource Announcements | 11(6) |
| 2022 | 10.1002/biot.202000431 | Kang, N. K., J. W. Lee, D. R. Ort and Y.-S. Jin | L-malic acid production from xylose by engineered Saccharomyces cerevisiae | Biotechnology Journal | 17(3) 2000431 |
| 2022 | 10.1016/j.cej.2021.133636 | Kang, N. K., M. Kim, K. Baek, Y. K. Chang, D. R. Ort and Y. S. Jin | Photoautotrophic organic acid production: Glycolic acid production by microalgal cultivation | Chemical Engineering Journal | 433 |
| 2022 | 10.1038/s41579-022-00775-0 | Kamel, B. and A. Kuo | An amoeba and a cyanobacterium walk into a bar | Nature Reviews Microbiology | 20(9) 511 |
| 2022 | 10.1111/nph.18281 | Kakouridis, A., J. A. Hagen, M. P. Kan, S. Mambelli, L. J. Feldman, D. J. Herman, P. K. Weber, J. Pett-Ridge and M. K. Firestone | Routes to roots: direct evidence of water transport by arbuscular mycorrhizal fungi to host plants | New Phytologist | 236(1) 210-221 |
| 2022 | 10.1111/gcbb.12914 | Juice, S. M., C. A. Walter, K. E. Allen, D. M. Berardi, T. W. Hudiburg, B. N. Sulman and E. R. Brzostek | A new bioenergy model that simulates the impacts of plant-microbial interactions, soil carbon protection, and mechanistic tillage on soil carbon cycling | GCB Bioenergy | 14(3) 346–63 |
| 2022 | 10.1002/pro.4252 | Joyner, P. M., D. P. Tran, M. A. Zenaidee and J. A. Loo | Characterization of protein–ligand binding interactions of enoyl-ACP reductase (FabI) by native MS reveals allosteric effects of coenzymes and the inhibitor triclosan | Protein Science | 31(3) 568-579 |
| 2022 | 10.1038/s41596-021-00675-2 | Jones, T. S., S. M. D. Oliveira, C. J. Myers, C. A. Voigt and D. Densmore | Genetic circuit design automation with Cello 2.0 | Nature Protocols | 17(4) 1097-1113 |
| 2022 | 10.3389/fpls.2022.943585 | Johnston, C., L. T. García Navarrete, E. Ortiz, T. B. Romsdahl, A. Guzha, K. D. Chapman, E. Grotewold and A. P. Alonso | Effective Mechanisms for Improving Seed Oil Production in Pennycress (Thlaspi arvense L.) Highlighted by Integration of Comparative Metabolomics and Transcriptomics | Frontiers in Plant Science | 13 |
| 2022 | 10.1186/s12864-022-08797-x | Johnson, A. C., T. H. Pendergast, S. Chaluvadi, J. L. Bennetzen and K. M. Devos | Identification of microRNAs responsive to arbuscular mycorrhizal fungi in Panicum virgatum (switchgrass) | BMC Genomics | 23(1) 688 |
| 2022 | 10.1038/s41586-022-04670-9 | Jiang, Y. X., Q. Cao, M. R. Sawaya, R. Abskharon, P. Ge, M. DeTure, D. W. Dickson, J. Y. Fu, R. R. Ogorzalek Loo, J. A. Loo and D. S. Eisenberg | Amyloid fibrils in FTLD-TDP are composed of TMEM106B and not TDP-43 | Nature | 605(7909) 304-309 |
| 2022 | 10.1096/fasebj.2022.36.S1.L8025 | Jiang, N., M. Roghair Stroud, S. Banerjee, D. Vang, S. Anisuzzaman, P. Shrotriya, L. Halverson and M. Nilsen-Hamilton | Bio-Imaging quorum sensing signal molecules in a soil-mimic gel | The FASEB Journal | 36(S1) |
| 2022 | 10.3390/pr10040661 | Jia, Y., D. Kumar, J. K. Winkler-Moser, B. Dien, K. Rausch, M. E. Tumbleson and V. Singh | Coprocessing Corn Germ Meal for Oil Recovery and Ethanol Production: A Process Model for Lipid-Producing Energy Crops | Processes | 10(4) 661 |
| 2022 | 10.1038/s41598-022-15388-z | Jedrzejczyk, D. J., L. D. Poulsen, M. Mohr, N. D. Damas, S. Schoffelen, A. Barghetti, R. Baumgartner, B. T. Weinert, T. Warnecke and R. T. Gill | CRISPR-Cas12a nucleases function with structurally engineered crRNAs: SynThetic trAcrRNA | Scientific Reports | 12(1) |
| 2022 | 10.1016/j.coche.2022.100796 | Je, L., G. W. Huber, R. C. Van Lehn and V. M. Zavala | On the integration of molecular dynamics, data science, and experiments for studying solvent effects on catalysis | Current Opinion in Chemical Engineering | 36 100796 |
| 2022 | 10.1093/g3journal/jkac282 | Jarrige, D., S. Haridas, C. Bleykasten-Grosshans, M. Joly, T. Nadalig, M. Sancelme, S. Vuilleumier, I. V. Grigoriev, P. Amato and F. Bringel | High-quality genome of the basidiomycete yeast Dioszegia hungarica PDD-24b-2 isolated from cloud water | G3 Genes|Genomes|Genetics | 12(12) |
| 2022 | 10.1111/pce.14464 | Jardine, K. J., R. A. Dewhirst, S. Som, J. Lei, E. Tucker, R. P. Young, M. Portillo-Estrada, Y. Gao, L. Su, S. Fares, C. Castanha, H. V. Scheller and J. C. Mortimer | Cell wall ester modifications and volatile emission signatures of plant response to abiotic stress | Plant, Cell & Environment | 45(12) 3429–44 |
| 2022 | 10.1016/j.joule.2022.06.016 | Jang, J. H., D. G. Brandner, R. J. Dreiling, A. J. Ringsby, J. R. Bussard, L. M. Stanley, R. M. Happs, A. S. Kovvali, J. I. Cutler, T. Renders, J. R. Bielenberg, Y. Román-Leshkov and G. T. Beckham | Multi-pass flow-through reductive catalytic fractionation | Joule | 6(8) 1859–75 |
| 2022 | 10.1128/mra.00050-22 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, J. Pangilinan, A. Lipzen, et al. | Near-Complete Genome Sequence of Zygosaccharomyces rouxii NRRL Y-64007, a Yeast Capable of Growing on Lignocellulosic Hydrolysates | Microbiology Resource Announcements | 11(5) e00050-22 |
| 2022 | 10.1021/acsnano.1c06343 | Jackson, C. T., J. W. Wang, E. González-Grandío, N. S. Goh, J. Mun, S. Krishnan, F. L. Geyer, H. Keller, S. Ebert, K. Molawi, N. Kaiser and M. P. Landry | Polymer-Conjugated Carbon Nanotubes for Biomolecule Loading | ACS Nano | 16(2) 1802-1812 |
| 2022 | 10.1038/s41378-022-00357-3 | Iwai, K., M. Wehrs, M. Garber, J. Sustarich, L. Washburn, Z. Costello, P. W. Kim, D. Ando, W. R. Gaillard, N. J. Hillson, P. D. Adams, A. Mukhopadhyay, H. Garcia Martin and A. K. Singh | Scalable and automated CRISPR-based strain engineering using droplet microfluidics | Microsystems & Nanoengineering | 8(1) 31 |
| 2022 | 10.1128/mra.00292-22 | Ingle, A. T., N. W. Fortney, K. S. Myers, K. A. Walters, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenome-Assembled Genomes from a Microbiome Grown in Dairy Manure Hydrolysate | Microbiology Resource Announcements | 11(8) e00292-22 |
| 2022 | 10.1111/tpj.15903 | Huß, S., R. S. Judd, K. Koper, H. A. Maeda and Z. Nikoloski | An automated workflow that generates atom mappings for large-scale metabolic models and its application to Arabidopsis thaliana | Plant Journal | 111(5) 1486-1500 |
| 2022 | 10.1002/bit.28155 | Hunt, K. A., F. von Netzer, D. Gorman-Lewis and D. A. Stahl | Microbial maintenance energy quantified and modeled with microcalorimetry | Biotechnology and Bioengineering | 119(9) 2413–22 |
| 2022 | 10.1111/tpj.15867 | Hui, C., S. Schmollinger, D. Strenkert, K. Holbrook, H. R. Montgomery, S. Chen, H. M. Nelson, P. K. Weber and S. S. Merchant | Simple steps to enable reproducibility: culture conditions affecting Chlamydomonas growth and elemental composition | The Plant Journal | 111(4) 995–1014 |
| 2022 | 10.1128/mra.00471-22 | Huang, Y., M. K. Nobu, K. Igarashi and S. Kato | Draft Genome Sequence of the Alkaliphilic, Lithoautotrophic Homoacetogen Fuchsiella alkaliacetigena Z-7100T | Microbiology Resource Announcements | 11(8) e00471-22 |
| 2022 | 10.1038/s41477-022-01146-6 | Huang, X., W. Wang, T. Gong, D. Wickell, L.-Y. Kuo, et al. | The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence | Nature Plants | 8(5) 500–12 |
| 2022 | 10.1038/s41929-022-00777-4 | Huang, X., J. Feng, J. Cui, G. Jiang, W. Harrison, X. Zang, J. Zhou, B. Wang and H. Zhao | Photoinduced chemomimetic biocatalysis for enantioselective intermolecular radical conjugate addition | Nature Catalysis | 5 586–93 |
| 2022 | 10.1094/mpmi-09-21-0234-r | Huang, R., H. Feng, Z. Xu, N. Zhang, Y. Liu, J. Shao, Q. Shen and R. Zhang | Identification of Adhesins in Plant Beneficial Rhizobacteria Bacillus velezensis SQR9 and Their Effect on Root Colonization | Molecular Plant-Microbe Interactions | 35(1) 64–72 |
| 2022 | 10.1016/j.molcel.2022.04.020 | Huang, C. J., B. A. Adler and J. A. Doudna | A naturally DNase-free CRISPR-Cas12c enzyme silences gene expression | Molecular Cell | 82(11) 2148-2160.e4 |
| 2022 | 10.1016/j.rser.2021.111822 | Huang, C., X. Jiang, X. Shen, J. Hu, W. Tang, X. Wu, A. Ragauskas, H. Jameel, X. Meng and Q. Yong | Lignin-enzyme interaction: A roadblock for efficient enzymatic hydrolysis of lignocellulosics | Renewable and Sustainable Energy Reviews | 154 111822 |
| 2022 | 10.1038/s41559-022-01764-5 | Hu, Y. and T. R. Northen | A sweet spot in marine ecosystems | Nature Ecology & Evolution | 6(7) 847-848 |
| 2022 | 10.1093/hr/uhac043 | Hu, X.-L., J. Zhang, R. Kaundal, R. Kataria, J. L. Labbé, J. C. Mitchell, T. J. Tschaplinski, G. A. Tuskan, Z.-M. Cheng and X. Yang | Diversity and conservation of plant small secreted proteins associated with arbuscular mycorrhizal symbiosis | Horticulture Research | 9 uhac043 |
| 2022 | 10.1111/tpj.15674 | Hu, S., N. Kamimura, S. Sakamoto, S. Nagano, N. Takata, et al. | Rerouting of the lignin biosynthetic pathway by inhibition of cytosolic shikimate recycling in transgenic hybrid aspen | The Plant Journal | 110(2) 358–76 |
| 2022 | 10.1016/j.jplph.2022.153791 | Hu, R., J. Zhang, S. Jawdy, A. Sreedasyam, A. Lipzen, et al. | Comparative genomics analysis of drought response between obligate CAM and C3 photosynthesis plants | Journal of Plant Physiology | 277 153791 |
| 2022 | 10.1016/j.jplph.2022.153791 | Hu, R., J. Zhang, S. Jawdy, A. Sreedasyam, A. Lipzen, et al. | Comparative genomics analysis of drought response between obligate CAM and C3 photosynthesis plants | Journal of Plant Physiology | 277 153791 |
| 2022 | 10.1111/biom.13624 | Hu, H. and Y. Qiu | Inference for nonparanormal partial correlation via regularized rank-based nodewise regression | Biometrics | |
| 2022 | 10.3389/fbinf.2021.826370 | Hu, B., S. Canon, E. A. Eloe-Fadrosh, Anubhav, M. Babinski, et al. | Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale | Frontiers in Bioinformatics | 1 |
| 2022 | 10.1038/s41587-021-01146-5 | Hsu, C., H. Nisonoff, C. Fannjiang and J. Listgarten | Learning protein fitness models from evolutionary and assay-labeled data | Nature Biotechnology | 40(7) 1114–22 |
| 2022 | 10.1038/s43705-022-00169-6 | Howard-Varona, C., S. Roux, B. P. Bowen, L. P. Silva, R. Lau, S. M. Schwenck, S. Schwartz, T. Woyke, T. Northen, M. B. Sullivan and S. A. Floge | Protist impacts on marine cyanovirocell metabolism | ISME Communications | 2(1) 94 |
| 2022 | 10.1080/19390211.2022.2120146 | Hove, P. R., N. J. Nealon, S. H. J. Chan, S. M. Boyer, H. B. Haberecht and E. P. Ryan | Integrated Profiling of Gram-Positive and Gram-Negative Probiotic Genomes, Proteomes and Metabolomes Revealed Small Molecules with Differential Growth Inhibition of Antimicrobial-Resistant Pathogens | Journal of Dietary Supplements | 1–23 |
| 2022 | 10.1111/gcb.15970 | Hough, M., S. McCabe, S. R. Vining, E. Pickering Pedersen, R. M. Wilson, et al. | Coupling plant litter quantity to a novel metric for litter quality explains C storage changes in a thawing permafrost peatland | Global Change Biology | 28(3) 950-968 |
| 2022 | 10.3389/fmicb.2022.915291 | Houfani, A. A., M. Basen, D. G. Olson and S. E. Blumer-Schuette | Extremophiles in Lignocellulose Degradation | Frontiers in Microbiology | 13 915291 |
| 2022 | 10.1021/acs.est.1c06772 | Honeker, L. K., G. A. Hildebrand, J. D. Fudyma, L. E. Daber, D. Hoyt, et al. | Elucidating Drought-Tolerance Mechanisms in Plant Roots through 1H NMR Metabolomics in Parallel with MALDI-MS, and NanoSIMS Imaging Techniques | Environmental Science & Technology | 56(3) 2021-2032 |
| 2022 | 10.1128/aem.01258-22 | Hon, S., T. Jacobson, D. M. Stevenson, M. I. Maloney, R. J. Giannone, R. L. Hettich, D. Amador-Noguez, D. G. Olson and L. R. Lynd | Increasing the Thermodynamic Driving Force of the Phosphofructokinase Reaction in Clostridium thermocellum | Applied and Environmental Microbiology | 88(22) e01258-22 |
| 2022 | 10.1029/2021GB007113 | Holmes, M. E., P. M. Crill, W. C. Burnett, C. K. McCalley, R. M. Wilson, S. Frolking, K. Y. Chang, W. J. Riley, R. K. Varner, S. B. Hodgkins, A. P. McNichol, S. R. Saleska, V. I. Rich and J. P. Chanton | Carbon accumulation, flux, and fate in stordalen mire, a permafrost peatland in transition | Global Biogeochemical Cycles | 36(1) |
| 2022 | 10.1038/s43247-022-00642-z | Högfors-Rönnholm, E., D. Lundin, D. Brambilla, S. Christel, M. Lopez-Fernandez, T. Lillhonga, S. Engblom, P. Österholm and M. Dopson | Gallionella and Sulfuricella populations are dominant during the transition of boreal potential to actual acid sulfate soils | Communications Earth & Environment | 3(1) 304 |
| 2022 | 10.3791/63269 | Hoffman, S. M., M. A. Lalwani and J. L. Avalos | Light-controlled fermentations for microbial chemical and protein production | Journal of Visualized Experiments | 2022(181) |
| 2022 | 10.1126/sciadv.abo5738 | Hoengenaert, L., M. Wouters, H. Kim, B. De Meester, K. Morreel, S. Vandersyppe, J. Pollier, S. Desmet, G. Goeminne, J. Ralph, W. Boerjan and R. Vanholme | Overexpression of the scopoletin biosynthetic pathway enhances lignocellulosic biomass processing | Science Advances | 8(28) eabo5738 |
| 2022 | 10.1099/ijsem.0.005266 | Hix, G. R., M. S. Khan, M. T. Miller, E. C. Napier, apos, A. L. Brien, R. P. White and S. F. Baron | Characterization of Streptomyces nymphaeiformis sp. nov., and its taxonomic relatedness to other polyhydroxybutyrate-degrading streptomycetes | International Journal of Systematic and Evolutionary Microbiology | 72(3) |
| 2022 | 10.1016/j.micres.2022.127109 | Hinenoya, A., H. Wang, E. M. Patrick, X. Zeng, L. Cao, X.-P. Li, R. L. Lindsey, B. Gillespie, Q. He, S. Yamasaki and J. Lin | Longitudinal surveillance and comparative characterization of Escherichia albertii in wild raccoons in the United States | Microbiological Research | 262 127109 |
| 2022 | 10.1111/nph.17825 | Hill, R. A., J. Wong-Bajracharya, S. Anwar, D. Coles, M. Wang, A. Lipzen, V. Ng, I. V. Grigoriev, F. Martin, I. C. Anderson, C. I. Cazzonelli, T. Jeffries, K. L. Plett and J. M. Plett | Abscisic acid supports colonization of Eucalyptus grandis roots by the mutualistic ectomycorrhizal fungus Pisolithus microcarpus | New Phytologist | 233(2) 966–982 |
| 2022 | 10.1038/s41396-022-01308-6 | Hestrin, R., M. Kan, M. Lafler, J. Wollard, J. A. Kimbrel, P. Ray, S. J. Blazewicz, R. Stuart, K. Craven, M. Firestone, E. E. Nuccio and J. Pett-Ridge | Plant-associated fungi support bacterial resilience following water limitation | The ISME Journal | 16(12) 2752–62 |
| 2022 | 10.1128/jb.00078-22 | Heryakusuma, C., D. Susanti, H. Yu, Z. Li, E. Purwantini, R. L. Hettich, V. J. Orphan and B. Mukhopadhyay | A Reduced F420-Dependent Nitrite Reductase in an Anaerobic Methanotrophic Archaeon | Journal of Bacteriology | 204(7) |
| 2022 | 10.3390/ijms23116070 | Hengge, N. N., S. J. B. Mallinson, P. Pason, V. V. Lunin, M. Alahuhta, D. Chung, M. E. Himmel, J. Westpheling and Y. J. Bomble | Characterization of the Biomass Degrading Enzyme GuxA from Acidothermus cellulolyticus | International Journal of Molecular Sciences | 23(11) 6070 |
| 2022 | 10.3390/pr10010041 | He, Q. P. and J. Wang | Special issue on “big data in biology, life sciences and healthcare” | Processes | 10(1) |
| 2022 | 10.3390/metabo12040314 | He, B., C. Cai, T. McCubbin, J. C. Muriel, N. Sonnenschein, S. Hu, Z. Yuan and E. Marcellin | A Genome-Scale Metabolic Model of Methanoperedens nitroreducens: Assessing Bioenergetics and Thermodynamic Feasibility | Metabolites | 12(4) 314 |
| 2022 | 10.1128/mra.00216-22 | Hawkins, J. P., P. A. Ordonez and I. J. Oresnik | Complete Genome Sequences of Rhizobium gallicum M101 and Two Potential New Rhizobium Species Isolated from Soils in Central Canada | Microbiology Resource Announcements | 11(7) e00216-22 |
| 2022 | 10.1016/j.tplants.2022.04.008 | Hasterok, R., P. Catalan, S. P. Hazen, A. C. Roulin, J. P. Vogel, K. Wang and L. A. J. Mur | Brachypodium: 20 years as a grass biology model system; the way forward? | Trends in Plant Science | 27(10) 1002-1016 |
| 2022 | 10.1002/biot.202100673 | Hassan, M. M., G. Yuan, Y. Liu, M. Alam, C. A. Eckert, G. A. Tuskan, J. F. Golz and X. Yang | Precision genome editing in plants using gene targeting and prime editing: Existing and emerging strategies | Biotechnology Journal | 2100673 |
| 2022 | 10.1002/ecs2.4292 | Hartman, M. D., M. Burnham, W. J. Parton, A. Finzi, E. H. DeLucia and W. H. Yang | In silico evaluation of plant nitrification suppression effects on agroecosystem nitrogen loss | Ecosphere | 13(12) e4292 |
| 2022 | 10.1021/acs.accounts.1c00719 | Harrison, W., X. Huang and H. Zhao | Photobiocatalysis for Abiological Transformations | Accounts of Chemical Research | 55(8) 1087–96 |
| 2022 | 10.1016/j.tig.2021.08.013 | Harrison, M.-C., A. L. LaBella, C. T. Hittinger and A. Rokas | The evolution of the GALactose utilization pathway in budding yeasts | Trends in Genetics | 38(1) 97–106 |
| 2022 | 10.3389/fpls.2022.757810 | Harman-Ware, A. E., R. M. Happs, D. Macaya-Sanz, C. Doeppke, W. Muchero and S. P. DiFazio | Abundance of Major Cell Wall Components in Natural Variants and Pedigrees of Populus trichocarpa | Frontiers in Plant Science | 13 |
| 2022 | 10.1038/s41467-022-34585-y | Harding, K. J., K. A. Turk-Kubo, E. W. K. Mak, P. K. Weber, X. Mayali and J. P. Zehr | Cell-specific measurements show nitrogen fixation by particle-attached putative non-cyanobacterial diazotrophs in the North Pacific Subtropical Gyre | Nature Communications | 13(1) 6979 |
| 2022 | 10.1038/s42003-022-03157-7 | Hao, Z., Y. Wang, N. Ding, M. C. Saha, W. R. Scheible, K. Craven, M. Udvardi, P. S. Nico, M. K. Firestone and E. L. Brodie | Spectroscopic analysis reveals that soil phosphorus availability and plant allocation strategies impact feedstock quality of nutrient-limited switchgrass | Communications Biology | 5(1) |
| 2022 | 10.1016/j.mib.2022.102172 | Han, S. W. and Y. Yoshikuni | Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes | Current Opinion in Microbiology | 68 |
| 2022 | 10.1016/j.mib.2022.102172 | Han, S.-W. and Y. Yoshikuni | Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes | Current Opinion in Microbiology | 68 102172 |
| 2022 | 10.1021/acssynbio.2c00386 | Halvorsen, T. M., D. P. Ricci, D. M. Park, Y. Jiao and M. C. Yung | Comparison of Kill Switch Toxins in Plant-Beneficial Pseudomonas fluorescens Reveals Drivers of Lethality, Stability, and Escape | ACS Synthetic Biology | 11(11) 3785–96 |
| 2022 | 10.1016/j.bioflm.2022.100088 | Halsted, M. C., A. N. Bible, J. L. Morrell-Falvey and S. T. Retterer | Quantifying biofilm propagation on chemically modified surfaces | Biofilm | 4 100088 |
| 2022 | 10.1021/acs.biochem.2c00367 | Hallberg, Z. F., E. C. Seth, K. Thevasundaram and M. E. Taga | Comparative Analysis of Corrinoid Profiles across Host-Associated and Environmental Samples | Biochemistry | |
| 2022 | 10.1038/s41598-022-12435-7 | Halder, U., R. Biswas, A. Kabiraj, R. Deora, M. Let, et al. | Genomic, morphological, and biochemical analyses of a multi-metal resistant but multi-drug susceptible strain of Bordetella petrii from hospital soil | Scientific Reports | 12(1) 8439 |
| 2022 | 10.1099/ijsem.0.005513 | Hahn, M. W., A. Pitt, J. Schmidt, U. Koll, J. Wolf, W. B. Whitman, P. L. E. Bodelier and M. Neumann-Schaal | Zwartia hollandica gen. nov., sp. nov., Jezberella montanilacus gen. nov., sp. nov. and Sheuella amnicola gen. nov., comb. nov., representing the environmental GKS98 (betIII) cluster | International Journal of Systematic and Evolutionary Microbiology | 72(9) |
| 2022 | 10.1038/s43705-022-00113-8 | Gushgari-Doyle, S., L. M. Lui, T. N. Nielsen, X. Wu, R. G. Malana, A. J. Hendrickson, H. Carion, F. L. Poole, M. W. W. Adams, A. P. Arkin and R. Chakraborty | Genotype to ecotype in niche environments: adaptation of Arthrobacter to carbon availability and environmental conditions | ISME Communications | 2(1) 32 |
| 2022 | 10.1016/j.soilbio.2022.108633 | Guber, A., E. Blagodatskaya and A. Kravchenko | Are enzymes transported in soils by water fluxes? | Soil Biology and Biochemistry | 168 108633 |
| 2022 | 10.1186/s12870-022-03823-2 | Grzybowski, M. W., M. Zwiener, H. Jin, N. K. Wijewardane, A. Atefi, M. J. Naldrett, S. Alvarez, Y. Ge and J. C. Schnable | Variation in morpho-physiological and metabolic responses to low nitrogen stress across the sorghum association panel | BMC Plant Biology | 22(1) |
| 2022 | 10.1111/1462-2920.16086 | Gronniger, J. L., Z. Wang, G. R. Brandt, C. S. Ward, D. Tsementzi, H. Mu, J. Gu, Z. I. Johnson, K. T. Konstantinidis and D. E. Hunt | Rapid changes in coastal ocean microbiomes uncoupled with shifts in environmental variables | Environmental Microbiology | 24(9) 4167-4177 |
| 2022 | 10.1186/s40168-022-01231-0 | Gregory, A. C., K. Gerhardt, Z. P. Zhong, B. Bolduc, B. Temperton, K. T. Konstantinidis and M. B. Sullivan | MetaPop: a pipeline for macro- and microdiversity analyses and visualization of microbial and viral metagenome-derived populations | Microbiome | 10(1) |
| 2022 | 10.1128/msystems.00417-22 | Greenlon, A., E. Sieradzki, O. Zablocki, B. J. Koch, M. M. Foley, et al. | Quantitative Stable-Isotope Probing (qSIP) with Metagenomics Links Microbial Physiology and Activity to Soil Moisture in Mediterranean-Climate Grassland Ecosystems | mSystems | 7(6) e00417-22 |
| 2022 | 10.1007/s10533-021-00851-2 | Graham, E. B. and K. S. Hofmockel | Ecological stoichiometry as a foundation for omics-enabled biogeochemical models of soil organic matter decomposition | Biogeochemistry | 157(1) 31–50 |
| 2022 | 10.1099/ijsem.0.005456 | Grabowski, S., E. A. Apolinario, N. O. Schneider, C. W. Marshall and K. Sowers | Dethiosulfovibrio faecalis sp. nov., a novel proteolytic, non-sulphur-reducing bacterium isolated from a marine aquaculture solid waste bioreactor | International Journal of Systematic and Evolutionary Microbiology | 72(8) |
| 2022 | 10.1128/mra.00995-21 | Gortikov, M., Z. Wang, A. S. Steindorff, I. V. Grigoriev, I. S. Druzhinina, J. P. Townsend and O. Yarden | Sequencing and Analysis of the Entire Genome of the Mycoparasitic Bioeffector Fungus Trichoderma asperelloides Strain T 203 (Hypocreales) | Microbiology Resource Announcements | 11(2) e00995-21 |
| 2022 | 10.1088/1748-0221/17/04/C04027 | Gorni, D. S., G. W. Deptuch, S. Miryala, D. P. Siddons, A. Kuczewski, A. K. Rumaiz and G. A. Carini | Event driven readout architecture with non-priority arbitration for radiation detectors | Journal of Instrumentation | 17(04) C04027 |
| 2022 | 10.1038/s41388-022-02424-5 | Goodsell, D. S., S. Dutta, M. Voigt, C. Zardecki and S. K. Burley | Molecular explorations of cancer biology and therapeutics at PDB-101 | Oncogene | 41(38) 4333-4335 |
| 2022 | 10.1016/j.str.2021.10.008 | Goodsell, D. S. and S. K. Burley | RCSB Protein Data Bank resources for structure-facilitated design of mRNA vaccines for existing and emerging viral pathogens | Structure | 30(1) 55-68.e2 |
| 2022 | 10.3390/microorganisms10091747 | Gontijo, J. B., F. S. Paula, A. M. Venturini, J. A. Mandro, P. L. E. Bodelier and S. M. Tsai | Insights into the Genomic Potential of a Methylocystis sp. from Amazonian Floodplain Sediments | Microorganisms | 10(9) 1747 |
| 2022 | 10.1111/tpj.15682 | Gomez-Cano, F., Y. H. Chu, M. Cruz-Gomez, H. M. Abdullah, Y. S. Lee, D. J. Schnell and E. Grotewold | Exploring Camelina sativa lipid metabolism regulation by combining gene co-expression and DNA affinity purification analyses | Plant Journal | 110(2) 589-606 |
| 2022 | 10.1073/pnas.2110787119 | Goldford, J. E., A. B. George, A. I. Flamholz and D. Segrè | Protein cost minimization promotes the emergence of coenzyme redundancy | Proceedings of the National Academy of Sciences | 119(14) e2110787119 |
| 2022 | 10.1088/1478-3975/ac8514 | Golden, A., I. Dukovski, D. Segrè and K. S. Korolev | Growth instabilities shape morphology and genetic diversity of microbial colonies | Physical Biology | 19(5) 056005 |
| 2022 | 10.1111/1462-2920.16173 | Goff, J. L., E. G. Szink, M. P. Thorgersen, A. D. Putt, Y. Fan, et al. | Ecophysiological and genomic analyses of a representative isolate of highly abundant Bacillus cereus strains in contaminated subsurface sediments | Environmental Microbiology | 24(11) 5546–60 |
| 2022 | 10.1128/mra.00145-22 | Goff, J. L., L. M. Lui, T. N. Nielsen, M. P. Thorgersen, E. G. Szink, J.-M. Chandonia, F. L. Poole, J. Zhou, T. C. Hazen, A. P. Arkin and M. W. W. Adams | Complete Genome Sequence of Bacillus cereus Strain CPT56D-587-MTF, Isolated from a Nitrate- and Metal-Contaminated Subsurface Environment | Microbiology Resource Announcements | 11(5) e00145-22 |
| 2022 | 10.1021/acs.jchemed.2c00221 | Goes, S. L., J. E. Nutting, N. J. Hill, S. S. Stahl and M. Rafiee | Exploring Electrosynthesis: Bulk Electrolysis and Cyclic Voltammetry Analysis of the Shono Oxidation | Journal of Chemical Education | 99(9) 3242–8 |
| 2022 | 10.1007/s12275-022-2250-5 | Gim, D.-H., S.-Y. Lee, J. E. Han, J.-Y. Lee, S. M. Kang and J.-W. Bae | Description of Deefgea piscis sp. nov., and Deefgea tanakiae sp. nov., isolated from the gut of Korean indigenous fish | Journal of Microbiology | 60(11) 1061–9 |
| 2022 | 10.1021/acscatal.2c02445 | Gilcher, E. B., H. Chang, M. Rebarchik, G. W. Huber and J. A. Dumesic | Effects of Water Addition to Isopropanol for Hydrogenation of Compounds Derived from 5-Hydroxymethyl Furfural over Pd, Ru, and Cu Catalysts | ACS Catalysis | 12(16) 10186-10198 |
| 2022 | 10.1039/D1GC04650K | Gilcher, E. B., H. Chang, G. W. Huber and J. A. Dumesic | Controlled hydrogenation of a biomass-derived platform chemical formed by aldol-condensation of 5-hydroxymethyl furfural (HMF) and acetone over Ru, Pd, and Cu catalysts | Green Chemistry | 24(5) 2146–59 |
| 2022 | 10.3390/plants11060721 | Gilbert, S., A. Poulev, W. Chrisler, K. Acosta, G. Orr, S. Lebeis and E. Lam | Auxin-Producing Bacteria from Duckweeds Have Different Colonization Patterns and Effects on Plant Morphology | Plants | 11(6) |
| 2022 | 10.1038/s43705-022-00132-5 | Gilbert, N. E., G. R. LeCleir, R. F. Strzepek, M. J. Ellwood, B. S. Twining, S. Roux, C. Pennacchio, P. W. Boyd and S. W. Wilhelm | Bioavailable iron titrations reveal oceanic Synechococcus ecotypes optimized for different iron availabilities | ISME Communications | 2(1) 54 |
| 2022 | 10.1016/j.cmet.2021.11.005 | Giera, M., O. Yanes and G. Siuzdak | Metabolite discovery: Biochemistry's scientific driver | Cell Metabolism | 34(1) 21–34 |
| 2022 | 10.1111/1365-2435.14070 | Gibert, J. P., Z. Y. Han, D. J. Wieczynski, S. Votzke and A. Yammine | Feedbacks between size and density determine rapid eco-phenotypic dynamics | Functional Ecology | 36(7) 1668-1680 |
| 2022 | 10.1111/1365-2435.14091 | Gibert, J. P., J. M. Grady and A. I. Dell | Food web consequences of thermal asymmetries | Functional Ecology | 36(8) 1887-1899 |
| 2022 | 10.1039/D2EE00625A | Geissler, C. H. and C. T. Maravelias | Analysis of alternative bioenergy with carbon capture strategies: present and future | Energy & Environmental Science | 15(7) 2679–89 |
| 2022 | 10.1111/geb.13489 | Gautam, S., U. Mishra, C. D. Scown, S. A. Wills, K. Adhikari and B. A. Drewniak | Continental United States may lose 1.8 petagrams of soil organic carbon under climate change by 2100 | Global Ecology and Biogeography | 31(6) 1147–60 |
| 2022 | 10.1186/s13104-022-05982-9 | Gautam, J., H. Xu, J. Hu, C. Pennacchio, A. Lipzen, J. Martin and Z. Xu | Adapted laboratory evolution of Thermotoga sp. strain RQ7 under carbon starvation | BMC Research Notes | 15(1) 99 |
| 2022 | 10.1016/j.isci.2022.104065 | Garrigues, S., R. S. Kun, M. Peng, D. Bauer, K. Keymanesh, A. Lipzen, V. Ng, I. V. Grigoriev and R. P. de Vries | Unraveling the regulation of sugar beet pulp utilization in the industrially relevant fungus Aspergillus niger | iScience | 25(4) 104065 |
| 2022 | 10.1007/s00253-022-12061-3 | Garrido, M. M., F. E. Piccinni, M. Landoni, M. J. Peña, J. Topalian, A. Couto, S. A. Wirth, B. R. Urbanowicz and E. Campos | Insights into the xylan degradation system of Cellulomonas sp. B6: biochemical characterization of rCsXyn10A and rCsAbf62A | Applied Microbiology and Biotechnology | 106(13) 5035–49 |
| 2022 | 10.1016/j.syapm.2022.126358 | García-Santibañez, T., M. Rosenblueth, L. M. Bolaños, J. Martínez-Romero and E. Martínez-Romero | The divergent genome of Scorpion Group 1 (SG1) intracellular bacterium from the venom glands of Vaejovis smithi (Scorpiones: Vaejovidae) | Systematic and Applied Microbiology | 45(6) 126358 |
| 2022 | 10.1038/s41598-022-13525-2 | Garber, M. E., R. Fregoso, J. Lake, A. Kakouridis and A. Mukhopadhyay | Pseudomonas response regulators produced in an E. coli heterologous expression host exhibit host-derived post-translational phosphorylation | Scientific Reports | 12(1) 10336 |
| 2022 | 10.1038/s41467-022-30049-5 | Gao, S., D. Paez-Espino, J. Li, H. Ai, J. Liang, Z. Luo, J. Zheng, H. Chen, W. Shu and L. Huang | Patterns and ecological drivers of viral communities in acid mine drainage sediments across Southern China | Nature Communications | 13(1) 2389 |
| 2022 | 10.1038/s41467-022-31343-y | Gao, C., L. Xu, L. Montoya, M. Madera, J. Hollingsworth, L. Chen, E. Purdom, V. Singan, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Co-occurrence networks reveal more complexity than community composition in resistance and resilience of microbial communities | Nature Communications | 13(1) |
| 2022 | 10.1111/mec.16343 | Gao, C., P. E. Courty, N. Varoquaux, B. Cole, L. Montoya, L. Xu, E. Purdom, J. Vogel, R. B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, P. G. Lemaux and J. W. Taylor | Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression | Molecular Ecology | |
| 2022 | 10.1073/pnas.2201160119 | Gan, L., K. Park, J. Chai, E. M. Updike, H. Kim, et al. | Divergent evolution of extreme production of variant plant monounsaturated fatty acids | Proceedings of the National Academy of Sciences | 119(30) e2201160119 |
| 2022 | 10.1016/j.synbio.2022.02.007 | Gambacorta, F. V., E. R. Wagner, T. B. Jacobson, M. Tremaine, L. K. Muehlbauer, et al. | Comparative functional genomics identifies an iron-limited bottleneck in a Saccharomyces cerevisiae strain with a cytosolic-localized isobutanol pathway | Synthetic and Systems Biotechnology | 7(2) 738–49 |
| 2022 | 10.3389/fbioe.2022.1080024 | Gambacorta, F. V., J. J. Dietrich, J. J. Baerwald, S. J. Brown, Y. Su and B. F. Pfleger | Combinatorial library design for improving isobutanol production in Saccharomyces cerevisiae | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1128/aem.02449-21 | Gagliano, M. C., P. Sampara, C. M. Plugge, H. Temmink, D. Sudmalis and R. M. Ziels | Functional Insights of Salinity Stress-Related Pathways in Metagenome-Resolved Methanothrix Genomes | Applied and Environmental Microbiology | 88(10) e02449-21 |
| 2022 | 10.3389/ffunb.2022.1063609 | Gabaldón, T. and C. T. Hittinger | Editorial: Genomic insights on fungal hybrids | Frontiers in Fungal Biology | 3 |
| 2022 | 10.1111/pce.14270 | G. Viana, W., J. D. Scharwies and J. R. Dinneny | Deconstructing the root system of grasses through an exploration of development, anatomy and function | Plant Cell and Environment | 45(3) 602-619 |
| 2022 | 10.1128/mra.00691-22 | Fu, H., A. Kugler, P. Huyck, R. L. Brigmon and E. A. Ottesen | Draft Genome Sequence of Cupriavidus basilensis SRS, a Bacterium Isolated from Stream Sediments | Microbiology Resource Announcements | 11(10) e00691-22 |
| 2022 | 10.1038/s42003-022-03461-2 | Freyria, N. J., A. Kuo, M. Chovatia, J. Johnson, A. Lipzen, K. W. Barry, I. V. Grigoriev and C. Lovejoy | Salinity tolerance mechanisms of an Arctic Pelagophyte using comparative transcriptomic and gene expression analysis | Communications Biology | 5(1) 500 |
| 2022 | 10.1080/15476286.2022.2067714 | Fremin, B. J. and N. C. Kyrpides | Identifying candidate structured RNAs in CRISPR operons | RNA Biology | 19(1) 678-685 |
| 2022 | 10.1016/j.celrep.2022.110984 | Fremin, B. J., A. S. Bhatt, N. C. Kyrpides, A. Sengupta, A. Sczyrba, et al. | Thousands of small, novel genes predicted in global phage genomes | Cell Reports | 39(12) 110984 |
| 2022 | 10.1111/nph.17873 | Franco, M. E. E., J. H. Wisecaver, A. E. Arnold, Y.-M. Ju, J. C. Slot, et al. | Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes | New Phytologist | 233(3) 1317-1330 |
| 2022 | 10.1016/j.ymben.2021.12.012 | Foster, C., V. S. Boorla, S. Dash, S. Gopalakrishnan, T. B. Jacobson, D. G. Olson, D. Amador-Noguez, L. R. Lynd and C. D. Maranas | Assessing the impact of substrate-level enzyme regulations limiting ethanol titer in Clostridium thermocellum using a core kinetic model | Metabolic Engineering | 69 286–301 |
| 2022 | 10.1016/j.soilbio.2021.108519 | Fossum, C., K. Y. Estera-Molina, M. Yuan, D. J. Herman, I. Chu-Jacoby, P. S. Nico, K. D. Morrison, J. Pett-Ridge and M. K. Firestone | Belowground allocation and dynamics of recently fixed plant carbon in a California annual grassland | Soil Biology and Biochemistry | 165 108519 |
| 2022 | 10.1128/mra.00290-22 | Fortney, N. W., K. S. Myers, A. T. Ingle, K. A. Walters, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Metagenomes and Metagenome-Assembled Genomes from Microbiomes Metabolizing Thin Stillage from an Ethanol Biorefinery | Microbiology Resource Announcements | 11(8) e00290-22 |
| 2022 | 10.1016/j.soilbio.2022.108809 | Fofana, A., D. Anderson, C. K. McCalley, S. Hodgkins, R. M. Wilson, D. Cronin, N. Raab, M. Torabi, R. K. Varner, P. Crill, S. R. Saleska, J. P. Chanton, M. M. Tfaily and V. I. Rich | Mapping substrate use across a permafrost thaw gradient | Soil Biology and Biochemistry | 175 |
| 2022 | 10.1128/mbio.02076-22 | Flamholz, A. I., S. Saccomano, K. Cash and D. K. Newman | Optical O2 Sensors Also Respond to Redox Active Molecules Commonly Secreted by Bacteria | mBio | 13(6) e02076–22 |
| 2022 | 10.1016/j.soilbio.2022.108628 | Fiore-Donno, A. M., Z. R. Human, M. Štursová, S. Mundra, L. Morgado, H. Kauserud, P. Baldrian and M. Bonkowski | Soil compartments (bulk soil, litter, root and rhizosphere) as main drivers of soil protistan communities distribution in forests with different nitrogen deposition | Soil Biology and Biochemistry | 168 108628 |
| 2022 | 10.1038/s41396-021-01162-y | Finley, B. K., R. L. Mau, M. Hayer, B. W. Stone, E. M. Morrissey, B. J. Koch, C. Rasmussen, P. Dijkstra, E. Schwartz and B. A. Hungate | Soil minerals affect taxon-specific bacterial growth | The ISME Journal | 16(5) 1318–26 |
| 2022 | 10.1093/jxb/erac300 | Ferreira, S. S., G. Goeminne, M. S. Simões, A. V. d. A. Pina, L. G. A. d. Lima, J. Pezard, A. Gutiérrez, J. Rencoret, J. C. Mortimer, J. C. del Río, W. Boerjan and I. Cesarino | Transcriptional and metabolic changes associated with internode development and reduced cinnamyl alcohol dehydrogenase activity in sorghum | Journal of Experimental Botany | 73(18) 6307–33 |
| 2022 | 10.1128/mra.00796-22 | Ferrari, N. A., J. V. G. Takashe, F. F. Aburjaile, V. Azevedo, M. M. d. Costa, B. Brenig, F. E. P. Rocha and U. d. P. Pereira | Genome Report of Emergent Fish Pathogen Edwardsiella piscicida Recovered from Pseudoplatystoma corruscans in Brazil | Microbiology Resource Announcements | 11(12) e00796-22 |
| 2022 | 10.1042/BCJ20220003 | Fenyk, S., H. K. Woodfield, T. B. Romsdahl, E. J. Wallington, R. E. Bates, D. A. Fell, K. D. Chapman, T. Fawcett and J. L. Harwood | Overexpression of phospholipid: diacylglycerol acyltransferase in Brassica napus results in changes in lipid metabolism and oil accumulation | Biochemical Journal | 479(6) 805-823 |
| 2022 | 10.1016/j.chom.2021.12.006 | Feng, J., Y. Qian, Z. Zhou, S. Ertmer, E. I. Vivas, F. Lan, J. J. Hamilton, F. E. Rey, K. Anantharaman and O. S. Venturelli | Polysaccharide utilization loci in Bacteroides determine population fitness and community-level interactions | Cell Host and Microbe | 30(2) 200-215.e12 |
| 2022 | 10.1128/jb.00563-21 | Felczak, M. M. and M. A. TerAvest | Zymomonas mobilis ZM4 Utilizes an NADP+-Dependent Acetaldehyde Dehydrogenase To Produce Acetate | Journal of Bacteriology | 204(4) e00563-21 |
| 2022 | 10.1128/mbio.01224-22 | Feid, S. C., H. E. Walukiewicz, X. Wang, E. S. Nakayasu, C. V. Rao and A. J. Wolfe | Regulation of translation by lysine acetylation in Escherichia coli | mBio | 13(3) |
| 2022 | 10.1099/mgen.0.000824 | Feeney, M. A., J. T. Newitt, E. Addington, L. Algora-Gallardo, C. Allan, et al. | ActinoBase: tools and protocols for researchers working on Streptomyces and other filamentous actinobacteria | Microbial Genomics | 8(7) |
| 2022 | 10.1038/s41588-022-01052-9 | Fauser, F., J. Vilarrasa-Blasi, M. Onishi, S. Ramundo, W. Patena, et al. | Systematic characterization of gene function in the photosynthetic alga Chlamydomonas reinhardtii | Nature Genetics | 54(5) 705-714 |
| 2022 | 10.1021/acssuschemeng.2c00820 | Fang, Z., J. E. Jackson and E. L. Hegg | Mild, Electroreductive Lignin Cleavage: Optimizing the Depolymerization of Authentic Lignins | ACS Sustainable Chemistry & Engineering | 10(23) 7545–52 |
| 2022 | 10.1111/tpj.15603 | Fan, M., J. K. Jensen, S. Zemelis-Durfee, S.-J. Kim, J.-Y. Chan, C. M. Beaudry, F. Brandizzi and C. G. Wilkerson | Disruption of Brachypodium lichenase alters metabolism of mixed-linkage glucan and starch | The Plant Journal | 109(4) 927–39 |
| 2022 | 10.1016/j.meegid.2022.105315 | Faleye, T. O. C., P. T. Skidmore, A. Elyaderani, A. Smith, N. Kaiser, S. Adhikari, A. Yanez, T. Perleberg, E. M. Driver, R. U. Halden, A. Varsani and M. Scotch | Canine picornaviruses detected in wastewater in Arizona, USA 2019 and 2021 | Infection, Genetics and Evolution | 103 105315 |
| 2022 | 10.1093/plphys/kiac468 | Fahlgren, N., M. Kapoor, G. Yordanova, I. Papatheodorou, J. Waese, B. Cole, P. Harrison, D. Ware, T. Tickle, B. Paten, T. Burdett, C. G. Elsik, C. K. Tuggle and N. J. Provart | Toward a data infrastructure for the Plant Cell Atlas | Plant Physiology | 191(1) 35-46 |
| 2022 | 10.1128/mra.01008-22 | Fadiji, A. E., A. S. Ayangbenro, A. O. Akanmu and O. O. Babalola | Draft Genome Sequence of Enterobacter mori AYS9, a Potential Plant Growth-Promoting Rhizobacterium | Microbiology Resource Announcements | 11(12) e01008-22 |
| 2022 | 10.1093/femsle/fnac034 | Estoppey, A., L. Weisskopf, E. Di Francesco, A. Vallat-Michel, S. Bindschedler, P. S. Chain and P. Junier | Improved methods to assess the effect of bacteria on germination of fungal spores | FEMS Microbiology Letters | 369(1) fnac034 |
| 2022 | 10.1145/3500922 | Eslami, M., A. Adler, R. S. Caceres, J. G. Dunn, N. Kelley-Loughnane, V. A. Varaljay and H. G. Martin | Artificial intelligence for synthetic biology | Communications of the ACM | 65(5) 88–97 |
| 2022 | 10.1038/s41396-021-01120-8 | Escalas, A., F. S. Paula, F. Guilhaumon, M. Yuan, Y. Yang, L. Wu, F. Liu, J. Feng, Y. Zhang and J. Zhou | Macroecological distributions of gene variants highlight the functional organization of soil microbial systems | ISME Journal | 16(3) 726-737 |
| 2022 | 10.1111/gcb.16231 | Ernakovich, J. G., R. A. Barbato, V. I. Rich, C. Schädel, R. E. Hewitt, et al. | Microbiome assembly in thawing permafrost and its feedbacks to climate | Global Change Biology | 28(17) 5007-5026 |
| 2022 | 10.1111/nph.17816 | Erlandson, S. R., R. Margis, A. Ramirez, N. Nguyen, L. A. Lofgren, H.-L. Liao, R. Vilgalys, P. G. Kennedy and K. G. Peay | Transcriptional acclimation and spatial differentiation characterize drought response by the ectomycorrhizal fungus Suillus pungens | New Phytologist | 234(6) 1910-1913 |
| 2022 | 10.1038/s41929-022-00747-w | Erickson, E., A. Bleem, E. Kuatsjah, A. Z. Werner, J. L. DuBois, J. E. McGeehan, L. D. Eltis and G. T. Beckham | Critical enzyme reactions in aromatic catabolism for microbial lignin conversion | Nature Catalysis | 5(2) 86–98 |
| 2022 | 10.1111/tpj.15640 | Engle, K. A., R. A. Amos, J.-Y. Yang, J. Glushka, M. A. Atmodjo, L. Tan, C. Huang, K. W. Moremen and D. Mohnen | Multiple Arabidopsis galacturonosyltransferases synthesize polymeric homogalacturonan by oligosaccharide acceptor-dependent or de novo synthesis | The Plant Journal | 109(6) 1441–56 |
| 2022 | 10.1038/s41467-022-30355-y | Enghiad, B., P. Xue, N. Singh, A. G. Boob, C. Shi, V. A. Petrov, R. Liu, S. S. Peri, S. T. Lane, E. D. Gaither and H. Zhao | PlasmidMaker is a versatile, automated, and high throughput end-to-end platform for plasmid construction | Nature Communications | 13(1) 2697 |
| 2022 | 10.1016/j.apsoil.2021.104218 | Emery, S. M., L. Bell-Dereske, K. A. Stahlheber and K. L. Gross | Arbuscular mycorrhizal fungal community responses to drought and nitrogen fertilization in switchgrass stands | Applied Soil Ecology | 169 104218 |
| 2022 | 10.1016/j.jfueco.2022.100072 | Elkins, J. G., M. Rodriguez, O. N. Cannon, R. M. Connatser, G. B. Oguntimein, M. D. Kass, B. H. West and B. H. Davison | n-Butanol or isobutanol as a value-added fuel additive to inhibit microbial degradation of stored gasoline | Fuel Communications | 12 100072 |
| 2022 | 10.1016/j.phytochem.2022.113122 | Elder, T., J. C. del Río, J. Ralph, J. Rencoret and H. Kim | Density functional theory study on the coupling and reactions of diferuloylputrescine as a lignin monomer | Phytochemistry | 197 113122 |
| 2022 | 10.3389/frsus.2022.910924 | Edwards, M. R., T. Holloway, R. B. Pierce, L. Blank, M. Broddle, et al. | Satellite Data Applications for Sustainable Energy Transitions | Frontiers in Sustainability | 3 |
| 2022 | 10.1186/s12864-022-08918-6 | Edwards, B., E. D. Hornstein, N. J. Wilson and H. Sederoff | High-throughput detection of T-DNA insertion sites for multiple transgenes in complex genomes | BMC Genomics | 23(1) |
| 2022 | 10.3389/fmicb.2022.735911 | Eardly, B., W. A. Meor Osman, J. Ardley, J. Zandberg, M. Gollagher, et al. | The Genome of the Acid Soil-Adapted Strain Rhizobium favelukesii OR191 Encodes Determinants for Effective Symbiotic Interaction With Both an Inverted Repeat Lacking Clade and a Phaseoloid Legume Host | Frontiers in Microbiology | 13 |
| 2022 | 10.1128/AEM.01782-21 | Eagar, A. C., R. M. Mushinski, A. L. Horning, K. A. Smemo, R. P. Phillips and C. B. Blackwood | Arbuscular Mycorrhizal Tree Communities Have Greater Soil Fungal Diversity and Relative Abundances of Saprotrophs and Pathogens than Ectomycorrhizal Tree Communities | Applied and Environmental Microbiology | 88(1) |
| 2022 | 10.1128/aem.01648-21 | Dunon, V., P. N. Holmsgaard, S. Dealtry, R. Lavigne, S. J. Sørensen, K. Smalla, E. M. Top and D. Springael | Long-Range PCR Reveals the Genetic Cargo of IncP-1 Plasmids in the Complex Microbial Community of an On-Farm Biopurification System Treating Pesticide-Contaminated Wastewater | Applied and Environmental Microbiology | 88(3) e01648-21 |
| 2022 | 10.1186/s40168-022-01254-7 | Duncan, A., K. Barry, C. Daum, E. Eloe-Fadrosh, S. Roux, K. Schmidt, S. G. Tringe, K. U. Valentin, N. Varghese, A. Salamov, I. V. Grigoriev, R. M. Leggett, V. Moulton and T. Mock | Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans | Microbiome | 10(1) 67 |
| 2022 | 10.1042/ETLS20210267 | Duarte, J. M., S. Dutta, D. S. Goodsell and S. K. Burley | Exploring protein symmetry at the RCSB Protein Data Bank | Emerging Topics in Life Sciences | 6(3) 231-243 |
| 2022 | 10.1038/s41396-022-01232-9 | Dove, N. C., N. Taş and S. C. Hart | Ecological and genomic responses of soil microbiomes to high-severity wildfire: linking community assembly to functional potential | The ISME Journal | 16(7) 1853–1863 |
| 2022 | 10.1128/msystems.00120-22 | Dove, N. C., A. A. Carrell, N. L. Engle, D. M. Klingeman, M. Rodriguez, T. Wahl, T. J. Tschaplinski, W. Muchero, C. W. Schadt and M. A. Cregger | Relationships between Sphaerulina musiva Infection and the Populus Microbiome and Metabolome | mSystems | 7(4) e00120-22 |
| 2022 | 10.1016/j.mib.2022.102144 | Donohue, T. J. | Editorial overview: Microbial activities powering society | Current Opinion in Microbiology | 67 102144 |
| 2022 | 10.3389/fchem.2021.826625 | Dong, H., L. D. C. Sousa, B. Ubanwa, A. D. Jones and V. Balan | A new method to overcome carboxyamide formation during AFEX pretreatment of lignocellulosic biomass | Frontiers in Chemistry | 9 |
| 2022 | 10.1016/j.ymben.2021.10.012 | Dinh, H. V., D. Sarkar and C. D. Maranas | Quantifying the propagation of parametric uncertainty on flux balance analysis | Metabolic Engineering | 69 26–39 |
| 2022 | 10.1111/pce.14291 | DiMario, R. J., R. Giuliani, N. Ubierna, A. D. Slack, A. B. Cousins and A. J. Studer | Lack of leaf carbonic anhydrase activity eliminates the C4 carbon-concentrating mechanism requiring direct diffusion of CO2 into bundle sheath cells | Plant Cell and Environment | 45(5) 1382-1397 |
| 2022 | 10.1128/mSystems.01092-21 | diCenzo, G. C., L. Cangioli, Q. Nicoud, J. H. T. Cheng, M. J. Blow, N. Shapiro, T. Woyke, E. G. Biondi, B. Alunni, A. Mengoni and P. Mergaert | DNA Methylation in Ensifer Species during Free-Living Growth and during Nitrogen-Fixing Symbiosis with Medicago spp | mSystems | 7(1) e01092-21 |
| 2022 | 10.3389/fevo.2022.764086 | Díaz-Almeyda, E. M., T. Ryba, A. H. Ohdera, S. M. Collins, N. Shafer, C. Link, M. Prado-Zapata, C. Ruhnke, M. Moore, A. M. González Angel, F. J. Pollock and M. Medina | Thermal Stress Has Minimal Effects on Bacterial Communities of Thermotolerant Symbiodinium Cultures | Frontiers in Ecology and Evolution | 10 |
| 2022 | 10.1038/s42003-022-04069-2 | Diao, J., R. Carr and T. S. Moon | Deciphering the transcriptional regulation of the catabolism of lignin-derived aromatics in Rhodococcus opacus PD630 | Communications Biology | 5(1) |
| 2022 | 10.1038/s41396-021-01177-5 | Diamond, S., A. Lavy, A. Crits-Christoph, P. B. Matheus Carnevali, A. Sharrar, K. H. Williams and J. F. Banfield | Soils and sediments host Thermoplasmata archaea encoding novel copper membrane monooxygenases (CuMMOs) | The ISME Journal | 16(5) 1348-1362 |
| 2022 | 10.1007/s12042-022-09315-9 | Dhungana, S. R. and D. M. Braun | Genomic Analyses of SUT and TST Sugar Transporter Families in Low and High Sugar Accumulating Sugarcane Species (Saccharum spontaneum and Saccharum officinarum) | Tropical Plant Biology | |
| 2022 | 10.1128/msystems.00169-22 | Dhakar, K., R. Zarecki, S. Medina, H. Ziadna, K. Igbaria, R. Lati, Z. Ronen, H. Eizenberg and S. Freilich | Modeling-Guided Amendments Lead to Enhanced Biodegradation in Soil | mSystems | 7(4) e00169-22 |
| 2022 | 10.1093/bib/bbab476 | Dhakal, A., C. McKay, J. J. Tanner and J. Cheng | Artificial intelligence in the prediction of protein-ligand interactions: recent advances and future directions | Briefings in Bioinformatics | 23(1) |
| 2022 | 10.1016/j.copbio.2022.102730 | Deter, H. S. and T. Lu | Engineering microbial consortia with rationally designed cellular interactions | Current Opinion in Biotechnology | 76 102730 |
| 2022 | 10.1128/AEM.01841-21 | Dershwitz, P., W. Gu, J. Roche, C. S. Kang-Yun, J. D. Semrau, T. A. Bobik, B. Fulton, H. Zischka and A. A. DiSpirito | MbnC Is Not Required for the Formation of the N-Terminal Oxazolone in the Methanobactin from Methylosinus trichosporium OB3b | Applied and Environmental Microbiology | 88(2) |
| 2022 | 10.1021/acscentsci.2c00057 | DeMirci, H., Y. Rao, G. M. Stoffel, B. Vögeli, K. Schell, et al. | Intersubunit Coupling Enables Fast CO2-Fixation by Reductive Carboxylases | ACS Central Science | 8(8) 1091-1101 |
| 2022 | 10.1128/mbio.00651-22 | Demina, T. A., A.-M. Luhtanen, S. Roux and H. M. Oksanen | Virus-Host Interactions and Genetic Diversity of Antarctic Sea Ice Bacteriophages | mBio | 13(3) e00651-22 |
| 2022 | 10.1126/sciadv.abp8823 | Demarteau, J., A. R. Epstein, P. R. Christensen, M. Abubekerov, H. Wang, S. J. Teat, T. J. Seguin, C. W. Chan, C. D. Scown, T. P. Russell, J. D. Keasling, K. A. Persson and B. A. Helms | Circularity in mixed-plastic chemical recycling enabled by variable rates of polydiketoenamine hydrolysis | Science Advances | 8(29) eabp8823 |
| 2022 | 10.1016/j.scitotenv.2022.155408 | Della Chiesa, T., G. Piñeiro, S. J. Del Grosso, W. J. Parton, P. I. Araujo and L. Yahdjian | Higher than expected N2O emissions from soybean crops in the Pampas Region of Argentina: Estimates from DayCent simulations and field measurements | Science of the Total Environment | 835 |
| 2022 | 10.1016/bs.abr.2022.02.001 | del Río, J. C., J. Rencoret, A. Gutiérrez, H. Kim and J. Ralph | Unconventional lignin monomers—Extension of the lignin paradigm | Advances in Botanical Research | 104 1–39 |
| 2022 | 10.1007/s00253-022-12084-w | Deewan, A., J.-J. Liu, S. S. Jagtap, E. J. Yun, H. Walukiewicz, Y.-S. Jin and C. V. Rao | System analysis of Lipomyces starkeyi during growth on various plant-based sugars | Applied Microbiology and Biotechnology | 106(17) 5629–42 |
| 2022 | 10.3389/fmicb.2022.855331 | de Raad, M., Y. V. Li, J. V. Kuehl, P. F. Andeer, S. M. Kosina, et al. | A Defined Medium for Cultivation and Exometabolite Profiling of Soil Bacteria | Frontiers in Microbiology | 13 |
| 2022 | 10.3389/fpls.2022.943349 | De Meester, B., P. Oyarce, R. Vanholme, R. Van Acker, Y. Tsuji, T. Vangeel, S. Van den Bosch, J. Van Doorsselaere, B. Sels, J. Ralph and W. Boerjan | Engineering Curcumin Biosynthesis in Poplar Affects Lignification and Biomass Yield | Frontiers in Plant Science | 13 |
| 2022 | 10.1016/bs.agron.2022.04.001 | Danielson, R. E. and J. L. Mazza Rodrigues | Chapter Three - Impacts of land-use change on soil microbial communities and their function in the Amazon Rainforest | Advances in Agronomy | 175 179-258 |
| 2022 | 10.1111/1462-2920.15843 | Dang, C., J. G. V. Walkup, B. A. Hungate, R. B. Franklin, E. Schwartz and E. M. Morrissey | Phylogenetic organization in the assimilation of chemically distinct substrates by soil bacteria | Environmental Microbiology | 24(1) 357-369 |
| 2022 | 10.1016/j.algal.2021.102604 | Dahlin, L. R. and M. T. Guarnieri | Heterologous expression of phosphite dehydrogenase in the chloroplast or nucleus enables phosphite utilization and genetic selection in Picochlorum spp | Algal Research | 62 102604 |
| 2022 | 10.1016/j.ymben.2022.03.011 | Dahle, M. L., E. T. Papoutsakis and M. R. Antoniewicz | 13C-metabolic flux analysis of Clostridium ljungdahlii illuminates its core metabolism under mixotrophic culture conditions | Metabolic Engineering | 72 161-170 |
| 2022 | 10.7554/eLife.70936 | D'Angelo, F., E. Fernández-Fueyo, P. S. Garcia, H. Shomar, M. Pelosse, et al. | Cellular assays identify barriers impeding iron-sulfur enzyme activity in a non-native prokaryotic host | eLife | 11 e70936 |
| 2022 | 10.1016/j.mec.2022.e00206 | Czajka, J. J., D. Banerjee, T. Eng, J. Menasalvas, C. Yan, N. M. Munoz, B. C. Poirier, Y.-M. Kim, S. E. Baker, Y. J. Tang and A. Mukhopadhyay | Tuning a high performing multiplexed-CRISPRi Pseudomonas putida strain to further enhance indigoidine production | Metabolic Engineering Communications | 15 e00206 |
| 2022 | 10.1007/s10681-022-03005-z | Cuevas, H. E. and W. Vermerris | Linkage map construction using limited parental genotypic information | Euphytica | 218(5) |
| 2022 | 10.1002/csc2.20818 | Cuevas, H. E., J. E. Knoll, K. R. Harris-Shultz and S. M. Punnuri | Genetic mapping of sugarcane aphid resistance in sorghum line SC112-14 | Crop Science | |
| 2022 | 10.1016/j.joule.2022.05.011 | Cruz-Morales, P., K. Yin, A. Landera, J. R. Cort, R. P. Young, et al. | Biosynthesis of polycyclopropanated high energy biofuels | Joule | 6(7) 1590–605 |
| 2022 | 10.3390/plants11182385 | Crowell, C. R., D. G. Wilkerson, L. B. Smart and C. D. Smart | Evidence of Asexual Overwintering of Melampsora paradoxa and Mapping of Stem Rust Host Resistance in Salix | Plants | 11(18) 2385 |
| 2022 | 10.1094/phyto-05-21-0201-r | Crowell, C. R., D. G. Wilkerson, M. Beckauri, A. R. Cala, P. W. McMullen, S. Mondo, W. Andreopoulos, A. Lipzen, K. Lail, M. Yan, V. Ng, I. V. Grigoriev, L. B. Smart and C. D. Smart | The Melampsora americana Population on Salix purpurea in the Great Lakes Region Is Highly Diverse with a Contributory Influence of Clonality | Phytopathology® | 112(4) 907-916 |
| 2022 | 10.1128/mra.01205-21 | Cross, K. L., D. M. Klingeman and M. Podar | Complete Genome Sequence of Human Oral Saccharibacterium “Candidatus Nanosynbacter sp. HMT352” Strain KC1 | Microbiology Resource Announcements | 11(2) e01205-21 |
| 2022 | 10.1093/plcell/koac347 | Craig, R. J., S. D. Gallaher, S. Shu, P. A. Salomé, J. W. Jenkins, et al. | The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory | The Plant Cell | 35(2) 644-672 |
| 2022 | 10.1128/mra.00620-22 | Couceiro, J. F., T. Keller-Costa, N. C. Kyrpides, T. Woyke, W. B. Whitman and R. Costa | Genome Sequencing Suggests Diverse Secondary Metabolism in Coral-Associated Aquimarina megaterium | Microbiology Resource Announcements | 11(11) e00620-22 |
| 2022 | 10.1016/j.soilbio.2022.108648 | Cotrufo, M. F., M. L. Haddix, M. E. Kroeger and C. E. Stewart | The role of plant input physical-chemical properties, and microbial and soil chemical diversity on the formation of particulate and mineral-associated organic matter | Soil Biology and Biochemistry | 168 108648 |
| 2022 | 10.1128/mbio.00079-22 | Costa, P. B. d., G. M. N. Benucci, M.-Y. Chou, J. V. Wyk, M. Chretien and G. Bonito | Soil Origin and Plant Genotype Modulate Switchgrass Aboveground Productivity and Root Microbiome Assembly | mBio | 13(2) e00079-22 |
| 2022 | 10.1021/acssuschemeng.2c04204 | Cortés-Peña, Y. R., C. Kurambhatti, K. Eilts, V. Singh and J. S. Guest | Economic and Environmental Sustainability of Vegetative Oil Extraction Strategies at Integrated Oilcane and Oil-Sorghum Biorefineries | ACS Sustainable Chemistry & Engineering | 10(42) 13980–90 |
| 2022 | 10.1021/acssuschemeng.1c07442 | Cordon, M. J., J. Zhang, N. R. Samad, J. W. Harris, K. A. Unocic, M. Li, D. Liu and Z. Li | Ethanol Conversion to C4+ Olefins over Bimetallic Copper- And Lanthanum-Containing Beta Zeolite Catalysts | ACS Sustainable Chemistry & Engineering | 10(18) 5702–7 |
| 2022 | 10.3389/fmicb.2022.879116 | Cooper, Z. S., J. Z. Rapp, A. M. D. Shoemaker, R. E. Anderson, Z.-P. Zhong and J. W. Deming | Evolutionary Divergence of Marinobacter Strains in Cryopeg Brines as Revealed by Pangenomics | Frontiers in Microbiology | 13 |
| 2022 | 10.1002/mas.21663 | Cooper, W. T., J. C. Chanton, J. D'Andrilli, S. B. Hodgkins, D. C. Podgorski, A. C. Stenson, M. M. Tfaily and R. M. Wilson | A History of Molecular Level Analysis of Natural Organic Matter by FTICR Mass Spectrometry and The Paradigm Shift in Organic Geochemistry | Mass Spectrometry Reviews | 41(2) 215-239 |
| 2022 | 10.1038/s41564-022-01244-3 | Conway, J. M., W. G. Walton, I. Salas-González, T. F. Law, C. A. Lindberg, L. E. Crook, S. M. Kosina, C. R. Fitzpatrick, A. D. Lietzan, T. R. Northen, C. D. Jones, O. M. Finkel, M. R. Redinbo and J. L. Dangl | Diverse MarR bacterial regulators of auxin catabolism in the plant microbiome | Nature Microbiology | 7(11) 1817–33 |
| 2022 | 10.1073/pnas.2107879119 | Contreras-López, O., E. A. Vidal, E. Riveras, J. M. Alvarez, T. C. Moyano, E. E. Sparks, J. Medina, A. Pasquino, P. N. Benfey, G. M. Coruzzi and R. A. Gutiérrez | Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate | Proceedings of the National Academy of Sciences of the United States of America | 119(4) |
| 2022 | 10.1242/dev.200632 | Conde, D., P. M. Triozzi, W. J. Pereira, H. W. Schmidt, K. M. Balmant, S. A. Knaack, A. Redondo-López, S. Roy, C. Dervinis and M. Kirst | Single-nuclei transcriptome analysis of the shoot apex vascular system differentiation in Populus | Development (Cambridge, England) | 149(21) |
| 2022 | 10.1002/cpz1.533 | Colovas, J., A. F. Bintarti, M. E. Mechan Llontop, K. L. Grady and A. Shade | Do-it-Yourself Mock Community Standard for Multi-Step Assessment of Microbiome Protocols | Current Protocols | 2(9) |
| 2022 | 10.1073/pnas.2206845119 | Colman, D. R., E. A. Kraus, P. H. Thieringer, K. Rempfert, A. S. Templeton, J. R. Spear and E. S. Boyd | Deep-branching acetogens in serpentinized subsurface fluids of Oman | Proceedings of the National Academy of Sciences | 119(42) e2206845119 |
| 2022 | 10.1128/msystems.00951-22 | Coker, J., K. Zhalnina, C. Marotz, D. Thiruppathy, M. Tjuanta, G. D’Elia, R. Hailu, T. Mahosky, M. Rowan, T. R. Northen and K. Zengler | A Reproducible and Tunable Synthetic Soil Microbial Community Provides New Insights into Microbial Ecology | mSystems | 7(6) e00951-22 |
| 2022 | 10.3389/fpls.2022.787265 | Clark, T. J. and J. Schwender | Elucidation of Triacylglycerol Overproduction in the C4 Bioenergy Crop Sorghum bicolor by Constraint-Based Analysis | Frontiers in Plant Science | 13 |
| 2022 | 10.1016/j.xpro.2021.100968 | Ciobanu, D., S. Chan, S. Ahrendt, C. A. Quandt, G. L. Benny, M. E. Smith, T. Y. James and J.-F. Cheng | Protocol for single-cell isolation and genome amplification of environmental microbial eukaryotes for genomic analysis | STAR Protocols | 3(1) 100968 |
| 2022 | 10.1016/j.fgb.2022.103670 | Chroumpi, T., N. Martínez-Reyes, R. S. Kun, M. Peng, A. Lipzen, V. Ng, S. Tejomurthula, Y. Zhang, I. V. Grigoriev, M. R. Mäkelä, R. P. de Vries and S. Garrigues | Detailed analysis of the D-galactose catabolic pathways in Aspergillus niger reveals complexity at both metabolic and regulatory level | Fungal Genetics and Biology | 159 103670 |
| 2022 | 10.3389/fenrg.2022.868181 | Choudhary, H., B. A. Simmons and J. M. Gladden | Comparative Study on the Pretreatment of Aspen and Maple With 1-Ethyl-3-methylimidazolium Acetate and Cholinium Lysinate | Frontiers in Energy Research | 10 |
| 2022 | 10.3390/molecules27196278 | Choudhary, H., V. R. Pidatala, M. Mohan, B. A. Simmons, J. M. Gladden and S. Singh | Renewable Schiff-Base Ionic Liquids for Lignocellulosic Biomass Pretreatment | Molecules | 27(19) 6278 |
| 2022 | 10.1038/s41467-022-31433-x | Chirania, P., E. K. Holwerda, R. J. Giannone, X. Liang, S. Poudel, J. C. Ellis, Y. J. Bomble, R. L. Hettich and L. R. Lynd | Metaproteomics reveals enzymatic strategies deployed by anaerobic microbiomes to maintain lignocellulose deconstruction at high solids | Nature Communications | 13(1) 3870 |
| 2022 | 10.1186/s13068-022-02213-y | Chipkar, S., K. Smith, E. M. Whelan, D. J. Debrauske, A. Jen, K. A. Overmyer, A. Senyk, L. Hooker-Moericke, M. Gallmeyer, J. J. Coon, A. D. Jones, T. K. Sato and R. G. Ong | Water-soluble saponins accumulate in drought-stressed switchgrass and may inhibit yeast growth during bioethanol production | Biotechnology for Biofuels and Bioproducts | 15(1) 116 |
| 2022 | 10.1021/acscatal.2c00133 | Chin, M., S. M. Suh, Z. Fang, E. L. Hegg and T. Diao | Depolymerization of Lignin via a Microscopic Reverse Biosynthesis Pathway | ACS Catalysis | 12(4) 2532-2539 |
| 2022 | 10.1073/pnas.2212930119 | Chevrette, M. G., C. S. Thomas, A. Hurley, N. Rosario-Meléndez, K. Sankaran, Y. Tu, A. Hall, S. Magesh and J. Handelsman | Microbiome composition modulates secondary metabolism in a multispecies bacterial community | Proceedings of the National Academy of Sciences | 119(42) e2212930119 |
| 2022 | 10.1007/s13399-022-03359-3 | Cheng, M.-H., S. Maitra, A. N. C. Clennon, M. Appell, B. S. Dien and V. Singh | The effects of sequential hydrothermal-mechanical refining pretreatment on cellulose structure changes and sugar recoveries | Biomass Conversion and Biorefinery | |
| 2022 | 10.1371/journal.pone.0264467 | Chen, Y., N. Kaplan Lease, J. W. Gin, T. L. Ogorzalek, P. D. Adams, N. J. Hillson and C. J. Petzold | Modular automated bottom-up proteomic sample preparation for high-throughput applications | PLoS ONE | 17(2) e0264467 |
| 2022 | 10.1038/s41467-022-31927-8 | Chen, Y., E. Hysolli, A. Chen, S. Casper, S. Liu, K. Yang, C. Liu and G. Church | Multiplex base editing to convert TAG into TAA codons in the human genome | Nature Communications | 13(1) |
| 2022 | 10.1186/s12859-022-04683-1 | Chen, X. and J. Cheng | DISTEMA: distance map-based estimation of single protein model accuracy with attentive 2D convolutional neural network | BMC Bioinformatics | 23 |
| 2022 | 10.1111/1462-2920.15956 | Chen, S.-C., J. Ji, D. Popp, U. Jaekel, H.-H. Richnow, S. M. Sievert and F. Musat | Genome and proteome analyses show the gaseous alkane degrader Desulfosarcina sp. strain BuS5 as an extreme metabolic specialist | Environmental Microbiology | 24(4) 1964-1976 |
| 2022 | 10.1093/nar/gkac976 | Chen, I.-M. A., K. Chu, K. Palaniappan, A. Ratner, J. Huang, et al. | The IMG/M data management and analysis system v.7: content updates and new features | Nucleic Acids Research | 51(D1) D723-D732 |
| 2022 | 10.1016/j.memsci.2021.120224 | Chen, H., Y. Tian, Z. Hu, C. Wang, P. Xie, L. Chen, F. Yang, Y. Liang, C. Mu, C. Wei, Y.-P. Ting, G. Qiu and Y. Song | Bis-(3′-5′)-cyclic dimeric guanosine monophosphate (c-di-GMP) mediated membrane fouling in membrane bioreactor | Journal of Membrane Science | 646 120224 |
| 2022 | 10.1007/s11033-022-07927-8 | Chávez-Luzanía, R. A., A. C. Montoya-Martínez, F. I. Parra-Cota and S. de los Santos-Villalobos | Pangenomes-identified singletons for designing specific primers to identify bacterial strains in a plant growth-promoting consortium | Molecular Biology Reports | 49(11) 10489–98 |
| 2022 | 10.1128/spectrum.02346-21 | Chaput, G., J. Ford, L. DeDiego, A. Narayanan, W. Y. Tam, et al. | Sodalis ligni Strain 159R Isolated from an Anaerobic Lignin-Degrading Consortium | Microbiology Spectrum | 10(3) e02346-21 |
| 2022 | 10.1016/j.cell.2022.08.012 | Chao, G., T. M. Wannier, C. Gutierrez, N. C. Borders, E. Appleton, A. Chadha, T. Lebar and G. M. Church | helixCAM: A platform for programmable cellular assembly in bacteria and human cells | Cell | 185(19) 3551-3567.e39 |
| 2022 | 10.1016/j.isci.2022.104840 | Chang, Y., Y. Wang, S. Mondo, S. Ahrendt, W. Andreopoulos, et al. | Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies | iScience | 25(8) 104840 |
| 2022 | 10.1128/aem.02346-21 | Chang, J., P. Peng, A. A. DiSpirito and J. D. Semrau | Variable inhibition of nitrous oxide reduction in denitrifying bacteria by different forms of methanobactin | Applied and Environmental Microbiology | 88(7) |
| 2022 | 10.3389/fmicb.2022.791110 | Chai, Y. N., S. Futrell and D. P. Schachtman | Assessment of Bacterial Inoculant Delivery Methods for Cereal Crops | Frontiers in Microbiology | 13 |
| 2022 | 10.1371/journal.pbio.3001508 | Chadwick, G. L., C. T. Skennerton, R. Laso-Pérez, A. O. Leu, D. R. Speth, et al. | Comparative genomics reveals electron transfer and syntrophic mechanisms differentiating methanotrophic and methanogenic archaea | PLOS Biology | 20(1) e3001508 |
| 2022 | 10.3389/fpls.2022.866164 | Cesarino, I., A. Eudes, B. Urbanowicz and M. Xie | Editorial: Phenylpropanoid Systems Biology and Biotechnology | Frontiers in Plant Science | 13 866164 |
| 2022 | 10.3389/fmars.2022.867310 | Cavaco, M. A., M. P. Bhatia, A. K. Hawley, M. Torres-Beltrán, W. M. Johnson, K. Longnecker, K. Konwar, E. B. Kujawinski and S. J. Hallam | Pathway-Centric Analysis of Microbial Metabolic Potential and Expression Along Nutrient and Energy Gradients in the Western Atlantic Ocean | Frontiers in Marine Science | 9 |
| 2022 | 10.1128/spectrum.01067-22 | Catlett, J. L., S. Carr, M. Cashman, M. D. Smith, M. Walter, Z. Sakkaff, C. Kelley, M. Pierobon, M. B. Cohen and N. R. Buan | Metabolic Synergy between Human Symbionts Bacteroides and Methanobrevibacter | Microbiology Spectrum | 10(3) e01067-22 |
| 2022 | 10.1016/j.geoderma.2021.115628 | Cates, A. M., A. Jilling, M. M. Tfaily and R. D. Jackson | Temperature and moisture alter organic matter composition across soil fractions | Geoderma | 409 115628 |
| 2022 | 10.1093/g3journal/jkac224 | Case, N. T., J. Berman, D. S. Blehert, R. A. Cramer, C. Cuomo, et al. | The future of fungi: threats and opportunities | G3 Genes|Genomes|Genetics | 12(11) jkac224 |
| 2022 | 10.3389/fbioe.2022.968437 | Carruthers, D. N. and T. S. Lee | Translating advances in microbial bioproduction to sustainable biotechnology | Frontiers in Bioengineering and Biotechnology | 10 |
| 2022 | 10.1111/nph.18072 | Carrell, A. A., T. J. Lawrence, K. G. M. Cabugao, D. L. Carper, D. A. Pelletier, J. H. Lee, S. S. Jawdy, J. Grimwood, J. Schmutz, P. J. Hanson, A. J. Shaw and D. J. Weston | Habitat-adapted microbial communities mediate Sphagnum peatmoss resilience to warming | New Phytologist | 234(6) 2111-2125 |
| 2022 | 10.3389/fmicb.2022.1033631 | Carrell, A. A., B. B. Hicks, E. Sidelinger, E. R. Johnston, S. S. Jawdy, M. M. Clark, D. M. Klingeman and M. A. Cregger | Nitrogen addition alters soil fungal communities, but root fungal communities are resistant to change | Frontiers in Microbiology | 13 1033631 |
| 2022 | 10.3390/microorganisms10102013 | Carper, D. L., M. R. Appidi, S. Mudbhari, H. K. Shrestha, R. L. Hettich and P. E. Abraham | The Promises, Challenges, and Opportunities of Omics for Studying the Plant Holobiont | Microorganisms | 10(10) 2013 |
| 2022 | 10.1007/s12155-021-10305-0 | Carlson, C. H. and L. B. Smart | Heterosis for Biomass-Related Traits in Interspecific Triploid Hybrids of Willow (Salix spp.) | Bioenergy Research | 15(2) 1042-1056 |
| 2022 | 10.1093/g3journal/jkab436 | Carlson, C. H., Y. Choi, A. P. Chan, C. D. Town and L. B. Smart | Nonadditive gene expression is correlated with nonadditive phenotypic expression in interspecific triploid hybrids of willow (Salix spp.) | G3: Genes, Genomes, Genetics | 12(3) |
| 2022 | 10.1016/j.xgen.2022.100132 | Carey, S. B., J. T. Lovell, J. Jenkins, J. Leebens-Mack, J. Schmutz, M. A. Wilson and A. Harkess | Representing sex chromosomes in genome assemblies | Cell Genomics | 2(5) 100132 |
| 2022 | 10.1016/j.ygeno.2021.12.007 | Cardoso, B., F. Esposito, H. Fontana, B. Fuga, Q. Moura, E. Sano, M. I. Z. Sato, C. J. Brandão, F. A. Oliveira, C. E. Levy and N. Lincopan | Genomic analysis of a Kpi (pilus system)-positive and CTX-M-15-producing Klebsiella pneumoniae belonging to the high-risk clone ST15 isolated from an impacted river in Brazil | Genomics | 114(1) 378–83 |
| 2022 | 10.1093/nar/gkac459 | Capela, J., D. Lagoa, R. Rodrigues, E. Cunha, F. Cruz, A. Barbosa, J. Bastos, D. Lima, E. C. Ferreira, M. Rocha and O. Dias | merlin, an improved framework for the reconstruction of high-quality genome-scale metabolic models | Nucleic Acids Research | 50(11) 6052–66 |
| 2022 | 10.1111/pce.14208 | Cao, Y., X. Yan, S. Ran, J. Ralph, R. A. Smith, X. Chen, C. Qu, J. Li and L. Liu | Knockout of the lignin pathway gene BnF5H decreases the S/G lignin compositional ratio and improves Sclerotinia sclerotiorum resistance in Brassica napus | Plant, Cell & Environment | 45(1) 248–61 |
| 2022 | 10.1002/bit.28159 | Cao, M., V. G. Tran, J. Qin, A. Olson, S. Mishra, John C. Schultz, C. Huang, D. Xie and H. Zhao | Metabolic engineering of oleaginous yeast Rhodotorula toruloides for overproduction of triacetic acid lactone | Biotechnology and Bioengineering | 119(9) 2529–40 |
| 2022 | 10.1371/journal.pcbi.1009828 | Canto-Encalada, G., D. Tec-Campos, J. D. Tibocha-Bonilla, K. Zengler, A. Zepeda and C. Zuñiga | Flux balance analysis of the ammonia-oxidizing bacterium Nitrosomonas europaea ATCC19718 unravels specific metabolic activities while degrading toxic compounds | PLoS Computational Biology | 18(2) |
| 2022 | 10.1016/j.jclepro.2022.133488 | Campos Antoniêto, A. C., D. B. Maués, K. M. V. Nogueira, R. G. de Paula, A. S. Steindorff, J. F. Kennedy, A. Pandey, V. K. Gupta and R. N. Silva | Engineering of holocellulase in biomass-degrading fungi for sustainable biofuel production | Journal of Cleaner Production | 371 133488 |
| 2022 | 10.3389/fmicb.2021.799014 | Campbell, T. P., D. E. M. Ulrich, J. Toyoda, J. Thompson, B. Munsky, M. B. N. Albright, V. L. Bailey, M. M. Tfaily and J. Dunbar | Microbial Communities Influence Soil Dissolved Organic Carbon Concentration by Altering Metabolite Composition | Frontiers in Microbiology | 12 |
| 2022 | 10.1093/nar/gkac1037 | Camargo, A. P., S. Nayfach, I.-M. A. Chen, K. Palaniappan, A. Ratner, et al. | IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata | Nucleic Acids Research | 51(D1) D733-D743 |
| 2022 | 10.1038/s41396-022-01345-1 | Camargo, A. P., R. S. C. de Souza, J. Jose, I. R. Gerhardt, R. A. Dante, S. Mukherjee, M. Huntemann, N. C. Kyrpides, M. F. Carazzolle and P. Arruda | Plant microbiomes harbor potential to promote nutrient turnover in impoverished substrates of a Brazilian biodiversity hotspot | The ISME Journal | 17(3) 354-370 |
| 2022 | 10.1016/j.algal.2022.102794 | Calhoun, S., B. Kamel, T. A. S. Bell, C. P. S. Kruse, R. Riley, et al. | Multi-omics profiling of the cold tolerant Monoraphidium minutum 26B-AM in response to abiotic stress | Algal Research | 66 102794 |
| 2022 | 10.1111/nph.18392 | Cai, Y., Z. Zhai, J. Blanford, H. Liu, H. Shi, J. Schwender, C. Xu and J. Shanklin | Purple acid phosphatase2 stimulates a futile cycle of lipid synthesis and degradation, and mitigates the negative growth effects of triacylglycerol accumulation in vegetative tissues | New Phytologist | 236(3) 1128–39 |
| 2022 | 10.3390/microorganisms10050955 | Cai, Y., J. Yun and Z. Jia | Phylogeny and Metabolic Potential of the Methanotrophic Lineage MO3 in Beijerinckiaceae from the Paddy Soil through Metagenome-Assembled Genome Reconstruction | Microorganisms | 10(5) 955 |
| 2022 | 10.3389/fmicb.2022.864895 | Cabugao, K. G. M., S. Gushgari-Doyle, S. S. Chacon, X. Wu, A. Bhattacharyya, N. Bouskill and R. Chakraborty | Characterizing Natural Organic Matter Transformations by Microbial Communities in Terrestrial Subsurface Ecosystems: A Critical Review of Analytical Techniques and Challenges | Frontiers in Microbiology | 13 |
| 2022 | 10.1016/j.soilbio.2022.108697 | Button, E. S., J. Pett-Ridge, D. V. Murphy, Y. Kuzyakov, D. R. Chadwick and D. L. Jones | Deep-C storage: Biological, chemical and physical strategies to enhance carbon stocks in agricultural subsoils | Soil Biology and Biochemistry | 170 108697 |
| 2022 | 10.1016/j.pbi.2022.102191 | Busta, L., K. D. Chapman and E. B. Cahoon | Better together: Protein partnerships for lineage-specific oil accumulation | Current Opinion in Plant Biology | 66 102191 |
| 2022 | 10.1146/annurev-phyto-021320-010717 | Busby, P. E., G. Newcombe, A. S. Neat and C. Averill | Facilitating Reforestation Through the Plant Microbiome: Perspectives from the Phyllosphere | Annual Review of Phytopathology | 60 337-356 |
| 2022 | 10.1111/gcbb.12917 | Burnham, M. B., S. J. Simon, D. Lee, A. D. Kent, E. H. DeLucia and W. H. Yang | Intra- and inter-annual variability of nitrification in the rhizosphere of field-grown bioenergy sorghum | GCB Bioenergy | 14(3) 393–410 |
| 2022 | 10.1002/pro.4213 | Burley, S. K., C. Bhikadiya, C. Bi, S. Bittrich, L. Chen, et al. | RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D | Protein Science | 31(1) 187-208 |
| 2022 | 10.3390/biom12101425 | Burley, S. K., H. M. Berman, J. M. Duarte, Z. Feng, J. W. Flatt, et al. | Protein Data Bank: A comprehensive review of 3d structure holdings and worldwide utilization by researchers, educators, and students | Biomolecules | 12(10) |
| 2022 | 10.1093/g3journal/jkac061 | Buijs, V. A., J. Z. Groenewald, S. Haridas, K. M. LaButti, A. Lipzen, F. M. Martin, K. Barry, I. V. Grigoriev, P. W. Crous and M. F. Seidl | Enemy or ally: a genomic approach to elucidate the lifestyle of Phyllosticta citrichinaensis | G3 Genes|Genomes|Genetics | 12(5) jkac061 |
| 2022 | 10.1038/s41559-022-01892-y | Buessecker, S., A. F. Sarno, M. C. Reynolds, R. Chavan, J. Park, et al. | Coupled abiotic-biotic cycling of nitrous oxide in tropical peatlands | Nature Ecology & Evolution | 6(12) 1881–90 |
| 2022 | 10.3390/genes13010148 | Bueno de Mesquita, C. P., J. Zhou, S. Theroux and S. G. Tringe | Methylphosphonate Degradation and Salt-Tolerance Genes of Two Novel Halophilic Marivita Metagenome-Assembled Genomes from Unrestored Solar Salterns | Genes | 13(1) 148 |
| 2022 | 10.3390/agronomy12081847 | Buanafina, M. M. D. O. and P. Morris | The Impact of Cell Wall Feruloylation on Plant Growth, Responses to Environmental Stress, Plant Pathogens and Cell Wall Degradability | Agronomy | 12(8) |
| 2022 | 10.3389/fmicb.2022.825104 | Bryson, S. J., K. A. Hunt, D. A. Stahl and M.-K. H. Winkler | Metagenomic Insights Into Competition Between Denitrification and Dissimilatory Nitrate Reduction to Ammonia Within One-Stage and Two-Stage Partial-Nitritation Anammox Bioreactor Configurations | Frontiers in Microbiology | 13 |
| 2022 | 10.1002/pro.4259 | Bruni, R., A. Laguerre, A. M. Kaminska, S. McSweeney, W. A. Hendrickson and Q. Liu | High-throughput cell-free screening of eukaryotic membrane protein expression in lipidic mimetics | Protein Science | 31(3) 639–51 |
| 2022 | 10.1021/acs.analchem.2c01654 | Brown, S. L., M. A. Zenaidee, J. A. Loo, R. R. O. Loo and W. A. Donald | On the mechanism of theta capillary nanoelectrospray ionization for the formation of highly charged protein ions directly from native solutions | Analytical Chemistry | 94(38) 13010-13018 |
| 2022 | 10.1093/jimb/kuac024 | Brown, J. L., M. A. Perisin, C. L. Swift, M. Benyamin, S. Liu, V. Singan, Y. Zhang, E. Savage, C. Pennacchio, I. V. Grigoriev and M. A. O'Malley | Co‑cultivation of anaerobic fungi with Clostridium acetobutylicum bolsters butyrate and butanol production from cellulose and lignocellulose | Journal of Industrial Microbiology and Biotechnology | 49(6) kuac024 |
| 2022 | 10.1128/mra.00761-22 | Brown, I., T. Woyke, N. Ivanova, N. Shapiro, J. Alcorta, A. Chistoserdov, D. Pan, S. Sarkisova and S. G. Tringe | High-Quality Draft Genome Sequence of Fischerella thermalis JSC-11, a Siderophilic Cyanobacterium with Bioremediation Potential | Microbiology Resource Announcements | 11(11) e00761-22 |
| 2022 | 10.1126/science.abo4326 | Brophy, J. A. N., K. J. Magallon, L. Duan, V. Zhong, P. Ramachandran, K. Kniazev and J. R. Dinneny | Synthetic genetic circuits as a means of reprogramming plant roots | Science | 377(6607) 747-751 |
| 2022 | 10.1111/tpj.15965 | Broddrick, J. T., M. A. Ware, D. Jallet, B. O. Palsson and G. Peers | Integration of physiologically relevant photosynthetic energy flows into whole genome models of light-driven metabolism | Plant Journal | |
| 2022 | 10.1094/pbiomes-06-21-0041-r | Brisson, V. L., J. Richardy, S. M. Kosina, T. R. Northen, J. P. Vogel and A. C. M. Gaudin | Phosphate Availability Modulates Root Exudate Composition and Rhizosphere Microbial Community in a Teosinte and a Modern Maize Cultivar | Phytobiomes Journal | 6(1) 83-94 |
| 2022 | 10.1016/j.crmicr.2022.100117 | Bredeweg, E. L., K. McCluskey and S. E. Baker | Phenotype to genotype in Neurospora crassa: Association of the scumbo phenotype with mutations in the gene encoding ceramide C9-methyltransferase | Current Research in Microbial Sciences | 3 100117 |
| 2022 | 10.1038/s41467-022-29114-w | Bredeson, J. V., J. B. Lyons, I. O. Oniyinde, N. R. Okereke, O. Kolade, et al. | Chromosome evolution and the genetic basis of agronomically important traits in greater yam | Nature Communications | 13(1) 2001 |
| 2022 | 10.1146/annurev-arplant-070721-083240 | Braun, D. M. | Phloem loading and unloading of sucrose: What a long, strange trip from source to sink | Annual Review of Plant Biology | 73 553-584 |
| 2022 | 10.1111/nph.18308 | Branco, S., A. Schauster, H. L. Liao and J. Ruytinx | Mechanisms of stress tolerance and their effects on the ecology and evolution of mycorrhizal fungi | New Phytologist | 235(6) 2158-2175 |
| 2022 | 10.1073/pnas.2202261119 | Braga, L. P. P., C. Orland, E. J. S. Emilson, A. A. Fitch, H. Osterholz, T. Dittmar, N. Basiliko, N. C. S. Mykytczuk and A. J. Tanentzap | Viruses direct carbon cycling in lake sediments under global change | Proceedings of the National Academy of Sciences | 119(41) e2202261119 |
| 2022 | 10.1016/j.jbc.2022.102396 | Bowler, J. T., M. R. Sawaya, D. R. Boyer, D. Cascio, M. Bali and D. S. Eisenberg | Micro-electron diffraction structure of the aggregation-driving N terminus of Drosophila neuronal protein Orb2A reveals amyloid-like β-sheets | Journal of Biological Chemistry | 298(10) |
| 2022 | 10.3389/fpls.2021.769194 | Bouché, F., D. P. Woods, J. Linden, W. Li, K. S. Mayer, R. M. Amasino and C. Périlleux | EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon | Frontiers in Plant Science | 12 |
| 2022 | 10.3389/fpls.2021.769194 | Bouché, F., D. P. Woods, J. Linden, W. Li, K. S. Mayer, R. M. Amasino and C. Périlleux | EARLY FLOWERING 3 and Photoperiod Sensing in Brachypodium distachyon | Frontiers in Plant Science | 12 |
| 2022 | 10.1242/dev.200565 | Bossi, F., B. Jin, E. Lazarus, H. Cartwright, Y. Dorone and S. Y. Rhee | CHIQUITA1 maintains the temporal transition between proliferation and differentiation in Arabidopsis thaliana | Development (Cambridge, England) | 149(11) |
| 2022 | 10.1021/acssynbio.2c00119 | Borchert, A. J., A. Bleem and G. T. Beckham | Experimental and Analytical Approaches for Improving the Resolution of Randomly Barcoded Transposon Insertion Sequencing (RB-TnSeq) Studies | ACS Synthetic Biology | 11(6) 2015–21 |
| 2022 | 10.1128/mra.00909-22 | Boone, G., K. Griffey and J. T. Cooper | Draft Genome Sequence of Cold-Tolerant Pseudomonas sp. Strain NKUCC02_KPG, Isolated from Old Alexandria Reservoir in Northern Kentucky, USA | Microbiology Resource Announcements | 11(11) e00909-22 |
| 2022 | 10.1111/tpj.15853 | Boatwright, J. L., S. Sapkota, H. Jin, J. C. Schnable, Z. Brenton, R. Boyles and S. Kresovich | Sorghum Association Panel whole-genome sequencing establishes cornerstone resource for dissecting genomic diversity | Plant Journal | 111(3) 888-904 |
| 2022 | 10.1111/nph.18213 | Blumstein, M., A. Sala, D. J. Weston, N. M. Holbrook and R. Hopkins | Plant carbohydrate storage: intra- and inter-specific trade-offs reveal a major life history trait | New Phytologist | 235(6) 2211–22 |
| 2022 | 10.1002/fee.2430 | Bloom, E. H., K. K. Graham, N. L. Haan, A. R. Heck, L. J. Gut, D. A. Landis, M. O. Milbrath, G. M. Quinlan, J. K. Wilson, Y. Zhang, Z. Szendrei and R. Isaacs | Responding to the US national pollinator plan: a case study in Michigan | Frontiers in Ecology and the Environment | 20(2) 84–92 |
| 2022 | 10.1016/j.checat.2022.04.019 | Bleem, A., E. Kuatsjah, G. N. Presley, D. J. Hinchen, M. Zahn, D. C. Garcia, W. E. Michener, G. König, K. Tornesakis, M. N. Allemann, R. J. Giannone, J. E. McGeehan, G. T. Beckham and J. K. Michener | Discovery, characterization, and metabolic engineering of Rieske non-heme iron monooxygenases for guaiacol O-demethylation | Chem Catalysis | |
| 2022 | 10.1007/978-3-030-97185-4_3 | Blaby-Haas, C. E. | The Mosaic Landscape of Algal Metal Transport and Usage | Microbial Metabolism of Metals and Metalloids | 55–75 |
| 2022 | 10.1038/s41559-022-01721-2 | Blaby-Haas, C. E. | Polar algae flaunt their zinc assets | Nature Ecology & Evolution | 6(7) 851–2 |
| 2022 | 10.1038/s41396-022-01350-4 | Bizic, M., T. Brad, D. Ionescu, L. Barbu-Tudoran, L. Zoccarato, et al. | Cave Thiovulum (Candidatus Thiovulum stygium) differs metabolically and genomically from marine species | The ISME Journal | 17(3) 340-353 |
| 2022 | 10.3389/fpls.2021.782960 | Biswal, A. K., T.-Y. Wu, D. Urano, R. Pelissier, J.-B. Morel, A. M. Jones and A. K. Biswal | Novel Mutant Alleles Reveal a Role of the Extra-Large G Protein in Rice Grain Filling, Panicle Architecture, Plant Growth, and Disease Resistance | Frontiers in Plant Science | 12 |
| 2022 | 10.1186/s13068-022-02119-9 | Biswal, A. K., N. N. Hengge, I. M. Black, M. A. Atmodjo, S. S. Mohanty, D. Ryno, M. E. Himmel, P. Azadi, Y. J. Bomble and D. Mohnen | Composition and yield of non-cellulosic and cellulosic sugars in soluble and particulate fractions during consolidated bioprocessing of poplar biomass by Clostridium thermocellum | Biotechnology for Biofuels and Bioproducts | 15(1) 23 |
| 2022 | 10.1016/j.biortech.2022.126780 | Bing, R. G., C. T. Straub, D. B. Sulis, J. P. Wang, M. W. W. Adams and R. M. Kelly | Plant biomass fermentation by the extreme thermophile Caldicellulosiruptor bescii for co-production of green hydrogen and acetone: Technoeconomic analysis | Bioresource Technology | 348 |
| 2022 | 10.1021/acssynbio.2c00051 | Bibik, J. D., S. M. Weraduwage, A. Banerjee, K. s. Robertson, R. Espinoza-Corral, T. D. Sharkey, P. K. Lundquist and B. R. Hamberger | Pathway Engineering, Re-targeting, and Synthetic Scaffolding Improve the Production of Squalene in Plants | ACS Synthetic Biology | 11(6) 2121–33 |
| 2022 | 10.1002/saj2.20382 | Bhattacharyya, A., R. K. Kukkadapu, M. Bowden, J. Pett-Ridge and P. S. Nico | Fast redox switches lead to rapid transformation of goethite in humid tropical soils: A Mössbauer spectroscopy study | Soil Science Society of America Journal | 86(2) 264–74 |
| 2022 | 10.1504/IJBET.2022.10049492 | Bhattacharjee, R., A. Verma, N. Sharma and S. Sharma | Non-rigid registration (computed tomography - ultrasound) of liver using B-splines and free form deformation | International Journal of Biomedical Engineering and Technology | 39(4) 327-346 |
| 2022 | 10.1128/msystems.00913-22 | Bhattacharjee, A., O. Qafoku, J. A. Richardson, L. N. Anderson, K. Schwarz, et al. | A Mineral-Doped Micromodel Platform Demonstrates Fungal Bridging of Carbon Hot Spots and Hyphal Transport of Mineral-Derived Nutrients | mSystems | 7(6) e00913-22 |
| 2022 | 10.3389/fmicb.2022.844287 | Bhalla, A., J. Arce, B. Ubanwa, G. Singh, R. K. Sani and V. Balan | Thermophilic Geobacillus WSUCF1 Secretome for Saccharification of Ammonia Fiber Expansion and Extractive Ammonia Pretreated Corn Stover | Frontiers in Microbiology | 13 |
| 2022 | 10.1093/plphys/kiac128 | Bewg, W. P., S. A. Harding, N. L. Engle, B. N. Vaidya, R. Zhou, et al. | Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA | Plant Physiology | 189(2) 516-526 |
| 2022 | 10.7554/elife.70056 | Berry, J. C., M. Qi, B. V. Sonawane, A. Sheflin, A. Cousins, J. Prenni, D. P. Schachtman, P. Liu and R. S. Bart | Increased signal-to-noise ratios within experimental field trials by regressing spatially distributed soil properties as principal components | eLife | 11 |
| 2022 | 10.1099/ijsem.0.005214 | Bergsten, P., P. Vannier, A. Mougeolle, L. Rigaud and V. T. Marteinsson | Rhodothermus bifroesti sp. nov., a thermophilic bacterium isolated from the basaltic subsurface of the volcanic island Surtsey | International Journal of Systematic and Evolutionary Microbiology | 72(1) |
| 2022 | 10.1111/gcbb.13004 | Bendorf, J., E. Heaton, T. Hartman, G. Aslan-Sungur and A. VanLoocke | Agroecosystem model simulations reveal spatial variability in relative productivity in biomass sorghum and maize in Iowa, USA | GCB Bioenergy | 14(12) 1336–60 |
| 2022 | 10.3390/microorganisms10050869 | Bender, K. S., M. T. Madigan, K. L. Williamson, M. H. Mayer, M. N. Parenteau, L. L. Jahnke, P. V. Welander, S. A. Sanguedolce, A. C. Brown and W. M. Sattley | Genomic Features of the Bundle-Forming Heliobacterium Heliophilum fasciatum | Microorganisms | 10(5) 869 |
| 2022 | 10.1038/s41396-022-01207-w | Bell, E., T. Lamminmäki, J. Alneberg, C. Qian, W. Xiong, R. L. Hettich, M. Frutschi and R. Bernier-Latmani | Active anaerobic methane oxidation and sulfur disproportionation in the deep terrestrial subsurface | The ISME Journal | 16(6) 1583-1593 |
| 2022 | 10.1128/mra.00212-22 | Beach, N. K., K. S. Myers, T. J. Donohue and D. R. Noguera | Metagenomes from 25 Low-Abundance Microbes in a Partial Nitritation Anammox Microbiome | Microbiology Resource Announcements | 11(6) e00212-22 |
| 2022 | 10.1128/mra.00100-22 | Bayer, B., M. Kellom, F. Valois, J. B. Waterbury and A. E. Santoro | Complete Genome Sequences of Two Phylogenetically Distinct Nitrospina Strains Isolated from the Atlantic and Pacific Oceans | Microbiology Resource Announcements | 11(5) e00100-22 |
| 2022 | 10.1128/mbio.01823-22 | Batstone, R. T., H. Lindgren, C. M. Allsup, L. A. Goralka, A. B. Riley, M. A. Grillo, A. Marshall-Colon and K. D. Heath | Genome-Wide Association Studies across Environmental and Genetic Contexts Reveal Complex Genetic Architecture of Symbiotic Extended Phenotypes | mBio | 13(6) e01823-22 |
| 2022 | 10.1098/rspb.2022.0477 | Batstone, R. T., L. T. Burghardt and K. D. Heath | Phenotypic and genomic signatures of interspecies cooperation and conflict in naturally occurring isolates of a model plant symbiont | Proceedings of the Royal Society B: Biological Sciences | 289(1978) 20220477 |
| 2022 | 10.1038/s41396-021-00916-y | Bates, C. T., A. Escalas, J. Kuang, L. Hale, Y. Wang, et al. | Conversion of marginal land into switchgrass conditionally accrues soil carbon but reduces methane consumption | ISME Journal | 16(1) 45955 |
| 2022 | 10.1007/s12155-021-10284-2 | Basyal, B., C. Foster, K. L. Gross and S. M. Emery | Nitrogen Fertilizer, Arbuscular Mycorrhizal Fungi, and Soil Nematodes Affect Lignin Quality and Quantity in Switchgrass (Panicum virgatum L.) | BioEnergy Research | 15(2) 1033–41 |
| 2022 | 10.1093/lambio/ovac049 | Basak, C. and R. Chakraborty | A novel strain of Shigella isolated from the gut of Lepidocephalichthys guntea has in its genome a complete gene package for Type ll secretion system, and elaborate repertoire of genes responsible for multiple antibiotic-resistance and metal resistance via specific efflux channels | Letters in Applied Microbiology | 76(1) ovac049 |
| 2022 | 10.1111/1462-2920.16148 | Bartoli, C., S. Boivin, M. Marchetti, C. Gris, V. Gasciolli, M. Gaston, M.-C. Auriac, F. Debellé, L. Cottret, A. Carlier, C. Masson-Boivin, M. Lepetit and B. Lefebvre | Rhizobium leguminosarum symbiovar viciae strains are natural wheat endophytes that can stimulate root development | Environmental Microbiology | 24(11) 5509–23 |
| 2022 | 10.1093/plcell/koac171 | Barros, J., H. K. Shrestha, J. C. Serrani-Yarce, N. L. Engle, P. E. Abraham, T. J. Tschaplinski, R. L. Hettich and R. A. Dixon | Proteomic and metabolic disturbances in lignin-modified Brachypodium distachyon | The Plant Cell | |
| 2022 | 10.1042/bcj20210793 | Barnes, E. M. and S. G. Tringe | Exploring the roles of microbes in facilitating plant adaptation to climate change | Biochemical Journal | 479(3) 327-335 |
| 2022 | 10.1111/mec.16436 | Barge, E. G., D. R. Leopold, A. Rojas, R. Vilgalys and P. E. Busby | Phylogenetic conservatism of mycoparasitism and its contribution to pathogen antagonism | Molecular Ecology | 31(10) 3018–30 |
| 2022 | 10.1016/j.soilbio.2022.108761 | Barbour, K. M., C. Weihe, S. D. Allison and J. B. H. Martiny | Bacterial community response to environmental change varies with depth in the surface soil | Soil Biology and Biochemistry | 172 |
| 2022 | 10.1016/j.rser.2022.112857 | Baral, N. R., S. K. Mishra, A. George, S. Gautam, U. Mishra and C. D. Scown | Multifunctional landscapes for dedicated bioenergy crops lead to low-carbon market-competitive biofuels | Renewable and Sustainable Energy Reviews | 169 112857 |
| 2022 | 10.1016/j.jclepro.2022.133508 | Banerjee, S., R. Singh, K. Eilts, E. J. Sacks and V. Singh | Valorization of Miscanthus x giganteus for sustainable recovery of anthocyanins and enhanced production of sugars | Journal of Cleaner Production | 369 133508 |
| 2022 | 10.1016/j.crbiot.2021.12.002 | Banerjee, D., M. A. Jindra, A. J. Linot, B. F. Pfleger and C. D. Maranas | EnZymClass: Substrate specificity prediction tool of plant acyl-ACP thioesterases based on ensemble learning | Current Research in Biotechnology | 4 1–9 |
| 2022 | 10.1038/s41467-022-28540-0 | Baisya, D., A. Ramesh, C. Schwartz, S. Lonardi and I. Wheeldon | Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica | Nature Communications | 13(1) 922 |
| 2022 | 10.1038/s41467-022-28540-0 | Baisya, D., A. Ramesh, C. Schwartz, S. Lonardi and I. Wheeldon | Genome-wide functional screens enable the prediction of high activity CRISPR-Cas9 and -Cas12a guides in Yarrowia lipolytica | Nature Communications | 13(1) |
| 2022 | 10.1073/pnas.2203708119 | Bai, Y., T. Cao, O. Dautermann, P. Buschbeck, M. B. Cantrell, et al. | Green diatom mutants reveal an intricate biosynthetic pathway of fucoxanthin | Proceedings of the National Academy of Sciences of the United States of America | 119(38) |
| 2022 | 10.1099/ijsem.0.005188 | Bae, S. S., Y.-H. Jung, Y. M. Kwon, D. Chung, G. Choi, K. Cho, W.-J. Yu and K. Baek | Fulvivirga lutea sp. nov., a marine bacterium isolated from seawater | International Journal of Systematic and Evolutionary Microbiology | 72(1) |
| 2022 | 10.23919/ACC53348.2022.9867540 | Badr, K., Q. Peter He and J. Wang | Understanding the evolution of interspecies metabolic interactions using dynamic genome-scale metabolic modeling | Proceedings of the American Control Conference | 2022-June 450-455 |
| 2022 | 10.1016/j.mex.2022.101652 | Badr, K., Q. P. He and J. Wang | Matlab implementation of a novel semi-structured kinetic model for methanotroph-photoautotroph cocultures | MethodsX | 9 |
| 2022 | 10.1016/j.cej.2021.133461 | Badr, K., Q. P. He and J. Wang | A novel semi-structured kinetic model of methanotroph-photoautotroph cocultures for biogas conversion | Chemical Engineering Journal | 431 |
| 2022 | 10.1146/annurev-arplant-071921-100530 | Bachy, C., F. Wittmers, J. Muschiol, M. Hamilton, B. Henrissat and A. Z. Worden | The Land-Sea Connection: Insights Into the Plant Lineage from a Green Algal Perspective | Annual Review of Plant Biology | 73 585-616 |
| 2022 | 10.1145/3535508.3545536 | Babjac, A., T. Royalty, A. D. Steen and S. J. Emrich | A comparison of dimensionality reduction methods for large biological data | Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2022 | |
| 2022 | 10.1128/mra.00983-22 | Babalola, O. O., V. F. Agunbiade and A. E. Fadiji | Draft Genome Sequence of Aeromonas caviae Strain A1-2, a Potential Plant Growth-Promoting Rhizospheric Bacterium | Microbiology Resource Announcements | 11(12) e00983-22 |
| 2022 | 10.1128/mra.00730-22 | Babalola, O. O., N. A. Agbodjato, A. S. Ayangbenro, A. Adjanohoun and L. Baba-Moussa | Draft Genome Sequences of Four Strains of Plant Growth-Promoting Bacteria Associated with Maize Rhizosphere | Microbiology Resource Announcements | 11(11) e00730-22 |
| 2022 | 10.1021/acssynbio.2c00061 | Baas-Thomas, M. S., S. B. Oehm, N. Ostrov and G. M. Church | Characterization of ColE1 Production for Robust tolC Plate Dual-Selection in E. coli | ACS Synthetic Biology | 11(6) 2009-2014 |
| 2022 | 10.1016/j.syapm.2022.126326 | Aydin, F., I. B. Saticioglu, H. Ay, T. Kayman, E. Karakaya and S. Abay | Description of the two novel species of the genus Helicobacter: Helicobacter anatolicus sp. nov., and Helicobacter kayseriensis sp. nov., isolated from feces of urban wild birds | Systematic and Applied Microbiology | 45(4) 126326 |
| 2022 | 10.1017/qrd.2022.10 | Autin, L., B. A. Barbaro, A. I. Jewett, A. Ekman, S. Verma, A. J. Olson and D. S. Goodsell | Integrative structural modelling and visualisation of a cellular organelle | QRB Discovery | 3 |
| 2022 | 10.3390/ijms23063135 | Aulitto, M., L. Martinez-Alvarez, G. Fiorentino, D. Limauro, X. Peng and P. Contursi | A Comparative Analysis of Weizmannia coagulans Genomes Unravels the Genetic Potential for Biotechnological Applications | International Journal of Molecular Sciences | 23(6) 3135 |
| 2022 | 10.1039/D1LC00705J | Aufrecht, J., M. Khalid, C. L. Walton, K. Tate, J. F. Cahill and S. T. Retterer | Hotspots of root-exuded amino acids are created within a rhizosphere-on-a-chip | Lab on a Chip | 22(5) 954–63 |
| 2022 | 10.1038/s41598-022-11907-0 | Ata, J. P., J. R. Ibarra Caballero, Z. Abdo, S. J. Mondo and J. E. Stewart | Transitions of foliar mycobiota community and transcriptome in response to pathogenic conifer needle interactions | Scientific Reports | 12(1) 7832 |
| 2022 | 10.1016/j.mimet.2022.106546 | Ata, J. P., K. S. Burns, S. B. Marchetti, J. J. Worrall, S. J. Mondo and J. E. Stewart | Development of PCR-based markers for the identification and detection of Lophodermella needle cast pathogens on Pinus contorta var. latifolia and P. flexilis | Journal of Microbiological Methods | 200 106546 |
| 2022 | 10.1073/pnas.2205856119 | Arthofer, P., V. Delafont, A. Willemsen, F. Panhölzl and M. Horn | Defensive symbiosis against giant viruses in amoebae | Proceedings of the National Academy of Sciences | 119(36) e2205856119 |
| 2022 | Arnolds, K., G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Integrative Modeling and Genome-scale Engineering for Biosystems Security | Front Range Microbiome Symposium | ||
| 2022 | Arnolds, K., G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm based methods to evaluate biocontainment strategies and impact of industrial microbes upon native ecosystems | DOE Genomic Sciences Program Annual Meeting | ||
| 2022 | 10.1111/pbi.13754 | Aregawi, K., J. Shen, G. Pierroz, M. K. Sharma, J. Dahlberg, J. Owiti and P. G. Lemaux | Morphogene-assisted transformation of Sorghum bicolor allows more efficient genome editing | Plant Biotechnology Journal | 20(4) 748-760 |
| 2022 | 10.1094/mpmi-01-22-0011-ta | Appidi, M., A. Webb, D. L. Carper, S. S. Jawdy, R. J. Giannone, R. L. Hettich, J. L. Morrell-Falvey and P. E. Abraham | Development of an experimental approach to achieve spatially resolved plant root-associated metaproteomics using an agar-plate system | Molecular Plant-Microbe Interactions | |
| 2022 | 10.3390/plants11060825 | Appiah-Madson, H. J., E. B. Knox, C. M. Caruso and A. L. Case | Do Genetic Drift and Gene Flow Affect the Geographic Distribution of Female Plants in Gynodioecious Lobelia siphilitica? | Plants | 11(6) 825 |
| 2022 | 10.3390/app12199620 | Apostolakos, I., M. Tsigkrimani, S. Paramithiotis and M. Mataragas | Whole-Genome Sequencing and Comparative Genomic Analysis of Enterococcus spp. Isolated from Dairy Products: Genomic Diversity, Functional Characteristics, and Pathogenic Potential | Applied Sciences | 12(19) 9620 |
| 2022 | 10.3390/dairy3040055 | Apostolakos, I., S. Paramithiotis and M. Mataragas | Functional and Safety Characterization of Weissella paramesenteroides Strains Isolated from Dairy Products through Whole-Genome Sequencing and Comparative Genomics | Dairy | 3(4) 799–813 |
| 2022 | 10.1016/j.jbc.2022.102111 | Aoki, M., J. Vinokur, K. Motoyama, R. Ishikawa, M. Collazo, D. Cascio, M. R. Sawaya, T. Ito, J. U. Bowie and H. Hemmi | Crystal structure of mevalonate 3,5-bisphosphate decarboxylase reveals insight into the evolution of decarboxylases in the mevalonate metabolic pathways | Journal of Biological Chemistry | 298(7) |
| 2022 | 10.1128/mra.00645-22 | Aoki, M., N. Nakahara, M. Kusube and K. Syutsubo | Metagenome-Assembled Genome Sequence of Marine Rhizobiaceae sp. Strain MnEN-MB40S, Obtained from Manganese-Oxidizing Enrichment Culture | Microbiology Resource Announcements | 11(9) e00645-22 |
| 2022 | 10.1128/aem.00188-22 | Anderson, C. E., J. Zhang, L. M. Markillie, H. D. Mitchell, W. B. Chrisler, M. J. Gaffrey, G. Orr and J. S. Schilling | Capturing an Early Gene Induction Event during Wood Decay by the Brown Rot Fungus Rhodonia placenta | Applied and Environmental Microbiology | 88(8) |
| 2022 | 10.1186/s40168-021-01194-8 | Amundson, K. K., M. A. Borton, R. A. Daly, D. W. Hoyt, A. Wong, E. Eder, J. Moore, K. Wunch, K. C. Wrighton and M. J. Wilkins | Microbial colonization and persistence in deep fractured shales is guided by metabolic exchanges and viral predation | Microbiome | 10(1) 5 |
| 2022 | 10.1007/s00203-022-03298-7 | Amulyasai, B., R. Anusha, C. Sasikala and C. V. Ramana | Phylogenomic analysis of a metagenome-assembled genome indicates a new taxon of an anoxygenic phototroph bacterium in the family Chromatiaceae and the proposal of “Candidatus Thioaporhodococcus” gen. nov | Archives of Microbiology | 204(12) 688 |
| 2022 | 10.1073/pnas.2116841119 | Amses, K. R., D. R. Simmons, J. E. Longcore, S. J. Mondo, K. Seto, et al. | Diploid-dominant life cycles characterize the early evolution of Fungi | Proceedings of the National Academy of Sciences | 119(36) e2116841119 |
| 2022 | 10.1038/s41477-022-01270-3 | Amos, R. A., M. A. Atmodjo, C. Huang, Z. Gao, A. Venkat, R. Taujale, N. Kannan, K. W. Moremen and D. Mohnen | Polymerization of the backbone of the pectic polysaccharide rhamnogalacturonan I | Nature Plants | 8(11) 1289–303 |
| 2022 | 10.1099/ijsem.0.005460 | Altun, S., M. Duman, H. Ay and I. B. Saticioglu | Shewanella oncorhynchi sp. nov., a novel member of the genus Shewanella, isolated from Rainbow Trout (Oncorhynchus mykiss) | International Journal of Systematic and Evolutionary Microbiology | 72(7) |
| 2022 | 10.1055/a-1648-7074 | Alterman, J. L. and G. A. Kraus | A Convenient Procedure for Sonogashira Reactions Using Propyne | Synthesis | 54(3) 655–57 |
| 2022 | 10.1002/ecs2.4063 | Alster, C. J., S. D. Allison and K. K. Treseder | Trait relationships of fungal decomposers in response to drought using a dual field and laboratory approach | Ecosphere | 13(6) |
| 2022 | 10.1093/ee/nvab121 | Alred, B., N. Haan, D. A. Landis and M. Szűcs | Does the Presence of the Biological Control Agent, Hypena opulenta (Lepidoptera: Erebidae) on Swallow-Worts Deter Monarch Oviposition? | Environmental Entomology | 51(1) 77–82 |
| 2022 | 10.1007/978-1-0716-1585-0_13 | Allen, B. H., N. Gupta, J. N. Edirisinghe, J. P. Faria and C. S. Henry | Application of the Metabolic Modeling Pipeline in KBase to Categorize Reactions, Predict Essential Genes, and Predict Pathways in an Isolate Genome | Microbial Systems Biology: Methods and Protocols | 291–320 |
| 2022 | 10.1177/11769343211071114 | Alhindi, T. and R. Albdaiwi | Draft Genome Sequence of Oceanobacillus jordanicus Strain GSFE11, a Halotolerant Plant Growth-Promoting Bacterial Endophyte Isolated From the Jordan Valley | Evolutionary Bioinformatics | 18 1–6 |
| 2022 | 10.1038/s41396-021-01088-5 | Albright, M. B. N., S. Louca, D. E. Winkler, K. L. Feeser, S.-J. Haig, K. L. Whiteson, J. B. Emerson and J. Dunbar | Solutions in microbiome engineering: prioritizing barriers to organism establishment | The ISME Journal | 16(2) 331–8 |
| 2022 | 10.1038/s43705-022-00109-4 | Albright, M. B. N., L. V. Gallegos-Graves, K. L. Feeser, K. Montoya, J. B. Emerson, M. Shakya and J. Dunbar | Experimental evidence for the impact of soil viruses on carbon cycling during surface plant litter decomposition | ISME Communications | 2(1) 24 |
| 2022 | 10.1021/jasms.1c00343 | Aisporna, A., H. P. Benton, A. Chen, R. J. E. Derks, J. M. Galano, M. Giera and G. Siuzdak | Neutral Loss Mass Spectral Data Enhances Molecular Similarity Analysis in METLIN | Journal of the American Society for Mass Spectrometry | 33(3) 530–4 |
| 2022 | 10.1128/mra.00951-21 | Ahmed, H., K. M. DeAngelis and M. A. Morrow | Draft Genome Sequence of Leifsonia poae Strain BS71, Isolated from a Drought Microcosm | Microbiology Resource Announcements | 11(1) e00951-21 |
| 2022 | 10.1038/s41564-022-01258-x | Adler, B. A., T. Hessler, B. F. Cress, A. Lahiri, V. K. Mutalik, R. Barrangou, J. Banfield and J. A. Doudna | Broad-spectrum CRISPR-Cas13a enables efficient phage genome editing | Nature Microbiology | 7(12) 1967–79 |
| 2022 | 10.17221/171/2021-PPS | Adeleke, S. B., S. A. Ayangbenro and O. O. Babalola | Effect of endophytic bacterium, Stenotrophomonas maltophilia JVB5 on sunflowers | Plant Protection Science | 58(3) 185–98 |
| 2022 | 10.1021/acssuschemeng.2c01211 | Achinivu, E. C., M. Cabrera, A. Umar, M. Yang, N. R. Baral, C. D. Scown, B. A. Simmons and J. M. Gladden | In Situ Synthesis of Protic Ionic Liquids for Biomass Pretreatment | ACS Sustainable Chemistry & Engineering | 10(37) 12090–8 |
| 2022 | 10.1073/pnas.2119952119 | Abskharon, R., M. R. Sawaya, Q. Cao, B. A. Nguyen, D. R. Boyer, D. Cascio and D. S. Eisenberg | Cryo-EM structure of RNA-induced tau fibrils reveals a small C-terminal core that may nucleate fibril formation | Proceedings of the National Academy of Sciences of the United States of America | 119(15) |
| 2022 | 10.1016/j.soilbio.2021.108466 | Abramoff, R. Z., B. Guenet, H. Zhang, K. Georgiou, X. Xu, R. A. Viscarra Rossel, W. Yuan and P. Ciais | Improved global-scale predictions of soil carbon stocks with Millennial Version 2 | Soil Biology and Biochemistry | 164 108466 |
| 2022 | 10.1093/g3journal/jkac269 | Abeyratne, C. R., D. Macaya-Sanz, R. Zhou, K. W. Barry, C. Daum, K. Haiby, A. Lipzen, B. Stanton, Y. Yoshinaga, M. Zane, G. A. Tuskan and S. P. DiFazio | High-resolution mapping reveals hotspots and sex-biased recombination in Populus trichocarpa | G3 Genes|Genomes|Genetics | 13(1) jkac269 |
| 2023 | 10.1016/j.celrep.2023.112676 | Zhu, J., S. Lolle, A. Tang, B. Guel, B. Kvitko, B. Cole and G. Coaker | Single-cell profiling of Arabidopsis leaves to Pseudomonas syringae infection | Cell Reports | 42(7) 112676 |
| 2023 | 10.1002/anie.202212440 | Zhou, Y., E. N. Mirts, S. Yook, M. Waugh, R. Martini, Y.-S. Jin and Y. Lu | Reshaping the 2-Pyrone Synthase Active Site for Chemoselective Biosynthesis of Polyketides | Angewandte Chemie International Edition | 62(5) e202212440 |
| 2023 | 10.1021/acs.analchem.2c04845 | Zhou, S., Z. Fatma, P. Xue, S. Mishra, M. Cao, H. Zhao and J. V. Sweedler | Mass Spectrometry-Based High-Throughput Quantification of Bioproducts in Liquid Culture | Analytical Chemistry | 95(8) 4067–76 |
| 2023 | 10.1111/tpj.16454 | Zhou, R., J. W. Jenkins, Y. Zeng, S. Shu, H. Jang, et al. | Haplotype-resolved genome assembly of Populus tremula x P. alba reveals aspen-specific megabase satellite DNA | The Plant Journal | 116(4) 1003–17 |
| 2023 | 10.1111/tpj.16454 | Zhou, R., J. W. Jenkins, Y. Zeng, S. Shu, H. Jang, et al. | Haplotype-resolved genome assembly of Populus tremula × P. alba reveals aspen-specific megabase satellite DNA | The Plant Journal | 116(4) 1003-1017 |
| 2023 | 10.1016/j.ijbiomac.2023.124743 | Zhou, F., H. Wu, Y. Chen, M. Wang, G. A. Tuskan and T. Yin | Function and molecular mechanism of a poplar placenta limited MIXTA gene in regulating differentiation of plant epidermal cells | International Journal of Biological Macromolecules | 242 124743 |
| 2023 | 10.1021/acssynbio.3c00075 | Zhou, A., L. D. Kirkpatrick, I. J. Ornelas, L. J. Washington, N. F. C. Hummel, C. W. Gee, S. N. Tang, C. R. Barnum, H. V. Scheller and P. M. Shih | A Suite of Constitutive Promoters for Tuning Gene Expression in Plants | ACS Synthetic Biology | 12(5) 1533–45 |
| 2023 | 10.1186/s40168-023-01619-6 | Zhong, Z.-P., D. Vik, J. Z. Rapp, O. Zablocki, H. Maughan, B. Temperton, J. W. Deming and M. B. Sullivan | Lower viral evolutionary pressure under stable versus fluctuating conditions in subzero Arctic brines | Microbiome | 11(1) 174 |
| 2023 | 10.1093/nar/gkad328 | Zheng, J., Q. Ge, Y. Yan, X. Zhang, L. Huang and Y. Yin | dbCAN3: automated carbohydrate-active enzyme and substrate annotation | Nucleic Acids Research | 51(W1) W115–W121 |
| 2023 | 10.1021/acs.biomac.3c00288 | Zhao, Z.-M., X. Meng, Y. Pu, M. Li, Y. Li, Y. Zhang, F. Chen and A. J. Ragauskas | Bioconversion of Homogeneous Linear C-Lignin to Polyhydroxyalkanoates | Biomacromolecules | 24(9) 3996–4004 |
| 2023 | 10.1094/mpmi-07-23-0091-r | Zhao, Y., X. Zheng, J. F. Tabima, S. Zhu, K. L. Søndreli, H. Hundley, D. Bauer, K. Barry, Y. Zhang, J. Schmutz, Y. Wang, J. M. LeBoldus and Q. Xiong | Secreted Effector Proteins of Poplar Leaf Spot and Stem Canker Pathogen Sphaerulina musiva Manipulate Plant Immunity and Contribute to Virulence in Diverse Ways | Molecular Plant-Microbe Interactions® | 36(12) 779-795 |
| 2023 | 10.3389/fmicb.2023.1140487 | Zhao, J., J. Rodriguez and W. Martens-Habbena | Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils | Frontiers in Microbiology | 14 |
| 2023 | 10.1038/s41396-023-01493-y | Zhao, J., L. Huang, S. Chakrabarti, J. Cooper, E. Choi, C. Ganan, B. Tolchinsky, E. W. Triplett, S. H. Daroub and W. Martens-Habbena | Nitrogen and phosphorous acquisition strategies drive coexistence patterns among archaeal lineages in soil | The ISME Journal | 17(11) 1839-1850 |
| 2023 | 10.1038/s41929-023-00994-5 | Zhang, Z., J. Feng, C. Yang, H. Cui, W. Harrison, D. Zhong, B. Wang and H. Zhao | Photoenzymatic enantioselective intermolecular radical hydroamination | Nature Catalysis | 6(8) 687–94 |
| 2023 | 10.1016/j.molcel.2023.10.015 | Zhang, W., L. Lazar-Stefanita, H. Yamashita, M. J. Shen, L. A. Mitchell, et al. | Manipulating the 3D organization of the largest synthetic yeast chromosome | Molecular Cell | 83(23) 4424-4437.e5 |
| 2023 | 10.1093/jxb/erad405 | Zhang, N., B. Venn, C. E. Bailey, M. Xia, E. M. Mattoon, T. Mühlhaus and R. Zhang | Moderate high temperature is beneficial or detrimental depending on carbon availability in the green alga Chlamydomonas reinhardtii | Journal of Experimental Botany | 75(3) 979-1003 |
| 2023 | 10.1111/gcbb.13021 | Zhang, N., B. P. Sharma and M. Khanna | Determining spatially varying profit-maximizing management practices for miscanthus and switchgrass production in the rainfed United States | GCB Bioenergy | 15(3) 271–82 |
| 2023 | 10.3389/fpls.2023.1237722 | Zhang, L., J. Braynen, A. Fahey, K. Chopra, P. Cifani, D. Tadesse, M. Regulski, F. Hu, H. J. J. van Dam, M. Xie, D. Ware and C. E. Blaby-Haas | Two related families of metal transferases, ZNG1 and ZNG2, are involved in acclimation to poor Zn nutrition in Arabidopsis | Frontiers in Plant Science | 14 |
| 2023 | 10.1093/plphys/kiad377 | Zhang, J., X. Wang, H.-T. Wang, Z. Qiao, T. Yao, et al. | Overexpression of REDUCED WALL ACETYLATION C increases xylan acetylation and biomass recalcitrance in Populus | Plant Physiology | 194(1) 243–257 |
| 2023 | 10.1038/s42255-023-00830-x | Zhan, C., N. Lee, G. Lan, Q. Dan, A. Cowan, et al. | Improved polyketide production in C. glutamicum by preventing propionate-induced growth inhibition | Nature Metabolism | 5(7) 1127–40 |
| 2023 | 10.1016/j.copbio.2022.102870 | Zha, J., Z. Zhao, Z. Xiao, T. Eng, A. Mukhopadhyay, M. A. G. Koffas and Y. J. Tang | Biosystem design of Corynebacterium glutamicum for bioproduction | Current Opinion in Biotechnology | 79 102870 |
| 2023 | 10.1128/spectrum.02219-23 | Yuzon, J. D., Z. Schultzhaus and Z. Wang | Transcriptomic and genomic effects of gamma-radiation exposure on strains of the black yeast Exophiala dermatitidis evolved to display increased ionizing radiation resistance | Microbiology Spectrum | 11(5) e02219-23 |
| 2023 | 10.1007/978-1-0716-3131-7_8 | Yuan, G., G. A. Tuskan and X. Yang | Use of Fluorescent Protein Reporters for Assessing and Detecting Genome Editing Reagents and Transgene Expression in Plants | Plant Genome Engineering: Methods and Protocols | 115–27 |
| 2023 | 10.1038/s42003-023-04950-8 | Yuan, G., H. Lu, K. De, M. M. Hassan, Y. Liu, M. T. Islam, W. Muchero, G. A. Tuskan and X. Yang | Split selectable marker systems utilizing inteins facilitate gene stacking in plants | Communications Biology | 6(1) 567 |
| 2023 | 10.3390/plants12081657 | Yuan, G., Y. Liu, T. Yao, W. Muchero, J.-G. Chen, G. A. Tuskan and X. Yang | eYGFPuv-Assisted Transgenic Selection in Populus deltoides WV94 and Multiplex Genome Editing in Protoplasts of P. trichocarpa x P. deltoides Clone ’52-225’ | Plants | 12(8) 1657 |
| 2023 | 10.1016/j.cels.2023.04.006 | Yu, T., A. G. Boob, N. Singh, Y. Su and H. Zhao | In vitro continuous protein evolution empowered by machine learning and automation | Cell Systems | 14(8) 633–44 |
| 2023 | 10.1038/s41477-023-01464-3 | Yu, L., M. Khachaturyan, M. Matschiner, A. Healey, D. Bauer, et al. | Ocean current patterns drive the worldwide colonization of eelgrass (Zostera marina) | Nature Plants | 9(8) 1207-1220 |
| 2023 | 10.3390/jof9030359 | Yu, H., H. Yang, S. Haridas, R. D. Hayes, H. Lynch, S. Andersen, M. Newman, G. Li, D. Martínez-Soto, S. Milo-Cochavi, D. Hazal Ayhan, Y. Zhang, I. V. Grigoriev and L.-J. Ma | Conservation and Expansion of Transcriptional Factor Repertoire in the Fusarium oxysporum Species Complex | Journal of Fungi | 9(3) 359 |
| 2023 | 10.1093/plphys/kiad514 | Yoshioka, K., H. Kim, F. Lu, N. De Ridder, R. Vanholme, S. Kajita, W. Boerjan and J. Ralph | Hydroxycinnamaldehyde-derived benzofuran components in lignins | Plant Physiology | 194(3) 1370–82 |
| 2023 | 10.1016/j.xpro.2023.102190 | Yin, K., P. Cruz-Morales, C. M. Whitford and J. D. Keasling | Heterologous production of polycyclopropanated fatty acids and their methyl esters in Streptomyces | STAR Protocols | 4(2) 102190 |
| 2023 | 10.1016/j.ymben.2023.10.008 | Yi, X., B. J. Rasor, N. Boadi, K. Louie, T. R. Northen, A. S. Karim, M. C. Jewett and H. S. Alper | Establishing a versatile toolkit of flux enhanced strains and cell extracts for pathway prototyping | Metabolic Engineering | 80 241-253 |
| 2023 | 10.1016/j.cub.2023.05.020 | Yee, D. P., T. J. Samo, R. M. Abbriano, B. Shimasaki, M. Vernet, X. Mayali, P. K. Weber, B. G. Mitchell, M. Hildebrand, J. Decelle and M. Tresguerres | The V-type ATPase enhances photosynthesis in marine phytoplankton and further links phagocytosis to symbiogenesis | Current Biology | 33(12) 2541-2547.e5 |
| 2023 | 10.1128/aem.01753-22 | Yayo, J., T. Rydzak, T. Kuil, A. Karlsson, D. J. Harding, A. M. Guss and A. J. A. v. Maris | The Roles of Nicotinamide Adenine Dinucleotide Phosphate Reoxidation and Ammonium Assimilation in the Secretion of Amino Acids as Byproducts of Clostridium thermocellum | Applied and Environmental Microbiology | 89(1) e01753-22 |
| 2023 | 10.3390/foods12183342 | Yasir, M., A. A. Alkhaldy, S. A. Soliman, S. A. Turkistani and E. I. Azhar | Metagenomic Insights into the Microbiome and Resistance Genes of Traditional Fermented Foods in Arabia | Foods | 12(18) 3342 |
| 2023 | 10.3390/ijms242316828 | Yarden, O., J. Zhang, D. Marcus, C. Changwal, S. J. Mabjeesh, A. Lipzen, Y. Zhang, E. Savage, V. Ng, I. V. Grigoriev and Y. Hadar | Altered Expression of Two Small Secreted Proteins (ssp4 and ssp6) Affects the Degradation of a Natural Lignocellulosic Substrate by Pleurotus ostreatus | International Journal of Molecular Sciences | 24(23) 16828 |
| 2023 | 10.1111/nph.19126 | Yao, T., J. Zhang, T. B. Yates, H. K. Shrestha, N. L. Engle, et al. | Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus | New Phytologist | 239(6) 2248–64 |
| 2023 | 10.1093/hr/uhad085 | Yao, T., G. Yuan, H. Lu, Y. Liu, J. Zhang, G. A. Tuskan, W. Muchero, J.-G. Chen and X. Yang | CRISPR/Cas9-based gene activation and base editing in Populus | Horticulture Research | 10(6) uhad085 |
| 2023 | 10.1021/acssuschemeng.3c04076 | Yang, Z., S. Bhagia, H. O’Neill, B. R. Evans, A. J. Ragauskas, B. H. Davison and S. V. Pingali | Deconvoluting Structures of Component Plant Biopolymers Using Deuterium Labeled Brassica oleracea Stems | ACS Sustainable Chemistry & Engineering | 11(49) 17238–48 |
| 2023 | 10.1021/acs.est.2c05683 | Yang, Y., H. Jin, X. Li and J. Yan | Biohydrogenation of 1,3-Butadiene to 1-Butene under Acetogenic Conditions by Acetobacterium wieringae | Environmental Science & Technology | 57(4) 1637–45 |
| 2023 | 10.1038/s41592-023-01999-5 | Yang, J. E., M. R. Larson, B. S. Sibert, J. Y. Kim, D. Parrell, J. C. Sanchez, V. Pappas, A. Kumar, K. Cai, K. Thompson and E. R. Wright | Correlative montage parallel array cryo-tomography for in situ structural cell biology | Nature Methods | 20(10) 1537–43 |
| 2023 | 10.1186/s13068-023-02302-6 | Yang, J., T. Sooksa-nguan, B. Kannan, S. Cano-Alfanar, H. Liu, A. Kent, J. Shanklin, F. Altpeter and A. Howe | Microbiome differences in sugarcane and metabolically engineered oilcane accessions and their implications for bioenergy production | Biotechnology for Biofuels and Bioproducts | 16(1) 56 |
| 2023 | 10.1016/j.biombioe.2023.106898 | Yang, B., P. Yang, E. Golub and X. Cai | The role of social support on midwestern farmers’ willingness to grow perennial bioenergy crops | Biomass and Bioenergy | 175 106898 |
| 2023 | 10.1016/j.ymben.2023.01.003 | Yan, Q., T. B. Jacobson, Z. Ye, Y. R. Cortés-Pena, S. S. Bhagwat, S. Hubbard, W. T. Cordell, R. E. Oleniczak, F. V. Gambacorta, J. R. Vazquez, E. V. Shusta, D. Amador-Noguez, J. S. Guest and B. F. Pfleger | Evaluation of 1,2-diacyl-3-acetyl triacylglycerol production in Yarrowia lipolytica | Metabolic Engineering | 76 18–28 |
| 2023 | 10.1093/femspd/ftad009 | Yadav, A., M. N. Brewer, M. S. Elshahed and E. I. Shaw | Comparative transcriptomics and genomics from continuous axenic media growth identifies Coxiella burnetii intracellular survival strategies | Pathogens and Disease | 81 ftad009 |
| 2023 | 10.3389/fpls.2023.1233813 | Xue, X., G. Beuchat, J. Wang, Y.-C. Yu, S. Moose, J. Chen and L.-Q. Chen | Sugar accumulation enhancement in sorghum stem is associated with reduced reproductive sink strength and increased phloem unloading activity | Frontiers in Plant Science | 14 |
| 2023 | US11629356B2 | Xie, M., W. Muchero, J.-G. Chen and G. A. Tuskan | Regulating lignin biosynthesis and sugar release in plants | United States Patent | UT Battelle LLC |
| 2023 | 10.1017/S002428292300004X | Wyczanska, M., K. Wacker, P. S. Dyer and S. Werth | Local-scale panmixia in the lichenized fungus Xanthoria parietina contrasts with substantial genetic structure in its Trebouxia photobionts | The Lichenologist | 55(2) 69-79 |
| 2023 | 10.1016/j.mec.2023.e00220 | Wu, Z.-Y., W. Sun, Y. Shen, J. Pratas, P. F. Suthers, P.-H. Hsieh, S. Dwaraknath, J. D. Rabinowitz, C. D. Maranas, Z. Shao and Y. Yoshikuni | Metabolic engineering of low-pH-tolerant non-model yeast, Issatchenkia orientalis, for production of citramalate | Metabolic Engineering Communications | 16 e00220 |
| 2023 | 10.1128/aem.00500-23 | Wu, X., S. Gushgari-Doyle, L. M. Lui, A. J. Hendrickson, Y. Liu, S. Jagadamma, T. N. Nielsen, N. B. Justice, T. Simmons, N. J. Hess, D. C. Joyner, T. C. Hazen, A. P. Arkin and R. Chakraborty | Distinct Depth-Discrete Profiles of Microbial Communities and Geochemical Insights in the Subsurface Critical Zone | Applied and Environmental Microbiology | 89(6) e00500-23 |
| 2023 | 10.1038/s41467-023-42967-z | Wu, R., M. R. Davison, W. C. Nelson, M. L. Smith, M. S. Lipton, J. K. Jansson, R. S. McClure, J. E. McDermott and K. S. Hofmockel | Hi-C metagenome sequencing reveals soil phage–host interactions | Nature Communications | 14(1) 7666 |
| 2023 | 10.3389/fpls.2023.1272363 | Wu, M., T. R. Northen and Y. Ding | Stressing the importance of plant specialized metabolites: omics-based approaches for discovering specialized metabolism in plant stress responses | Frontiers in Plant Science | 14 |
| 2023 | 10.1002/mlf2.12076 | Wu, L., Y. Yang, D. Ning, Q. Gao, H. Yin, N. Xiao, B. Y. Zhou, S. Chen, Q. He and J. Zhou | Assessing mechanisms for microbial taxa and community dynamics using process models | mLife | 2(3) 239–52 |
| 2023 | 10.1016/j.agrformet.2023.109532 | Wu, G., K. Guan, C. Jiang, H. Kimm, G. Miao, X. Yang, C. J. Bernacchi, X. Sun, A. E. Suyker and C. E. Moore | Can upscaling ground nadir SIF to eddy covariance footprint improve the relationship between SIF and GPP in croplands? | Agricultural and Forest Meteorology | 338 109532 |
| 2023 | 10.1038/s41579-023-00921-2 | Wu, D. and N. Ivanova | A tale of two codes | Nature Reviews Microbiology | 21(8) 486 |
| 2023 | 10.1021/acssynbio.3c00265 | Wu, C., M. Guarnieri and W. Xiong | FreeFlux: A Python Package for Time-Efficient Isotopically Nonstationary Metabolic Flux Analysis | ACS Synthetic Biology | 12(9) 2707–14 |
| 2023 | 10.1038/s41576-023-00619-4 | Woyke, T. | Cell by cell: population genetics in the wild | Nature Reviews Genetics | 24(8) 490 |
| 2023 | 10.1371/journal.pgen.1010706 | Woods, D. P., W. Li, R. Sibout, M. Shao, D. Laudencia-Chingcuanco, J. P. Vogel, J. Dubcovsky and R. M. Amasino | PHYTOCHROME C regulation of photoperiodic flowering via PHOTOPERIOD1 is mediated by EARLY FLOWERING 3 in Brachypodium distachyon | PLOS Genetics | 19(5) e1010706 |
| 2023 | 10.1186/s13068-023-02429-6 | Woodruff, W., N. N. Deshavath, V. Susanto, C. V. Rao and V. Singh | Tolerance of engineered Rhodosporidium toruloides to sorghum hydrolysates during batch and fed-batch lipid production | Biotechnology for Biofuels and Bioproducts | 16(1) 187 |
| 2023 | 10.1038/s41396-023-01388-y | Wong, L. L., Y. Lu, J. C. S. Ho, S. Mugunthan, Y. Law, P. Conway, S. Kjelleberg and T. Seviour | Surface-layer protein is a public-good matrix exopolymer for microbial community organisation in environmental anammox biofilms | The ISME Journal | 17(6) 803–12 |
| 2023 | 10.3389/fmicb.2023.1268944 | Wolters, J. F., A. L. LaBella, D. A. Opulente, A. Rokas and C. T. Hittinger | Mitochondrial genome diversity across the subphylum Saccharomycotina | Frontiers in Microbiology | 14 |
| 2023 | 10.3389/fenrg.2023.1212719 | Wolski, P., B. W. Blankenship, A. Umar, M. Cabrera, B. A. Simmons, K. L. Sale and E. C. Achinivu | Factors that influence the activity of biomass-degrading enzymes in the presence of ionic liquids—a review | Frontiers in Energy Research | 11 |
| 2023 | 10.1073/pnas.2123301120 | Witvrouw, K., H. Kim, R. Vanholme, G. Goeminne, J. Ralph, W. Boerjan and B. Vanholme | Reassessing the claimed cytokinin-substituting activity of dehydrodiconiferyl alcohol glucoside | Proceedings of the National Academy of Sciences | 120(9) e2123301120 |
| 2023 | 10.3390/genes14020363 | Winder, J. C., W. Boulton, A. Salamov, S. L. Eggers, K. Metfies, V. Moulton and T. Mock | Genetic and Structural Diversity of Prokaryotic Ice-Binding Proteins from the Central Arctic Ocean | Genes | 14(2) 363 |
| 2023 | 10.3389/fmicb.2023.1243410 | White, C., E. Antell, S. L. Schwartz, J. E. Lawrence, R. Keren, L. Zhou, K. Yu, W. Zhuang and L. Alvarez-Cohen | Synergistic interactions between anammox and dissimilatory nitrate reducing bacteria sustains reactor performance across variable nitrogen loading ratios | Frontiers in Microbiology | 14 |
| 2023 | 10.1126/sciadv.adj0053 | Werner, A. Z., W. T. Cordell, C. W. Lahive, B. C. Klein, C. A. Singer, E. C. D. Tan, M. A. Ingraham, K. J. Ramirez, D. H. Kim, J. N. Pedersen, C. W. Johnson, B. F. Pfleger, G. T. Beckham and D. Salvachúa | Lignin conversion to β-ketoadipic acid by Pseudomonas putida via metabolic engineering and bioprocess development | Science Advances | 9(36) eadj0053 |
| 2023 | 10.1093/plphys/kiad209 | Weng, X., H. Song, A. Sreedasyam, T. Haque, L. Zhang, C. Chen, Y. Yoshinaga, M. Williams, R. C. O’Malley, J. Grimwood, J. Schmutz and T. E. Juenger | Transcriptome and DNA methylome divergence of inflorescence development between 2 ecotypes in Panicum hallii | Plant Physiology | 192(3) 2374-2393 |
| 2023 | 10.1016/j.engmic.2023.100074 | Wei, H., W. Wang, Y.-C. Chou, M. E. Himmel, X. Chen, Y. J. Bomble and M. Zhang | Prospects for engineering Ralstonia eutropha and Zymomonas mobilis for the autotrophic production of 2,3-butanediol from CO2 and H2 | Engineering Microbiology | 3(2) 100074 |
| 2023 | 10.1002/aic.18227 | Wang, Y., J. Ryu, K. H. Kim, X. Meng, Y. Pu, Y. Tian, A. Eudes, G. Leem, A. J. Ragauskas and C. G. Yoo | Investigation of the effects of ternary deep eutectic solvent composition on pretreatment of sorghum stover | AIChE Journal | 69(12) e18227 |
| 2023 | 10.1039/D3RA00245D | Wang, Y., M. Chen, Y. Yang, J. Ralph and X. Pan | Efficient O-demethylation of lignin-derived aromatic compounds under moderate conditions | RSC Advances | 13(9) 5925–32 |
| 2023 | 10.1093/gbe/evad046 | Wang, Y., Y. Chang, J. Ortañez, J. F. Peña, D. Carter-House, et al. | Divergent Evolution of Early Terrestrial Fungi Reveals the Evolution of Mucormycosis Pathogenicity Factors | Genome Biology and Evolution | 15(4) evad046 |
| 2023 | 10.1021/acs.est.2c06674 | Wang, Y., N. R. Baral, M. Yang and C. D. Scown | Co-Processing Agricultural Residues and Wet Organic Waste Can Produce Lower-Cost Carbon-Negative Fuels and Bioplastics | Environmental Science & Technology | 57(7) 2958–69 |
| 2023 | 10.3389/fbioe.2023.991784 | Wang, Q., H. Kim, T. M. Halvorsen, S. Chen, C. S. Hayes and C. R. Buie | Leveraging microfluidic dielectrophoresis to distinguish compositional variations of lipopolysaccharide in E. coli | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.48550/arXiv.2305.14259 | Wang, Q., D. Downey, H. Ji and T. Hope | SciMON: Scientific Inspiration Machines Optimized for Novelty | ACL Anthology | |
| 2023 | 10.1128/mbio.03189-22 | Wang, D., K. A. Hunt, P. Candry, X. Tao, N. Q. Wofford, J. Zhou, M. J. McInerney, D. A. Stahl, R. S. Tanner, A. Zhou, M. Winkler and C. Pan | Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane | mBio | 14(2) e03189-22 |
| 2023 | 10.1021/acs.jpca.2c07750 | Wang, C.-F., A. B. C. Mantilla, Y. Gu and P. Z. El-Khoury | Ambient Tip-Enhanced Two Photon Photoluminescence from CdSe/ZnS Quantum Dots | The Journal of Physical Chemistry A | 127(4) 1081–4 |
| 2023 | 10.3389/fbioe.2023.1173656 | Walters, K. A., G. Mohan, K. S. Myers, A. T. Ingle, T. J. Donohue and D. R. Noguera | A metagenome-level analysis of a microbial community fermenting ultra-filtered milk permeate | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.1016/j.biortech.2022.128216 | Walls, L. E., P. Otoupal, R. Ledesma-Amaro, S. B. Velasquez-Orta, J. M. Gladden and L. Rios-Solis | Bioconversion of cellulose into bisabolene using Ruminococcus flavefaciens and Rhodosporidium toruloides | Bioresource Technology | 368 128216 |
| 2023 | 10.1128/msystems.00333-23 | Waldburger, L., M. G. Thompson, A. J. Weisberg, N. Lee, J. H. Chang, J. D. Keasling and P. M. Shih | Transcriptome architecture of the three main lineages of agrobacteria | mSystems | 8(4) e00333-23 |
| 2023 | 10.1371/journal.pgen.1010593 | Wagner, E. R., N. M. Nightingale, A. Jen, K. A. Overmyer, M. McGee, J. J. Coon and A. P. Gasch | PKA regulatory subunit Bcy1 couples growth, lipid metabolism, and fermentation during anaerobic xylose growth in Saccharomyces cerevisiae | PLOS Genetics | 19(7) e1010593 |
| 2023 | 10.3390/jof9080786 | Wagner, E. R. and A. P. Gasch | Advances in S. cerevisiae Engineering for Xylose Fermentation and Biofuel Production: Balancing Growth, Metabolism, and Defense | Journal of Fungi | 9(8) 786 |
| 2023 | 10.1128/msystems.01280-22 | Vyshenska, D., P. Sampara, K. Singh, A. Tomatsu, W. B. Kauffman, et al. | A standardized quantitative analysis strategy for stable isotope probing metagenomics | mSystems | 8(4) e01280-22 |
| 2023 | 10.1038/s41579-023-00903-4 | Volland, J.-M. | Small cells with big secrets | Nature Reviews Microbiology | 21(7) 414 |
| 2023 | 10.1021/acs.chemrev.2c00403 | Volk, M. J., V. G. Tran, S.-I. Tan, S. Mishra, Z. Fatma, A. Boob, H. Li, P. Xue, T. A. Martin and H. Zhao | Metabolic Engineering: Methodologies and Applications | Chemical Reviews | 123(9) 5521–70 |
| 2023 | 10.1371/journal.pgen.1010347 | Vittorelli, N., R. C. Rodríguez de la Vega, A. Snirc, E. Levert, V. Gautier, et al. | Stepwise recombination suppression around the mating-type locus in an ascomycete fungus with self-fertile spores | PLOS Genetics | 19(2) e1010347 |
| 2023 | 10.1186/s43008-023-00121-w | Visagie, C. M., D. Magistà, M. Ferrara, F. Balocchi, T. A. Duong, et al. | IMA genome-F18 | IMA Fungus | 14(1) 21 |
| 2023 | 10.1371/journal.pgen.1010909 | Villalobos-Escobedo, J. M., M. B. Mercado-Esquivias, C. Adams, W. B. Kauffman, R. R. Malmstrom, A. M. Deutschbauer and N. L. Glass | Genome-wide fitness profiling reveals molecular mechanisms that bacteria use to interact with Trichoderma atroviride exometabolites | PLOS Genetics | 19(8) e1010909 |
| 2023 | 10.1038/s43705-023-00295-9 | Vik, D., B. Bolduc, S. Roux, C. L. Sun, A. A. Pratama, M. Krupovic and M. B. Sullivan | MArVD2: a machine learning enhanced tool to discriminate between archaeal and bacterial viruses in viral datasets | ISME Communications | 3(1) 87 |
| 2023 | 10.1111/nph.18734 | Vigneaud, J., A. Kohler, M. D. Sow, A. Delaunay, L. Fauchery, et al. | DNA hypomethylation of the host tree impairs interaction with mutualistic ectomycorrhizal fungus | New Phytologist | 238(6) 2561–2577 |
| 2023 | 10.1021/acssynbio.3c00414 | Venkataraman, M., A. Yñigez-Gutierrez, V. Infante, A. MacIntyre, P. I. Fernandes-Júnior, J.-M. Ané and B. Pfleger | Synthetic Biology Toolbox for Nitrogen-Fixing Soil Microbes | ACS Synthetic Biology | 12(12) 3623–34 |
| 2023 | 10.1021/acs.est.2c09314 | Vega, M. A. P., R. C. Scholes, A. R. Brady, R. A. Daly, A. B. Narrowe, G. F. Vanzin, K. C. Wrighton, D. L. Sedlak and J. O. Sharp | Methane-Oxidizing Activity Enhances Sulfamethoxazole Biotransformation in a Benthic Constructed Wetland Biomat | Environmental Science & Technology | 57(18) 7240-7253 |
| 2023 | 10.1002/bit.28337 | VanArsdale, E., A. Navid, M. J. Chu, T. M. Halvorsen, G. F. Payne, Y. Jiao, W. E. Bentley and M. C. Yung | Electrogenetic signaling and information propagation for controlling microbial consortia via programmed lysis | Biotechnology and Bioengineering | 120(5) 1366–81 |
| 2023 | 10.1093/sysbio/syad037 | Van Etten, J., T. G. Stephens and D. Bhattacharya | A k-mer-Based Approach for Phylogenetic Classification of Taxa in Environmental Genomic Data | Systematic Biology | 72(5) 1101-1118 |
| 2023 | 10.1002/anie.202304646 | Van Cura, D., T. L. Ng, J. Huang, H. Hager, J. F. Hartwig, J. D. Keasling and E. P. Balskus | Discovery of the Azaserine Biosynthetic Pathway Uncovers a Biological Route for α-Diazoester Production | Angewandte Chemie International Edition | 62(28) e202304646 |
| 2023 | 10.1016/j.crmicr.2023.100193 | Valenzuela Ruiz, V., G. Santoyo, L. J. Gómez Godínez, L. A. Cira Chávez, F. I. Parra Cota and S. de los Santos Villalobos | Complete genome sequencing of Bacillus cabrialesii TE3T: A plant growth-promoting and biological control agent isolated from wheat (Triticum turgidum subsp. durum) in the Yaqui Valley | Current Research in Microbial Sciences | 4 100193 |
| 2023 | 10.1016/j.hal.2023.102405 | Valadez-Cano, C., A. Reyes-Prieto, D. G. Beach, C. Rafuse, P. McCarron and J. Lawrence | Genomic characterization of coexisting anatoxin-producing and non-toxigenic Microcoleus subspecies in benthic mats from the Wolastoq, New Brunswick, Canada | Harmful Algae | 124 102405 |
| 2023 | 10.3389/fevo.2023.1205557 | Untiveros, D. P. M., L. R. S. Sanchez and E. P. Cao | Whole genome sequence analysis of the filamentous Nodosilinea sp. PGN35 isolated from a mining site in Tuba, Benguet, Philippines | Frontiers in Ecology and Evolution | 11 |
| 2023 | 10.1002/bbb.2483 | Ullah, K. M., F. H. Masum, J. L. Field and P. Dwivedi | Designing a GIS-based supply chain for producing carinata-based sustainable aviation fuel in Georgia, USA | Biofuels, Bioproducts and Biorefining | 17(4) 786–802 |
| 2023 | 10.3390/microorganisms11061425 | Uljanovas, D., G. Gölz, S. Fleischmann, E. Kudirkiene, N. Kasetiene, A. Grineviciene, E. Tamuleviciene, J. Aksomaitiene, T. Alter and M. Malakauskas | Genomic Characterization of Arcobacter butzleri Strains Isolated from Various Sources in Lithuania | Microorganisms | 11(6) 1425 |
| 2023 | 10.1128/MRA.00288-23 | Trutschel, L. R., A. R. Rowe and J. D. Sackett | Complete genome sequence of Roseinatronobacter sp. strain S2, a chemolithoheterotroph isolated from a pH 12 serpentinizing system | Microbiology Resource Announcements | 12(9) e00288-23 |
| 2023 | 10.3389/fmicb.2023.1182497 | Trutschel, L. R., B. R. Kruger, J. D. Sackett, G. L. Chadwick and A. R. Rowe | Determining resident microbial community members and their correlations with geochemistry in a serpentinizing spring | Frontiers in Microbiology | 14 |
| 2023 | 10.1017/S1473550423000058 | Trubl, G., K. M. Stedman, K. F. Bywaters, E. E. Matula, P. Sommers, et al. | Astrovirology: how viruses enhance our understanding of life in the Universe | International Journal of Astrobiology | 22(4) 247-271 |
| 2023 | 10.3389/fmicb.2023.1095191 | Trotter, V. V., M. Shatsky, M. N. Price, T. R. Juba, G. M. Zane, et al. | Large-scale genetic characterization of the model sulfate-reducing bacterium, Desulfovibrio vulgaris Hildenborough | Frontiers in Microbiology | 14 |
| 2023 | 10.3389/fmicb.2023.1176751 | Trexler, R. V., M. W. Van Goethem, D. Goudeau, N. Nath, R. R. Malmstrom, T. R. Northen and E. Couradeau | BONCAT-FACS-Seq reveals the active fraction of a biocrust community undergoing a wet-up event | Frontiers in Microbiology | 14 |
| 2023 | 10.1128/MRA.00373-23 | Tran, W. C., B. Sullivan, C. E. Kitzmiller, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | Draft genome sequence of Paenibacillus sp. strain RC67, an isolate from a long-term forest soil warming experiment in Petersham, Massachusetts | Microbiology Resource Announcements | 12(11) e00373-23 |
| 2023 | 10.1038/s41467-023-41616-9 | Tran, V. G., S. Mishra, S. S. Bhagwat, S. Shafaei, Y. Shen, J. L. Allen, B. A. Crosly, S.-I. Tan, Z. Fatma, J. D. Rabinowitz, J. S. Guest, V. Singh and H. Zhao | An end-to-end pipeline for succinic acid production at an industrially relevant scale using Issatchenkia orientalis | Nature Communications | 14(1) 6152 |
| 2023 | 10.1128/msystems.00201-23 | Tran, P. Q., S. C. Bachand, J. C. Hotvedt, K. Kieft, E. A. McDaniel, K. D. McMahon and K. Anantharaman | Physiological and genomic evidence of cysteine degradation and aerobic hydrogen sulfide production in freshwater bacteria | mSystems | 8(3) e00201-23 |
| 2023 | 10.1099/ijsem.0.006205 | Toumi, M., W. B. Whitman, N. C. Kyrpides, T. Woyke, J. Wolf, M. Neumann-Schaal, G. Abbaszade, B. Károly and E. Tóth | Antiquaquibacter oligotrophicus gen. nov., sp. nov., a novel oligotrophic bacterium from groundwater | International Journal of Systematic and Evolutionary Microbiology | 73(12) |
| 2023 | 10.1093/femsec/fiad151 | Touchette, D., C. Gostinčar, L. G. Whyte and I. Altshuler | Lichen-associated microbial members are prevalent in the snow microbiome of a sub-arctic alpine tundra | FEMS Microbiology Ecology | 99(12) fiad151 |
| 2023 | 10.1093/g3journal/jkad014 | Tilhou, N. W., H. P. Poudel, J. Lovell, S. Mamidi, J. Schmutz, C. Daum, M. Zane, Y. Yoshinaga, A. Lipzen and M. D. Casler | Genomic prediction of switchgrass winter survivorship across diverse lowland populations | G3 Genes|Genomes|Genetics | 13(3) jkad014 |
| 2023 | Tibocha-Bonilla, J. D., R. Santibáñez-Palominos and K. Zengler | CoralME - An automated tool for next-generation metabolic model design and optimization | Metabolic Engineering 15 | ||
| 2023 | 10.1038/s41467-023-41428-x | Tian, J., J. Liu, M. Knapp, P. H. Donnan, D. G. Boggs and J. Bridwell-Rabb | Custom tuning of Rieske oxygenase reactivity | Nature Communications | 14(1) 5858 |
| 2023 | 10.1021/acs.biochem.3c00150 | Tian, J., A. A. Garcia, P. H. Donnan and J. Bridwell-Rabb | Leveraging a Structural Blueprint to Rationally Engineer the Rieske Oxygenase TsaM | Biochemistry | 62(11) 1807-1822 |
| 2023 | 10.1016/j.envpol.2023.122674 | Thorgersen, M. P., J. L. Goff, F. L. Poole, K. F. Walker, A. D. Putt, L. M. Lui, T. C. Hazen, A. P. Arkin and M. W. W. Adams | Mixed nitrate and metal contamination influences operational speciation of toxic and essential elements | Environmental Pollution | 338 122674 |
| 2023 | 10.1111/gcbb.13094 | Tejera-Nieves, M. and B. J. Walker | A 30% reduction in switchgrass rhizome reserves did not decrease biomass yield | GCB Bioenergy | 15(11) 1329–38 |
| 2023 | 10.3389/fpls.2022.1023571 | Tejera-Nieves, M., M. Abraha, J. Chen, S. K. Hamilton, G. P. Robertson and B. J. Walker | Seasonal decline in leaf photosynthesis in perennial switchgrass explained by sink limitations and water deficit | Frontiers in Plant Science | 13 |
| 2023 | 10.1371/journal.pcbi.1011371 | Tec-Campos, D., C. Posadas, J. D. Tibocha-Bonilla, D. Thiruppathy, N. Glonek, C. Zuñiga, A. Zepeda and K. Zengler | The genome-scale metabolic model for the purple non-sulfur bacterium Rhodopseudomonas palustris Bis A53 accurately predicts phenotypes under chemoheterotrophic, chemoautotrophic, photoheterotrophic, and photoautotrophic growth conditions | PLOS Computational Biology | 19(8) e1011371 |
| 2023 | 10.1007/s11120-022-00986-9 | Tay, J. W. and J. C. Cameron | Asymmetric survival in single-cell lineages of cyanobacteria in response to photodamage | Photosynthesis Research | 155(3) 289–97 |
| 2023 | 10.3389/fgeed.2023.1110279 | Tannous, J., C. Sawyer, M. M. Hassan, J. L. Labbe and C. Eckert | Establishment of a genome editing tool using CRISPR-Cas9 ribonucleoprotein complexes in the non-model plant pathogen Sphaerulina musiva | Frontiers in Genome Editing | 5 |
| 2023 | 10.1007/978-1-0716-3159-1_15 | Tannous, J., J. Labbé and N. P. Keller | Identifying Fungal Secondary Metabolites and Their Role in Plant Pathogenesis | Plant-Pathogen Interactions | 193–218 |
| 2023 | 10.1128/mbio.00769-23 | Tannous, J., C. M. Cosetta, M. T. Drott, T. A. Rush, P. E. Abraham, R. J. Giannone, N. P. Keller and B. E. Wolfe | LaeA-Regulated Fungal Traits Mediate Bacterial Community Assembly | mBio | 14(3) e00769-23 |
| 2023 | 10.3390/biology12121505 | Tang, S. N., C. R. Barnum, M. J. Szarzanowicz, S. Sirirungruang and P. M. Shih | Harnessing Plant Sugar Metabolism for Glycoengineering | Biology | 12(12) 1505 |
| 2023 | 10.1021/acssuschemeng.2c06876 | Tan, L., H. L. Scott, M. D. Smith, S. V. Pingali, H. M. O’Neill, J. L. Morrell-Falvey, J. Katsaras, J. C. Smith, B. H. Davison, J. G. Elkins and J. D. Nickels | Amphiphilic Co-Solvents Modulate the Structure of Membrane Domains | ACS Sustainable Chemistry & Engineering | 11(4) 1598–609 |
| 2023 | 10.3390/pathogens12091185 | Tamayo-Ordóñez, M. C., N. M. Rosas-García, B. A. Ayil-Gutiérrez, J. M. Bello-López, F. A. Tamayo-Ordóñez, F. Anguebes-Franseschi, S. Damas-Damas and Y. d. J. Tamayo-Ordóñez | Non-Structural Proteins (Nsp): A Marker for Detection of Human Coronavirus Families | Pathogens | 12(9) 1185 |
| 2023 | 10.1016/j.fbio.2023.103277 | Tamang, J. P., P. Kharnaior, M. Das, S. Ek and N. Thapa | Metagenomics and metagenome-assembled genomes analysis of sieng, an ethnic fermented soybean food of Cambodia | Food Bioscience | 56 103277 |
| 2023 | 10.1007/s11103-023-01376-y | Takawira, L. T., I. Hadj Bachir, R. Ployet, J. Tulloch, H. San Clemente, N. Christie, N. Ladouce, A. Dupas, A. Rai, J. Grima-Pettenati, A. A. Myburg, E. Mizrachi, F. Mounet and S. G. Hussey | Functional investigation of five R2R3-MYB transcription factors associated with wood development in Eucalyptus using DAP-seq-ML | Plant Molecular Biology | 113(1) 33-57 |
| 2023 | 10.1002/cbic.202300357 | Takasuka, T. E., H. Kim, K. Deng, C. M. Bianchetti, K. Yamashita, E. T. Beebe, L. F. Bergeman, K. A. Vander Meulen, S. Deutsch, J. Ralph, P. D. Adams, T. R. Northen and B. G. Fox | Quantitative Analysis of The High-Yield Hydrolysis of Kelp by Laminarinase and Alginate Lyase | ChemBioChem | 24(20) e202300357 |
| 2023 | 10.1021/acs.iecr.3c01269 | Taifan, G. S. P. and C. T. Maravelias | Optimization-Based Azeotropic Distillation System Synthesis Using Geometric Insights | Industrial & Engineering Chemistry Research | 62(31) 12220–34 |
| 2023 | 10.1016/j.ces.2022.118406 | Taifan, G. S. P. and C. T. Maravelias | Integrated membrane material design and system synthesis | Chemical Engineering Science | 269 118406 |
| 2023 | 10.1016/j.pep.2023.106317 | Sword, T. T., J. W. Barker, M. Spradley, Y. Chen, C. J. Petzold and C. B. Bailey | Expression of blue pigment synthetase a from Streptomyces lavenduale reveals insights on the effects of refactoring biosynthetic megasynthases for heterologous expression in Escherichia coli | Protein Expression and Purification | 210 106317 |
| 2023 | Suzuki, Y. and J. C. Venter | 20 Years of the Minimal Cell’s Rise from Theory to Practice | Keiko SFC Journal | 22(2) 42–53 | |
| 2023 | Suzuki, Y., A. Murao, J. Sebesta, B. Yang, D. H. Hernandez, et al. | IMAGINE BioSecurity: Genome-Scale Engineering and Modeling for Secure Biosystems Design | DOE Genomic Sciences Program Annual Meeting | ||
| 2023 | 10.1016/j.polymdegradstab.2023.110466 | Suzuki, M., Y. Tachibana, P. Soulenthone, T. Suzuki, H. Takeno and K.-i. Kasuya | Control of marine biodegradation of an aliphatic polyester using endospores | Polymer Degradation and Stability | 215 110466 |
| 2023 | 10.1128/mbio.01010-23 | Suo, Z., D. A. Cummings, A. W. Puri, A. L. Schaefer and E. P. Greenberg | A Mesorhizobium japonicum quorum sensing circuit that involves three linked genes and an unusual acyl-homoserine lactone signal | mBio | 14(4) e01010-23 |
| 2023 | 10.1021/acssuschemeng.2c05199 | Sumer, Z. and R. C. Van Lehn | Heuristic Computational Model for Predicting Lignin Solubility in Tailored Organic Solvents | ACS Sustainable Chemistry & Engineering | 11(1) 187–98 |
| 2023 | 10.1128/MRA.00607-23 | Sullivan, B., C. E. Kitzmiller, W. C. Tran, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | Complete genome sequence of Bacillus thuringiensis strain RC340, isolated from a temperate forest soil sample in New England | Microbiology Resource Announcements | 12(11) e00607-23 |
| 2023 | 10.1094/phytofr-10-23-0136-r | Subedi, N., T. Cowell, M. L. Cope-Arguello, P. A. Paul, G. Cellier, et al. | Characterization of Ralstonia pseudosolanacearum diversity and screening tomato, pepper, and eggplant resistance to manage bacterial wilt in South Asia | PhytoFrontiers™ | 4(3) 393-403 |
| 2023 | 10.1093/femsec/fiad037 | Stuart, E. K., V. Singan, M. Amirebrahimi, H. Na, V. Ng, I. V. Grigoriev, F. Martin, I. C. Anderson, J. M. Plett and K. L. Plett | Acquisition of host-derived carbon in biomass of the ectomycorrhizal fungus Pisolithus microcarpus is correlated to fungal carbon demand and plant defences | FEMS Microbiology Ecology | 99(5) |
| 2023 | 10.1038/s41396-022-01354-0 | Stone, B. W. G., P. Dijkstra, B. K. Finley, R. Fitzpatrick, M. M. Foley, et al. | Life history strategies among soil bacteria—dichotomy for few, continuum for many | The ISME Journal | 17(4) 611–9 |
| 2023 | 10.1007/s00442-023-05322-z | Stone, B. W., S. J. Blazewicz, B. J. Koch, P. Dijkstra, M. Hayer, K. S. Hofmockel, X. J. A. Liu, R. L. Mau, J. Pett-Ridge, E. Schwartz and B. A. Hungate | Nutrients strengthen density dependence of per-capita growth and mortality rates in the soil bacterial community | Oecologia | 201(3) 771–82 |
| 2023 | 10.1021/acs.est.2c07936 | Stewart, D. W., Y. R. Cortés-Peña, Y. Li, A. S. Stillwell, M. Khanna and J. S. Guest | Implications of Biorefinery Policy Incentives and Location-Specific Economic Parameters for the Financial Viability of Biofuels | Environmental Science & Technology | 57(6) 2262–71 |
| 2023 | 10.1002/ijch.202200083 | Stephens, K. and W. E. Bentley | Quorum Sensing from Two Engineers' Perspectives | Israel Journal of Chemistry | 63(45783) e202200083 |
| 2023 | 10.1007/s00203-023-03728-0 | Srivastava, S. and N. A. Dafale | Genomic dissection of Niallia sp. for potential application in lignocellulose hydrolysis and bioremediation | Archives of Microbiology | 206 2 |
| 2023 | 10.1007/s00438-022-01987-y | Srivastava, S., S. Bombaywala, S. J. Jakhesara, N. V. Patil, C. G. Joshi, H. J. Purohit and N. A. Dafale | Potential of camel rumen derived Bacillus subtilis and Bacillus velezensis strains for application in plant biomass hydrolysis | Molecular Genetics and Genomics | 298(2) 361–74 |
| 2023 | 10.1007/s10482-023-01818-z | Sreya, P. K., K. Gaurav, S. Ahmed, C. Sasikala and C. V. Ramana | Blastopirellula sediminis sp. nov. a new member of Pirellulaceae isolated from the Andaman and Nicobar Islands | Antonie van Leeuwenhoek | 116(5) 463–75 |
| 2023 | 10.1007/s10482-022-01801-0 | Sreya, P., G. Suresh, A. Rai, B. Ria, L. Vighnesh, V. C. Agre, U. Jagadeeshwari, C. Sasikala and C. V. Ramana | Revisiting the taxonomy of the genus Rhodopirellula with the proposal for reclassification of the genus to Rhodopirellula sensu stricto, Aporhodopirellula gen. nov., Allorhodopirellula gen. nov. and Neorhodopirellula gen. nov | Antonie van Leeuwenhoek | 116(3) 243–64 |
| 2023 | 10.1093/nar/gkad616 | Sreedasyam, A., C. Plott, M. S. Hossain, John T. Lovell, J. Grimwood, et al. | JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom | Nucleic Acids Research | 51(16) 8383–8401 |
| 2023 | 10.1128/mbio.03001-22 | Sourice, M., I. Askenasy, P. S. Garcia, Y. Denis, G. Brasseur, P. J. Kiley, B. Py and C. Aubert | A Diverged Transcriptional Network for Usage of Two Fe-S Cluster Biogenesis Machineries in the Delta-Proteobacterium Myxococcus xanthus | mBio | 14(1) e03001-22 |
| 2023 | 10.1111/nph.18597 | Son, S., J. H. Im, J.-H. Ko, Y. Lee, S.-W. Lee and K.-H. Han | SNF1-related protein kinase 1 represses Arabidopsis growth through post-translational modification of E2Fa in response to energy stress | New Phytologist | 237(3) 823–39 |
| 2023 | 10.3390/microorganisms11112630 | Smith, M. L., K. K. Weitz, A. M. Thompson, J. K. Jansson, K. S. Hofmockel and M. S. Lipton | Real-Time and Rapid Respiratory Response of the Soil Microbiome to Moisture Shifts | Microorganisms | 11(11) 2630 |
| 2023 | 10.1039/d2np00077f | Sirirungruang, S., C. R. Barnum, S. N. Tang and P. M. Shih | Plant glycosyltransferases for expanding bioactive glycoside diversity | Natural Product Reports | 40(7) 1170–80 |
| 2023 | 10.1002/bbb.2427 | Singh, R., S. S. Bhagwat, M. B. Viswanathan, Y. R. Cortés-Peña, K. K. Eilts, G. McDonough, M. Cao, J. S. Guest, H. Zhao and V. Singh | Adsorptive separation and recovery of triacetic acid lactone from fermentation broth | Biofuels, Bioproducts and Biorefining | 17(1) 109–20 |
| 2023 | 10.1016/j.gca.2023.10.021 | Sims, K. W. W., C. M. Messa, S. R. Scott, A. D. Parsekian, A. Miller, et al. | The dynamic influence of subsurface geological processes on the assembly and diversification of thermophilic microbial communities in continental hydrothermal systems | Geochimica et Cosmochimica Acta | 362 77-103 |
| 2023 | 10.1371/journal.pbio.3001922 | Simmonds, P., E. M. Adriaenssens, F. M. Zerbini, N. G. A. Abrescia, P. Aiewsakun, et al. | Four principles to establish a universal virus taxonomy | PLOS Biology | 21(2) e3001922 |
| 2023 | 10.3389/fbioe.2023.1217811 | Simirenko, L., J.-F. Cheng and I. Blaby | gRNA-SeqRET: a universal tool for targeted and genome-scale gRNA design and sequence extraction for prokaryotes and eukaryotes | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.1111/gcb.16609 | Silverstein, M. R., D. Segrè and J. M. Bhatnagar | Environmental microbiome engineering for the mitigation of climate change | Global Change Biology | 29(8) 2050–66 |
| 2023 | 10.1073/pnas.2214076120 | Sierra-Patev, S., B. Min, M. Naranjo-Ortiz, B. Looney, Z. Konkel, et al. | A global phylogenomic analysis of the shiitake genus Lentinula | Proceedings of the National Academy of Sciences | 120(10) e2214076120 |
| 2023 | 10.1128/msystems.00315-23 | Sieradzki, E. T., E. E. Nuccio, J. Pett-Ridge and M. K. Firestone | Rhizosphere and detritusphere habitats modulate expression of soil N-cycling genes during plant development | mSystems | 8(5) e00315-23 |
| 2023 | 10.1038/s41396-023-01402-3 | Sieradzki, E. T., E. E. Nuccio, J. Pett-Ridge and M. K. Firestone | Expression of macromolecular organic nitrogen degrading enzymes identifies potential mediators of soil organic N availability to an annual grass | The ISME Journal | 17(7) 967-975 |
| 2023 | 10.1128/aem.00852-23 | Shrestha, S., D. Awasthi, Y. Chen, J. Gin, C. J. Petzold, P. D. Adams, B. A. Simmons and S. W. Singer | Simultaneous carbon catabolite repression governs sugar and aromatic co-utilization in Pseudomonas putida M2 | Applied and Environmental Microbiology | 89(10) e00852-23 |
| 2023 | 10.3390/cells12071082 | Shrestha, H., T. Yao, Z. Qiao, W. Muchero, R. L. Hettich, J.-G. Chen and P. E. Abraham | Lectin Receptor-like Kinase Signaling during Engineered Ectomycorrhiza Colonization | Cells | 12(7) 1082 |
| 2023 | 10.1186/s13059-023-03030-8 | Shi, Z. J., S. Nayfach and K. S. Pollard | Maast: genotyping thousands of microbial strains efficiently | Genome Biology | 24(1) 186 |
| 2023 | 10.1016/j.bioelechem.2023.108506 | Sheppard, T. J., D. A. Specht and B. Barstow | Upper limit efficiency estimates for electromicrobial production of drop-in jet fuels | Bioelectrochemistry | 154 108506 |
| 2023 | 10.1101/2023.03.03.531000 | Sheppard, T. J., D. A. Specht and B. Barstow | Efficiency Estimates for Electromicrobial Production of Branched-chain Hydrocarbons | bioRxiv | |
| 2023 | 10.1088/2040-8986/ace4dc | Shen, Y., Q. Zhan, L. G. Wright, D. N. Christodoulides, F. W. Wise, et al. | Roadmap on spatiotemporal light fields | Journal of Optics | 25(9) 093001 |
| 2023 | 10.1128/aem.00406-23 | Sharma, B. D., D. G. Olson, R. J. Giannone, R. L. Hettich and L. R. Lynd | Characterization and Amelioration of Filtration Difficulties Encountered in Metabolomic Studies of Clostridium thermocellum at Elevated Sugar Concentrations | Applied and Environmental Microbiology | 89(4) e00406-23 |
| 2023 | 10.1021/acssuschemeng.3c04322 | Shah, R. S., M. Senanayake, H.-H. Zhang, Y. Pu, A. K. Biswal, S. V. Pingali, B. Davison and H. O’Neill | Evidence for Lignin–Carbohydrate Complexes from Studies of Transgenic Switchgrass and a Model Lignin–Pectin Composite | ACS Sustainable Chemistry & Engineering | 11(44) 15941–50 |
| 2023 | 10.3389/fpls.2022.1125003 | Shafiei, R., M. Hooper, C. McClellan, H. Oakey, J. Stephens, C. Lapierre, Y. Tsuji, G. Goeminne, R. Vanholme, W. Boerjan, J. Ralph and C. Halpin | Downregulation of barley ferulate 5-hydroxylase dramatically alters straw lignin structure without impact on mechanical properties | Frontiers in Plant Science | 13 |
| 2023 | 10.1016/j.mib.2022.102263 | Shade, A. | Microbiome rescue: directing resilience of environmental microbial communities | Current Opinion in Microbiology | 72 102263 |
| 2023 | 10.1016/j.hal.2023.102409 | Shaalan, H., E. Cattan-Tsaushu, K. Li and S. Avrani | Sequencing the genomes of LPP-1, the first isolated cyanophage, and its relative LPP-2 reveal different integration mechanisms in closely related phages | Harmful Algae | 124 102409 |
| 2023 | 10.1038/s41586-023-06205-2 | Sha, G., P. Sun, X. Kong, X. Han, Q. Sun, et al. | Genome editing of a rice CDP-DAG synthase confers multipathogen resistance | Nature | 618(7967) 1017–23 |
| 2023 | 10.1038/s41564-022-01319-1 | Seymour, C. O., M. Palmer, E. D. Becraft, R. Stepanauskas, A. D. Friel, et al. | Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota | Nature Microbiology | 8(4) 727-744 |
| 2023 | 10.1038/s41467-023-38560-z | Session, A. M. and D. S. Rokhsar | Transposon signatures of allopolyploid genome evolution | Nature Communications | 14(1) 3180 |
| 2023 | 10.1007/s41745-023-00368-7 | Seshadri, R., N. C. Kyrpides and N. N. Ivanova | Comparative Genomics Using the Integrated Microbial Genomes and Microbiomes (IMG/M) System: A Deinococcus Use Case | Journal of the Indian Institute of Science | 103(3) 877-890 |
| 2023 | 10.1038/s41579-022-00850-6 | Serrano, K. and M. Bezrutcyzk | Genome to gut: crop engineering for human microbiomes | Nature Reviews Microbiology | 21(3) 132 |
| 2023 | 10.1002/pro.4730 | Seppälä, S., T. Gierke, E. E. Schauer, J. L. Brown and M. A. O'Malley | Identification and expression of small multidrug resistance transporters in early-branching anaerobic fungi | Protein Science | 32(9) e4730 |
| 2023 | 10.1016/j.biortech.2023.129263 | Seo, H., P. Singh, C. E. Wyman, C. M. Cai and C. T. Trinh | Rewiring metabolism of Clostridium thermocellum for consolidated bioprocessing of lignocellulosic biomass poplar to produce short-chain esters | Bioresource Technology | 384 129263 |
| 2023 | 10.1016/j.scitotenv.2022.159496 | Semedo, M. and B. Song | Sediment metagenomics reveals the impacts of poultry industry wastewater on antibiotic resistance and nitrogen cycling genes in tidal creek ecosystems | Science of The Total Environment | 857(Part 2) 159496 |
| 2023 | 10.3389/fmicb.2023.1099445 | Seidel, L., V. Sachpazidou, M. Ketzer, S. Hylander, A. Forsman and M. Dopson | Long-term warming modulates diversity, vertical structuring of microbial communities, and sulfate reduction in coastal Baltic Sea sediments | Frontiers in Microbiology | 14 |
| 2023 | 10.1038/s41396-023-01395-z | Seidel, L., E. Broman, E. Nilsson, M. Ståhle, M. Ketzer, C. Pérez-Martínez, S. Turner, S. Hylander, J. Pinhassi, A. Forsman and M. Dopson | Climate change-related warming reduces thermal sensitivity and modifies metabolic activity of coastal benthic bacterial communities | The ISME Journal | 17(6) 855-869 |
| 2023 | Sebesta, J., C. Pastore, H. Hou and J. Yu | Biocontainment of genetically modified Synechocystis sp. PCC 6803 | The 2023 Alabama State University STEM Research Symposium | ||
| 2023 | Sebesta, J., M. Cantrell, E. Schaedig, H. Hou, C. Pastore, K. Chou, W. Xiong, M. Guarnieri and J. Yu | Polyphosphate kinase deletion in Synechocystis sp. PCC6803 increases productivity in controlled conditions but decreases tolerance to a variety of stress conditions | Gorden Conference Photosynthesis | ||
| 2023 | 10.1016/j.copbio.2023.103017 | Scown, C. D., N. R. Baral, D. Tanjore and V. Rapp | Matching diverse feedstocks to conversion processes for the future bioeconomy | Current Opinion in Biotechnology | 84 103017 |
| 2023 | 10.1016/j.ymben.2023.04.003 | Schroeder, W. L., T. Kuil, A. J. A. van Maris, D. G. Olson, L. R. Lynd and C. D. Maranas | A detailed genome-scale metabolic model of Clostridium thermocellum investigates sources of pyrophosphate for driving glycolysis | Metabolic Engineering | 77 306–22 |
| 2023 | Schroeder, W., D. Olson, L. R. Lynd and C. D. Maranas | Modeling Cocultures of Clostridium Thermocellum and Thermoanaerobacterium Saccharolyticum for Lignocellulosic Ethanol Production | AIChE Annual Meeting | ||
| 2023 | 10.1016/j.envres.2023.116421 | Schreiber, L., B. Hunnie, I. Altshuler, E. Góngora, M. Ellis, C. Maynard, J. Tremblay, J. Wasserscheid, N. Fortin, K. Lee, G. Stern and C. W. Greer | Long-term biodegradation of crude oil in high-arctic backshore sediments: The Baffin Island Oil Spill (BIOS) after nearly four decades | Environmental Research | 233 116421 |
| 2023 | 10.1016/j.jbc.2023.102981 | Schmitz, J. M., J. F. Wolters, N. H. Murray, R. M. Guerra, C. A. Bingman, C. T. Hittinger and D. J. Pagliarini | Aim18p and Aim46p are chalcone isomerase domain–containing mitochondrial hemoproteins in Saccharomyces cerevisiae | Journal of Biological Chemistry | 299(3) |
| 2023 | 10.1021/acssynbio.3c00367 | Schmidt, M., N. Lee, C. Zhan, J. B. Roberts, A. A. Nava, L. S. Keiser, A. A. Vilchez, Y. Chen, C. J. Petzold, R. W. Haushalter, L. M. Blank and J. D. Keasling | Maximizing Heterologous Expression of Engineered Type I Polyketide Synthases: Investigating Codon Optimization Strategies | ACS Synthetic Biology | 12(11) 3366–80 |
| 2023 | 10.1021/jacs.3c00776 | Schmidt, A. B., I. Adelabu, C. Nelson, S. Nantogma, V. G. Kiselev, M. Zaitsev, A. Abdurraheem, H. de Maissin, M. S. Rosen, S. Lehmkuhl, S. Appelt, T. Theis and E. Y. Chekmenev | 13C Radiofrequency Amplification by Stimulated Emission of Radiation Threshold Sensing of Chemical Reactions | Journal of the American Chemical Society | 145(20) 11121–9 |
| 2023 | 10.1038/s41587-023-01690-2 | Schmid, R., S. Heuckeroth, A. Korf, A. Smirnov, O. Myers, et al. | Integrative analysis of multimodal mass spectrometry data in MZmine 3 | Nature Biotechnology | 41(4) 447-449 |
| 2023 | 10.3389/fmicb.2023.1219318 | Schaedig, E., M. Cantrell, C. Urban, X. Zhao, D. Greene, J. Dancer, M. Gross, J. Sebesta, K. J. Chou, J. Grabowy, M. Gross, K. Kumar and J. Yu | Isolation of phosphorus-hyperaccumulating microalgae from revolving algal biofilm (RAB) wastewater treatment systems | Frontiers in Microbiology | 14 |
| 2023 | 10.1007/10_2022_213 | Sattayawat, P., I. S. Yunus and P. R. Jones | Production of Fatty Acids and Derivatives Using Cyanobacteria | Cyanobacteria in Biotechnology | 183 145–69 |
| 2023 | 10.1016/j.aquaculture.2023.739933 | Saticioglu, I. B., E. E. Onuk, H. Ay, N. Ajmi, E. Demirbas and S. Altun | Phenotypic and molecular differentiation of Lactococcus garvieae and Lactococcus petauri isolated from trout | Aquaculture | 577 739933 |
| 2023 | 10.1007/s10482-022-01804-x | Saticioglu, I. B., H. Ay, S. Altun, E. Karakaya, E. S. Gunduz, D. Aydogdu, D. Yarim, N. Erkek and M. Duman | Genomic insight into Myroides oncorhynchi sp. nov., a new member of the Myroides genus, isolated from the internal organ of rainbow trout (Oncorhynchus mykiss) | Antonie van Leeuwenhoek | 116(3) 291–302 |
| 2023 | 10.1128/spectrum.00290-23 | Santos-Pascual, R., I. Campoy, D. S. Mata, M. J. Martínez, A. Prieto and J. Barriuso | Deciphering the molecular components of the quorum sensing system in the fungus Ophiostoma piceae | Microbiology Spectrum | 11(6) e00290-23 |
| 2023 | 10.1099/ijsem.0.006125 | Santos, A. R. O., K. O. Barros, T. M. Batista, G. F. L. Souza, F. B. M. Alvarenga, M. A. Abegg, T. K. Sato, C. T. Hittinger, M.-A. Lachance and C. A. Rosa | Saccharomycopsis praedatoria sp. nov., a predacious yeast isolated from soil and rotten wood in an Amazonian rainforest biome | International Journal of Systematic and Evolutionary Microbiology | 73(10) |
| 2023 | 10.1073/pnas.2306160120 | Sannino, D. R., F. A. Arroyo, C. Pepe-Ranney, W. Chen, J.-M. Volland, N. H. Elisabeth and E. R. Angert | The exceptional form and function of the giant bacterium Ca. Epulopiscium viviparus revolves around its sodium motive force | Proceedings of the National Academy of Sciences | 120(52) e2306160120 |
| 2023 | 10.3390/microorganisms11020265 | Sánchez-Hidalgo, M., M. J. García, I. González, D. Oves-Costales and O. Genilloud | Complete Genome Sequence Analysis of Kribbella sp. CA-293567 and Identification of the Kribbellichelins A & B and Sandramycin Biosynthetic Gene Clusters | Microorganisms | 11(2) 265 |
| 2023 | 10.3389/fpls.2023.1210146 | Saint-Vincent, P. M. B., A. Furches, S. Galanie, E. Teixeira Prates, J. L. Aldridge, et al. | Validation of a metabolite-GWAS network for Populus trichocarpa family 1 UDP-glycosyltransferases | Frontiers in Plant Science | 14 1210146 |
| 2023 | 10.3389/fpls.2023.1210146 | Saint-Vincent, P. M. B., A. Furches, S. Galanie, E. Teixeira Prates, J. L. Aldridge, et al. | Validation of a metabolite–GWAS network for Populus trichocarpa family 1 UDP-glycosyltransferases | Frontiers in Plant Science | 14 |
| 2023 | 10.1038/s41564-023-01448-1 | Sahu, N., B. Indic, J. Wong-Bajracharya, Z. Merényi, H.-M. Ke, et al. | Vertical and horizontal gene transfer shaped plant colonization and biomass degradation in the fungal genus Armillaria | Nature Microbiology | 8(9) 1668-1681 |
| 2023 | 10.1093/pcp/pcad106 | Sah, S. K., J. Fan, J. Blanford, J. Shanklin and C. Xu | Physiological Functions of Phospholipid:Diacylglycerol Acyltransferases | Plant and Cell Physiology | pcad106 |
| 2023 | 10.3389/fmicb.2023.1156817 | Rzoska-Smith, E., R. Stelzer, M. Monterio, S. C. Cary and A. Williamson | DNA repair enzymes of the Antarctic Dry Valley metagenome | Frontiers in Microbiology | 14 |
| 2023 | 10.3390/biom13020204 | Roux, S., M. G. Fischer, T. Hackl, L. A. Katz, F. Schulz and N. Yutin | Updated Virophage Taxonomy and Distinction from Polinton-like Viruses | Biomolecules | 13(2) 204 |
| 2023 | 10.1371/journal.pbio.3002083 | Roux, S., A. P. Camargo, F. H. Coutinho, S. M. Dabdoub, B. E. Dutilh, S. Nayfach and A. Tritt | iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria | PLOS Biology | 21(4) e3002083 |
| 2023 | 10.1038/s41396-023-01468-z | Roux, S. and J. R. Brum | Counting dots or counting reads? Complementary approaches to estimate virus-to-microbe ratios | The ISME Journal | 17(10) 1521-1522 |
| 2023 | 10.1002/fes3.348 | Roney, H. E. and B. J. Walker | Photon to plate: A holistic view of photosynthetic and anthropogenic energy fluxes | Food and Energy Security | 12(1) e348 |
| 2023 | 10.1007/s10482-023-01840-1 | Roldán, D. M. and R. J. Menes | Characterisation of ‘Candidatus Methylobacter titanis’ sp. nov., a putative novel species of Methylobacter clade 2 and their distribution in sediments of freshwater lakes in maritime Antarctica | Antonie van Leeuwenhoek | 116(7) 721–38 |
| 2023 | 10.1021/acs.analchem.3c00957 | Rodríguez, E. P., Y. Li, A. Vaniya, P. M. Shih and O. Fiehn | Alternative Identification of Glycosides Using MS/MS Matching with an In Silico-Modified Aglycone Mass Spectra Library | Analytical Chemistry | 95(28) 10618–24 |
| 2023 | 10.1039/D3VA00091E | Rodge, S. P., M. J. Dhanavade, S. C. Kajale and N. P. Patil | A polyhydroxyalkanoate synthesised by halophilic archaeon Natrialba swarupiae | Environmental Science: Advances | 2(7) 990–1000 |
| 2023 | 10.1093/g3journal/jkad159 | Robinson, D., E. Vanacloig-Pedros, R. Cai, M. Place, J. Hose and A. P. Gasch | Gene-by-environment interactions influence the fitness cost of gene copy-number variation in yeast | G3 Genes|Genomes|Genetics | 13(10) jkad159 |
| 2023 | 10.1128/MRA.00548-23 | Robertson, R., K. Conrad, B. Ahuja, M. Göker, R. L. Hahnke, A. Spunde, N. N. Ivanova, R. Seshadri and C. Stephens | Genome sequences of key bacterial symbionts of entomopathogenic nematodes: Xenorhabdus cabanillasii DSM17905, Xenorhabdus ehlersii DSM16337, Xenorhabdus japonica DSM16522, Xenorhabdus koppenhoeferii DSM18168, and Xenorhabdus mauleonii DSM17908 | Microbiology Resource Announcements | 12(10) e00548-23 |
| 2023 | 10.1002/mlf2.12080 | Robertson, G. P. | Denitrification and the challenge of scaling microsite knowledge to the globe | mLife | 2(3) 229–38 |
| 2023 | 10.1128/spectrum.02815-23 | Rivier, A. J., K. S. Myers, A. K. Garcia, M. S. Sobol and B. Kaçar | Regulatory response to a hybrid ancestral nitrogenase in Azotobacter vinelandii | Microbiology Spectrum | 11(5) e02815-23 |
| 2023 | 10.1128/spectrum.00200-23 | Riley, R., R. M. Bowers, A. P. Camargo, A. Campbell, R. Egan, et al. | Terabase-Scale Coassembly of a Tropical Soil Microbiome | Microbiology Spectrum | 11(4) e00200-23 |
| 2023 | 10.1128/jb.00338-22 | Riley, L. A., I. C. Payne, M. Tumen-Velasquez and A. M. Guss | Simple and Rapid Site-Specific Integration of Multiple Heterologous DNAs into the Escherichia coli Chromosome | Journal of Bacteriology | 205(2) e00338-22 |
| 2023 | 10.1111/mec.16704 | Riley, A. B., M. A. Grillo, B. Epstein, P. Tiffin and K. D. Heath | Discordant population structure among rhizobium divided genomes and their legume hosts | Molecular Ecology | 32(10) 2646-2659 |
| 2023 | 10.1093/gbe/evac185 | Reynolds, N. K., J. E. Stajich, G. L. Benny, K. Barry, S. Mondo, K. LaButti, A. Lipzen, C. Daum, I. V. Grigoriev, H.-M. Ho, P. W. Crous, J. W. Spatafora and M. E. Smith | Mycoparasites, Gut Dwellers, and Saprotrophs: Phylogenomic Reconstructions and Comparative Analyses of Kickxellomycotina Fungi | Genome Biology and Evolution | 15(1) |
| 2023 | 10.1016/j.jaridenv.2022.104876 | Reeve, S., B. Palmer, P. Cobb, N. Pietrasiak and D. A. Lipson | Facilitating restoration of degraded biological soil crusts using mixed culture inoculation | Journal of Arid Environments | 208 104876 |
| 2023 | 10.1021/acs.jpcb.2c07209 | Raza, S., M. Miller, B. Hamberger and J. V. Vermaas | Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations | The Journal of Physical Chemistry B | 127(5) 1144–57 |
| 2023 | 10.1128/mra.01162-22 | Rastegar, K., S. T. Kelley and V. G. Thackray | Metagenome-Assembled Genomes from Murine Fecal Microbiomes Dominated by Uncharacterized Bacteria | Microbiology Resource Announcements | 12(3) e01162-22 |
| 2023 | 10.1021/acssynbio.2c00685 | Rasor, B. J., A. S. Karim, H. S. Alper and M. C. Jewett | Cell Extracts from Bacteria and Yeast Retain Metabolic Activity after Extended Storage and Repeated Thawing | ACS Synthetic Biology | 12(3) 904-908 |
| 2023 | 10.1128/MRA.00800-23 | Rasmussen, A. N. and C. A. Francis | Pelagic metagenome-assembled genomes from an estuarine salinity gradient in San Francisco Bay | Microbiology Resource Announcements | 12(12) e00800-23 |
| 2023 | 10.1038/s41467-023-43435-4 | Ramoneda, J., T. B. N. Jensen, M. N. Price, E. O. Casamayor and N. Fierer | Taxonomic and environmental distribution of bacterial amino acid auxotrophies | Nature Communications | 14(1) 7608 |
| 2023 | 10.1038/s42003-023-04996-8 | Ramesh, A., V. Trivedi, S. Lee, A. Tafrishi, C. Schwartz, A. Mohseni, M. Li, S. Lonardi and I. Wheeldon | acCRISPR: an activity-correction method for improving the accuracy of CRISPR screens | Communications Biology | 6(1) 617 |
| 2023 | 10.1002/9781119844792.ch1 | Ralph, J., H. Kim, F. Lu, R. A. Smith, S. D. Karlen, et al. | Lignins and Lignification | Recent Advances in Polyphenol Research | 1–50 |
| 2023 | 10.1111/jfs.13084 | Quintela, I. A., D. C. Valentine, A. Hwang, T. Vasse, K.-J. Ho and V. C. H. Wu | Characterization of Shiga toxin-producing Escherichia coli bacteriophages isolated from agricultural environments and examination of their prevalence with bacterial hosts | Journal of Food Safety | 43(6) e13084 |
| 2023 | 10.1016/j.onehlt.2023.100538 | Quero, S., M. Serras-Pujol, N. Párraga-Niño, C. Torres, M. Navarro, et al. | Methicillin-resistant and methicillin-sensitive Staphylococcus aureus in pork industry workers, Catalonia, Spain | One Health | 16 100538 |
| 2023 | 10.1128/mra.00759-22 | Qiu, Y., A. J. C. Noonan, K. Dofher, M. Koch, B. Kieft, X. Lin, R. M. Ziels and S. J. Hallam | Complete Genome Sequence of Phormidium yuhuli AB48, Isolated from an Industrial Photobioreactor Environment | Microbiology Resource Announcements | 12(2) e00759-22 |
| 2023 | 10.1128/msystems.01025-23 | Qin, Y., L. Wu, Q. Zhang, C. Wen, J. D. V. Nostrand, D. Ning, L. Raskin, A. Pinto and J. Zhou | Effects of error, chimera, bias, and GC content on the accuracy of amplicon sequencing | mSystems | 8(6) e01025-23 |
| 2023 | 10.1099/ijsem.0.005623 | Proença, D. N., W. B. Whitman, N. Shapiro, T. Woyke, N. C. Kyrpides and P. V. Morais | Faunimonas pinastri gen. nov., sp. nov., an endophyte from a pine tree of the family Pleomorphomonadaceae, class Alphaproteobacteria | International Journal of Systematic and Evolutionary Microbiology | 72(12) |
| 2023 | 10.1038/s41559-022-01936-3 | Price, M. | Erroneous predictions of auxotrophies by CarveMe | Nature Ecology & Evolution | 7(2) 194–95 |
| 2023 | 10.1089/ast.2023.0072 | Prescott, R. D., Y. L. Chan, E. J. Tong, F. Bunn, C. T. Onouye, et al. | Bridging Place-Based Astrobiology Education with Genomics, Including Descriptions of Three Novel Bacterial Species Isolated from Mars Analog Sites of Cultural Relevance | Astrobiology | 23(12) 1348–67 |
| 2023 | 10.1038/s41477-023-01358-4 | Prabhakar, P. K., J. H. Pereira, R. Taujale, W. Shao, V. S. Bharadwaj, D. Chapla, J.-Y. Yang, Y. J. Bomble, K. W. Moremen, N. Kannan, M. Hammel, P. D. Adams, H. V. Scheller and B. R. Urbanowicz | Structural and biochemical insight into a modular β-1,4-galactan synthase in plants | Nature Plants | 9(3) 486–500 |
| 2023 | 10.1016/j.copbio.2022.102869 | Ploessl, D., Y. Zhao and Z. Shao | Engineering of non-model eukaryotes for bioenergy and biochemical production | Current Opinion in Biotechnology | 79 102869 |
| 2023 | 10.1093/molbev/msad045 | Plett, J. M., S. Miyauchi, E. Morin, K. Plett, J. Wong-Bajracharya, et al. | Speciation Underpinned by Unexpected Molecular Diversity in the Mycorrhizal Fungal Genus Pisolithus | Molecular Biology and Evolution | 40(3) |
| 2023 | 10.1371/journal.pbio.3002416 | Piya, D., N. Nolan, M. L. Moore, L. A. Ramirez Hernandez, B. F. Cress, R. Young, A. P. Arkin and V. K. Mutalik | Systematic and scalable genome-wide essentiality mapping to identify nonessential genes in phages | PLOS Biology | 21(12) e3002416 |
| 2023 | 10.1093/aob/mcad104 | Piatkowski, B., D. J. Weston, B. Aguero, A. Duffy, K. Imwattana, A. L. Healey, J. Schmutz and A. J. Shaw | Divergent selection and climate adaptation fuel genomic differentiation between sister species of Sphagnum (peat moss) | Annals of Botany | 132(3) 499-512 |
| 2023 | 10.1016/j.copbio.2023.102913 | Pfleger, B. F. and R. Takors | Recent progress in the synthesis of advanced biofuel and bioproducts | Current Opinion in Biotechnology | 80 102913 |
| 2023 | 10.2172/2301853 | Pett-Ridge, J., S. Kuebbing, A. C. Mayer, S. Hovorka, H. Pilorgé, et al. | Roads to Removal: Options for Carbon Dioxide Removal in the United States | 559 | |
| 2023 | 10.1016/j.agee.2023.108370 | Petit, S. and D. A. Landis | Landscape-scale management for biodiversity and ecosystem services | Agriculture, Ecosystems & Environment | 347 108370 |
| 2023 | 10.1002/saj2.20575 | Perry, S., G. Falvo, S. Mosier and G. P. Robertson | Long-term changes in soil carbon and nitrogen fractions in switchgrass, native grasses, and no-till corn bioenergy production systems | Soil Science Society of America Journal | 87(6) 1365–75 |
| 2023 | 10.1038/s41467-023-36139-2 | Peris, D., E. J. Ubbelohde, M. C. Kuang, J. Kominek, Q. K. Langdon, et al. | Macroevolutionary diversity of traits and genomes in the model yeast genus Saccharomyces | Nature Communications | 14(1) 690 |
| 2023 | 10.1128/aem.01097-23 | Peoples, L. M., J. E. Dore, E. M. Bilbrey, T. J. Vick-Majors, J. R. Ranieri, K. A. Evans, A. M. Ross, S. P. Devlin and M. J. Church | Oxic methane production from methylphosphonate in a large oligotrophic lake: limitation by substrate and organic carbon supply | Applied and Environmental Microbiology | 89(12) e01097-23 |
| 2023 | 10.1016/j.carbpol.2023.120959 | Peng, X., B. Tong, J. Lee, K. Wang, X. Yu, et al. | Overexpression of a gibberellin 20-oxidase gene in poplar xylem led to an increase in the size of nanocellulose fibrils and improved paper properties | Carbohydrate Polymers | 314 120959 |
| 2023 | 10.1128/spectrum.00373-23 | Pearson, A. N., M. G. Thompson, L. D. Kirkpatrick, C. Ho, K. M. Vuu, L. M. Waldburger, J. D. Keasling and P. M. Shih | The pGinger Family of Expression Plasmids | Microbiology Spectrum | 11(3) e00373-23 |
| 2023 | 10.1038/s41586-023-06583-7 | Pavlopoulos, G. A., F. A. Baltoumas, S. Liu, O. Selvitopi, A. P. Camargo, et al. | Unraveling the functional dark matter through global metagenomics | Nature | 622(7983) 594–602 |
| 2023 | 10.1111/1462-2920.16469 | Pavia, M. J., D. Finn, F. Macedo-Tafur, R. Tello-Espinoza, C. Penaccio, N. Bouskill and H. Cadillo-Quiroz | Genes and genome-resolved metagenomics reveal the microbial functional make up of Amazon peatlands under geochemical gradients | Environmental Microbiology | 25(11) 2388-2403 |
| 2023 | 10.1186/s40168-023-01625-8 | Pavia, M. J., A. Chede, Z. Wu, H. Cadillo-Quiroz and Q. Zhu | BinaRena: a dedicated interactive platform for human-guided exploration and binning of metagenomes | Microbiome | 11(1) 186 |
| 2023 | 10.1186/s13068-023-02400-5 | Patel, M. H., S.-Y. Lu, S. Liu and C. D. Skory | Novel endolysin LysMP for control of Limosilactobacillus fermentum contamination in small-scale corn mash fermentation | Biotechnology for Biofuels and Bioproducts | 16(1) 144 |
| 2023 | 10.1039/D2SE01741E | Pastore de Lima, A. E., R. L. Wrobel, B. Paul, L. C. Anthony, T. K. Sato, Y. Zhang, C. T. Hittinger and C. T. Maravelias | High yield co-production of isobutanol and ethanol from switchgrass: experiments, and process synthesis and analysis | Sustainable Energy & Fuels | 7(14) 3266–75 |
| 2023 | Pastore, C. | Evaluating the inability to store polyphosphate as a biocontainment strategy in genetically modified microalgae | DOE Office of Science’s Science Undergraduate Laboratory Internship Program Final Report | ||
| 2023 | 10.1002/yea.3853 | Parra, M., D. Libkind, C. T. Hittinger, L. Álvarez and N. Bellora | Assembly and comparative genome analysis of a Patagonian Aureobasidium pullulans isolate reveals unexpected intraspecific variation | Yeast | 40(45783) 197–213 |
| 2023 | 10.1111/1462-2920.16296 | Park, M.-R., R. Gauttam, B. Fong, Y. Chen, H. G. Lim, A. M. Feist, A. Mukhopadhyay, C. J. Petzold, B. A. Simmons and S. W. Singer | Revealing oxidative pentose metabolism in new Pseudomonas putida isolates | Environmental Microbiology | 25(2) 493–504 |
| 2023 | 10.1111/1462-2920.16299 | Parada, A. E., X. Mayali, P. K. Weber, J. Wollard, A. E. Santoro, J. A. Fuhrman, J. Pett-Ridge and A. E. Dekas | Constraining the composition and quantity of organic matter used by abundant marine Thaumarchaeota | Environmental Microbiology | 25(3) 689–704 |
| 2023 | 10.1038/s41467-023-39010-6 | Pang, C., J. Chai, P. Zhu, J. Shanklin and Q. Liu | Structural mechanism of intracellular autoregulation of zinc uptake in ZIP transporters | Nature Communications | 14(1) 3404 |
| 2023 | 10.1038/s41396-023-01405-0 | Palmer, M., J. K. Covington, E.-M. Zhou, S. C. Thomas, N. Habib, et al. | Thermophilic Dehalococcoidia with unusual traits shed light on an unexpected past | The ISME Journal | 17(7) 952-966 |
| 2023 | 10.1007/s00248-022-02137-y | Palmer, B., D. Lawson and D. A. Lipson | Years After a Fire, Biocrust Microbial Communities are Similar to Unburned Communities in a Coastal Grassland | Microbial Ecology | 85(3) 1028–44 |
| 2023 | 10.1111/gcbb.13074 | Pagliaro, Z., J. Burke, E. Morrissey, J. Ridgeway, V. Singh, F. Altpeter and E. R. Brzostek | Lipid-enhanced Oilcane does not impact soil carbon dynamics compared with wild-type Sugarcane | GCB Bioenergy | 15(8) 969–78 |
| 2023 | 10.1111/jpy.13325 | Otte, A., J. C. Winder, L. Deng, J. Schmutz, J. Jenkins, I. V. Grigoriev, A. Hopes and T. Mock | The diatom Fragilariopsis cylindrus: A model alga to understand cold-adapted life | Journal of Phycology | 59(2) 301-306 |
| 2023 | 10.1111/nph.18624 | Ortega, M. A., R. Zhou, M. S. S. Chen, W. P. Bewg, B. Simon and C.-J. Tsai | In vitro floral development in poplar: insights into seed trichome regulation and trimonoecy | New Phytologist | 237(4) 1078–81 |
| 2023 | 10.1002/yea.3905 | Opulente, D. A., Q. K. Langdon, M. Jarzyna, K. V. Buh, M. A. B. Haase, M. Groenewald and C. T. Hittinger | Taxogenomic analysis of a novel yeast species isolated from soil, Pichia galeolata sp. nov | Yeast | 40(12) 608–15 |
| 2023 | 10.1186/s13068-023-02379-z | Olson, D. G., M. I. Maloney, A. A. Lanahan, N. D. Cervenka, Y. Xia, A. Pech-Canul, S. Hon, L. Tian, S. J. Ziegler, Y. J. Bomble and L. R. Lynd | Ethanol tolerance in engineered strains of Clostridium thermocellum | Biotechnology for Biofuels and Bioproducts | 16(1) 137 |
| 2023 | 10.1111/1462-2920.16314 | Olmsted, C. N., R. Ort, P. Q. Tran, E. A. McDaniel, E. E. Roden, D. R. Bond, S. He and K. D. McMahon | Environmental predictors of electroactive bacterioplankton in small boreal lakes | Environmental Microbiology | 25(3) 705-720 |
| 2023 | 10.1128/mra.00359-22 | O’Toole, P., R. A. Daly, R. K. Afshar, M. Shaffer, K. C. Wrighton and B. B. McGivern | Draft Metagenome-Assembled Genome Sequence of a Novel Citricoccus Species from Agricultural Soil in Western Colorado | Microbiology Resource Announcements | 12(1) e00359-22 |
| 2023 | 10.1093/plphys/kiac580 | O’Leary, B. M., A. P. Scafaro and L. M. York | High-throughput, dynamic, multi-dimensional: an expanding repertoire of plant respiration measurements | Plant Physiology | 191(4) 2070–83 |
| 2023 | 10.1016/j.cub.2023.06.057 | O’Banion, B. S., P. Jones, A. A. Demetros, B. R. Kelley, L. H. Knoor, A. S. Wagner, J.-G. Chen, W. Muchero, T. B. Reynolds, D. Jacobson and S. L. Lebeis | Plant myo-inositol transport influences bacterial colonization phenotypes | Current Biology | 33(15) 3111-3124.e5 |
| 2023 | 10.1016/j.cub.2023.06.057 | O’Banion, B. S., P. Jones, A. A. Demetros, B. R. Kelley, L. H. Knoor, A. S. Wagner, J.-G. Chen, W. Muchero, T. B. Reynolds, D. Jacobson and S. L. Lebeis | Plant myo-inositol transport influences bacterial colonization phenotypes | Current Biology | 33(15) 3111-3124.e5 |
| 2023 | 10.1016/j.cub.2023.03.089 | Nunes, T. D. G., L. S. Berg, M. W. Slawinska, D. Zhang, L. Redt, R. Sibout, J. P. Vogel, D. Laudencia-Chingcuanco, B. Jesenofsky, H. Lindner and M. T. Raissig | Regulation of hair cell and stomatal size by a hair cell-specific peroxidase in the grass Brachypodium distachyon | Current Biology | 33(9) 1844-1854.e6 |
| 2023 | 10.1038/s41396-023-01390-4 | Nowinski, B., X. Feng, C. M. Preston, J. M. Birch, H. Luo, W. B. Whitman and M. A. Moran | Ecological divergence of syntopic marine bacterial species is shaped by gene content and expression | The ISME Journal | 17(6) 813-822 |
| 2023 | 10.1093/nar/gkad736 | Noshay, Jaclyn M., T. Walker, William G. Alexander, Dawn M. Klingeman, J. Romero, Angelica M. Walker, E. Prates, C. Eckert, S. Irle, D. Kainer and Daniel A. Jacobson | Quantum biological insights into CRISPR-Cas9 sgRNA efficiency from explainable-AI driven feature engineering | Nucleic Acids Research | 51(19) 10147–61 |
| 2023 | 10.1101/2023.07.13.548867 | Nong, D., Z. K. Haviland, N. Zexer, S. J. Pfaff, D. J. Cosgrove, M. Tien, C. T. Anderson and W. O. Hancock | Single-molecule tracking reveals dual front door/back door inhibition of Cel7A cellulase by its product cellobiose | bioRxiv | |
| 2023 | 10.1111/gcbb.13097 | Njuguna, J. N., L. V. Clark, A. E. Lipka, K. G. Anzoua, L. Bagmet, et al. | Genome-wide association and genomic prediction for yield and component traits of Miscanthus sacchariflorus | GCB Bioenergy | 15(11) 1355–72 |
| 2023 | 10.1002/tpg2.20401 | Njuguna, J. N., L. V. Clark, A. E. Lipka, K. G. Anzoua, L. Bagmet, et al. | Impact of genotype-calling methodologies on genome-wide association and genomic prediction in polyploids | The Plant Genome | 16(4) e20401 |
| 2023 | 10.1089/cmb.2022.0368 | Niu, P., M. J. Soto, S. Huang, B.-j. Yoon, E. R. Dougherty, F. J. Alexander, I. Blaby and X. Qian | Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction | Journal of Computational Biology | 30(7) 751-765 |
| 2023 | 10.1038/s41467-023-40835-4 | Nicolas, A. M., E. T. Sieradzki, J. Pett-Ridge, J. F. Banfield, M. E. Taga, M. K. Firestone and S. J. Blazewicz | A subset of viruses thrives following microbial resuscitation during rewetting of a seasonally dry California grassland soil | Nature Communications | 14(1) 5835 |
| 2023 | 10.1016/j.ymben.2023.09.013 | Nguyen, V., P. Xue, Y. Li, H. Zhao and T. Lu | Controlling circuitry underlies the growth optimization of Saccharomyces cerevisiae | Metabolic Engineering | 80 173–83 |
| 2023 | 10.1038/s41467-023-36988-x | Ngugi, D. K., S. G. Acinas, P. Sánchez, J. M. Gasol, S. Agusti, D. M. Karl and C. M. Duarte | Abiotic selection of microbial genome size in the global ocean | Nature Communications | 14(1) 1384 |
| 2023 | 10.1080/00103624.2023.2296988 | Nelson, J. T., T. A. Adjuik, E. B. Moore, A. D. VanLoocke, A. Ramirez Reyes and M. D. McDaniel | A Simple, Affordable, Do-It-Yourself Method for Measuring Soil Maximum Water Holding Capacity | Communications in Soil Science and Plant Analysis | 1–15 |
| 2023 | 10.3389/frmbi.2023.1078024 | Naylor, D., K. Naasko, M. Smith, S. Couvillion, C. Nicora, J. Trejo, S. Fransen, R. Danczak, R. McClure, K. S. Hofmockel and J. K. Jansson | Interactive effects of depth and differential irrigation on soil microbiome composition and functioning | Frontiers in Microbiomes | 2 |
| 2023 | 10.1021/acssynbio.3c00282 | Nava, A. A., J. Roberts, R. W. Haushalter, Z. Wang and J. D. Keasling | Module-Based Polyketide Synthase Engineering for de Novo Polyketide Biosynthesis | ACS Synthetic Biology | 12(11) 3148–55 |
| 2023 | 10.1021/acssynbio.3c00292 | Nava, A. A., A. L. Fear, N. Lee, P. Mellinger, G. Lan, et al. | Automated Platform for the Plasmid Construction Process | ACS Synthetic Biology | 12(12) 3506-3513 |
| 2023 | 10.1016/j.soilbio.2023.108962 | Naughton, H. R., B. B. Tolar, C. Dewey, M. Keiluweit, P. S. Nico and S. Fendorf | Reactive iron, not fungal community, drives organic carbon oxidation potential in floodplain soils | Soil Biology and Biochemistry | 178 108962 |
| 2023 | 10.1038/s41467-023-38072-w | Nattermann, M., S. Wenk, P. Pfister, H. He, S. H. Lee, et al. | Engineering a new-to-nature cascade for phosphate-dependent formate to formaldehyde conversion in vitro and in vivo | Nature Communications | 14(1) 2682 |
| 2023 | 10.1371/journal.pcbi.1011563 | Nambiar, A., V. Dubinkina, S. Liu and S. Maslov | FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi | PLOS Computational Biology | 19(11) e1011563 |
| 2023 | 10.1093/molbev/msad111 | Nalabothu, R. L., K. J. Fisher, A. L. LaBella, T. A. Meyer, D. A. Opulente, J. F. Wolters, A. Rokas and C. T. Hittinger | Codon Optimization Improves the Prediction of Xylose Metabolism from Gene Content in Budding Yeasts | Molecular Biology and Evolution | 40(6) |
| 2023 | 10.1093/hr/uhad125 | Nagle, M. F., J. Yuan, D. Kaur, C. Ma, E. Peremyslova, Y. Jiang, B. Zahl, A. Niño de Rivera, W. Muchero, L. Fuxin and S. H. Strauss | GWAS identifies candidate genes controlling adventitious rooting in Populus trichocarpa | Horticulture Research | 10(8) uhad125 |
| 2023 | 10.1128/mbio.01758-23 | Naasko, K. I., D. Naylor, E. B. Graham, S. P. Couvillion, R. Danczak, N. Tolic, C. Nicora, S. Fransen, H. Tao, K. S. Hofmockel and J. K. Jansson | Influence of soil depth, irrigation, and plant genotype on the soil microbiome, metaphenome, and carbon chemistry | mBio | 14(5) e01758-23 |
| 2023 | 10.3389/fbioe.2023.1197175 | Myers, K. S., A. T. Ingle, K. A. Walters, N. W. Fortney, M. J. Scarborough, T. J. Donohue and D. R. Noguera | Comparison of metagenomes from fermentation of various agroindustrial residues suggests a common model of community organization | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.1073/pnas.2216543120 | Muro-Villanueva, F., L. D. Pysh, H. Kim, T. Bouse, J. Ralph, Z. Luo, B. R. Cooper, A. S. Jannasch, Z. Zhang, C. Gu and C. Chapple | Pinoresinol rescues developmental phenotypes of Arabidopsis phenylpropanoid mutants overexpressing FERULATE 5-HYDROXYLASE | Proceedings of the National Academy of Sciences | 120(31) e2216543120 |
| 2023 | 10.1371/journal.pbio.3002292 | Murali, R., H. Yu, D. R. Speth, F. Wu, K. S. Metcalfe, A. Crémière, R. Laso-Pèrez, R. R. Malmstrom, D. Goudeau, T. Woyke, R. Hatzenpichler, G. L. Chadwick, S. A. Connon and V. J. Orphan | Physiological potential and evolutionary trajectories of syntrophic sulfate-reducing bacterial partners of anaerobic methanotrophic archaea | PLOS Biology | 21(9) e3002292 |
| 2023 | 10.1128/mra.00145-23 | Mulay, S. A., W. G. Alexander, C. R. Hahn, D. M. Klingeman, M. S. Elshahed, N. H. Youssef and M. Podar | Complete Genome Sequence of Desulfomicrobium sp. Strain ZS1 from Zodletone Spring in Oklahoma, USA | Microbiology Resource Announcements | 12(5) e00145-23 |
| 2023 | 10.7717/peerj.15754 | Mula-Michel, H., P. White and A. Hale | Immediate impacts of soybean cover crop on bacterial community composition and diversity in soil under long-term Saccharum monoculture | PeerJ | 11 e15754 |
| 2023 | 10.1007/s41745-023-00365-w | Mukherjee, S., K. Palaniappan, R. Seshadri, K. Chu, A. Ratner, et al. | Bioinformatics Analysis Tools for Studying Microbiomes at the DOE Joint Genome Institute | Journal of the Indian Institute of Science | 103(3) 857-875 |
| 2023 | 10.1093/database/baad001 | Mukherjee, S., G. Ovchinnikova, D. Stamatis, C. T. Li, I.-M. A. Chen, N. C. Kyrpides and T. B. K. Reddy | Standardized naming of microbiome samples in Genomes OnLine Database | Database | 2023 |
| 2023 | 10.1111/nph.18518 | Mottiar, Y., R. A. Smith, S. D. Karlen, J. Ralph and S. D. Mansfield | Evolution of p-coumaroylated lignin in eudicots provides new tools for cell wall engineering | New Phytologist | 237(1) 251–64 |
| 2023 | 10.1111/pbi.13935 | Mottiar, Y., S. D. Karlen, R. E. Goacher, J. Ralph and S. D. Mansfield | Metabolic engineering of p-hydroxybenzoate in poplar lignin | Plant Biotechnology Journal | 21(1) 176–88 |
| 2023 | 10.1002/cpz1.671 | Morgan-Lang, C. and S. J. Hallam | A Guide to Gene-Centric Analysis Using TreeSAPP | Current Protocols | 3(2) e671 |
| 2023 | 10.3791/65602 | Morgan, J. M., J. Jelenska, D. K. Hensley, P. Li, B. R. Srijanto, S. T. Retterer, R. F. Standaert, J. L. Morrell-Falvey and J. T. Greenberg | Using Vertically Aligned Carbon Nanofiber Arrays on Rigid or Flexible Substrates for Delivery of Biomolecules and Dyes to Plants | Journal of Visualized Experiments | 197(197) e65602 |
| 2023 | 10.1038/s41598-023-48788-w | Montso, P. K., A. M. Kropinski, F. Mokoena, R. E. Pierneef, V. Mlambo and C. N. Ateba | Comparative genomics and proteomics analysis of phages infecting multi-drug resistant Escherichia coli O177 isolated from cattle faeces | Scientific Reports | 13(1) 21426 |
| 2023 | 10.3390/horticulturae9090964 | Montoya-Martínez, A. C., K. M. Figueroa-Brambila, A. Escalante-Beltrán, N. D. López-Montoya, V. Valenzuela-Ruíz, F. I. Parra-Cota, M. I. Estrada Alvarado and S. de los Santos-Villalobos | Biological Control Mechanisms of Bacillus cabrialesii subsp. tritici TSO2T against Fusarium languescens, the Causal Agent of Wilt in Jalapeño Peppers | Horticulturae | 9(9) 964 |
| 2023 | 10.1126/science.adl1198 | Mohnen, D. | A signaling peptide locks pollen tube walls | Science | 382(6671) 648–49 |
| 2023 | 10.1021/acssuschemeng.3c00624 | Mohan, M., M. D. Smith, O. N. Demerdash, B. A. Simmons, S. Singh, M. K. Kidder and J. C. Smith | Quantum Chemistry-Driven Machine Learning Approach for the Prediction of the Surface Tension and Speed of Sound in Ionic Liquids | ACS Sustainable Chemistry & Engineering | 11(20) 7809–21 |
| 2023 | 10.1063/5.0147052 | Mohan, M., M. D. Smith, O. Demerdash, M. K. Kidder and J. C. Smith | Predictive understanding of the surface tension and velocity of sound in ionic liquids using machine learning | The Journal of Chemical Physics | 158(21) 214502 |
| 2023 | 10.1038/s41598-022-25372-2 | Mohan, M., B. A. Simmons, K. L. Sale and S. Singh | Multiscale molecular simulations for the solvation of lignin in ionic liquids | Scientific Reports | 13(1) 271 |
| 2023 | 10.1039/D2GC04425K | Mohan, M., O. Demerdash, B. A. Simmons, J. C. Smith, M. K. Kidder and S. Singh | Accurate prediction of carbon dioxide capture by deep eutectic solvents using quantum chemistry and a neural network | Green Chemistry | 25(9) 3475–92 |
| 2023 | 10.1002/lol2.10171 | Mobilian, C., N. I. Wisnoski, J. T. Lennon, M. Alber, S. Widney and C. B. Craft | Differential effects of press vs. pulse seawater intrusion on microbial communities of a tidal freshwater marsh | Limnology and Oceanography Letters | 8(1) 154-161 |
| 2023 | 10.1007/s00792-023-01316-0 | Miyazaki, U., M. Sanari, A. Tame, M. Kitajima, A. Okamoto, S. Sawayama, J. Miyazaki, K. Takai and S. Nakagawa | Pyrofollis japonicus gen. nov. sp. nov., a novel member of the family Pyrodictiaceae isolated from the Iheya North hydrothermal field | Extremophiles | 27(3) 28 |
| 2023 | 10.3390/jof9101029 | Min, B., S. Ahrendt, A. Lipzen, C. E. Toapanta, R. A. Blanchette, D. Cullen, D. S. Hibbett and I. V. Grigoriev | Transcriptomics of Temporal- versus Substrate-Specific Wood Decay in the Brown-Rot Fungus Fibroporia radiculosa | Journal of Fungi | 9(10) 1029 |
| 2023 | 10.1038/s41396-023-01528-4 | Michalik, A., E. Bauer, T. Szklarzewicz and M. Kaltenpoth | Nutrient supplementation by genome-eroded Burkholderia symbionts of scale insects | The ISME Journal | 17(12) 2221–31 |
| 2023 | 10.1101/2023.01.04.522767 | Meyer, C. T., G. K. Lynch, D. F. Stamo, E. J. Miller, A. Chatterjee and J. M. Kralj | High Throughput Viability Assay for Microbiology | bioRxiv | |
| 2023 | 10.1128/mmbr.00024-22 | Mesquita, C. P. B. d., D. Wu and S. G. Tringe | Methyl-Based Methanogenesis: an Ecological and Genomic Review | Microbiology and Molecular Biology Reviews | 87(1) e00024-22 |
| 2023 | 10.1016/j.biortech.2022.128280 | Meng, X., Y. Wang, A. J. Conte, S. Zhang, J. Ryu, J. J. Wie, Y. Pu, B. H. Davison, C. G. Yoo and A. J. Ragauskas | Applications of biomass-derived solvents in biomass pretreatment – Strategies, challenges, and prospects | Bioresource Technology | 368 128280 |
| 2023 | 10.1117/12.2663941 | Meier, K., D. Ryan, D. Thompson, R. Newell, R. H. Sandoval and J. Werner | Quantum ghost imaging for non-destructive plant imaging using highly non-degenerate spontaneous parametric downconversion | SPIE Proceedings | 12447 |
| 2023 | 10.1128/MRA.00484-23 | Mechan-Llontop, M. E., J. Mullet and A. Shade | Genome-sequenced bacterial collection from sorghum epicuticular wax | Microbiology Resource Announcements | 12(12) e00484-23 |
| 2023 | 10.1128/MRA.00468-23 | Mechan-Llontop, M. E., J. Mullet and A. Shade | Genome-sequenced bacterial collection from sorghum aerial root mucilage | Microbiology Resource Announcements | 12(12) e00468-23 |
| 2023 | 10.1094/Pbiomes-08-22-0046-Fi | Mechan-Llontop, M. E., J. Mullet and A. Shade | Phyllosphere Exudates Select for Distinct Microbiome Members in Sorghum Epicuticular Wax and Aerial Root Mucilage | Phytobiomes Journal | 7(2) 184–97 |
| 2023 | 10.1111/mpp.13361 | McRae, A. G., J. Taneja, K. Yee, X. Shi, S. Haridas, K. LaButti, V. Singan, I. V. Grigoriev and M. C. Wildermuth | Spray-induced gene silencing to identify powdery mildew gene targets and processes for powdery mildew control | Molecular Plant Pathology | 24(9) 1168-1183 |
| 2023 | 10.1016/j.ymben.2023.02.006 | McNaught, K. J., E. Kuatsjah, M. Zahn, É. T. Prates, H. Shao, et al. | Initiation of fatty acid biosynthesis in Pseudomonas putida KT2440 | Metabolic Engineering | 76 193–203 |
| 2023 | 10.1038/s41467-023-37164-x | McLaughlin, S., K. Zhalnina, S. Kosina, T. R. Northen and J. Sasse | The core metabolome and root exudation dynamics of three phylogenetically distinct plant species | Nature Communications | 14(1) 1649 |
| 2023 | 10.1111/1462-2920.16387 | McGuire, P. M., N. Butkevich, A. V. Saksena, M. T. Walter, J. P. Shapleigh and M. C. Reid | Oxic–anoxic cycling promotes coupling between complex carbon metabolism and denitrification in woodchip bioreactors | Environmental Microbiology | 25(9) 1696–1712 |
| 2023 | 10.1002/eap.2784 | McDaniel, M. D., J. A. Bird, J. Pett-Ridge, E. Marin-Spiotta, T. M. Schmidt and A. S. Grandy | Diversifying and perennializing plants in agroecosystems alters retention of new C and N from crop residues | Ecological Applications | 33(2) e2784 |
| 2023 | 10.3389/fmicb.2022.1046661 | McClure, R., M. Garcia, S. Couvillion, Y. Farris and K. S. Hofmockel | Removal of primary nutrient degraders reduces growth of soil microbial communities with genomic redundancy | Frontiers in Microbiology | 13 |
| 2023 | 10.3390/microorganisms11010199 | Mazoyon, C., B. Hirel, A. Pecourt, M. Catterou, L. Gutierrez, V. Sarazin, F. Dubois and J. Duclercq | Sphingomonas sediminicola Is an Endosymbiotic Bacterium Able to Induce the Formation of Root Nodules in Pea (Pisum sativum L.) and to Enhance Plant Biomass Production | Microorganisms | 11(1) 199 |
| 2023 | 10.1038/s41467-023-41179-9 | Mayali, X., T. J. Samo, J. A. Kimbrel, M. M. Morris, K. Rolison, C. Swink, C. Ramon, Y.-M. Kim, N. Munoz-Munoz, C. Nicora, S. Purvine, M. Lipton, R. K. Stuart and P. K. Weber | Single-cell isotope tracing reveals functional guilds of bacteria associated with the diatom Phaeodactylum tricornutum | Nature Communications | 14(1) 5642 |
| 2023 | 10.1002/tpg2.20298 | May, D., K. Paldi and F. Altpeter | Targeted mutagenesis with sequence-specific nucleases for accelerated improvement of polyploid crops: Progress, challenges, and prospects | The Plant Genome | 16(2) e20298 |
| 2023 | 10.1111/pce.14507 | Mattoon, E. M., W. E. McHargue, C. E. Bailey, N. Zhang, C. Chen, J. Eckhardt, C. G. Daum, M. Zane, C. Pennacchio, J. Schmutz, R. C. O'Malley, J. Cheng and R. Zhang | High-throughput identification of novel heat tolerance genes via genome-wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii | Plant, Cell & Environment | 46(3) 865-888 |
| 2023 | 10.1093/femsec/fiad120 | Mason, C. N., S. Shahar, K. K. Beals, S. T. Kelley, D. A. Lipson, W. D. Swingley and N. A. Barber | Taxonomic and functional restoration of tallgrass prairie soil microbial communities in comparison to remnant and agricultural soils | FEMS Microbiology Ecology | 99(11) |
| 2023 | 10.1128/MRA.00583-23 | Martínez-López, N. A., B. A. Peña-Ocaña, R. García-Contreras, T. Maeda, R. Rincón-Rosales, A. Cazares, Y. Hoshiko and V. M. Ruíz-Valdiviezo | Complete genome sequence of Paenibacillus sp. VCA1 isolated from crater lake of the El Chichón Volcano | Microbiology Resource Announcements | 12(11) e00583-23 |
| 2023 | 10.1016/j.copbio.2022.102881 | Martin, H. G., T. Radivojevic, J. Zucker, K. Bouchard, J. Sustarich, et al. | Perspectives for self-driving labs in synthetic biology | Current Opinion in Biotechnology | 79 102881 |
| 2023 | 10.3389/fmicb.2023.1286626 | Marshall, B., K. Amritkar, M. Wolfe, B. Kaçar and R. Landick | Evolutionary flexibility and rigidity in the bacterial methylerythritol phosphate (MEP) pathway | Frontiers in Microbiology | 14 |
| 2023 | 10.1128/mra.01237-22 | Mamphogoro, T. P., C. N. Kamutando, M. M. Maboko, O. O. Babalola and O. A. Aiyegoro | Genome Assembly of a Putative Plant Growth-Stimulating Bacterial Sweet Pepper Fruit Isolate, Enterobacter hormaechei SRU4.4 | Microbiology Resource Announcements | 12(2) e01237-22 |
| 2023 | 10.1038/s41579-023-00981-4 | Malmstrom, R. R. | Quality MAGnified | Nature Reviews Microbiology | 21(12) 771 |
| 2023 | 10.1128/MRA.00757-23 | Makhetha, L. L. N., K. Ntushelo, B. G. Mokolopi, J. W. Oguttu, C. A. Mbajiorgu, G. Makete and T. P. Mamphogoro | Draft genome assemblies of 12 Enterobacter hormaechei strains isolated from the North West province of South Africa | Microbiology Resource Announcements | 12(11) e00757-23 |
| 2023 | 10.1128/mra.01245-22 | Makete, G. and T. P. Mamphogoro | Draft Genome Sequence of Lactiplantibacillus plantarum Strain ISO1, a Potential Probiotic Bacterium Isolated from the Milk of South African Saanen Goats | Microbiology Resource Announcements | 12(2) e01245-22 |
| 2023 | 10.1002/jaa2.52 | Majeed, F., M. Khanna, R. Miao, E. Blanc-Betes, T. Hudiburg and E. DeLucia | Carbon mitigation payments can reduce the riskiness of bioenergy crop production | Journal of the Agricultural and Applied Economics Association | 2(2) 181–97 |
| 2023 | 10.1089/ind.2022.0039 | Maitra, S. and V. Singh | Application of Time-Domain 1H NMR for Investigating Dynamics of Vegetative Lipids in Bioenergy Crops at Different Developmental Stages | Industrial Biotechnology | 19(2) 86–93 |
| 2023 | 10.1111/nph.18773 | Maillard, F., A. Kohler, E. Morin, C. Hossann, S. Miyauchi, et al. | Functional genomics gives new insights into the ectomycorrhizal degradation of chitin | New Phytologist | 238(2) 845-858 |
| 2023 | 10.1111/tpj.16160 | Mahood, E. H., A. A. Bennett, K. Komatsu, L. H. Kruse, V. Lau, M. Rahmati Ishka, Y. Jiang, A. Bravo, K. Louie, B. P. Bowen, M. J. Harrison, N. J. Provart, O. K. Vatamaniuk and G. D. Moghe | Information theory and machine learning illuminate large-scale metabolomic responses of Brachypodium distachyon to environmental change | The Plant Journal | 114(3) 463-481 |
| 2023 | 10.1016/j.dib.2023.109660 | Magome, T. G., T. Ramatla, P. Mokgokong, O. Thekisoe and K. E. Lekota | The draft genome and pan-genome structure of Paraclostridium bifermentans strain T2 isolated from sheep faeces | Data in Brief | 51 109660 |
| 2023 | 10.1007/s00792-023-01304-4 | Madigan, M. T., K. S. Bender, S. A. Sanguedolce, M. N. Parenteau, M. H. Mayer, Y. Kimura, Z.-Y. Wang-Otomo and W. M. Sattley | Genomic basis for the unique phenotype of the alkaliphilic purple nonsulfur bacterium Rhodobaca bogoriensis | Extremophiles | 27(2) 19 |
| 2023 | 10.1016/j.jmro.2023.100129 | MacCulloch, K., A. Browning, D. O. Guarin Bedoya, S. J. McBride, M. B. Abdulmojeed, C. Dedesma, B. M. Goodson, M. S. Rosen, E. Y. Chekmenev, Y.-F. Yen, P. TomHon and T. Theis | Facile hyperpolarization chemistry for molecular imaging and metabolic tracking of [1–13C]pyruvate in vivo | Journal of Magnetic Resonance Open | 16-17 100129 |
| 2023 | 10.1038/s43705-023-00225-9 | Lynes, M. M., V. Krukenberg, Z. J. Jay, A. J. Kohtz, C. A. Gobrogge, R. L. Spietz and R. Hatzenpichler | Diversity and function of methyl-coenzyme M reductase-encoding archaea in Yellowstone hot springs revealed by metagenomics and mesocosm experiments | ISME Communications | 3(1) |
| 2023 | 10.1007/s11104-023-06301-2 | Lynch, J. P., T. Galindo-Castañeda, H. M. Schneider, J. S. Sidhu, H. Rangarajan and L. M. York | Root phenotypes for improved nitrogen capture | Plant and Soil | |
| 2023 | 10.1111/nph.19159 | Lucas, M., J. P. Santiago, J. Chen, A. Guber and A. Kravchenko | The soil pore structure encountered by roots affects plant-derived carbon inputs and fate | New Phytologist | 240(2) 515–28 |
| 2023 | 10.1007/s00374-023-01761-1 | Lucas, M., J. Gil, G. P. Robertson, N. E. Ostrom and A. Kravchenko | Changes in soil pore structure generated by the root systems of maize, sorghum and switchgrass affect in situ N2O emissions and bacterial denitrification | Biology and Fertility of Soils | |
| 2023 | 10.1128/MRA.00582-23 | Losey, N. A., W. W. Kuhne, P. Lin and D. I. Kaplan | Draft genomes of two rhizosphere associated bacterial isolates from Tims Branch, a heavy metal contaminated wetland | Microbiology Resource Announcements | 12(12) e00582-23 |
| 2023 | 10.1093/jimb/kuad040 | Lopes, D. D., B. S. Dien, R. E. Hector, V. Singh, S. R. Thompson, P. J. Slininger, K. Boundy-Mills, S. S. Jagtap and C. V. Rao | Determining mating type and ploidy in Rhodotorula toruloides and its effect on growth on sugars from lignocellulosic biomass | Journal of Industrial Microbiology and Biotechnology | 50(1) kuad040 |
| 2023 | 10.1038/s42003-023-05299-8 | Longley, R., A. Robinson, J. A. Liber, A. E. Bryson, D. P. Morales, et al. | Comparative genomics of Mollicutes-related endobacteria supports a late invasion into Mucoromycota fungi | Communications Biology | 6(1) 948 |
| 2023 | 10.1016/j.scitotenv.2022.158863 | Loiola, M., A. E. T. Silva, M. Krull, F. A. Barbosa, E. H. Galvão, V. F. Patire, I. C. S. Cruz, F. Barros, V. Hatje and P. M. Meirelles | Mangrove microbial community recovery and their role in early stages of forest recolonization within shrimp ponds | Science of The Total Environment | 855 158863 |
| 2023 | 10.1093/plphys/kiad076 | Liu, Y., G. Yuan, B. Hyden, G. A. Tuskan, P. E. Abraham and X. Yang | Expanding the application of anti-CRISPR proteins in plants for tunable genome editing | Plant Physiology | 192(1) 60–4 |
| 2023 | 10.1093/jxb/erad267 | Liu, X., D. P. Wickland, Z. Lin, Q. Liu, L. B. Dos Santos, K. A. Hudson and M. E. Hudson | Promoter deletion in the soybean Compact mutant leads to overexpression of a gene with homology to the C20-gibberellin 2-oxidase family | Journal of Experimental Botany | 74(17) 5153–65 |
| 2023 | 10.1128/spectrum.04247-22 | Liu, X., L. Lyu, J. Li, B. Sen, M. Bai, J. E. Stajich, J. L. Collier and G. Wang | Comparative Genomic Analyses of Cellulolytic Machinery Reveal Two Nutritional Strategies of Marine Labyrinthulomycetes Protists | Microbiology Spectrum | 11(2) e04247-22 |
| 2023 | 10.1038/s41592-023-01868-1 | Liu, L., Y. Huang and H. H. Wang | Fast and efficient template-mediated synthesis of genetic variants | Nature Methods | 20(6) 841–48 |
| 2023 | 10.17912/micropub.biology.000718 | Liu, L., R. U. Ansari, M. Vang-Smith, C. T. Hittinger and T. K. Sato | A role for ion homeostasis in yeast ionic liquid tolerance | MicroPublication Biology | 2023 |
| 2023 | 10.1016/j.ymben.2023.05.001 | Liu, D., H. J. Hwang, P. B. Otoupal, G. M. Geiselman, J. Kim, et al. | Engineering Rhodosporidium toruloides for production of 3-hydroxypropionic acid from lignocellulosic hydrolysate | Metabolic Engineering | 78 72–83 |
| 2023 | 10.1016/j.cub.2023.10.053 | Liu, A. K., B. Kaeser, L. Chen, J. West-Roberts, L. J. Taylor-Kearney, A. Lavy, D. Günzing, W.-J. Li, M. Hammel, E. Nogales, J. F. Banfield and P. M. Shih | Deep-branching evolutionary intermediates reveal structural origins of form I rubisco | Current Biology | 33(24) 5316-5325.e3 |
| 2023 | 10.3389/fmars.2022.1067482 | Lim, S. J., L. R. Thompson and K. D. Goodwin | Genetic features of the marine polychaete Sirsoe methanicola from metagenomic data | Frontiers in Marine Science | 9 |
| 2023 | 10.1038/s41467-023-41424-1 | Lim, J. J., C. Diener, J. Wilson, J. J. Valenzuela, N. S. Baliga and S. M. Gibbons | Growth phase estimation for abundant bacterial populations sampled longitudinally from human stool metagenomes | Nature Communications | 14(1) 5682 |
| 2023 | 10.1016/j.pep.2023.106323 | Lillington, S. P., M. Hamilton, J.-F. Cheng, Y. Yoshikuni and M. A. O'Malley | Expression and characterization of spore coat CotH kinases from the cellulosomes of anaerobic fungi (Neocallimastigomycetes) | Protein Expression and Purification | 210 106323 |
| 2023 | 10.1016/j.pep.2023.106323 | Lillington, S. P., M. Hamilton, J.-F. Cheng, Y. Yoshikuni and M. A. O'Malley | Expression and characterization of spore coat CotH kinases from the cellulosomes of anaerobic fungi (Neocallimastigomycetes) | Protein Expression and Purification | 210 106323 |
| 2023 | 10.1111/pbi.13943 | Liang, Y., X.-H. Yu, S. Anaokar, H. Shi, W. B. Dahl, et al. | Engineering triacylglycerol accumulation in duckweed (Lemna japonica) | Plant Biotechnology Journal | 21(2) 317–30 |
| 2023 | 10.1039/D3RA01546G | Li, Y., X. Meng, R. Meng, T. Cai, Y. Pu, Z.-M. Zhao and A. J. Ragauskas | Valorization of homogeneous linear catechyl lignin: opportunities and challenges | RSC Advances | 13(19) 12750–9 |
| 2023 | 10.1021/acssynbio.3c00178 | Li, Y., P. Lin, X. Lu, H. Yan, H. Wei, C. Liu, X. Liu, Y. Yang, I. Molnár and Z. Bai | Plasmid Copy Number Engineering Accelerates Fungal Polyketide Discovery upon Unnatural Polyketide Biosynthesis | ACS Synthetic Biology | 12(8) 2226-2235 |
| 2023 | 10.1021/acssuschemeng.2c07139 | Li, Y., G. A. Kontos, D. V. Cabrera, N. M. Avila, T. W. Parkinson, M. B. Viswanathan, V. Singh, F. Altpeter, R. A. Labatut and J. S. Guest | Design of a High-Rate Wastewater Treatment Process for Energy and Water Recovery at Biorefineries | ACS Sustainable Chemistry & Engineering | 11(9) 3861–72 |
| 2023 | 10.1038/s42003-023-05290-3 | Li, X., M.-Y. Chou, G. M. Bonito and R. L. Last | Anti-fungal bioactive terpenoids in the bioenergy crop switchgrass (Panicum virgatum) may contribute to ecotype-specific microbiome composition | Communications Biology | 6(1) 917 |
| 2023 | 10.1073/pnas.2313591120 | Li, S., A. D. B. Leakey, C. A. Moller, C. M. Montes, E. J. Sacks, D. Lee and E. A. Ainsworth | Similar photosynthetic but different yield responses of C3 and C4 crops to elevated O3 | Proceedings of the National Academy of Sciences | 120(46) e2313591120 |
| 2023 | 10.1039/D3GC00271C | Li, R., Y. Zheng, X. Zhao, Q. Yong, X. Meng, A. Ragauskas and C. Huang | Recent advances in biomass pretreatment using biphasic solvent systems | Green Chemistry | 25(7) 2505–23 |
| 2023 | 10.1038/s41467-023-38096-2 | Li, M., T. Yao, W. Lin, W. E. Hinckley, M. Galli, W. Muchero, A. Gallavotti, J.-G. Chen and S.-s. C. Huang | Double DAP-seq uncovered synergistic DNA binding of interacting bZIP transcription factors | Nature Communications | 14(1) 2600 |
| 2023 | 10.1038/s41557-023-01368-x | Li, M., W. Harrison, Z. Zhang, Y. Yuan and H. Zhao | Remote stereocontrol with azaarenes via enzymatic hydrogen atom transfer | Nature Chemistry | |
| 2023 | 10.3390/jof9080860 | Li, J., A. Wiebenga, A. Lipzen, V. Ng, S. Tejomurthula, Y. Zhang, I. V. Grigoriev, M. Peng and R. P. de Vries | Comparative Genomics and Transcriptomics Analyses Reveal Divergent Plant Biomass-Degrading Strategies in Fungi | Journal of Fungi | 9(8) 860 |
| 2023 | 10.1126/sciadv.adg1258 | Li, H., X. Kang, M. Yang, B. D. Kasseney, X. Zhou, et al. | Molecular insights into the evolution of woody plant decay in the gut of termites | Science Advances | 9(21) eadg1258 |
| 2023 | 10.1016/j.xplc.2023.100594 | Li, C., W. Huang, X. Han, G. Zhao, W. Zhang, et al. | Diel dynamics of multi-omics in elkhorn fern provide new insights into weak CAM photosynthesis | Plant Communications | 4(5) 100594 |
| 2023 | 10.1093/g3journal/jkad245 | Lei, L., S. P. Gordon, L. Liu, N. Sade, J. T. Lovell, et al. | The reference genome and abiotic stress responses of the model perennial grass Brachypodium sylvaticum | G3 Genes|Genomes|Genetics | 14(1) |
| 2023 | 10.1111/gcbb.13098 | Lei, C., J. Chen and G. P. Robertson | Climate cooling benefits of cellulosic bioenergy crops from elevated albedo | GCB Bioenergy | 15(11) 1373–86 |
| 2023 | 10.1093/erae/jbad036 | Lee, Y., M. Khanna, L. Chen, R. Shi, J. Guest, E. Blanc-Betes, C. Jiang, K. Guan, T. Hudiburg and E. H. De Lucia | Quantifying uncertainties in greenhouse gas savings and abatement costs with cellulosic biofuels | European Review of Agricultural Economics | 50(5) 1659–84 |
| 2023 | 10.1021/acscatal.3c02373 | Lee, S. H., A. Chou, M. Nattermann, F. Zhu, J. M. Clomburg, N. Paczia, T. J. Erb and R. Gonzalez | Identification of 2-Hydroxyacyl-CoA Synthases with High Acyloin Condensation Activity for Orthogonal One-Carbon Bioconversion | ACS Catalysis | 13(18) 12007-12020 |
| 2023 | 10.1016/j.cej.2022.138886 | Lee, J. W., S. S. Bhagwat, N. Kuanyshev, Y. B. Cho, L. Sun, Y.-G. Lee, Y. R. Cortés-Peña, Y. Li, C. V. Rao, J. S. Guest and Y.-S. Jin | Rewiring yeast metabolism for producing 2,3-butanediol and two downstream applications: Techno-economic analysis and life cycle assessment of methyl ethyl ketone (MEK) and agricultural biostimulant production | Chemical Engineering Journal | 451 138886 |
| 2023 | 10.1016/j.geoderma.2023.116675 | Lee, J. H., M. Lucas, A. K. Guber, X. Li and A. N. Kravchenko | Interactions among soil texture, pore structure, and labile carbon influence soil carbon gains | Geoderma | 439 116675 |
| 2023 | 10.1186/s13007-023-01022-0 | Lee, J. H., L. H. Burdick, B. Piatkowski, A. A. Carrell, M. J. Doktycz, D. A. Pelletier and D. J. Weston | A rapid assay for assessing bacterial effects on Arabidopsis thermotolerance | Plant Methods | 19(1) 63 |
| 2023 | 10.7554/eLife.86030 | Lee, H. N., J. V. Chacko, A. Gonzalez Solís, K.-E. Chen, J. A. S. Barros, S. Signorelli, A. H. Millar, R. D. Vierstra, K. W. Eliceiri and M. S. Otegui | The autophagy receptor NBR1 directs the clearance of photodamaged chloroplasts | eLife | 12 e86030 |
| 2023 | 10.1016/j.cell.2022.12.039 | Lee, B. D., U. Neri, S. Roux, Y. I. Wolf, A. P. Camargo, M. Krupovic, P. Simmonds, N. Kyrpides, U. Gophna, V. V. Dolja and E. V. Koonin | Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs | Cell | 186(3) 646-661.e4 |
| 2023 | 10.1016/j.biocon.2022.109869 | Lark, T. J. | Interactions between U.S. biofuels policy and the Endangered Species Act | Biological Conservation | 279 109869 |
| 2023 | 10.1038/s41564-023-01336-8 | Lankiewicz, T. S., H. Choudhary, Y. Gao, B. Amer, S. P. Lillington, et al. | Lignin deconstruction by anaerobic fungi | Nature Microbiology | 8(4) 596–610 |
| 2023 | 10.1111/tpj.16177 | Lanier, E. R., T. B. Andersen and B. Hamberger | Plant terpene specialized metabolism: complex networks or simple linear pathways? | The Plant Journal | 114(5) 1178–201 |
| 2023 | 10.1002/biot.202200535 | Lane, S., T. L. Turner and Y.-S. Jin | Glucose assimilation rate determines the partition of flux at pyruvate between lactic acid and ethanol in Saccharomyces cerevisiae | Biotechnology Journal | 18(4) 2200535 |
| 2023 | 10.1128/msystems.00619-23 | Landa, M. V. R., V. D. Anda, R. R. Rohwer, A. Angelova, G. Waldram, T. Gutierrez and B. J. Baker | Exploring novel alkane-degradation pathways in uncultured bacteria from the North Atlantic Ocean | mSystems | 8(5) e00619-23 |
| 2023 | 10.1093/plphys/kiad549 | Lam, L. P. Y., Y. Tobimatsu, S. Suzuki, T. Tanaka, S. Yamamoto, Y. Takeda-Kimura, Y. Osakabe, K. Osakabe, J. Ralph, L. E. Bartley and T. Umezawa | Disruption of p-coumaroyl-CoA:monolignol transferases in rice drastically alters lignin composition | Plant Physiology | 194(2) 832–48 |
| 2023 | 10.1128/mbio.00631-23 | Lakey, B. D., F. Alberge, D. Parrell, E. R. Wright, D. R. Noguera and T. J. Donohue | The role of CenKR in the coordination of Rhodobacter sphaeroides cell elongation and division | mBio | 14(4) e00631-23 |
| 2023 | 10.34133/plantphenomics.0072 | Lagergren, J., M. Pavicic, H. B. Chhetri, L. M. York, D. Hyatt, D. Kainer, E. M. Rutter, K. Flores, J. Bailey-Bale, M. Klein, G. Taylor, D. Jacobson and J. Streich | Few-Shot Learning Enables Population-Scale Analysis of Leaf Traits in Populus trichocarpa | Plant Phenomics | 5 0072 |
| 2023 | 10.1094/Pbiomes-02-22-0007-R | Lagergren, J., M. Cashman, V. G. M. Vergara, P. R. Eller, J. G. F. M. Gazolla, H. B. Chhetri, J. Streich, S. Climer, P. Thornton, W. Joubert and D. Jacobson | Climatic Clustering and Longitudinal Analysis with Impacts on Food, Bioenergy, and Pandemics | Phytobiomes Journal | 7(1) 65–77 |
| 2023 | 10.1093/jimb/kuad005 | Kunakom, S., H. Otani, D. W. Udwary, D. T. Doering and N. J. Mouncey | Cytochromes P450 involved in bacterial RiPP biosyntheses | Journal of Industrial Microbiology and Biotechnology | 50(1) |
| 2023 | 10.3390/jof9040438 | Kun, R. S., S. Salazar-Cerezo, M. Peng, Y. Zhang, E. Savage, A. Lipzen, V. Ng, I. V. Grigoriev, R. P. de Vries and S. Garrigues | The Amylolytic Regulator AmyR of Aspergillus niger Is Involved in Sucrose and Inulin Utilization in a Culture-Condition-Dependent Manner | Journal of Fungi | 9(4) 438 |
| 2023 | 10.1016/j.fgb.2023.103781 | Kun, R. S., S. Garrigues, M. Peng, K. Keymanesh, A. Lipzen, V. Ng, S. Tejomurthula, I. V. Grigoriev and R. P. de Vries | The transcriptional activator ClrB is crucial for the degradation of soybean hulls and guar gum in Aspergillus niger | Fungal Genetics and Biology | 165 103781 |
| 2023 | 10.1007/s11356-023-25893-x | Kumar, J., N. Sharma and S. P. Singh | Genome-resolved metagenomics inferred novel insights into the microbial community, metabolic pathways, and biomining potential of Malanjkhand acidic copper mine tailings | Environmental Science and Pollution Research | 30(17) 50864–82 |
| 2023 | 10.1016/j.copbio.2023.103016 | Kulakowski, S., D. Banerjee, C. D. Scown and A. Mukhopadhyay | Improving microbial bioproduction under low-oxygen conditions | Current Opinion in Biotechnology | 84 103016 |
| 2023 | 10.1038/s41467-023-40506-4 | Kudyshev, Z. A., D. Sychev, Z. Martin, O. Yesilyurt, S. I. Bogdanov, X. Xu, P.-G. Chen, A. V. Kildishev, A. Boltasseva and V. M. Shalaev | Machine learning assisted quantum super-resolution microscopy | Nature Communications | 14(1) 4828 |
| 2023 | 10.1016/j.jbc.2023.104655 | Kuch, N. J., M. E. Kutschke, A. Parker, C. A. Bingman and B. G. Fox | Contribution of calcium ligands in substrate binding and product release in the Acetovibrio thermocellus glycoside hydrolase family 9 cellulase CelR | Journal of Biological Chemistry | 299(5) |
| 2023 | 10.1039/D3SE00353A | Kubis, M. R. and L. R. Lynd | Carbon capture from corn stover ethanol production via mature consolidated bioprocessing enables large negative biorefinery GHG emissions and fossil fuel-competitive economics | Sustainable Energy & Fuels | 7(16) 3842–52 |
| 2023 | 10.1002/yea.3890 | Krause, D. J. | The evolution of anaerobic growth in Saccharomycotina yeasts | Yeast | 40(9) 395–400 |
| 2023 | 10.1016/bs.mie.2022.07.034 | Koper, K., S. Hataya, A. G. Hall, T. E. Takasuka and H. A. Maeda | Chapter Two - Biochemical characterization of plant aromatic aminotransferases | Methods in Enzymology | 680 35-83 |
| 2023 | 10.1021/acscatal.3c04444 | Kohler, A. J., C. H. Walter and B. H. Shanks | Kinetic Analysis of the Hydrodeoxygenation of Aliphatic Volatilized Lignin Molecules on Bulk MoO3: Elucidating the Formation of Alkenes and Alkanes | ACS Catalysis | 13(22) 14813-14827 |
| 2023 | 10.1021/acssynbio.3c00443 | Koh, H. G., J. Kim, C. V. Rao, S.-J. Park and Y.-S. Jin | Construction of a Compact Array of Microplasma Jet Devices and Its Application for Random Mutagenesis of Rhodosporidium toruloides | ACS Synthetic Biology | 12(11) 3406-3413 |
| 2023 | 10.1128/msystems.00742-23 | Koedooder, C., F. Zhang, S. Wang, S. Basu, S. T. Haley, N. Tolic, C. D. Nicora, T. G. d. Rio, S. T. Dyhrman, M. Gledhill, R. M. Boiteau, M. Rubin-Blum and Y. Shaked | Taxonomic distribution of metabolic functions in bacteria associated with Trichodesmium consortia | mSystems | 8(6) e00742-23 |
| 2023 | 10.1038/s41477-023-01480-3 | Ko, D. K., J. Y. Kim, E. A. Thibault and F. Brandizzi | An IRE1-proteasome system signalling cohort controls cell fate determination in unresolved proteotoxic stress of the plant endoplasmic reticulum | Nature Plants | 9(8) 1333–46 |
| 2023 | 10.1007/978-1-0716-2784-6_27 | Ko, D. K. and F. Brandizzi | Coexpression Network Construction and Visualization from Transcriptomes Underlying ER Stress Responses | Plant Proteostasis: Methods and Protocols | 2581 385–401 |
| 2023 | 10.1016/j.biocon.2023.110343 | Knapp, M., T. Teder, V. Lukas, M. Štrobl, J. Knappová, D. A. Landis and E. González | Ecologically-Informed Precision Conservation: A framework for increasing biodiversity in intensively managed agricultural landscapes with minimal sacrifice in crop production | Biological Conservation | 288 110343 |
| 2023 | 10.3389/fmicb.2023.1082107 | Klonowska, A., J. Ardley, L. Moulin, J. Zandberg, D. Patrel, et al. | Discovery of a novel filamentous prophage in the genome of the Mimosa pudica microsymbiont Cupriavidus taiwanensis STM 6018 | Frontiers in Microbiology | 14 |
| 2023 | 10.1099/ijsem.0.006063 | Klaysubun, C., W. Butdee, C. Suriyachadkun, Y. Igarashi and K. Duangmal | Streptomyces silvisoli sp. nov., a polyene producer, and Streptomyces tropicalis sp. nov., two novel actinobacterial species from peat swamp forests in Thailand | International Journal of Systematic and Evolutionary Microbiology | 73(9) |
| 2023 | 10.1128/MRA.00371-23 | Kitzmiller, C. E., W. C. Tran, B. Sullivan, F. Cortez, M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | High-quality genomes of Paenibacillus spp. RC334 and RC343, isolated from a long-term forest soil warming experiment | Microbiology Resource Announcements | 12(9) e00371-23 |
| 2023 | 10.1128/msystems.00961-22 | Kishore, D., G. Birzu, Z. Hu, C. DeLisi, K. S. Korolev and D. Segrè | Inferring microbial co-occurrence networks from amplicon data: a systematic evaluation | mSystems | 8(4) e00961-22 |
| 2023 | 10.1111/pce.14705 | King, W. L., C. F. Yates, L. Cao, S. O'Rourke-Ibach, S. M. Fleishman, et al. | Functionally discrete fine roots differ in microbial assembly, microbial functional potential, and produced metabolites | Plant, Cell & Environment | 46(12) 3919–32 |
| 2023 | 10.1186/s40793-023-00462-4 | King, W. L., S. C. Richards, L. M. Kaminsky, B. A. Bradley, J. P. Kaye and T. H. Bell | Leveraging microbiome rediversification for the ecological rescue of soil function | Environmental Microbiome | 18(1) 7 |
| 2023 | 10.1099/ijsem.0.006026 | Kim, Y., P. Subramanian, H. Choi, H.-Y. Weon, S. Kim, S.-W. Kwon, D. Lee, B.-H. Han, S.-B. Hong and J. Heo | Five novel Hymenobacter species isolated from air: Hymenobacter cellulosilyticus sp. nov., Hymenobacter cellulosivorans sp. nov., Hymenobacter aerilatus sp. nov., Hymenobacter sublimis sp. nov. and Hymenobacter volaticus sp. nov | International Journal of Systematic and Evolutionary Microbiology | 73(9) |
| 2023 | 10.1099/ijsem.0.006098 | Kim, Y., S. Kim, S.-W. Kwon, H.-Y. Weon, H. Naito, T. Asano, M. Hamada and J. Heo | Halobacillus salinarum sp. nov., Halobacillus shinanisalinarum sp. nov. and Halobacillus amylolyticus sp. nov., isolated from saltern soil | International Journal of Systematic and Evolutionary Microbiology | 73(10) |
| 2023 | 10.1186/s13068-023-02291-6 | Kim, S.-K., Y. J. Bomble and J. Westpheling | Simultaneous expression of an endogenous spermidine synthase and a butanol dehydrogenase from Thermoanaerobacter pseudethanolicus in Clostridium thermocellum results in increased resistance to acetic acid and furans, increased ethanol production and an increase in thermotolerance | Biotechnology for Biofuels and Bioproducts | 16(1) 46 |
| 2023 | 10.1111/tpj.16376 | Kim, S.-J., S. Zemelis-Durfee, B. Mckinley, R. Sokoloski, W. Aufdemberge, J. Mullet and F. Brandizzi | Cell- and development-specific degradation controls the levels of mixed-linkage glucan in sorghum leaves | The Plant Journal | 116(2) 360–74 |
| 2023 | 10.1007/978-1-0716-2639-9_4 | Kim, S.-J. and F. Brandizzi | Microscopy and Immunocytochemistry-Based Methods to Study Cell Wall Biosynthetic Enzymes in the Golgi | Golgi: Methods and Protocols | 2557 39–51 |
| 2023 | 10.1111/tpj.16393 | Kim, S.-J., D. D. Bhandari, R. Sokoloski and F. Brandizzi | Immune activation during Pseudomonas infection causes local cell wall remodeling and alters AGP accumulation | The Plant Journal | 116(2) 541–57 |
| 2023 | 10.1099/ijsem.0.006204 | Kim, S., J. Heo, S.-W. Kwon, D. Lee, B.-H. Han, S.-B. Hong and Y. Kim | Brevibacillus ruminantium sp. nov., isolated from cow faeces | International Journal of Systematic and Evolutionary Microbiology | 73(12) |
| 2023 | 10.1111/gcbb.13024 | Kim, S., B. E. Dale, R. Martinez-Feria, B. Basso, K. Thelen, C. T. Maravelias, D. Landis, T. J. Lark and G. P. Robertson | Global warming intensity of biofuel derived from switchgrass grown on marginal land in Michigan | GCB Bioenergy | 15(3) 319–31 |
| 2023 | 10.1002/bbb.2526 | Kim, S., B. E. Dale, B. Basso, K. Thelen and C. T. Maravelias | Supply chain system for a centralized biorefinery system based on switchgrass grown on marginal land in Michigan | Biofuels, Bioproducts and Biorefining | 17(6) 1502–14 |
| 2023 | 10.1128/mra.00246-23 | Kim, S., H. Choi, Y. Kim, D. Lee, B.-H. Han, S.-B. Hong, S.-W. Kwon and J. Heo | Draft Genome Sequences of Three Type Strains, Acetobacter farinalis KACC 21251, Acetobacter suratthaniensis KACC 21252, and Acetobacter thailandicus KACC 21253 | Microbiology Resource Announcements | 12(6) e00246-23 |
| 2023 | 10.1021/acscatal.3c02775 | Kim, M. S., D. Choi, J. Ha, K. Choi, J.-H. Yu, J. A. Dumesic and G. W. Huber | Catalytic Strategy for Conversion of Triacetic Acid Lactone to Potassium Sorbate | ACS Catalysis | 13(21) 14031–41 |
| 2023 | 10.1021/acs.chemrev.2c00876 | Kim, M. S., H. Chang, L. Zheng, Q. Yan, B. F. Pfleger, J. Klier, K. Nelson, E. L. W. Majumder and G. W. Huber | A Review of Biodegradable Plastics: Chemistry, Applications, Properties, and Future Research Needs | Chemical Reviews | 123(16) 9915–39 |
| 2023 | 10.1016/j.geoderma.2023.116625 | Kim, K., A. Kaestner, M. Lucas and A. N. Kravchenko | Microscale spatiotemporal patterns of water, soil organic carbon, and enzymes in plant litter detritusphere | Geoderma | 438 116625 |
| 2023 | 10.3389/fbioe.2023.1296132 | Kim, J. and T. S. Lee | Enhancing isoprenol production by systematically tuning metabolic pathways using CRISPR interference in E. coli | Frontiers in Bioengineering and Biotechnology | 11 |
| 2023 | 10.1126/sciadv.ade5519 | Kim, H., J. Rencoret, T. J. Elder, J. C. del Río and J. Ralph | Biomimetic oxidative copolymerization of hydroxystilbenes and monolignols | Science Advances | 9(10) eade5519 |
| 2023 | 10.1016/j.joule.2023.10.002 | Kim, B., S. Misra and C. T. Maravelias | Lignocellulosic fuel and chemical co-production | Joule | 7(11) 2403–07 |
| 2023 | 10.1038/s41467-023-40907-5 | Kieft, B., N. Finke, R. J. McLaughlin, A. N. Nallan, M. Krzywinski, S. A. Crowe and S. J. Hallam | Genome-resolved correlation mapping links microbial community structure to metabolic interactions driving methane production from wastewater | Nature Communications | 14(1) 5380 |
| 2023 | 10.1098/rspb.2022.1350 | Khasanova, A., J. Edwards, J. Bonnette, E. Singer, T. Haque and T. E. Juenger | Quantitative genetic-by-soil microbiome interactions in a perennial grass affect functional traits | Proceedings of the Royal Society B: Biological Sciences | 290(1991) 20221350 |
| 2023 | 10.1016/j.ijfoodmicro.2023.110417 | Kharnaior, P. and J. P. Tamang | Microbiome and metabolome in home-made fermented soybean foods of India revealed by metagenome-assembled genomes and metabolomics | International Journal of Food Microbiology | 407 110417 |
| 2023 | 10.1128/msystems.00092-23 | Khana, D. B., M. Tatli, J. R. Vazquez, S. M. Weraduwage, N. Stern, A. S. Hebert, E. A. Trujillo, D. M. Stevenson, J. J. Coon, T. D. Sharky and D. Amador-Noguez | Systematic Analysis of Metabolic Bottlenecks in the Methylerythritol 4-Phosphate (MEP) Pathway of Zymomonas mobilis | mSystems | 8(2) e00092-23 |
| 2023 | 10.1371/journal.pone.0293015 | Khalfaoui-Hassani, B., C. E. Blaby-Haas, A. Verissimo and F. Daldal | The Escherichia coli MFS-type transporter genes yhjE, ydiM, and yfcJ are required to produce an active bo3 quinol oxidase | PLOS ONE | 18(10) e0293015 |
| 2023 | 10.1093/gbe/evad167 | Khachaturyan, M., T. B. H. Reusch and T. Dagan | Worldwide Population Genomics Reveal Long-Term Stability of the Mitochondrial Genome Architecture in a Keystone Marine Plant | Genome Biology and Evolution | 15(9) |
| 2023 | Kerfoot, M., A. Pech and D. Olson | Site-directed mutagenesis on C252 and H734 from adhE in a shuttle vector | Wetterhahn Science Symposium | ||
| 2023 | 10.1021/acssuschemeng.3c00115 | Kenny, J. K., J. W. Medlin and G. T. Beckham | Quantification of Phenolic Hydroxyl Groups in Lignin via 19F NMR Spectroscopy | ACS Sustainable Chemistry & Engineering | 11(14) 5644–55 |
| 2023 | 10.1038/s41564-023-01361-7 | Kelliher, J. M., M. Rudolph, P. Vangay, A. Abbas, M. A. Borton, et al. | Cohort-based learning for microbiome research community standards | Nature Microbiology | 8(5) 751–3 |
| 2023 | 10.1093/genetics/iyad069 | Ke, Y.-H., S. Branco, A. L. Bazzicalupo, N. H. Nguyen, H.-L. Liao, P. Kennedy, T. D. Bruns, A. Kuo, K. LaButti, K. Barry, I. Grigoriev and R. Vilgalys | Genomic determination of breeding systems and trans-specific evolution of HD MAT genes in suilloid fungi | Genetics | 224(2) |
| 2023 | 10.1128/aem.00171-23 | Kato, R., K. Maekawa, S. Kobayashi, S. Hishiyama, R. Katahira, M. Nambo, Y. Higuchi, E. Kuatsjah, G. T. Beckham, N. Kamimura and E. Masai | Stereoinversion via Alcohol Dehydrogenases Enables Complete Catabolism of β-1-Type Lignin-Derived Aromatic Isomers | Applied and Environmental Microbiology | 89(6) e00171-23 |
| 2023 | 10.1111/gcb.16903 | Kantola, I. B., E. Blanc-Betes, M. D. Masters, E. Chang, A. Marklein, C. E. Moore, A. von Haden, C. J. Bernacchi, A. Wolf, D. Z. Epihov, D. J. Beerling and E. H. DeLucia | Improved net carbon budgets in the US Midwest through direct measured impacts of enhanced weathering | Global Change Biology | 29(24) 7012–28 |
| 2023 | 10.1128/spectrum.03176-23 | Kalb, M. J., A. W. Grenfell, A. Jain, J. Fenske-Newbart and J. A. Gralnick | Comparison of phage-derived recombinases for genetic manipulation of Pseudomonas species | Microbiology Spectrum | 11(6) e03176-23 |
| 2023 | 10.3390/microorganisms11092253 | Jones, D. T., F. Schulz, S. Roux and S. D. Brown | Solvent-Producing Clostridia Revisited | Microorganisms | 11(9) 2253 |
| 2023 | 10.1002/lno.12275 | Johnson, W. M., M. C. Kido Soule, K. Longnecker, M. P. Bhatia, S. J. Hallam, M. W. Lomas and E. B. Kujawinski | Particulate and dissolved metabolite distributions along a latitudinal transect of the western Atlantic Ocean | Limnology and Oceanography | 68(2) 377-393 |
| 2023 | 10.1007/s10482-023-01873-6 | Jo, H., C. Baek, Y. M. Heo, H.-B. Kim, H. Lee, S. Kang, S. Mun, Y. Oh, D. Ko, K. Han, R. Riesco, M. E. Trujillo and D.-G. Lee | Dermatobacter hominis gen. nov., sp. nov., a new member of the family Iamiaceae, revealed the potential utilisation of skin-derived metabolites | Antonie van Leeuwenhoek | 116(11) 1139–50 |
| 2023 | 10.1016/j.mtbio.2023.100560 | Jo, C., J. Zhang, J. M. Tam, G. M. Church, A. S. Khalil, D. Segrè and T.-C. Tang | Unlocking the magic in mycelium: Using synthetic biology to optimize filamentous fungi for biomanufacturing and sustainability | Materials Today Bio | 19 100560 |
| 2023 | 10.1128/msystems.00017-21 | Jo, C., D. B. Bernstein, N. Vaisman, H. M. Frydman and D. Segrè | Construction and Modeling of a Coculture Microplate for Real-Time Measurement of Microbial Interactions | mSystems | 8(2) e00017-21 |
| 2023 | 10.1016/j.ymben.2023.02.012 | Jindra, M. A., K. Choe, R. Chowdhury, R. Kong, S. Ghaffari, J. V. Sweedler and B. F. Pfleger | Evaluation of strategies to narrow the product chain-length distribution of microbially synthesized free fatty acids | Metabolic Engineering | 77 21–31 |
| 2023 | 10.1186/s12934-023-02223-x | Jilani, S. B. and D. G. Olson | Mechanism of furfural toxicity and metabolic strategies to engineer tolerance in microbial strains | Microbial Cell Factories | 22(1) 221 |
| 2023 | 10.1002/anie.202302125 | Jiang, G., C. Huang, W. Harrison, H. Li, M. Zhou and H. Zhao | Ene Reductase Enabled Intramolecular β-C−H Functionalization of Substituted Cyclohexanones for Efficient Synthesis of Bridged Bicyclic Nitrogen Scaffolds | Angewandte Chemie International Edition | 62(22) e202302125 |
| 2023 | 10.1016/j.biortech.2023.128630 | Jia, Y., S. Maitra and V. Singh | Chemical-free production of multiple high-value bioproducts from metabolically engineered transgenic sugarcane ‘oilcane’ bagasse and their recovery using nanofiltration | Bioresource Technology | 371 128630 |
| 2023 | 10.1186/s40168-023-01646-3 | Ji, N., D. Liang, L. V. Clark, E. J. Sacks and A. D. Kent | Host genetic variation drives the differentiation in the ecological role of the native Miscanthus root-associated microbiome | Microbiome | 11(1) 216 |
| 2023 | 10.2139/ssrn.4424338 | Jeoh, T., J. D. Nill, W. Zhao, S. R. Narayanasamy, L. Chen and H.-Y. N. Holman | Spatiotemporal Dynamics of Cellulose During Enzymatic Hydrolysis Studied by Infrared Spectromicroscopy | Available at SSRN | |
| 2023 | 10.1002/agj2.21416 | Jayawardena, D. M., G. P. Robertson, G. R. Sanford and K. D. Thelen | Comparative productivity of six bioenergy cropping systems on marginal lands in the Great Lakes Region, United States | Agronomy Journal | 115(5) 2451–68 |
| 2023 | 10.1002/bit.28484 | Jayachandran, D., P. Smith, M. Irfan, J. Sun, J. M. Yarborough, Y. J. Bomble, E. Lam and S. P. S. Chundawat | Engineering and characterization of carbohydrate-binding modules for imaging cellulose fibrils biosynthesis in plant protoplasts | Biotechnology and Bioengineering | 120(8) 2253–68 |
| 2023 | 10.1038/s41598-023-43089-8 | Jawaharraj, K., V. Peta, S. S. Dhiman, E. Z. Gnimpieba and V. Gadhamshetty | Transcriptome-wide marker gene expression analysis of stress-responsive sulfate-reducing bacteria | Scientific Reports | 13(1) 16181 |
| 2023 | 10.1038/s41579-022-00811-z | Jansson, J. K. and R. Wu | Soil viral diversity, ecology and climate change | Nature Reviews Microbiology | 21(5) 296–311 |
| 2023 | 10.1038/s41587-023-01932-3 | Jansson, J. K., R. McClure and R. G. Egbert | Soil microbiome engineering for sustainability in a changing environment | Nature Biotechnology | 41(12) 1716–28 |
| 2023 | 10.1128/MRA.00435-23 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, R. Riley, S. Ahrendt, et al. | Draft genome sequence of Yarrowia lipolytica NRRL Y-64008, an oleaginous yeast capable of growing on lignocellulosic hydrolysates | Microbiology Resource Announcements | 12(12) e00435-23 |
| 2023 | 10.1128/MRA.00426-23 | Jagtap, S. S., J.-J. Liu, H. E. Walukiewicz, J. Pangilinan, A. Lipzen, et al. | Near-complete genome sequence of Lipomyces tetrasporous NRRL Y-64009, an oleaginous yeast capable of growing on lignocellulosic hydrolysates | Microbiology Resource Announcements | 12(11) e00426-23 |
| 2023 | 10.1093/gbe/evad163 | Ionescu, D., J.-M. Volland, P.-E. Contarini and O. Gros | Genomic Mysteries of Giant Bacteria: Insights and Implications | Genome Biology and Evolution | 15(9) |
| 2023 | 10.1073/pnas.2302721120 | Ingham, C. S., T. Engl, B. Matarrita-Carranza, P. Vogler, B. Huettel, N. Wielsch, A. Svatoš and M. Kaltenpoth | Host hydrocarbons protect symbiont transmission from a radical host defense | Proceedings of the National Academy of Sciences | 120(31) e2302721120 |
| 2023 | 10.3389/fgeed.2023.1074641 | Illa-Berenguer, E., P. R. LaFayette and W. A. Parrott | Editing efficiencies with Cas9 orthologs, Cas12a endonucleases, and temperature in rice | Frontiers in Genome Editing | 5 |
| 2023 | 10.1002/pld3.546 | Hyden, B., D. L. Carper, P. E. Abraham, G. Yuan, T. Yao, L. Baumgart, Y. Zhang, C. Chen, R. O'Malley, J.-G. Chen, X. Yang, R. L. Hettich, G. A. Tuskan and L. B. Smart | Functional analysis of Salix purpurea genes support roles for ARR17 and GATA15 as master regulators of sex determination | Plant Direct | 7(11) e546 |
| 2023 | 10.1038/s41564-023-01347-5 | Hwang, Y., S. Roux, C. Coclet, S. J. E. Krause and P. R. Girguis | Viruses interact with hosts that span distantly related microbial domains in dense hydrothermal mats | Nature Microbiology | 8(5) 946-957 |
| 2023 | 10.1111/gcbb.13020 | Hussain, M. Z., S. K. Hamilton and G. P. Robertson | Soil phosphorus drawdown by perennial bioenergy cropping systems in the Midwestern US | GCB Bioenergy | 15(2) 254–63 |
| 2023 | 10.1016/j.biortech.2022.128528 | Huntington, T., N. R. Baral, M. Yang, E. Sundstrom and C. D. Scown | Machine learning for surrogate process models of bioproduction pathways | Bioresource Technology | 370 128528 |
| 2023 | 10.1016/j.cels.2023.05.002 | Hummel, N. F. C., A. Zhou, B. Li, K. Markel, I. J. Ornelas and P. M. Shih | The trans-regulatory landscape of gene networks in plants | Cell Systems | 14(6) 501-511.e4 |
| 2023 | 10.1021/acssuschemeng.2c06500 | Hubble, D., S. Nordahl, T. Zhu, N. Baral, C. D. Scown and G. Liu | Solvent-Assisted Poly(lactic acid) Upcycling under Mild Conditions | ACS Sustainable Chemistry & Engineering | 11(22) 8208–16 |
| 2023 | 10.1038/s41586-023-06027-2 | Huang, J., A. Quest, P. Cruz-Morales, K. Deng, J. H. Pereira, et al. | Complete integration of carbene-transfer chemistry into biosynthesis | Nature | 617(7960) 403–8 |
| 2023 | 10.1016/j.ymben.2023.01.001 | Hu, M., H. V. Dinh, Y. Shen, P. F. Suthers, C. J. Foster, C. M. Call, X. Ye, J. Pratas, Z. Fatma, H. Zhao, J. D. Rabinowitz and C. D. Maranas | Comparative study of two Saccharomyces cerevisiae strains with kinetic models at genome-scale | Metabolic Engineering | 76 1–17 |
| 2023 | 10.1038/s41467-023-36515-y | Howe, A., N. Stopnisek, S. K. Dooley, F. Yang, K. L. Grady and A. Shade | Seasonal activities of the phyllosphere microbiome of perennial crops | Nature Communications | 14(1) 1039 |
| 2023 | 10.1111/1462-2920.16466 | Howard, S. A., C. M. Carr, H. I. Sbahtu, U. Onwukwe, M. J. López, A. D. W. Dobson and R. R. McCarthy | Enrichment of native plastic-associated biofilm communities to enhance polyester degrading activity | Environmental Microbiology | 25(12) 2698–718 |
| 2023 | Hou, H. J. M., J. Sebesta, C. Pastore and J. Yu | Probing CO2 uptake of genetically engineered microalgae using MIMS | The 2023 Alabama State University STEM Research Symposium | ||
| 2023 | Hou, H. J. M., J. Sebesta, A. Deshpande, C. Pastore, L. Laurens and J. Yu | Carbon metabolism of a polyphosphate synthase mutant in cyanobacteria | Gorden Conference Photosynthesis | ||
| 2023 | 10.1128/msystems.00038-23 | Hoover, R. L., J. L. Keffer, S. W. Polson and C. S. Chan | Gallionellaceae pangenomic analysis reveals insight into phylogeny, metabolic flexibility, and iron oxidation mechanisms | mSystems | 8(6) e00038-23 |
| 2023 | 10.1021/acssynbio.2c00502 | Hooker, C. A., R. Hanafy, E. T. Hillman, J. Muñoz Briones and K. V. Solomon | A Genetic Engineering Toolbox for the Lignocellulolytic Anaerobic Gut Fungus Neocallimastix frontalis | ACS Synthetic Biology | 12(4) 1034-1045 |
| 2023 | 10.1007/s00299-023-03062-1 | Hooghvorst, I. and F. Altpeter | dCas9-3xSRDX-mediated transcriptional repression in sugarcane | Plant Cell Reports | 42(11) 1837–40 |
| 2023 | 10.1038/s41564-023-01432-9 | Honeker, L. K., G. Pugliese, J. Ingrisch, J. Fudyma, J. Gil-Loaiza, et al. | Drought re-routes soil microbial carbon metabolism towards emission of volatile metabolites in an artificial tropical rainforest | Nature Microbiology | 8(8) 1480-1494 |
| 2023 | 10.7717/peerj.16129 | Ho, H., M. Chovatia, R. Egan, G. He, Y. Yoshinaga, I. Liachko, R. O’Malley and Z. Wang | Integrating chromatin conformation information in a self-supervised learning model improves metagenome binning | PeerJ | 11 e16129 |
| 2023 | 10.3390/jof9030371 | Hirakawa, M. P., A. Rodriguez, M. B. Tran-Gyamfi, Y. K. Light, S. Martinez, H. Diamond-Pott, B. A. Simmons and K. L. Sale | Phenothiazines Rapidly Induce Laccase Expression and Lignin-Degrading Properties in the White-Rot Fungus Phlebia radiata | Journal of Fungi | 9(3) 371 |
| 2023 | 10.1039/D2EA00154C | Hill, T. C. J., F. Malfatti, C. S. McCluskey, G. P. Schill, M. V. Santander, et al. | Resolving the controls over the production and emission of ice-nucleating particles in sea spray | Environmental Science: Atmospheres | 3(6) 970-990 |
| 2023 | 10.1016/j.scitotenv.2023.165689 | Hildebrand, G. A., L. K. Honeker, V. Freire-Zapata, C. Ayala-Ortiz, S. Rajakaruna, et al. | Uncovering the dominant role of root metabolism in shaping rhizosphere metabolome under drought in tropical rainforest plants | Science of The Total Environment | 899 165689 |
| 2023 | Higgins, R. C., K. L. Arnolds, N. Lamb, G. Li, J. G. Linger and M. T. Guarnieri | Digital droplet PCR for the targeted detection and assessment of Saccharomyces cerevisiae in the soil microbiome | Front Range Microbiome Symposium | ||
| 2023 | 10.1038/s41467-023-40360-4 | Hessler, T., R. J. Huddy, R. Sachdeva, S. Lei, S. T. L. Harrison, S. Diamond and J. F. Banfield | Vitamin interdependencies predicted by metagenomics-informed network analyses and validated in microbial community microcosms | Nature Communications | 14(1) 4768 |
| 2023 | 10.1038/s41598-023-29220-9 | Herring, C. D., M. P. Ajie and L. R. Lynd | Growth-uncoupled propanediol production in a Thermoanaerobacterium thermosaccharolyticum strain engineered for high ethanol yield | Scientific Reports | 13(1) 2394 |
| 2023 | 10.1016/j.ympev.2023.107938 | Hensen, N., L. Bonometti, I. Westerberg, I. O. Brännström, S. Guillou, et al. | Genome-scale phylogeny and comparative genomics of the fungal order Sordariales | Molecular Phylogenetics and Evolution | 189 107938 |
| 2023 | 10.1093/plphys/kiac485 | Hellinger, J., H. Kim, J. Ralph and S. D. Karlen | p-Coumaroylation of lignin occurs outside of commelinid monocots in the eudicot genus Morus (mulberry) | Plant Physiology | 191(2) 854–61 |
| 2023 | 10.1038/s41587-022-01628-0 | Heinken, A., J. Hertel, G. Acharya, D. A. Ravcheev, M. Nyga, et al. | Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine | Nature Biotechnology | 41(9) 1320–31 |
| 2023 | 10.1093/molbev/msad251 | Hehenberger, E., J. Guo, S. Wilken, K. Hoadley, L. Sudek, C. Poirier, R. Dannebaum, E. Susko and A. Z. Worden | Phosphate Limitation Responses in Marine Green Algae Are Linked to Reprogramming of the tRNA Epitranscriptome and Codon Usage Bias | Molecular Biology and Evolution | 40(12) |
| 2023 | 10.1038/s41477-022-01333-5 | Healey, A. L., B. Piatkowski, J. T. Lovell, A. Sreedasyam, S. B. Carey, et al. | Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics | Nature Plants | 9(2) 238-254 |
| 2023 | 10.1111/mec.16891 | He, S., A. M. Linz, S. L. R. Stevens, P. Q. Tran, F. Moya-Flores, B. O. Oyserman, J. R. Dwulit-Smith, K. T. Forest and K. D. McMahon | Diversity, distribution, and expression of opsin genes in freshwater lakes | Molecular Ecology | 32(11) 2798-2817 |
| 2023 | 10.1099/mgen.0.001131 | Hay, M. C., A. C. Mitchell, A. R. Soares, A. R. Debbonaire, D. C. Mogrovejo, N. Els and A. Edwards | Metagenome-assembled genomes from High Arctic glaciers highlight the vulnerability of glacier-associated microbiota and their activities to habitat loss | Microbial Genomics | 9(11) |
| 2023 | 10.1128/MRA.00479-23 | Hassen, A. I., L. S. Khambani and R. Pierneef | Genome sequence of an indole-3-acetic acid and siderophores producing Pseudomonas monsensis SARCC-3054 with the potential as a microbial inoculant for enhanced crop production | Microbiology Resource Announcements | 12(9) e00479-23 |
| 2023 | 10.1038/s41467-023-37897-9 | Hasnain, A., S. Balakrishnan, D. M. Joshy, J. Smith, S. B. Haase and E. Yeung | Learning perturbation-inducible cell states from observability analysis of transcriptome dynamics | Nature Communications | 14(1) 3148 |
| 2023 | 10.1038/s41598-023-40496-9 | Harwood, T. V., D. G. C. Treen, M. Wang, W. de Jong, T. R. Northen and B. P. Bowen | BLINK enables ultrafast tandem mass spectrometry cosine similarity scoring | Scientific Reports | 13(1) 13462 |
| 2023 | 10.1186/s13068-023-02287-2 | Harman-Ware, A. E., M. Z. Martin, N. L. Engle, C. Doeppke and T. J. Tschaplinski | Rapid screening of secondary aromatic metabolites in Populus trichocarpa leaves | Biotechnology for Biofuels and Bioproducts | 16(1) 41 |
| 2023 | 10.1128/mbio.00261-23 | Haridas, S., J. B. González, R. Riley, M. Koriabine, M. Yan, V. Ng, A. Rightmyer, I. V. Grigoriev, S. E. Baker and B. G. Turgeon | T-Toxin Virulence Genes: Unconnected Dots in a Sea of Repeats | mBio | 14(2) e00261-23 |
| 2023 | 10.1016/j.copbio.2023.103005 | Han, Y., A. Tafur Rangel, K. R. Pomraning, E. J. Kerkhoven and J. Kim | Advances in genome-scale metabolic models of industrially important fungi | Current Opinion in Biotechnology | 84 103005 |
| 2023 | 10.1039/D2IM00059H | Han, Y., B. A. Simmons and S. Singh | Perspective on oligomeric products from lignin depolymerization: their generation, identification, and further valorization | Industrial Chemistry & Materials | 1(2) 207–23 |
| 2023 | 10.17504/protocols.io.bp2l6b8n5gqe/v2 | Hammer, S., D. Kapadia, S. Hon, M. Maloney, D. Olson and L. Lynd | Enzymatic Ethanol Assay V.2 | protocols.io | |
| 2023 | 10.1128/aem.01268-23 | Hall, B. W., W. S. Kontur, J. C. Neri, D. M. Gille, D. R. Noguera and T. J. Donohue | Production of carotenoids from aromatics and pretreated lignocellulosic biomass by Novosphingobium aromaticivorans | Applied and Environmental Microbiology | 89(12) e01268-23 |
| 2023 | 10.1016/j.jbc.2022.102782 | Hall, B. W., C. A. Bingman, B. G. Fox, D. R. Noguera and T. J. Donohue | A broad specificity β-propeller enzyme from Rhodopseudomonas palustris that hydrolyzes many lactones including γ-valerolactone | Journal of Biological Chemistry | 299(1) 102782 |
| 2023 | 10.17912/micropub.biology.000882 | Hall, A., T. Donohue and J. Peters | Complete sequences of conjugal helper plasmids pRK2013 and pEVS104 | MicroPublication Biology | 2023 |
| 2023 | 10.1099/mgen.0.000990 | Hage, H., J. Couillaud, A. Salamov, M. Loussouarn-Yvon, F. Durbesson, E. Ormeño, S. Grisel, K. Duquesne, R. Vincentelli, I. Grigoriev, G. Iacazio and M.-N. Rosso | An HMM approach expands the landscape of sesquiterpene cyclases across the kingdom Fungi | Microbial Genomics | 9(4) |
| 2023 | 10.1021/bk-2023-1451.ch008 | Hadel, J., S. Noreen, M. N. Dell’anna, D. Dileep, B. H. Shanks, J.-P. Tessonnier and E. W. Cochran | Toward Intrinsically Flame-Retardant, Bioenabled Nitrogen Aromatic Nylon 6,6 Comonomers | Sustainable Green Chemistry in Polymer Research. Volume 2. Sustainable Polymers and Applications | 1451 163–76 |
| 2023 | 10.1126/sciadv.adg8687 | Hackmann, T. J. and B. Zhang | The phenotype and genotype of fermentative prokaryotes | Science Advances | 9(39) eadg8687 |
| 2023 | 10.1111/gcbb.13053 | Haan, N. L. and D. A. Landis | Pest suppression potential varies across 10 bioenergy cropping systems | GCB Bioenergy | 15(6) 765–75 |
| 2023 | 10.1126/sciadv.adh7960 | Haan, N. L., G. N. M. Benucci, C. M. Fiser, G. Bonito and D. A. Landis | Contrasting effects of bioenergy crops on biodiversity | Science Advances | 9(38) eadh7960 |
| 2023 | 10.1039/D2LC00980C | Ha, N. S., J. R. Onley, K. Deng, P. Andeer, B. P. Bowen, et al. | A combinatorial droplet microfluidic device integrated with mass spectrometry for enzyme screening | Lab on a Chip | 23(15) 3361–69 |
| 2023 | 10.1186/s13068-023-02339-7 | Ha, C. M., L. Escamilla-Trevino, C. Zhuo, Y. Pu, N. Bryant, A. J. Ragauskas, X. Xiao, Y. Li, F. Chen and R. A. Dixon | Systematic approaches to C-lignin engineering in Medicago truncatula | Biotechnology for Biofuels and Bioproducts | 16(1) 100 |
| 2023 | 10.1038/s41467-023-37551-4 | Gupta, Y. K., F. C. Marcelino-Guimarães, C. Lorrain, A. Farmer, S. Haridas, et al. | Major proliferation of transposable elements shaped the genome of the soybean rust pathogen Phakopsora pachyrhizi | Nature Communications | 14(1) 1835 |
| 2023 | 10.1007/s10570-023-05584-z | Gupta, M., P. Dupree, L. Petridis and J. C. Smith | Patterns in interactions of variably acetylated xylans with hydrophobic cellulose surfaces | Cellulose | 30(18) 11323–40 |
| 2023 | 10.1038/s41467-023-44104-2 | Guo, Y., E. H. Boughton, S. Bohlman, C. Bernacchi, P. J. Bohlen, et al. | Grassland intensification effects cascade to alter multifunctionality of wetlands within metaecosystems | Nature Communications | 14(1) 8267 |
| 2023 | 10.1637/aviandiseases-D-22-00091 | Günther, E., R. Moore and S. Rautenschlein | Investigation of Spotty Liver Disease and Campylobacter hepaticus in Layer Flocks—A Field Study | Avian Diseases | 67(2) 202–08 |
| 2023 | 10.1094/phyto-04-22-0128-r | Guerillot, P., A. Salamov, C. Louet, E. Morin, P. Frey, I. V. Grigoriev and S. Duplessis | A Remarkable Expansion of Oligopeptide Transporter Genes in Rust Fungi (Pucciniales) Suggests a Specialization in Nutrient Acquisition for Obligate Biotrophy | Phytopathology® | 113(2) 252-264 |
| 2023 | 10.1021/acscentsci.3c00813 | Gu, N. X., C. T. Palumbo, A. C. Bleem, K. P. Sullivan, S. J. Haugen, S. P. Woodworth, K. J. Ramirez, J. K. Kenny, L. D. Stanley, R. Katahira, S. S. Stahl and G. T. Beckham | Autoxidation Catalysis for Carbon–Carbon Bond Cleavage in Lignin | ACS Central Science | 9(12) 2277–85 |
| 2023 | 10.3390/microorganisms11071830 | Gryganskyi, A. P., J. Golan, A. Muszewska, A. Idnurm, S. Dolatabadi, et al. | Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned? | Microorganisms | 11(7) 1830 |
| 2023 | 10.1038/s41579-023-00864-8 | Grosjean, N. and I. K. Blaby | Whisperings from not so silent mutations | Nature Reviews Microbiology | 21(4) 221-221 |
| 2023 | 10.3114/sim.2023.105.01 | Groenewald, M., C. T. Hittinger, K. Bensch, D. A. Opulente, X. X. Shen, et al. | A genome-informed higher rank classification of the biotechnologically important fungal subphylum Saccharomycotina | Studies in Mycology | 105 1–22 |
| 2023 | 10.3390/microorganisms11092149 | Griesemer, M. and A. Navid | Uses of Multi-Objective Flux Analysis for Optimization of Microbial Production of Secondary Metabolites | Microorganisms | 11(9) 2149 |
| 2023 | 10.1089/ast.2022.0044 | Green, S. J., T. Torok, J. E. Allen, E. Eloe-Fadrosh, S. A. Jackson, S. C. Jiang, S. S. Levine, S. Levy, L. M. Schriml, W. K. Thomas, J. M. Wood and S. W. Tighe | Metagenomic Methods for Addressing NASA's Planetary Protection Policy Requirements on Future Missions: A Workshop Report | Astrobiology | 23(8) 897-907 |
| 2023 | 10.1128/mra.00025-23 | Green, M. A., Z. I. Alvarez-Aponte, V. V. Trotter and M. E. Taga | Draft Genome Sequence of Pedococcus sp. Strain 5OH_020, Isolated from California Grassland Soil | Microbiology Resource Announcements | 12(6) e00025-23 |
| 2023 | 10.1093/pnasnexus/pgad322 | Gopalakrishnan Meena, M., M. J. Lane, J. Tannous, A. A. Carrell, P. E. Abraham, R. J. Giannone, J.-M. Ané, N. P. Keller, J. L. Labbé, A. G. Geiger, D. Kainer, D. A. Jacobson and T. A. Rush | A glimpse into the fungal metabolomic abyss: Novel network analysis reveals relationships between exogenous compounds and their outputs | PNAS Nexus | 2(10) pgad322 |
| 2023 | 10.1021/acscatal.2c06219 | Gopal, M. R., R. M. Dickey, N. D. Butler, M. R. Talley, D. T. Nakamura, A. Mohapatra, M. P. Watson, W. Chen and A. M. Kunjapur | Reductive Enzyme Cascades for Valorization of Polyethylene Terephthalate Deconstruction Products | ACS Catalysis | 13(7) 4778-4789 |
| 2023 | 10.1016/j.funeco.2023.101298 | Golan, J. J., D. Lagomarsino Oneto, S. Ding, R. Kessenich, M. Sandler, T. A. Rush, D. Levitis, A. Gevens, A. Seminara and A. Pringle | Differences in spore size and atmospheric survival shape stark contrasts in the dispersal dynamics of two closely related fungal pathogens | Fungal Ecology | 66 101298 |
| 2023 | 10.1038/s41396-022-01351-3 | Goff, J. L., Y. Chen, M. P. Thorgersen, L. T. Hoang, F. L. Poole, E. G. Szink, G. Siuzdak, C. J. Petzold and M. W. W. Adams | Mixed heavy metal stress induces global iron starvation response | The ISME Journal | 17(3) 382–92 |
| 2023 | 10.1128/aem.01768-22 | Gionfriddo, C. M., A. B. Soren, A. M. Wymore, D. S. Hartnett, M. Podar, J. M. Parks, D. A. Elias and C. C. Gilmour | Transcriptional Control of hgcAB by an ArsR-Like Regulator in Pseudodesulfovibrio mercurii ND132 | Applied and Environmental Microbiology | 89(4) e01768-22 |
| 2023 | 10.1021/acssuschemeng.2c06030 | Gilcher, E. B., N. Kuch, J. T. Del Mundo, S. F. Ausman, L. Santiago-Martinez, C. F. M. Clewett, E. W. Gomez, E. D. Gomez, T. W. Root, B. G. Fox and J. A. Dumesic | Evolution of the Cellulose Microfibril through Gamma-Valerolactone-Assisted Co-Solvent and Enzymatic Hydrolysis | ACS Sustainable Chemistry & Engineering | 11(8) 3270–83 |
| 2023 | 10.1128/msystems.01260-22 | Gilbert, N. E., G. R. LeCleir, H. L. Pound, R. F. Strzepek, M. J. Ellwood, B. S. Twining, S. Roux, P. W. Boyd and S. W. Wilhelm | Giant Virus Infection Signatures Are Modulated by Euphotic Zone Depth Strata and Iron Regimes of the Subantarctic Southern Ocean | mSystems | 8(2) e01260-22 |
| 2023 | 10.3389/fcell.2023.1260507 | Georgouli, K., J.-S. Yeom, R. C. Blake and A. Navid | Multi-scale models of whole cells: progress and challenges | Frontiers in Cell and Developmental Biology | 11 |
| 2023 | 10.1038/s41598-023-32078-6 | George, N. A. and L. A. Hug | CRISPR-resolved virus-host interactions in a municipal landfill include non-specific viruses, hyper-targeted viral populations, and interviral conflicts | Scientific Reports | 13(1) 5611 |
| 2023 | 10.1016/j.cub.2023.04.010 | George, E. E., D. Barcytė, G. Lax, S. Livingston, D. Tashyreva, F. Husnik, J. Lukeš, M. Eliáš and P. J. Keeling | A single cryptomonad cell harbors a complex community of organelles, bacteria, a phage, and selfish elements | Current Biology | 33(10) 1982–96.e4 |
| 2023 | 10.1111/1751-7915.14205 | Gauttam, R., T. Eng, Z. Zhao, Q. ul ain Rana, B. A. Simmons, Y. Yoshikuni, A. Mukhopadhyay and S. W. Singer | Development of genetic tools for heterologous protein expression in a pentose-utilizing environmental isolate of Pseudomonas putida | Microbial Biotechnology | 16(3) 645–661 |
| 2023 | 10.1038/s41598-023-48650-z | Gautam, S., U. Mishra, C. D. Scown and R. Ghimire | Increased drought and extreme events over continental United States under high emissions scenario | Scientific Reports | 13(1) 21503 |
| 2023 | 10.1073/pnas.2312667120 | Gautam, S., N. R. Baral, U. Mishra and C. D. Scown | Impact of bioenergy feedstock carbon farming on sustainable aviation fuel viability in the United States | Proceedings of the National Academy of Sciences | 120(51) e2312667120 |
| 2023 | 10.1039/D3GC01481A | Garcia, V. E., V. Pidatala, C. A. Barcelos, D. Liu, P. Otoupal, et al. | Enhanced microbial production of protocatechuate from engineered sorghum using an integrated feedstock-to-product conversion technology | Green Chemistry | 25(17) 6797–808 |
| 2023 | 10.1128/mbio.02622-23 | Garber, M. E., V. Frank, A. E. Kazakov, M. R. Incha, A. A. Nava, H. Zhang, L. E. Valencia, J. D. Keasling, L. Rajeev and A. Mukhopadhyay | REC protein family expansion by the emergence of a new signaling pathway | mBio | 14(6) e02622-23 |
| 2023 | 10.1364/JOSAB.478008 | Garay-Palmett, K., D. B. Kim, Y. Zhang, F. A. Domínguez-Serna, V. O. Lorenz and A. B. U’Ren | Fiber-based photon-pair generation: tutorial | Journal of the Optical Society of America B | 40(3) 469–90 |
| 2023 | 10.1111/tpj.16242 | Gao, Y., A. S. Lipton, C. R. Munson, Y. Ma, K. L. Johnson, D. T. Murray, H. V. Scheller and J. C. Mortimer | Elongated galactan side chains mediate cellulose–pectin interactions in engineered Arabidopsis secondary cell walls | The Plant Journal | 115(2) 529–45 |
| 2023 | 10.1111/mec.16343 | Gao, C., P.-E. Courty, N. Varoquaux, B. Cole, L. Montoya, L. Xu, E. Purdom, J. Vogel, Robert B. Hutmacher, J. A. Dahlberg, D. Coleman-Derr, Peggy G. Lemaux and J. W. Taylor | Successional adaptive strategies revealed by correlating arbuscular mycorrhizal fungal abundance with host plant gene expression | Molecular Ecology | 32(10) 2674-2687 |
| 2023 | 10.1099/ijsem.0.005720 | Furlan, J. P. R., T. G. Ribeiro, Â. Novais, H. Cabral, L. Peixe and E. G. Stehling | Citrobacter meridianamericanus sp. nov., isolated from a soil sample | International Journal of Systematic and Evolutionary Microbiology | 73(3) |
| 2023 | 10.1038/s41477-022-01294-9 | Fu, X., L. M. Gregory, S. E. Weise and B. J. Walker | Integrated flux and pool size analysis in plant central metabolism reveals unique roles of glycine and serine during photorespiration | Nature Plants | 9(1) 169–78 |
| 2023 | 10.1038/s41557-023-01285-z | Fu, B., X. Mao, Y. Park, Z. Zhao, T. Yan, W. Jung, D. H. Francis, W. Li, B. Pian, F. Salimijazi, M. Suri, T. Hanrath, B. Barstow and P. Chen | Single-cell multimodal imaging uncovers energy conversion pathways in biohybrids | Nature Chemistry | |
| 2023 | 10.1016/j.csbj.2023.11.010 | Fremin, B. J., A. S. Bhatt and N. C. Kyrpides | Identification of over ten thousand candidate structured RNAs in viruses and phages | Computational and Structural Biotechnology Journal | 21 5630-5639 |
| 2023 | 10.1111/gcbb.13101 | Freer-Smith, P., J. H. Bailey-Bale, C. L. Donnison and G. Taylor | The good, the bad, and the future: Systematic review identifies best use of biomass to meet air quality and climate policies in California | GCB Bioenergy | 15(11) 1312–28 |
| 2023 | 10.3390/ijms24076821 | Francin-Allami, M., A. Bouder, A. Geairon, C. Alvarado, L. Le-Bot, S. Daniel, M. Shao, D. Laudencia-Chingcuanco, J. P. Vogel, F. Guillon, E. Bonnin, L. Saulnier and R. Sibout | Mixed-Linkage Glucan Is the Main Carbohydrate Source and Starch Is an Alternative Source during Brachypodium Grain Germination | International Journal of Molecular Sciences | 24(7) 6821 |
| 2023 | 10.1128/mra.00824-22 | Fraccascia, D., R. M. Chanyi, E. Altermann, N. C. Roy, S. H. Flint and W. C. McNabb | Complete Genome Sequences of Eight Faecalibacterium sp. Strains Isolated from Healthy Human Stool | Microbiology Resource Announcements | 12(1) e00824-22 |
| 2023 | 10.1038/s41598-023-29289-2 | Fowler, A. F., B. Basso, N. Millar and W. F. Brinton | A simple soil mass correction for a more accurate determination of soil carbon stock changes | Scientific Reports | 13(1) 2242 |
| 2023 | 10.3389/fmicb.2023.1284397 | Fourie, A., S. N. Venter, B. Slippers and G. Fourie | Pantoea bathycoeliae sp. nov and Sodalis sp. are core gut microbiome symbionts of the two-spotted stink bug | Frontiers in Microbiology | 14 |
| 2023 | 10.1016/j.soilbio.2022.108886 | Foley, M. M., S. J. Blazewicz, K. J. McFarlane, A. Greenlon, M. Hayer, J. A. Kimbrel, B. J. Koch, V. L. Monsaint-Queeney, K. Morrison, E. Morrissey, B. A. Hungate and J. Pett-Ridge | Active populations and growth of soil microorganisms are framed by mean annual precipitation in three California annual grasslands | Soil Biology and Biochemistry | 177 108886 |
| 2023 | 10.1128/MRA.00585-23 | Fisher, T., F. Durmazolu, K. M. DeAngelis and M. A. Morrow | Complete genome sequence of Bradyrhizobium NP1, isolated from forest soil | Microbiology Resource Announcements | 12(10) e00585-23 |
| 2023 | 10.1038/s41467-023-36674-y | Feurtey, A., C. Lorrain, M. C. McDonald, A. Milgate, P. S. Solomon, et al. | A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen | Nature Communications | 14(1) 1059 |
| 2023 | 10.3390/f14071383 | Fernández-González, A. J., A. V. Lasa, J. F. Cobo-Díaz, P. J. Villadas, A. J. Pérez-Luque, F. M. García-Rodríguez, S. G. Tringe and M. Fernández-López | Long-Term Persistence of Three Microbial Wildfire Biomarkers in Forest Soils | Forests | 14(7) 1383 |
| 2023 | 10.1111/1462-2920.16340 | Fernandes-Martins, M. C., D. R. Colman and E. S. Boyd | Relationships between fluid mixing, biodiversity, and chemosynthetic primary productivity in Yellowstone hot springs | Environmental Microbiology | 25(5) 1022-1040 |
| 2023 | 10.1111/gcbb.13078 | Ferin, K. M., T. Balson, E. Audia, A. S. Ward, S. Liess, T. E. Twine and A. VanLoocke | Field-scale analysis of miscanthus production indicates climate change may increase the opportunity for water quality improvement in a key Iowa watershed | GCB Bioenergy | 15(8) 994–1010 |
| 2023 | 10.1128/mbio.02043-23 | Felczak, M. M., M. P. Bernard and M. A. TerAvest | Respiration is essential for aerobic growth of Zymomonas mobilis ZM4 | mBio | 14(6) e02043-23 |
| 2023 | 10.1007/978-1-0716-2871-3_5 | Fauchery, L., M. Koriabine, L. P. Moore, Y. Yoshinaga, K. Barry, A. Kohler and J. M. U’Ren | Tissue Cultivation, Preparation, and Extraction of High Molecular Weight DNA for Single-Molecule Genome Sequencing of Plant-Associated Fungi | Microbial Environmental Genomics (MEG) | 79-102 |
| 2023 | 10.1016/j.ymben.2023.06.010 | Fatma, Z., S.-I. Tan, A. G. Boob and H. Zhao | A landing pad system for multicopy gene integration in Issatchenkia orientalis | Metabolic Engineering | 78 200–08 |
| 2023 | 10.1126/sciadv.adg8292 | Farokh Payam, A. and A. Passian | Imaging beyond the surface region: Probing hidden materials via atomic force microscopy | Science Advances | 9(26) eadg8292 |
| 2023 | 10.1111/irv.13057 | Faleye, T. O. C., A. Elyaderani, P. Skidmore, S. Adhikari, A. Smith, N. Kaiser, H. Sandrolini, S. Finnerty, R. U. Halden, A. Varsani and M. Scotch | Surveillance of rhinovirus diversity among a university community identifies multiple types from all three species including an unassigned rhinovirus A genotype | Influenza and Other Respiratory Viruses | 17(1) e13057 |
| 2023 | 10.3390/antibiotics12111571 | Falco, A., M. Á. Villaquirán-Muriel, J. D. Gallo Pérez, A. Mondragón-Quiguanas, C. Aranaga and A. Correa | Identification of Vibrio metschnikovii and Vibrio injensis Isolated from Leachate Ponds: Characterization of Their Antibiotic Resistance and Virulence-Associated Genes | Antibiotics | 12(11) 1571 |
| 2023 | 10.1128/mra.00142-23 | Fadiji, A. E., A. S. Ayangbenro and O. O. Babalola | Draft Genome Sequence of Citrobacter freundii AYS58, a Potential Plant Growth-Promoting Endophyte | Microbiology Resource Announcements | 12(5) e00142-23 |
| 2023 | 10.3389/sjss.2023.11302 | Fadiji, A. E., A. S. Ayangbenro and O. O. Babalola | Genomic Assessment of Enterobacter mori AYS9: A Potential Plant Growth-Promoting Drought-Resistant Rhizobacteria | Spanish Journal of Soil Science | 13 |
| 2023 | 10.1128/MRA.00464-23 | Fadiji, A. E., A. S. Ayangbenro, A. O. Akanmu and O. O. Babalola | Draft genome sequence of Acinetobacter sp. AYS6, a potential plant growth-promoting endophyte | Microbiology Resource Announcements | 12(10) e00464-23 |
| 2023 | 10.3389/fpls.2023.1181035 | Eudes, A., C.-Y. Lin, C. De Ben, J. Ortega, M. Y. Lee, Y.-C. Chen, G. Li, D. H. Putnam, J. C. Mortimer, P. C. Ronald, C. D. Scown and H. V. Scheller | Field performance of switchgrass plants engineered for reduced recalcitrance | Frontiers in Plant Science | 14 |
| 2023 | 10.1186/s40168-023-01554-6 | Ettinger, C. L., M. Saunders, L. Selbmann, M. Delgado-Baquerizo, C. Donati, D. Albanese, S. Roux, S. Tringe, C. Pennacchio, T. G. del Rio, J. E. Stajich and C. Coleine | Highly diverse and unknown viruses may enhance Antarctic endoliths’ adaptability | Microbiome | 11(1) 103 |
| 2023 | 10.1038/s41564-023-01439-2 | Esser, S. P., J. Rahlff, W. Zhao, M. Predl, J. Plewka, et al. | A predicted CRISPR-mediated symbiosis between uncultivated archaea | Nature Microbiology | 8(9) 1619-1633 |
| 2023 | 10.1364/OE.494744 | Eshun, A., X. Yi, A. Wilson, S. Jeppson, J. H. Yoo, S. Kiannejad, M. Rushford, T. Bond and T. Laurence | Fluorescence lifetime measurements using photon pair correlations generated via spontaneous parametric down conversion (SPDC) | Optics Express | 31(16) 26935–47 |
| 2023 | 10.1111/mec.16602 | Epstein, B., L. T. Burghardt, K. D. Heath, M. A. Grillo, A. Kostanecki, T. Hämälä, N. D. Young and P. Tiffin | Combining GWAS and population genomic analyses to characterize coevolution in a legume-rhizobia symbiosis | Molecular Ecology | 32(14) 3798-3811 |
| 2023 | 10.1128/mbio.01487-23 | Enright, A. L., A. B. Banta, R. D. Ward, J. R. Vazquez, M. M. Felczak, M. B. Wolfe, M. A. TerAvest, D. Amador-Noguez and J. M. Peters | The genetics of aerotolerant growth in an alphaproteobacterium with a naturally reduced genome | mBio | 14(6) e01487-23 |
| 2023 | 10.1021/jacs.2c11027 | Englund, E., M. Schmidt, A. A. Nava, A. Lechner, K. Deng, et al. | Expanding Extender Substrate Selection for Unnatural Polyketide Biosynthesis by Acyltransferase Domain Exchange within a Modular Polyketide Synthase | Journal of the American Chemical Society | 145(16) 8822–32 |
| 2023 | 10.1038/s41467-023-40464-x | Englund, E., M. Schmidt, A. A. Nava, S. Klass, L. Keiser, Q. Dan, L. Katz, S. Yuzawa and J. D. Keasling | Biosensor Guided Polyketide Synthases Engineering for Optimization of Domain Exchange Boundaries | Nature Communications | 14(1) 4871 |
| 2023 | 10.1016/j.celrep.2023.113087 | Eng, T., D. Banerjee, J. Menasalvas, Y. Chen, J. Gin, et al. | Maximizing microbial bioproduction from sustainable carbon sources using iterative systems engineering | Cell Reports | 42(9) 113087 |
| 2023 | 10.1128/aem.00825-23 | Eng, A. Y., A. Narayanan, C. J. Alster and K. M. DeAngelis | Thermal adaptation of soil microbial growth traits in response to chronic warming | Applied and Environmental Microbiology | 89(11) e00825-23 |
| 2023 | 10.1038/s41586-023-06186-2 | Eme, L., D. Tamarit, E. F. Caceres, C. W. Stairs, V. De Anda, et al. | Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes | Nature | 618(7967) 992-999 |
| 2023 | 10.3390/md21030165 | Elvheim, A. I., C. Li and B. Landfald | Conservation of Genomic Information in Multiple Displacement Amplified Low-Quantity Metagenomic Material from Marine Invertebrates | Marine Drugs | 21(3) 165 |
| 2023 | 10.1126/sciadv.ade1285 | Elmore, J. R., G. N. Dexter, H. Baldino, J. D. Huenemann, R. Francis, G. L. Peabody, J. Martinez-Baird, L. A. Riley, T. Simmons, D. Coleman-Derr, A. M. Guss and R. G. Egbert | High-throughput genetic engineering of nonmodel and undomesticated bacteria via iterative site-specific genome integration | Science Advances | 9(10) eade1285 |
| 2023 | 10.7554/eLife.86903 | Ellis, N. A., K. S. Myers, J. Tung, A. Davidson Ward, K. Johnston, K. E. Bonnington, T. J. Donohue and M. P. Machner | A randomized multiplex CRISPRi-Seq approach for the identification of critical combinations of genes | eLife | 12 RP86903 |
| 2023 | 10.1016/j.cub.2023.03.078 | Edwards, J. A., U. B. Saran, J. Bonnette, A. MacQueen, J. Yin, T. u. Nguyen, J. Schmutz, J. Grimwood, L. A. Pennacchio, C. Daum, T. Glavina del Rio, F. B. Fritschi, D. B. Lowry and T. E. Juenger | Genetic determinants of switchgrass-root-associated microbiota in field sites spanning its natural range | Current Biology | 33(10) 1926-1938.e6 |
| 2023 | 10.1186/s40168-023-01560-8 | Džunková, M., J. J. La Clair, T. Tyml, D. Doud, F. Schulz, et al. | Synthase-selected sorting approach identifies a beta-lactone synthase in a nudibranch symbiotic bacterium | Microbiome | 11(1) 130 |
| 2023 | 10.1073/pnas.2210037120 | Dunn, L., H. Luo, N. R. Subedi, R. Kasu, A. G. McDonald, D. N. Christodoulides and A. E. Vasdekis | Video-rate Raman-based metabolic imaging by Airy light-sheet illumination and photon-sparse detection | Proceedings of the National Academy of Sciences | 120(9) e2210037120 |
| 2023 | 10.1016/j.dib.2023.108990 | Duncan, A., K. Barry, C. Daum, E. Eloe-Fadrosh, S. Roux, K. Schmidt, S. G. Tringe, K. U. Valentin, N. Varghese, A. Salamov, I. V. Grigoriev, R. M. Leggett, V. Moulton and T. Mock | Dataset of 143 metagenome-assembled genomes from the Arctic and Atlantic Oceans, including 21 for eukaryotic organisms | Data in Brief | 47 108990 |
| 2023 | 10.1016/j.hal.2023.102433 | Dreher, T. W., R. Matthews, E. W. Davis and R. S. Mueller | Woronichinia naegeliana: A common nontoxigenic component of temperate freshwater cyanobacterial blooms with 30% of its genome in transposons | Harmful Algae | 125 102433 |
| 2023 | 10.1016/j.oneear.2023.10.015 | Dou, C., H. Choudhary, Z. Wang, N. R. Baral, M. Mohan, R. A. Aguilar, S. Huang, A. Holiday, D. R. Banatao, S. Singh, C. D. Scown, J. D. Keasling, B. A. Simmons and N. Sun | A hybrid chemical-biological approach can upcycle mixed plastic waste with reduced cost and carbon footprint | One Earth | 6(11) 1576-1590 |
| 2023 | 10.3390/pathogens12010013 | Doty, S. L., P. M. Joubert, A. Firrincieli, A. W. Sher, R. Tournay, C. Kill, S. S. Parikh and P. Okubara | Potential Biocontrol Activities of Populus Endophytes against Several Plant Pathogens Using Different Inhibitory Mechanisms | Pathogens | 12(1) 13 |
| 2023 | 10.1038/s41598-023-44005-w | Dort, E. N., E. Layne, N. Feau, A. Butyaev, B. Henrissat, F. M. Martin, S. Haridas, A. Salamov, I. V. Grigoriev, M. Blanchette and R. C. Hamelin | Large-scale genomic analyses with machine learning uncover predictive patterns associated with fungal phytopathogenic lifestyles and traits | Scientific Reports | 13(1) 17203 |
| 2023 | 10.26508/lsa.202201833 | Dorrell, R. G., A. Kuo, Z. Füssy, E. H. Richardson, A. Salamov, et al. | Convergent evolution and horizontal gene transfer in Arctic Ocean microalgae | Life Science Alliance | 6(3) e202201833 |
| 2023 | Donohue, T. J. | Producing transportation fuels, electrical power, and chemicals in a circular bioeconomy. | The Bridge: Linking Engineering and Society | 53(2) 41–46 | |
| 2023 | 10.1002/cssc.202201441 | Dong, X., H. B. Mayes, K. Morreel, R. Katahira, Y. Li, J. Ralph, B. A. Black and G. T. Beckham | Energy-Resolved Mass Spectrometry as a Tool for Identification of Lignin Depolymerization Products | ChemSusChem | 16(1) e202201441 |
| 2023 | 10.1111/gcb.16544 | Domeignoz-Horta, L. A., G. Pold, H. Erb, D. Sebag, E. Verrecchia, T. Northen, K. Louie, E. Eloe-Fadrosh, C. Pennacchio, M. A. Knorr, S. D. Frey, J. M. Melillo and K. M. DeAngelis | Substrate availability and not thermal acclimation controls microbial temperature sensitivity response to long-term warming | Global Change Biology | 29(6) 1574-1590 |
| 2023 | 10.3390/microorganisms11102389 | Dlamini, S. B., A. M. Gigante, S. P. T. Hooton and R. J. Atterbury | Efficacy of Different Encapsulation Techniques on the Viability and Stability of Diverse Phage under Simulated Gastric Conditions | Microorganisms | 11(10) 2389 |
| 2023 | 10.1016/j.ymben.2023.04.009 | Dinh, H. V. and C. D. Maranas | Evaluating proteome allocation of Saccharomyces cerevisiae phenotypes with resource balance analysis | Metabolic Engineering | 77 242–55 |
| 2023 | 10.1021/acssynbio.2c00658 | Dinglasan, J. L. N., T. T. Sword, J. W. Barker, M. J. Doktycz and C. B. Bailey | Investigating and Optimizing the Lysate-Based Expression of Nonribosomal Peptide Synthetases Using a Reporter System | ACS Synthetic Biology | 12(5) 1447–60 |
| 2023 | 10.1093/synbio/ysad007 | Dinglasan, J. L. N. and M. J. Doktycz | Rewiring cell-free metabolic flux in E. coli lysates using a block—push—pull approach | Synthetic Biology | 8(1) ysad007 |
| 2023 | 10.1186/s12864-023-09658-x | Diesel, J., G. Molano, G. J. Montecinos, K. DeWeese, S. Calhoun, A. Kuo, A. Lipzen, A. Salamov, I. V. Grigoriev, D. C. Reed, R. J. Miller, S. V. Nuzhdin and F. Alberto | A scaffolded and annotated reference genome of giant kelp (Macrocystis pyrifera) | BMC Genomics | 24(1) 543 |
| 2023 | 10.1016/j.xplc.2022.100512 | Di, X., D. Ortega-Alarcon, R. Kakumanu, J. Iglesias-Fernandez, L. Diaz, E. E. K. Baidoo, A. Velazquez-Campoy, M. Rodríguez-Concepción and J. Perez-Gil | MEP pathway products allosterically promote monomerization of deoxy-D-xylulose-5-phosphate synthase to feedback-regulate their supply | Plant Communications | 4(3) 100512 |
| 2023 | 10.1094/mpmi-08-22-0169-a | Deyett, E., V. E. T. M. Ashworth, B. DiSalvo, Flavia Campos F. Vieira, M. C. Roper and P. E. Rolshausen | Genome Sequence Data of Achromobacter vitis, an Endophytic Species with Biocontrol Properties Against Xylella fastidiosa | Molecular Plant-Microbe Interactions® | 36(7) 457–59 |
| 2023 | 10.1038/s41467-023-38915-6 | Devos, K. M., P. Qi, B. A. Bahri, D. M. Gimode, K. Jenike, et al. | Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet | Nature Communications | 14(1) 3694 |
| 2023 | 10.3389/fpls.2023.1207275 | Devireddy, A. R., R. M. Rivero and S. I. Zandalinas | Editorial: Rising stars in plant ROS/redox biology under abiotic stress conditions | Frontiers in Plant Science | 14 |
| 2023 | 10.3390/fermentation9010005 | Deshavath, N. N., B. S. Dien, P. J. Slininger, Y.-S. Jin and V. Singh | A Chemical-Free Pretreatment for Biosynthesis of Bioethanol and Lipids from Lignocellulosic Biomass: An Industrially Relevant 2G Biorefinery Approach | Fermentation | 9(1) 5 |
| 2023 | 10.1016/j.ab.2022.114997 | Deng, K., X. Wang, N. Ing, P. Opgenorth, M. de Raad, J. Kim, B. A. Simmons, P. D. Adams, A. K. Singh, T. S. Lee and T. R. Northen | Rapid quantification of alcohol production in microorganisms based on nanostructure-initiator mass spectrometry (NIMS) | Analytical Biochemistry | 662 114997 |
| 2023 | 10.1007/s00253-023-12684-0 | Dementiev, A., S. P. Lillington, S. Jin, Y. Kim, R. Jedrzejczak, K. Michalska, A. Joachimiak and M. A. O’Malley | Structure and enzymatic characterization of CelD endoglucanase from the anaerobic fungus Piromyces finnis | Applied Microbiology and Biotechnology | 107(19) 5999–6011 |
| 2023 | 10.1038/s41893-023-01160-2 | Demarteau, J., B. Cousineau, Z. Wang, B. Bose, S. Cheong, G. Lan, N. R. Baral, S. J. Teat, C. D. Scown, J. D. Keasling and B. A. Helms | Biorenewable and circular polydiketoenamine plastics | Nature Sustainability | 6(11) 1426–35 |
| 2023 | 10.1016/j.tree.2023.03.001 | de Vries, F., J. Lau, C. Hawkes and M. Semchenko | Plant-soil feedback under drought: does history shape the future? | Trends in Ecology & Evolution | 38(8) 708–18 |
| 2023 | 10.1016/j.jbc.2023.102939 | de Raad, M., K. Koper, K. Deng, B. P. Bowen, H. A. Maeda and T. R. Northen | Mass spectrometry imaging–based assays for aminotransferase activity reveal a broad substrate spectrum for a previously uncharacterized enzyme | Journal of Biological Chemistry | 299(3) |
| 2023 | 10.1016/j.jbc.2023.102939 | de Raad, M., K. Koper, K. Deng, B. P. Bowen, H. A. Maeda and T. R. Northen | Mass spectrometry imaging-based assays for aminotransferase activity reveal a broad substrate spectrum for a previously uncharacterized enzyme | Journal of Biological Chemistry | 299(3) |
| 2023 | 10.1016/j.biocontrol.2023.105245 | de Oliveira, C. M., L. H. Oshiquiri, N. O. Almeida, A. S. Steindorf, M. R. da Rocha, R. C. Georg and C. J. Ulhoa | Trichoderma harzianum transcriptome in response to the nematode Pratylenchus brachyurus | Biological Control | 183 105245 |
| 2023 | 10.1111/tpj.16465 | de Freitas Pereira, M., D. Cohen, L. Auer, N. Aubry, M.-B. Bogeat-Triboulot, et al. | Ectomycorrhizal symbiosis prepares its host locally and systemically for abiotic cue signaling | The Plant Journal | 116(6) 1784–803 |
| 2023 | 10.1093/bioinformatics/btad511 | Davidson, R. B., M. Coletti, M. Gao, B. Piatkowski, A. Sreedasyam, F. Quadir, D. J. Weston, J. Schmutz, J. Cheng, J. Skolnick, J. M. Parks and A. Sedova | Predicted structural proteome of Sphagnum divinum and proteome-scale annotation | Bioinformatics | 39(8) |
| 2023 | 10.1073/pnas.2305495120 | Davidi, L., S. D. Gallaher, E. Ben-David, S. O. Purvine, T. L. Fillmore, C. D. Nicora, R. J. Craig, S. Schmollinger, S. Roje, C. E. Blaby-Haas, R. P. Auber, J. H. Wisecaver and S. S. Merchant | Pumping iron: A multi-omics analysis of two extremophilic algae reveals iron economy management | Proceedings of the National Academy of Sciences | 120(30) e2305495120 |
| 2023 | 10.1073/pnas.2303335120 | Davenport, R., B. P. Bowen, L. M. Lynch, S. M. Kosina, I. Shabtai, T. R. Northen and J. Lehmann | Decomposition decreases molecular diversity and ecosystem similarity of soil organic matter | Proceedings of the National Academy of Sciences | 120(25) e2303335120 |
| 2023 | 10.1007/s11274-023-03631-2 | Das, S., I. N. Najar, M. T. Sherpa, S. Kumar, P. Sharma, K. Mondal, S. Tamang and N. Thakur | Baseline metagenome-assembled genome (MAG) data of Sikkim hot springs from Indian Himalayan geothermal belt (IHGB) showcasing its potential CAZymes, and sulfur-nitrogen metabolic activity | World Journal of Microbiology and Biotechnology | 39(7) 179 |
| 2023 | 10.1093/bib/bbad405 | Dai, X., L. Wu, S. Yoo and Q. Liu | Integrating AlphaFold and deep learning for atomistic interpretation of cryo-EM maps | Briefings in Bioinformatics | 24(6) bbad405 |
| 2023 | 10.3390/metabo13020140 | Dahal, S., G. B. Hurst, K. Chourey, N. L. Engle, L. H. Burdick, J. L. Morrell-Falvey, T. J. Tschaplinski, M. J. Doktycz and D. A. Pelletier | Mechanism for Utilization of the Populus-Derived Metabolite Salicin by a Pseudomonas—Rahnella Co-Culture | Metabolites | 13(2) 140 |
| 2023 | 10.1016/j.tcsw.2023.100101 | Curry, T. M., M. J. Peña and B. R. Urbanowicz | An update on xylan structure, biosynthesis, and potential commercial applications | The Cell Surface | 9 100101 |
| 2023 | 10.1039/D2NR06235F | Cupil-Garcia, V., J. Q. Li, S. J. Norton, R. A. Odion, P. Strobbia, L. Menozzi, C. Ma, J. Hu, R. Zentella and M. I. Boyanov | Plasmonic nanorod probes’ journey inside plant cells for in vivo SERS sensing and multimodal imaging | Nanoscale | 15(13) 6396–407 |
| 2023 | 10.1093/bioinformatics/btad466 | Cunha, E., D. Lagoa, J. P. Faria, F. Liu, C. S. Henry and O. Dias | TranSyT, an innovative framework for identifying transport systems | Bioinformatics | 39(8) |
| 2023 | 10.1093/biosci/biad015 | Cuddington, K., K. C. Abbott, F. R. Adler, M. Aydeniz, R. Dale, et al. | Challenges and opportunities to build quantitative self-confidence in biologists | BioScience | 73(5) 364-375 |
| 2023 | 10.1371/journal.pbio.3001909 | Crandall, J. G., K. J. Fisher, T. K. Sato and C. T. Hittinger | Ploidy evolution in a wild yeast is linked to an interaction between cell type and metabolism | PLOS Biology | 21(11) e3001909 |
| 2023 | 10.1186/s40168-022-01427-4 | Couvillion, S. P., R. E. Danczak, D. Naylor, M. L. Smith, K. G. Stratton, et al. | Rapid remodeling of the soil lipidome in response to a drying-rewetting event | Microbiome | 11(1) 34 |
| 2023 | 10.1186/s40168-023-01547-5 | Coutinho, F. H., C. B. Silveira, M. Sebastián, P. Sánchez, C. M. Duarte, D. Vaqué, J. M. Gasol and S. G. Acinas | Water mass age structures the auxiliary metabolic gene content of free-living and particle-attached deep ocean viral communities | Microbiome | 11(1) 118 |
| 2023 | 10.1021/acscatal.3c00379 | Courtney, D. K., Y. Su, T. B. Jacobson, D. B. Khana, A. Ailiani, D. Amador-Noguez and B. F. Pfleger | Relative Activities of the β-Ketoacyl-CoA and Acyl-CoA Reductases Influence the Product Profile and Flux in a Reversed β-Oxidation Pathway | ACS Catalysis | 13(9) 5914–25 |
| 2023 | 10.1016/j.tibtech.2023.05.002 | Cordell, W. T., G. Avolio, R. Takors and B. F. Pfleger | Milligrams to kilograms: making microbes work at scale | Trends in Biotechnology | 41(11) 1442–57 |
| 2023 | 10.1016/j.csbj.2022.12.052 | Cope, K. R., E. T. Prates, J. I. Miller, O. N. A. Demerdash, M. Shah, et al. | Exploring the role of plant lysin motif receptor-like kinases in regulating plant-microbe interactions in the bioenergy crop Populus | Computational and Structural Biotechnology Journal | 21 1122–39 |
| 2023 | 10.1016/j.cub.2023.10.009 | Collier, J. L., J. S. Rest, L. Gallot-Lavallée, E. Lavington, A. Kuo, J. Jenkins, C. Plott, J. Pangilinan, C. Daum, I. V. Grigoriev, G. V. Filloramo, A. M. G. Novák Vanclová and J. M. Archibald | The protist Aurantiochytrium has universal subtelomeric rDNAs and is a host for mirusviruses | Current Biology | 33(23) 5199-5207.e4 |
| 2023 | 10.1186/s40168-023-01666-z | Coclet, C., P. O. Sorensen, U. Karaoz, S. Wang, E. L. Brodie, E. A. Eloe-Fadrosh and S. Roux | Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem | Microbiome | 11(1) 237 |
| 2023 | 10.1016/j.syapm.2023.126452 | Claassens, R., S. N. Venter, C. W. Beukes, T. Stępkowski, W. Y. Chan and E. T. Steenkamp | Bradyrhizobium xenonodulans sp. nov. isolated from nodules of Australian Acacia species invasive to South Africa | Systematic and Applied Microbiology | 46(5) 126452 |
| 2023 | 10.1016/j.soilbio.2022.108935 | Chuckran, P. F., C. Flagg, J. Propster, W. A. Rutherford, E. T. Sieradzki, S. J. Blazewicz, B. Hungate, J. Pett-Ridge, E. Schwartz and P. Dijkstra | Edaphic controls on genome size and GC content of bacteria in soil microbial communities | Soil Biology and Biochemistry | 178 108935 |
| 2023 | 10.1016/j.isci.2023.108400 | Chowdhury, N. B., M. Simons-Senftle, B. Decouard, I. Quillere, M. Rigault, K. A. Sajeevan, B. Acharya, R. Chowdhury, B. Hirel, A. Dellagi, C. Maranas and R. Saha | A multi-organ maize metabolic model connects temperature stress with energy production and reducing power generation | iScience | 26(12) 108400 |
| 2023 | 10.1002/chem.202300330 | Choudhary, H., L. Das, J. G. Pelton, L. Sheps, B. A. Simmons, J. M. Gladden and S. Singh | Funneled Depolymerization of Ionic Liquid-Based Biorefinery “Heterogeneous” Lignin into Guaiacols over Reusable Palladium Catalyst | Chemistry – A European Journal | 29(27) e202300330 |
| 2023 | 10.1128/spectrum.01332-23 | Chou, M.-Y., T. B. Andersen, M. E. M. Llontop, N. Beculheimer, A. Sow, N. Moreno, A. Shade, B. Hamberger and G. Bonito | Terpenes modulate bacterial and fungal growth and sorghum rhizobiome communities | Microbiology Spectrum | 11(5) e01332-23 |
| 2023 | 10.1093/jxb/erad255 | Choi, S., P. K. Prabhakar, R. Chowdhury, T. H. Pendergast, IV, B. R. Urbanowicz, C. Maranas and K. M. Devos | A single amino acid change led to structural and functional differentiation of PvHd1 to control flowering in switchgrass | Journal of Experimental Botany | 74(18) 5532–46 |
| 2023 | 10.3390/molecules28031427 | Choi, J., A. Rodriguez, B. A. Simmons and J. M. Gladden | Valorization of Hemp-Based Packaging Waste with One-Pot Ionic Liquid Technology | Molecules | 28(3) 1427 |
| 2023 | 10.21769/BioProtoc.4862 | Choe, K. and J. V. Sweedler | Workflow for High-throughput Screening of Enzyme Mutant Libraries Using Matrix-assisted Laser Desorption/Ionization Mass Spectrometry Analysis of Escherichia coli Colonies | Bio-protocol | 13(21) e4862 |
| 2023 | 10.1016/j.ab.2023.115169 | Choe, K., M. A. Jindra, S. C. Hubbard, B. F. Pfleger and J. V. Sweedler | MALDI-MS screening of microbial colonies with isomer resolution to select fatty acid desaturase variants | Analytical Biochemistry | 672 115169 |
| 2023 | 10.1093/nar/gkad484 | Chlebek, J. L., S. P. Leonard, C. Kang-Yun, M. C. Yung, D. P. Ricci, Y. Jiao and D. M. Park | Prolonging genetic circuit stability through adaptive evolution of overlapping genes | Nucleic Acids Research | 51(13) 7094–108 |
| 2023 | 10.1038/s41596-022-00747-x | Chivian, D., S. P. Jungbluth, P. S. Dehal, E. M. Wood-Charlson, R. S. Canon, et al. | Metagenome-assembled genome extraction and analysis from microbiomes using KBase | Nature Protocols | 18(1) 208–38 |
| 2023 | 10.3389/fmicb.2023.1219779 | Chiu, B. K., J. Waldbauer, F. J. Elling, Ö. Z. Mete, L. Zhang, A. Pearson, E. M. Eggleston and W. D. Leavitt | Membrane lipid and expression responses of Saccharolobus islandicus REY15A to acid and cold stress | Frontiers in Microbiology | 14 |
| 2023 | Chiarelli, D., D. Olson and L. Lynd | Expression and characterization of glycolytic enzymes from Thermoanaerobacterium saccharolyticum and Zymomonas mobilis in Clostridium thermocellum | SBFC: Symposium on Biomaterials, Fuels and Chemicals | ||
| 2023 | 10.1073/pnas.2218248120 | Chiang, C.-H., T. Wymore, A. Rodríguez Benítez, A. Hussain, J. L. Smith, C. L. Brooks and A. R. H. Narayan | Deciphering the evolution of flavin-dependent monooxygenase stereoselectivity using ancestral sequence reconstruction | Proceedings of the National Academy of Sciences | 120(15) e2218248120 |
| 2023 | 10.1016/j.biortech.2023.129104 | Cheng, M.-H., S. Singh, A. N. Carr Clennon, B. S. Dien and V. Singh | Production of Designer Xylose-Acetic Acid Enriched Hydrolysate from Bioenergy Sorghum, Oilcane, and Energycane Bagasses | Bioresource Technology | 380 129104 |
| 2023 | 10.1039/D2GC03446H | Cheng, F., S. Liu, S. D. Karlen, H. Kim, F. Lu, J. Ralph, L. M. Vázquez Ramos, G. W. Huber and J. A. Dumesic | Poplar lignin structural changes during extraction in γ-valerolactone (GVL) | Green Chemistry | 25(1) 336–47 |
| 2023 | 10.1089/crispr.2022.0096 | Chen, Y.-H., S. Sharma, W. P. Bewg, L.-J. Xue, C. R. Gizelbach and C.-J. Tsai | Multiplex Editing of the Nucleoredoxin1 Tandem Array in Poplar: From Small Indels to Translocations and Complex Inversions | The CRISPR Journal | 6(4) 339–349 |
| 2023 | 10.1371/journal.pone.0288102 | Chen, Y., J. W. Gin, Y. Wang, M. de Raad, S. Tan, N. J. Hillson, T. R. Northen, P. D. Adams and C. J. Petzold | Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format | PLOS ONE | 18(7) e0288102 |
| 2023 | 10.1038/s41467-023-42877-0 | Chen, X., G. A. Hudson, C. Mineo, B. Amer, E. E. K. Baidoo, S. A. Crowe, Y. Liu, J. D. Keasling and H. V. Scheller | Deciphering triterpenoid saponin biosynthesis by leveraging transcriptome response to methyl jasmonate elicitation in Saponaria vaccaria | Nature Communications | 14(1) 7101 |
| 2023 | 10.1021/acs.jafc.3c04973 | Chen, M., J. Ralph, J. S. Luterbacher, Q.-S. Shi and X. Xie | Selecting Suitable Near-Native Lignins for Research | Journal of Agricultural and Food Chemistry | 71(51) 20751–61 |
| 2023 | 10.1021/acssuschemeng.3c01320 | Chen, M., Y. Li, F. Lu, J. S. Luterbacher and J. Ralph | Lignin Hydrogenolysis: Phenolic Monomers from Lignin and Associated Phenolates across Plant Clades | ACS Sustainable Chemistry & Engineering | 11(27) 10001–17 |
| 2023 | 10.3389/fpls.2023.1227859 | Chemelewski, R., B. A. McKinley, S. Finlayson and J. E. Mullet | Epicuticular wax accumulation and regulation of wax pathway gene expression during bioenergy Sorghum stem development | Frontiers in Plant Science | 14 |
| 2023 | 10.1101/2023.05.25.542161 | Chaya, T., A. Banerjee, B. D. Rutter, D. Adekanye, J. Ross, G. Hu, R. W. Innes and J. L. Caplan | Characterization of extracellular vesicles isolated from Sorghum bicolor reveals a conservation between monocot and eudicot extracellular vesicle proteomes | bioRxiv | |
| 2023 | 10.1093/femsyr/foad055 | Chavez, C. M., M. Groenewald, A. B. Hulfachor, G. Kpurubu, R. Huerta, C. T. Hittinger and A. Rokas | The cell morphological diversity of Saccharomycotina yeasts | FEMS Yeast Research | 24 foad055 |
| 2023 | 10.1002/cbic.202300001 | Chaudhury, D., E. R. Torkelson, K. A. Meyers, J. F. Acheson, L. Landucci, Y. Pu, Z. Sun, M. Tonelli, C. A. Bingman, R. A. Smith, S. D. Karlen, S. D. Mansfield, J. Ralph and B. G. Fox | Rapid Biocatalytic Synthesis of Aromatic Acid CoA Thioesters by Using Microbial Aromatic Acid CoA Ligases | ChemBioChem | 24(9) e202300001 |
| 2023 | 10.1128/mra.00069-23 | Chapman, A. R., J. M. Wright, N. A. Kaiser, P. M. Jones, E. M. Driver, R. U. Halden, A. Varsani, M. Scotch and T. O. C. Faleye | Rhizobium Phage-Like Microvirus Genome Sequence Identified in Wastewater in Arizona, USA, in November 2020 Encodes an Endolysin and a Putative Multiheme Cytochrome c-like Protein | Microbiology Resource Announcements | 12(5) e00069-23 |
| 2023 | 10.1016/j.plantsci.2023.111874 | Chang, E., W. Guo, J. Chen, J. Zhang, Z. Jia, T. J. Tschaplinski, X. Yang, Z. Jiang and J. Liu | Chromosome-level genome assembly of Quercus variabilis provides insights into the molecular mechanism of cork thickness | Plant Science | 337 111874 |
| 2023 | 10.1093/bioadv/vbad005 | Chang, C. H., W. C. Nelson, A. Jerger, A. T. Wright, R. G. Egbert and J. E. McDermott | Snekmer: a scalable pipeline for protein sequence fingerprinting based on amino acid recoding | Bioinformatics Advances | 3(1) |
| 2023 | 10.1128/aem.00570-23 | Chan, C. S., G. E. Dykes, R. L. Hoover, M. A. Limmer and A. L. Seyfferth | Gallionellaceae in rice root plaque: metabolic roles in iron oxidation, nutrient cycling, and plant interactions | Applied and Environmental Microbiology | 89(12) e00570-23 |
| 2023 | 10.1128/MRA.00509-23 | Chakraborty, S., J. B. Benoit, A. R. Rowe and J. D. Sackett | Genome sequence of Asaia bogorensis strain SC1 isolated from an Aedes aegypti mosquito crop | Microbiology Resource Announcements | 12(11) e00509-23 |
| 2023 | 10.1016/j.copbio.2023.102992 | Chainani, Y., G. Bonnanzio, K. E. J. Tyo and L. J. Broadbelt | Coupling chemistry and biology for the synthesis of advanced bioproducts | Current Opinion in Biotechnology | 84 102992 |
| 2023 | 10.1007/s12155-022-10513-2 | Casler, M. D., D. Lee, R. B. Mitchell, K. J. Moore, P. R. Adler, et al. | Biomass Quality Responses to Selection for Increased Biomass Yield in Perennial Energy Grasses | BioEnergy Research | 16(2) 877–85 |
| 2023 | 10.1002/plr2.20294 | Casler, M. D. and D. Lee | Registration of ‘Cedar Creek’ switchgrass | Journal of Plant Registrations | 17(3) 483–87 |
| 2023 | 10.1145/3592979.3593402 | Cashman, M., V. G. M. Vergara, J. Lagergren, M. Lane, J. Merlet, M. Atkinson, J. Streich, C. Bradburne, R. Plowright, W. Joubert and D. Jacobson | Longitudinal Effects on Plant Species Involved in Agriculture and Pandemic Emergence Undergoing Changes in Abiotic Stress | Proceedings of the Platform for Advanced Scientific Computing Conference | 1–10 |
| 2023 | 10.1186/s13068-023-02301-7 | Carruthers, D. N., J. Kim, D. Mendez-Perez, E. Monroe, N. Myllenbeck, Y. Liu, R. W. Davis, E. Sundstrom and T. S. Lee | Microbial production of high octane and high sensitivity olefinic ester biofuels | Biotechnology for Biofuels and Bioproducts | 16(1) 60 |
| 2023 | 10.1099/ijsem.0.005628 | Carro, L. and A. Oren | Descriptions of Micromonospora grosourdyae nom. nov., Micromonospora sonchi comb. nov. and Micromonospora thawaii sp. nov. to resolve problems with the taxonomy and nomenclature of strains named Micromonospora endophytica | International Journal of Systematic and Evolutionary Microbiology | 72(12) |
| 2023 | 10.1002/pld3.544 | Carrell, A. A., M. Clark, S. Jawdy, W. Muchero, G. Alexandre, J. L. Labbé and T. A. Rush | Interactions with microbial consortia have variable effects in organic carbon and production of exometabolites among genotypes of Populus trichocarpa | Plant Direct | 7(11) e544 |
| 2023 | 10.1007/s00203-023-03768-6 | Carrasco, V., D. M. Roldán, F. Valenzuela-Ibaceta, S. Lagos-Moraga, C. Dietz-Vargas, R. J. Menes and J. M. Pérez-Donoso | Pseudomonas violetae sp. nov. and Pseudomonas emilianonis sp. nov., two new species with the ability to degrade TNT isolated from soil samples at Deception Island, maritime Antarctica | Archives of Microbiology | 206(1) 39 |
| 2023 | 10.1093/g3journal/jkad110 | Carr, E. C., Q. Barton, S. Grambo, M. Sullivan, C. M. Renfro, A. Kuo, J. Pangilinan, A. Lipzen, K. Keymanesh, E. Savage, K. Barry, I. V. Grigoriev, W. R. Riekhof and S. D. Harris | Characterization of a novel polyextremotolerant fungus, Exophiala viscosa, with insights into its melanin regulation and ecological niche | G3 Genes|Genomes|Genetics | 13(8) |
| 2023 | 10.1038/s43705-023-00297-7 | Carlson, H. K., D. Piya, M. L. Moore, R. T. Magar, N. H. Elisabeth, A. M. Deutschbauer, A. P. Arkin and V. K. Mutalik | Geochemical constraints on bacteriophage infectivity in terrestrial environments | ISME Communications | 3(1) 78 |
| 2023 | 10.1186/s13068-023-02393-1 | Cao, V. D., G. Luo, S. Korynta, H. Liu, Y. Liang, J. Shanklin and F. Altpeter | Intron-mediated enhancement of DIACYLGLYCEROL ACYLTRANSFERASE1 expression in energycane promotes a step change for lipid accumulation in vegetative tissues | Biotechnology for Biofuels and Bioproducts | 16(1) 153 |
| 2023 | 10.1111/gcbb.13107 | Cao, V. D., B. Kannan, G. Luo, H. Liu, J. Shanklin and F. Altpeter | Triacylglycerol, total fatty acid, and biomass accumulation of metabolically engineered energycane grown under field conditions confirms its potential as feedstock for drop-in fuel production | GCB Bioenergy | 15(12) 1450–64 |
| 2023 | 10.1093/nar/gkad964 | Camargo, A. P., L. Call, S. Roux, S. Nayfach, M. Huntemann, et al. | IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata | Nucleic Acids Research | 52(D1) D164-D173 |
| 2023 | 10.1016/j.ymben.2023.10.006 | Callaghan, M. M., E. Thusoo, B. D. Sharma, F. Getahun, D. M. Stevenson, C. Maranas, D. G. Olson, L. R. Lynd and D. Amador-Noguez | Deuterated water as a substrate-agnostic isotope tracer for investigating reversibility and thermodynamics of reactions in central carbon metabolism | Metabolic Engineering | 80 254–66 |
| 2023 | 10.1094/pbiomes-02-23-0011-r | Caddell, D. F., D. Pettinga, K. Louie, B. P. Bowen, J. A. Sievert, J. Hollingsworth, R. Rubanowitz, J. Dahlberg, E. Purdom, T. Northen and D. Coleman-Derr | Drought Shifts Sorghum Root Metabolite and Microbiome Profiles and Enriches for Pipecolic Acid | Phytobiomes Journal | 7(4) 449-463 |
| 2023 | 10.1016/j.coisb.2023.100480 | Bunbury, F., A. N. Shelton and D. Bhaya | Shedding light on spatial structure and dynamics in phototrophic biofilms | Current Opinion in Systems Biology | 36 100480 |
| 2023 | 10.1016/j.virusres.2023.199121 | Buivydaitė, Ž., L. Aryal, F. B. Corrêa, T. Chen, V. Langlois, et al. | Meeting report: The first soil viral workshop 2022 | Virus Research | 331 199121 |
| 2023 | 10.1038/s41396-023-01472-3 | Buessecker, S., G. L. Chadwick, M. E. Quan, B. P. Hedlund, J. A. Dodsworth and A. E. Dekas | Mcr-dependent methanogenesis in Archaeoglobaceae enriched from a terrestrial hot spring | The ISME Journal | 17(10) 1649-1659 |
| 2023 | 10.1038/s41467-023-35845-1 | Bryson, A. E., E. R. Lanier, K. H. Lau, J. P. Hamilton, B. Vaillancourt, D. Mathieu, A. E. Yocca, G. P. Miller, P. P. Edger, C. R. Buell and B. Hamberger | Uncovering a miltiradiene biosynthetic gene cluster in the Lamiaceae reveals a dynamic evolutionary trajectory | Nature Communications | 14(1) 343 |
| 2023 | 10.3389/fpls.2023.1153113 | Bryant, N., J. Zhang, K. Feng, M. Shu, R. Ployet, J.-G. Chen, W. Muchero, C. G. Yoo, T. J. Tschaplinski, Y. Pu and A. J. Ragauskas | Novel candidate genes for lignin structure identified through genome-wide association study of naturally varying Populus trichocarpa | Frontiers in Plant Science | 14 |
| 2023 | 10.3389/fpls.2023.1089011 | Bryant, N., W. Muchero, R. A. Weber, J. Barros, J.-G. Chen, T. J. Tschaplinski, Y. Pu and A. J. Ragauskas | Cell wall response of field grown Populus to Septoria infection | Frontiers in Plant Science | 14 |
| 2023 | 10.1039/D3RA03142J | Bryant, N., N. Engle, T. Tschaplinski, Y. Pu and A. J. Ragauskas | Variable lignin structure revealed in Populus leaves | RSC Advances | 13(29) 20187–97 |
| 2023 | 10.1089/phage.2023.0004 | Bryan, D. W., L. K. Hudson, J. Wang and T. G. Denes | Characterization of a Diverse Collection of Salmonella Phages Isolated from Tennessee Wastewater | PHAGE | 4(2) 90–98 |
| 2023 | 10.1039/D3CP00843F | Browning, A., K. Macculloch, P. TomHon, I. Mandzhieva, E. Y. Chekmenev, B. M. Goodson, S. Lehmkuhl and T. Theis | Spin dynamics of [1, 2-13 C 2] pyruvate hyperpolarization by parahydrogen in reversible exchange at micro Tesla fields | Physical Chemistry Chemical Physics | 25 16446–58 |
| 2023 | 10.1038/s41467-023-37552-3 | Brown, M. O., B. O. Olagunju, J.-L. Giner and P. V. Welander | Sterol methyltransferases in uncultured bacteria complicate eukaryotic biomarker interpretations | Nature Communications | 14(1) 1859 |
| 2023 | 10.3389/ffunb.2023.1171100 | Brown, J. L., T. Gierke, L. V. Butkovich, C. L. Swift, V. Singan, C. Daum, K. Barry, I. V. Grigoriev and M. A. O’Malley | High-quality RNA extraction and the regulation of genes encoding cellulosomes are correlated with growth stage in anaerobic fungi | Frontiers in Fungal Biology | 4 |
| 2023 | 10.1016/j.molp.2023.06.004 | Brouckaert, M., M. Peng, R. Höfer, I. El Houari, C. Darrah, V. Storme, Y. Saeys, R. Vanholme, G. Goeminne, V. I. Timokhin, J. Ralph, K. Morreel and W. Boerjan | QT–GWAS: A novel method for unveiling biosynthetic loci affecting qualitative metabolic traits | Molecular Plant | 16(7) 1212–27 |
| 2023 | 10.34133/bdr.0013 | Brooks, E. G., E. Elorriaga, Y. Liu, J. R. Duduit, G. Yuan, C.-J. Tsai, G. A. Tuskan, T. G. Ranney, X. Yang and W. Liu | Plant Promoters and Terminators for High-Precision Bioengineering | BioDesign Research | 5 0013 |
| 2023 | 10.1111/nph.19051 | Brisson, V., C. Swink, J. Kimbrel, X. Mayali, T. Samo, S. M. Kosina, M. Thelen, T. R. Northen and R. K. Stuart | Dynamic Phaeodactylum tricornutum exometabolites shape surrounding bacterial communities | New Phytologist | 239(4) 1420–33 |
| 2023 | 10.1111/mec.16893 | Braga, L. P. P. and R. I. Schumacher | Awaking the dormant virome in the rhizosphere | Molecular Ecology | 32(11) 2985–99 |
| 2023 | 10.1038/s41579-023-00968-1 | Bowers, R. M. | Gone with a trace: cataloguing the disappearing gut microbes | Nature Reviews Microbiology | 21(11) 704-704 |
| 2023 | 10.1201/9781003126096 | Bowen, J. L. | Microbial Ecology in a Changing Climate | Climate Change and Estuaries | |
| 2023 | 10.1098/rsfs.2022.0070 | Borer, B. and S. Magnúsdóttir | The media composition as a crucial element in high-throughput metabolic network reconstruction | Interface Focus | 13(2) 20220070 |
| 2023 | 10.1002/prot.26422 | Boorla, V. S., R. Chowdhury, R. Ramasubramanian, B. Ameglio, R. Frick, J. J. Gray and C. D. Maranas | De novo design and Rosetta-based assessment of high-affinity antibody variable regions (Fv) against the SARS-CoV-2 spike receptor binding domain (RBD) | Proteins: Structure, Function, and Bioinformatics | 91(2) 196–208 |
| 2023 | 10.1038/s41396-023-01454-5 | Booker, A. E., T. D’Angelo, A. Adams-Beyea, J. M. Brown, O. Nigro, M. S. Rappé, R. Stepanauskas and B. N. Orcutt | Life strategies for Aminicenantia in subseafloor oceanic crust | The ISME Journal | 17(9) 1406-1415 |
| 2023 | 10.1128/jb.00184-23 | Bonde, N. J., E. A. Wood, K. S. Myers, M. Place, J. L. Keck and M. M. Cox | Identification of recG genetic interactions in Escherichia coli by transposon sequencing | Journal of Bacteriology | 205(12) e00184-23 |
| 2023 | 10.1111/1462-2920.16375 | Blum, L. N., D. R. Colman, E. A. Eloe-Fadrosh, M. Kellom, E. S. Boyd, O. Zhaxybayeva and W. D. Leavitt | Distribution and abundance of tetraether lipid cyclization genes in terrestrial hot springs reflect pH | Environmental Microbiology | 25(9) 1644-1658 |
| 2023 | 10.1038/s41929-022-00899-9 | Bloomer, B. J., S. N. Natoli, M. Garcia-Borràs, J. H. Pereira, D. B. Hu, P. D. Adams, K. N. Houk, D. S. Clark and J. F. Hartwig | Mechanistic and structural characterization of an iridium-containing cytochrome reveals kinetically relevant cofactor dynamics | Nature Catalysis | 6(1) 39–51 |
| 2023 | 10.1016/j.celrep.2023.112847 | Bleem, A., R. Kato, Z. A. Kellermyer, R. Katahira, M. Miyamoto, K. Niinuma, N. Kamimura, E. Masai and G. T. Beckham | Multiplexed fitness profiling by RB-TnSeq elucidates pathways for lignin-related aromatic catabolism in Sphingobium sp. SYK-6 | Cell Reports | 42(8) 112847 |
| 2023 | 10.1111/gcbb.13056 | Blanc-Betes, E., N. Gomez-Casanovas, W. H. Yang, J. Chandrasoma, T. J. Clark, et al. | Accelerating the development of a sustainable bioenergy portfolio through stable isotopes | GCB Bioenergy | 15(7) 840–66 |
| 2023 | 10.1021/acs.est.3c05240 | Blanc-Betes, E., N. Gomez-Casanovas, M. D. Hartman, T. W. Hudiburg, M. Khanna, W. J. Parton and E. H. DeLucia | Climate vs Energy Security: Quantifying the Trade-offs of BECCS Deployment and Overcoming Opportunity Costs on Set-Aside Land | Environmental Science & Technology | 57(48) 19732–48 |
| 2023 | 10.1016/B978-0-12-821430-5.00002-X | Blaby-Haas, C. E. and S. S. Merchant | Trace metal nutrition and response to deficiency | The Chlamydomonas Sourcebook (Third Edition) | 2 167–203 |
| 2023 | 10.1016/B978-0-12-822457-1.00013-3 | Blaby, I. K., M. J. Soto and C. E. Blaby-Haas | Chapter 4 - Functional genomics of Chlamydomonas reinhardtii | The Chlamydomonas Sourcebook (Third Edition) | 65-84 |
| 2023 | 10.1038/s41467-023-44035-y | Bittremieux, W., N. E. Avalon, S. P. Thomas, S. A. Kakhkhorov, A. A. Aksenov, et al. | Open access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics | Nature Communications | 14(1) 8488 |
| 2023 | 10.1007/s00248-022-02071-z | Birnbaum, C., J. Wood, E. Lilleskov, L. J. Lamit, J. Shannon, M. Brewer and S. Grover | Degradation Reduces Microbial Richness and Alters Microbial Functions in an Australian Peatland | Microbial Ecology | 85(3) 875-891 |
| 2023 | 10.1007/s13157-023-01726-y | Bieniada, A., L. A. Hug, C. T. Parsons and M. Strack | Methane Cycling Microbial Community Characteristics: Comparing Natural, Actively Extracted, Restored and Unrestored Boreal Peatlands | Wetlands | 43(7) 83 |
| 2023 | 10.1038/s43705-022-00210-8 | Bhattacharjee, A. S., F. Schulz, T. Woyke, B. N. Orcutt and J. M. Martínez | Genomics discovery of giant fungal viruses from subsurface oceanic crustal fluids | ISME Communications | 3(1) |
| 2023 | 10.1093/molbev/msad210 | Bhaskara, G. B., T. Haque, J. E. Bonnette, J. D. Napier, D. Bauer, J. Schmutz and T. E. Juenger | Evolutionary Analyses of Gene Expression Divergence in Panicum hallii: Exploring Constitutive and Plastic Responses Using Reciprocal Transplants | Molecular Biology and Evolution | 40(10) |
| 2023 | 10.1038/s41467-023-41807-4 | Bhandari, D. D., D. K. Ko, S.-J. Kim, K. Nomura, S. Y. He and F. Brandizzi | Defense against phytopathogens relies on efficient antimicrobial protein secretion mediated by the microtubule-binding protein TGNap1 | Nature Communications | 14(1) 6357 |
| 2023 | 10.15252/msb.202311566 | Bernstein, D. B., B. Akkas, M. N. Price and A. P. Arkin | Evaluating E. coli genome-scale metabolic model accuracy with high-throughput mutant fitness data | Molecular Systems Biology | 19(12) e11566 |
| 2023 | 10.1371/journal.pcbi.1011652 | Berezin, C.-T., L. U. Aguilera, S. Billerbeck, P. E. Bourne, D. Densmore, et al. | Ten simple rules for managing laboratory information | PLOS Computational Biology | 19(12) e1011652 |
| 2023 | 10.3389/fmicb.2023.1172862 | Benucci, G. M. N., E. R. Toosi, F. Yang, T. L. Marsh, G. M. Bonito and A. Kravchenko | The microbiome structure of decomposing plant leaves in soil depends on plant species, soil pore sizes, and soil moisture content | Frontiers in Microbiology | 14 |
| 2023 | 10.1186/s40793-023-00504-x | Bell-Dereske, L. P., G. M. N. Benucci, P. B. da Costa, G. Bonito, M. L. Friesen, L. K. Tiemann and S. E. Evans | Regional biogeography versus intra-annual dynamics of the root and soil microbiome | Environmental Microbiome | 18(1) 50 |
| 2023 | 10.2489/jswc.2023.00069 | Bell, S. L., A. E. Zimmerman and K. S. Hofmockel | Cropping system drives microbial community response to simulated climate change and plant inputs | Journal of Soil and Water Conservation | 78(2) 178–92 |
| 2023 | 10.1016/j.biombioe.2023.106936 | Basyal, B. and B. J. Walker | Arbuscular mycorrhizal fungi enhance yield and photosynthesis of switchgrass (Panicum virgatum L.) under extreme drought and alters the biomass composition of the host plant | Biomass and Bioenergy | 177 106936 |
| 2023 | 10.1002/yea.3837 | Barros, K. O., F. B. M. Alvarenga, G. Magni, G. F. L. Souza, M. A. Abegg, F. Palladino, S. S. da Silva, R. C. L. B. Rodrigues, T. K. Sato, C. T. Hittinger and C. A. Rosa | The Brazilian Amazonian rainforest harbors a high diversity of yeasts associated with rotting wood, including many candidates for new yeast species | Yeast | 40(2) 84–101 |
| 2023 | 10.1093/nar/gkad385 | Barrett, K., C. J. Hunt, L. Lange, I. V. Grigoriev and Anne S. Meyer | Conserved unique peptide patterns (CUPP) online platform 2.0: implementation of +1000 JGI fungal genomes | Nucleic Acids Research | 51(W1) W108-W114 |
| 2023 | 10.1128/mbio.03584-22 | Barnett, S. E., R. Egan, B. Foster, E. A. Eloe-Fadrosh and D. H. Buckley | Genomic Features Predict Bacterial Life History Strategies in Soil, as Identified by Metagenomic Stable Isotope Probing | mBio | 14(2) e03584-22 |
| 2023 | 10.1111/1462-2920.16395 | Barnett, S. E. and D. H. Buckley | Metagenomic stable isotope probing reveals bacteriophage participation in soil carbon cycling | Environmental Microbiology | 25(10) 1785-1795 |
| 2023 | 10.1128/mra.00210-23 | Barnes, S. J., R. C. Althouse, B. F. Costa, B. Hu, M. Kovalev, et al. | Metagenome-Assembled Genomes from Photo-Oxidized and Nonoxidized Oil-Degrading Marine Microcosms | Microbiology Resource Announcements | 12(6) e00210-23 |
| 2023 | 10.1016/j.eti.2022.102977 | Banerjee, S., R. Singh and V. Singh | Bioenergy crops as alternative feedstocks for recovery of anthocyanins: A review | Environmental Technology & Innovation | 29 102977 |
| 2023 | 10.1039/D2SU00066K | Banerjee, D. and A. Mukhopadhyay | Perspectives in growth production trade-off in microbial bioproduction | RSC Sustainability | 1(2) 224–33 |
| 2023 | 10.3389/fbinf.2023.1157956 | Baltoumas, F. A., E. Karatzas, D. Paez-Espino, N. K. Venetsianou, E. Aplakidou, A. Oulas, R. D. Finn, S. Ovchinnikov, E. Pafilis, N. C. Kyrpides and G. A. Pavlopoulos | Exploring microbial functional biodiversity at the protein family level—From metagenomic sequence reads to annotated protein clusters | Frontiers in Bioinformatics | 3 |
| 2023 | 10.1093/nar/gkad800 | Baltoumas, F. A., E. Karatzas, S. Liu, S. Ovchinnikov, Y. Sofianatos, I.-M. Chen, Nikos C. Kyrpides and Georgios A. Pavlopoulos | NMPFamsDB: a database of novel protein families from microbial metagenomes and metatranscriptomes | Nucleic Acids Research | 52(D1) D502-D512 |
| 2023 | 10.3389/fmicb.2023.1216591 | Balbay, M. G., M. D. Shlafstein, C. Cockell, S. L. Cady, R. D. Prescott, D. S. S. Lim, P. S. G. Chain, S. P. Donachie, A. W. Decho and J. H. Saw | Metabolic versatility of Caldarchaeales from geothermal features of Hawai’i and Chile as revealed by five metagenome-assembled genomes | Frontiers in Microbiology | 14 |
| 2023 | 10.1002/pld3.545 | Baker, C. R., D. Patel-Tupper, B. J. Cole, L. G. Ching, O. Dautermann, et al. | Metabolomic, photoprotective, and photosynthetic acclimatory responses to post-flowering drought in sorghum | Plant Direct | 7(11) e545 |
| 2023 | 10.1145/3624062.3626283 | Bader, J., J. Belak, M. Bement, M. Berry, R. Carson, et al. | Novel Approaches Toward Scalable Composable Workflows in Hyper-Heterogeneous Computing Environments | Proceedings of the SC '23 Workshops of The International Conference on High Performance Computing, Network, Storage, and Analysis | 2097–2108 |
| 2023 | 10.1371/journal.pcbi.1011111 | Backman, T. W. H., C. Schenk, T. Radivojevic, D. Ando, J. Singh, J. J. Czajka, Z. Costello, J. D. Keasling, Y. Tang, E. Akhmatskaya and H. Garcia Martin | BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale | PLOS Computational Biology | 19(11) e1011111 |
| 2023 | 10.1021/acschembio.3c00225 | Back, D., T. J. O’Donnell, K. K. Axt, J. R. Gurr, J. M. Vanegas, P. G. Williams and B. Philmus | Identification, Heterologous Expression, and Characterization of the Tolypodiol Biosynthetic Gene Cluster through an Integrated Approach | ACS Chemical Biology | 18(8) 1797-1807 |
| 2023 | 10.1038/s41597-023-02118-x | Aspray, E. K., T. A. Mies, J. A. McGrath, C. M. Montes, B. Dalsing, et al. | Two decades of fumigation data from the Soybean Free Air Concentration Enrichment facility | Scientific Data | 10(1) 226 |
| 2023 | 10.1038/s41467-022-35677-5 | Ascensao, J. A., K. M. Wetmore, B. H. Good, A. P. Arkin and O. Hallatschek | Quantifying the local adaptive landscape of a nascent bacterial community | Nature Communications | 14(1) 248 |
| 2023 | Arnolds, K., R. C. Higgins, G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm-based Methods to Evaluate Biocontainment Strategies and Impact of Industrial Microbes Upon Native Ecosystems | DOE Genomic Sciences Program Annual Meeting | ||
| 2023 | Arnolds, K., R. C. Higgins, N. Lamb, G. Li, J. G. Linger and M. T. Guarnieri | IMAGINE BioSecurity: Mesocosm-based Methods to Evaluate Biocontainment Strategies and Impact of Industrial Microbes Upon Native Ecosystems | Center for Microbiome Innovation International Microbiome Meeting | ||
| 2023 | 10.3390/ijms241813883 | Apostolakos, I., T. Skarlatoudi, K. Vatavali, A. Giannouli, L. Bosnea and M. Mataragas | Genomic and Phenotypic Characterization of Mastitis-Causing Staphylococci and Probiotic Lactic Acid Bacteria Isolated from Raw Sheep’s Milk | International Journal of Molecular Sciences | 24(18) 13883 |
| 2023 | 10.3390/foods12030599 | Apostolakos, I., S. Paramithiotis and M. Mataragas | Comparative Genomic Analysis Reveals the Functional Traits and Safety Status of Lactic Acid Bacteria Retrieved from Artisanal Cheeses and Raw Sheep Milk | Foods | 12(3) 599 |
| 2023 | 10.1038/s41597-023-02222-y | Anstett, J., A. M. Plominsky, E. F. DeLong, A. Kiesser, K. Jürgens, C. Morgan-Lang, R. Stepanauskas, F. J. Stewart, O. Ulloa, T. Woyke, R. Malmstrom and S. J. Hallam | A compendium of bacterial and archaeal single-cell amplified genomes from oxygen deficient marine waters | Scientific Data | 10(1) 332 |
| 2023 | 10.1021/acs.biomac.3c00047 | Annamraju, A., K. Rajan, X. Zuo, B. K. Long, S. V. Pingali, T. J. Elder and N. Labbé | Atomic Level Interactions and Suprastructural Configuration of Plant Cell Wall Polymers in Dialkylimidazolium Ionic Liquids | Biomacromolecules | 24(5) 2164–72 |
| 2023 | 10.1007/s11104-023-05988-7 | Andrews, H. B., M. Z. Martin, A. M. Wymore and U. C. Kalluri | Rapid in situ nutrient element distribution in plants and soils using laser-induced breakdown spectroscopy (LIBS) | Plant and Soil | 495 3–12 |
| 2023 | 10.1016/j.cub.2023.06.033 | Amundson, K. K., S. Roux, J. L. Shelton and M. J. Wilkins | Long-term CRISPR locus dynamics and stable host-virus co-existence in subsurface fractured shales | Current Biology | 33(15) 3125-3135.e4 |
| 2023 | 10.1016/j.fgb.2023.103838 | Amses, K., A. Desiró, A. Bryson, I. Grigoriev, S. Mondo, et al. | Convergent reductive evolution and host adaptation in Mycoavidus bacterial endosymbionts of Mortierellaceae fungi | Fungal Genetics and Biology | 169 103838 |
| 2023 | 10.1111/gcb.16614 | AminiTabrizi, R., N. Graf-Grachet, R. K. Chu, J. G. Toyoda, D. W. Hoyt, R. Hamdan, R. M. Wilson and M. M. Tfaily | Microbial sensitivity to temperature and sulfate deposition modulates greenhouse gas emissions from peat soils | Global Change Biology | 29(7) 1951-1970 |
| 2023 | 10.1002/chem.202203941 | Álvarez-Martínez, I., C. Ruprecht, D. Senf, H.-t. Wang, B. R. Urbanowicz and F. Pfrengle | Chemo-Enzymatic Synthesis of Long-Chain Oligosaccharides for Studying Xylan-Modifying Enzymes | Chemistry – A European Journal | 29(26) e202203941 |
| 2023 | 10.3390/md21010034 | Almeida, J. F., M. Marques, V. Oliveira, C. Egas, D. Mil-Homens, R. Viana, D. F. R. Cleary, Y. M. Huang, A. M. Fialho, M. C. Teixeira, N. C. M. Gomes, R. Costa and T. Keller-Costa | Marine Sponge and Octocoral-Associated Bacteria Show Versatile Secondary Metabolite Biosynthesis Potential and Antimicrobial Activities against Human Pathogens | Marine Drugs | 21(1) 34 |
| 2023 | 10.1002/ldr.4549 | Allingham, S. M., F. C. Nwaishi, R. Andersen, L. J. Lamit and D. R. Elliott | Microbial communities and biogeochemical functioning across peatlands in the Athabasca Oil Sands region of Canada: Implications for reclamation and management | Land Degradation & Development | 34(5) 1504-1521 |
| 2023 | 10.1099/ijsem.0.005704 | Allemann, M. N., G. N. Presley, J. G. Elkins and J. K. Michener | Sphingobium lignivorans sp. nov., isolated from river sediment downstream of a paper mill | International Journal of Systematic and Evolutionary Microbiology | 73(2) |
| 2023 | 10.1128/MRA.00508-23 | Alibaglouei, M., L. R. Trutschel, A. R. Rowe and J. D. Sackett | Complete genome sequence of Halomonas sp. strain M1, a thiosulfate-oxidizing bacterium isolated from a hyperalkaline serpentinizing system, Ney Springs | Microbiology Resource Announcements | 12(11) e00508-23 |
| 2023 | 10.1016/j.virusres.2023.199049 | Ali, S., A. Karaynir, H. Salih, S. Öncü and B. Bozdoğan | Characterization, genome analysis and antibiofilm efficacy of lytic Proteus phages RP6 and RP7 isolated from university hospital sewage | Virus Research | 326 199049 |
| 2023 | Alexander, W. and D. Olson | Metabolic Engineering for Fuels and Chemicals I (commodity chemicals) | Society for Industrial Microbiology and Biotechnology Annual Meeting | ||
| 2023 | 10.1128/mbio.01203-23 | Alberge, F., B. D. Lakey, R. E. Schaub, A. C. Dohnalkova, K. C. Lemmer, J. P. Dillard, D. R. Noguera and T. J. Donohue | A previously uncharacterized divisome-associated lipoprotein, DalA, is needed for normal cell division in Rhodobacterales | mBio | 14(4) e01203-23 |
| 2023 | 10.1371/journal.pbio.3002190 | Alamos, S. and P. M. Shih | How to engineer the unknown: Advancing a quantitative and predictive understanding of plant and soil biology to address climate change | PLOS Biology | 21(7) e3002190 |
| 2023 | 10.1128/mra.01098-22 | Akpudo, Y. M., O. K. Bezuidt and T. P. Makhalanyane | Metagenome-Assembled Genomes of Four Southern Ocean Archaea Harbor Multiple Genes Linked to Polyethylene Terephthalate and Polyhydroxybutyrate Plastic Degradation | Microbiology Resource Announcements | 12(3) e01098-22 |
| 2023 | 10.3389/fpls.2023.1039211 | Akparov, Z., S. Hajiyeva, M. Abbasov, S. Kaur, A. Hamwieh, et al. | Two major chromosome evolution events with unrivaled conserved gene content in pomegranate | Frontiers in Plant Science | 14 |
| 2023 | 10.1007/s11356-023-25618-0 | Ajayi-Odoko, A. O., A. D. V. Ayansina, O. O. Ikhimiukor, J. A. Müller and O. O. Adelowo | Proteus mirabilis isolated from untreated hospital wastewater, Ibadan, Southwestern Nigeria showed low-level resistance to fluoroquinolone and carried qnrD3 on Col3M plasmids | Environmental Science and Pollution Research | 30(16) 47158–67 |
| 2023 | 10.1007/978-1-0716-2871-3_14 | Ahrendt, S. R., S. J. Mondo, S. Haridas and I. V. Grigoriev | MycoCosm, the JGI’s Fungal Genome Portal for Comparative Genomic and Multiomics Data Analyses | Microbial Environmental Genomics (MEG) | 271-291 |
| 2023 | 10.1038/s41587-023-01844-2 | Adriaenssens, E. M., S. Roux, J. R. Brister, I. Karsch-Mizrachi, J. H. Kuhn, et al. | Guidelines for public database submission of uncultivated virus genome sequences for taxonomic classification | Nature Biotechnology | 41(7) 898-902 |
| 2023 | 10.1093/nar/gkad890 | Adler, B. A., M. I. Trinidad, D. Bellieny-Rabelo, E. Zhang, H. M. Karp, et al. | CasPEDIA Database: a functional classification system for class 2 CRISPR-Cas enzymes | Nucleic Acids Research | 52(D1) D590-D596 |
| 2023 | 10.1038/s41589-023-01269-7 | Adler, B. A., K. Chamakura, H. Carion, J. Krog, A. M. Deutschbauer, R. Young, V. K. Mutalik and A. P. Arkin | Multicopy suppressor screens reveal convergent evolution of single-gene lysis proteins | Nature Chemical Biology | 19(6) 759–66 |
| 2023 | 10.3390/metabo13020200 | Adelabu, I., M. R. H. Chowdhury, S. Nantogma, C. Oladun, F. Ahmed, L. Stilgenbauer, M. Sadagurski, T. Theis, B. M. Goodson and E. Y. Chekmenev | Efficient SABRE-SHEATH Hyperpolarization of Potent Branched-Chain-Amino-Acid Metabolic Probe [1-13C]ketoisocaproate | Metabolites | 13(2) 200 |
| 2023 | 10.1038/s43705-023-00265-1 | Acharya, S. M., M. O. Yee, S. Diamond, P. F. Andeer, N. F. Baig, O. T. Aladesanmi, T. R. Northen, J. F. Banfield and R. Chakraborty | Fine scale sampling reveals early differentiation of rhizosphere microbiome from bulk soil in young Brachypodium plant roots | ISME Communications | 3(1) 54 |
| 2024 | 10.1073/pnas.2322096121 | Zytnick, A. M., S. M. Gutenthaler-Tietze, A. T. Aron, Z. L. Reitz, M. T. Phi, N. M. Good, D. Petras, L. J. Daumann and N. C. Martinez-Gomez | Identification and characterization of a small-molecule metallophore involved in lanthanide metabolism | Proceedings of the National Academy of Sciences | 121(32) e2322096121 |
| 2024 | 10.1016/j.agrformet.2024.109985 | Zou, H., J. Chen, X. Li, M. Abraha, X. Zhao and J. Tang | Modeling net ecosystem exchange of CO2 with gated recurrent unit neural networks | Agricultural and Forest Meteorology | 350 109985 |
| 2024 | 10.1111/gcb.17524 | Zimmerman, Amy E., Emily B. Graham, J. McDermott and Kirsten S. Hofmockel | Estimating the Importance of Viral Contributions to Soil Carbon Dynamics | Global Change Biology | 30(10) e17524 |
| 2024 | 10.7554/elife.96966.2 | Ziegler, S. J., B. C. Knott, J. N. Gruber, N. N. Hengge, Q. Xu, D. G. Olson, E. E. Romero, L. M. Joubert and Y. J. Bomble | Structural characterization and dynamics of AdhE ultrastructures from Clostridium thermocellum: A containment strategy for toxic intermediates | Journal | |
| 2024 | 10.1111/nph.20325 | Zhuo, C., X. Wang, H. K. Shrestha, P. E. Abraham, R. L. Hettich, F. Chen, J. Barros and R. A. Dixon | Major facilitator family transporters specifically enhance caffeyl alcohol uptake during C-lignin biosynthesis | New Phytologist | |
| 2024 | 10.1002/cbic.202300849 | Zhou, Y., S. Zhou, S. Lyons, H. Sun, J. V. Sweedler and Y. Lu | Enhancing 2-Pyrone Synthase Efficiency by High-Throughput Mass-Spectrometric Quantification and In Vitro/In Vivo Catalytic Performance Correlation | ChemBioChem | 25(5) e202300849 |
| 2024 | 10.1038/s41561-024-01508-z | Zhong, Z.-P., O. Zablocki, Y.-F. Li, J. L. Van Etten, E. Mosley-Thompson, V. I. Rich, L. G. Thompson and M. B. Sullivan | Glacier-preserved Tibetan Plateau viral community probably linked to warm–cold climate variations | Nature Geoscience | 17(9) 912-919 |
| 2024 | 10.1038/s41467-024-46109-x | Zhong, Z.-P., J. Du, S. Köstlbacher, P. Pjevac, S. Orlić and M. B. Sullivan | Viral potential to modulate microbial methane metabolism varies by habitat | Nature Communications | 15(1) 1857 |
| 2024 | 10.1016/j.xplc.2024.100936 | Zhao, J., J. Wang, J. Liu, P. Zhang, G. Kudoyarova, C.-J. Liu and K. Zhang | Spatially distributed cytokinins: Metabolism, signaling, and transport | Plant Communications | |
| 2024 | 10.1016/j.scitotenv.2024.175515 | Zhang, Z., P. M. McGuire, R. E. Richardson, A. Z. Gu, J. P. Shapleigh and M. C. Reid | Orthophosphate uptake onto woodchips in denitrifying bioreactors is enhanced by anoxic-(anaerobic-)oxic cycling | Science of The Total Environment | 951 175515 |
| 2024 | 10.1101/gr.278396.123 | Zhang, Z., J. P. Gomes Viana, B. Zhang, K. K. O. Walden, H. Muller Paul, S. P. Moose, G. P. Morris, C. Daum, K. W. Barry, N. Shakoor and M. E. Hudson | Major impacts of widespread structural variation on sorghum | Genome Research | 34(2) 286–299 |
| 2024 | 10.1093/plphys/kiae259 | Zhang, Y., D. Sharma, Y. Liang, N. Downs, F. Dolman, K. Thorne, I. M. Black, J. H. Pereira, P. Adams, H. V. Scheller, M. O’Neill, B. Urbanowicz and J. C. Mortimer | Putative rhamnogalacturonan-II glycosyltransferase identified through callus gene editing which bypasses embryo lethality | Plant Physiology | 195(4) 2551-2565 |
| 2024 | 10.1038/s41564-024-01779-7 | Zhang, Y., S. Liu, D. Mostert, H. Yu, M. Zhuo, et al. | Virulence of banana wilt-causing fungal pathogen Fusarium oxysporum tropical race 4 is mediated by nitric oxide biosynthesis and accessory genes | Nature Microbiology | 9(9) 2232-2243 |
| 2024 | 10.1016/j.cej.2023.148449 | Zhang, S., X. Meng, S. Bhagia, A. Ji, M. Dean Smith, Y.-y. Wang, B. Liu, C. G. Yoo, D. P. Harper and A. J. Ragauskas | 3D printed lignin/polymer composite with enhanced mechanical and anti-thermal-aging performance | Chemical Engineering Journal | 481 148449 |
| 2024 | 10.7717/peerj.17323 | Zhang, N., X. Dong, R. Jain, D. Ruan, A. T. de Araujo Junior, Y. Li, A. Lipzen, J. Martin, K. Barry and P. C. Ronald | XA21-mediated resistance to Xanthomonas oryzae pv. oryzae is dose dependent | PeerJ | 12 e17323 |
| 2024 | 10.1111/nph.19449 | Zhang, K., H. Wang, R. Tappero, J. M. Bhatnagar, R. Vilgalys, K. Barry, K. Keymanesh, S. Tejomurthula, I. V. Grigoriev, W. R. Kew, E. K. Eder, C. D. Nicora and H.-L. Liao | Ectomycorrhizal fungi enhance pine growth by stimulating iron-dependent mechanisms with trade-offs in symbiotic performance | New Phytologist | 242(4) 1645-1660 |
| 2024 | 10.1016/j.gee.2024.09.003 | Zhang, J., M. S. Webber, Y. Pu, Z. Li, X. Meng, et al. | Sustainable Aviation Fuels from Biomass and Biowaste via Bio- and Chemo-Catalytic Conversion: Catalysis, Process Challenges, and Opportunities | Green Energy & Environment | |
| 2024 | 10.1093/ismejo/wrad015 | Zepernick, B. N., E. E. Chase, E. R. Denison, N. E. Gilbert, A. R. Truchon, T. Frenken, W. R. Cody, R. M. Martin, J. D. Chaffin, G. S. Bullerjahn, R. M. L. McKay and S. W. Wilhelm | Declines in ice cover are accompanied by light limitation responses and community change in freshwater diatoms | The ISME Journal | 18(1) wrad015 |
| 2024 | 10.1016/j.biortech.2024.130973 | Zambello, I. U., E. K. Holwerda and L. R. Lynd | Characterization of sugarcane bagasse solubilization and utilization by thermophilic cellulolytic and saccharolytic bacteria at increasing solid loadings | Bioresource Technology | 406 130973 |
| 2024 | 10.1016/j.ymben.2024.06.001 | Yunus, I. S., G. A. Hudson, Y. Chen, J. W. Gin, J. Kim, E. E. K. Baidoo, C. J. Petzold, P. D. Adams, B. A. Simmons, A. Mukhopadhyay, J. D. Keasling and T. S. Lee | Systematic engineering for production of anti-aging sunscreen compound in Pseudomonas putida | Metabolic Engineering | 84 69-82 |
| 2024 | 10.1126/sciadv.ado2957 | Yu, Y., F. Xu, W. Zhao, C. Thoma, S. Che, J. E. Richman, B. Jin, Y. Zhu, Y. Xing, L. Wackett and Y. Men | Electron bifurcation and fluoride efflux systems implicated in defluorination of perfluorinated unsaturated carboxylic acids by Acetobacterium spp | Science Advances | 10(29) eado2957 |
| 2024 | 10.1016/j.watres.2024.121593 | Yu, Y., N. F. Trottmann, M. R. Schärer, K. Fenner and S. L. Robinson | Substrate promiscuity of xenobiotic-transforming hydrolases from stream biofilms impacted by treated wastewater | Water Research | 256 121593 |
| 2024 | 10.1128/mra.00030-24 | Yu, J.-S., A. R. Rowe and J. D. Sackett | Complete genome sequence of iron-oxidizing Stutzerimonas stutzeri strain FeN3W isolated from Catalina Harbor sediment | Microbiology Resource Announcements | 13(6) e00030-24 |
| 2024 | Yoon, H.-J., D. Hopp, K. Leland, R. Prout, P. Bryant and S. Martin | Hyperkube: A Kubernetes Based System For The Automation Of Processing And Analysis Of Hyperspectral Data Obtained From Multiple Hyperspectral Imaging Systems | Journal | ||
| 2024 | 10.3389/fbioe.2024.1377334 | Ye, A., J.-N. Shen, Y. Li, X. Lian, B.-G. Ma and F.-B. Guo | Reconstruction of the genome-scale metabolic network model of Sinorhizobium fredii CCBAU45436 for free-living and symbiotic states | Frontiers in Bioengineering and Biotechnology | 12 |
| 2024 | 10.1016/j.sjbs.2024.103957 | Yasir, M., I. A. Al-Zahrani, R. Khan, S. A. Soliman, S. A. Turkistani, M. Alawi and E. I. Azhar | Microbiological risk assessment and resistome analysis from shotgun metagenomics of bovine colostrum microbiome | Saudi Journal of Biological Sciences | 31(4) 103957 |
| 2024 | 10.1101/cshperspect.a041674 | Yang, X., Y. Liu, G. Yuan, D. J. Weston and G. A. Tuskan | Engineering Crassulacean Acid Metabolism in C3 and C4 Plants | Cold Spring Harbor Perspectives in Biology | 16(4) |
| 2024 | 10.1099/ijsem.0.006415 | Yang, X., E. Garuglieri, M. W. Van Goethem, R. Marasco, M. Fusi and D. Daffonchio | Mangrovimonas cancribranchiae sp. nov., a novel bacterial species associated with the gills of the fiddler crab Cranuca inversa (Brachyura, Ocypodidae) from Red Sea mangroves | International Journal of Systematic and Evolutionary Microbiology | 74(6) |
| 2024 | 10.1039/D4GC00510D | Yang, S., M. Mohan, X. Gao, X. Yang, J. Zhu, J. C. Smith and L. Wang | Multiscale investigation of the mechanism of biomass deconstruction in the dimethyl isosorbide/water Co-solvent pretreatment system | Green Chemistry | 26(8) 4758-4770 |
| 2024 | 10.1186/s40168-024-01816-x | Yadav, S., M. Koenen, N. J. Bale, W. Reitsma, J. C. Engelmann, K. Stefanova, J. S. S. Damsté and L. Villanueva | Organic matter degradation in the deep, sulfidic waters of the Black Sea: insights into the ecophysiology of novel anaerobic bacteria | Microbiome | 12(1) 98 |
| 2024 | 10.1016/j.biortech.2023.130006 | Xu, L., J. Li, V. M. Gonzalez Ramos, C. Lyra, A. Wiebenga, I. V. Grigoriev, R. P. de Vries, M. R. Mäkelä and M. Peng | Genome-wide prediction and transcriptome analysis of sugar transporters in four ascomycete fungi | Bioresource Technology | 391 130006 |
| 2024 | 10.1088/1748-9326/ad2d12 | Xie, Y., S. A. Spawn-Lee, V. C. Radeloff, H. Yin, G. P. Robertson and T. J. Lark | Cropland abandonment between 1986 and 2018 across the United States: spatiotemporal patterns and current land uses | Environmental Research Letters | 19(4) 044009 |
| 2024 | 10.1111/tpj.17136 | Xie, M., D. Tadesse, J. Zhang, T. Yao, L. Zhang, et al. | AtDGCR14L contributes to salt-stress tolerance via regulating pre-mRNA splicing in Arabidopsis | The Plant Journal | 120(6) 2668-2682 |
| 2024 | 10.1111/plb.13708 | Wyatt, G., P. Zerbe and K. Tiedge | Characterization of switchgrass (Panicum virgatum L.) PvKSL1 as a levopimaradiene/abietadiene-type diterpene synthase | Plant Biology | |
| 2024 | 10.1128/msystems.00099-24 | Wu, R., A. E. Zimmerman and K. S. Hofmockel | The direct and indirect drivers shaping RNA viral communities in grassland soils | mSystems | 9(8) e00099-24 |
| 2024 | 10.1038/s41597-024-03004-w | Wu, G., K. Guan, H. Kimm, G. Miao, X. Yang and C. Jiang | Ground far-red sun-induced chlorophyll fluorescence and vegetation indices in the US Midwestern agroecosystems | Scientific Data | 11(1) 228 |
| 2024 | 10.1128/aem.02155-23 | Wolf, M. E., A. T. Lalande, B. L. Newman, A. C. Bleem, C. T. Palumbo, G. T. Beckham and L. D. Eltis | The catabolism of lignin-derived p-methoxylated aromatic compounds by Rhodococcus jostii RHA1 | Applied and Environmental Microbiology | 90(3) e02155-23 |
| 2024 | 10.1016/j.ymben.2024.07.011 | Winegar, P. H., G. A. Hudson, L. B. Dell, M. C. T. Astolfi, J. Reed, R. D. Payet, H. C. J. Ombredane, A. T. Iavarone, Y. Chen, J. W. Gin, C. J. Petzold, A. E. Osbourn and J. D. Keasling | Verazine biosynthesis from simple sugars in engineered Saccharomyces cerevisiae | Metabolic Engineering | 85 145-158 |
| 2024 | 10.1039/D4GC03876B | Wilkes, R. A., A. J. Borchert, V. E. Garcia, G. M. Geiselman, S. Liu, A. M. Guss, J. K. Michener, D. R. Noguera, E. Masai, J. M. Gladden, J. Ralph and G. T. Beckham | Comparison of microbial strains as candidate hosts and genetic reservoirs for the valorization of lignin streams | Green Chemistry | 26(24) 12053-12069 |
| 2024 | 10.1093/ismejo/wrae080 | Wierz, J. C., M. L. Gimmel, S. Huthmacher, T. Engl and M. Kaltenpoth | Evolutionary history of tyrosine-supplementing endosymbionts in pollen-feeding beetles | The ISME Journal | 18(1) |
| 2024 | 10.1093/ismejo/wrae099 | Wierz, J. C., P. Dirksen, R. Kirsch, R. Krüsemer, B. Weiss, Y. Pauchet, T. Engl and M. Kaltenpoth | Intracellular symbiont Symbiodolus is vertically transmitted and widespread across insect orders | The ISME Journal | 18(1) wrae099 |
| 2024 | 10.1093/evolut/qpae079 | Whitener, M. R., H. Mangelson and A. L. Sweigart | Patterns of genomic variation reveal a single evolutionary origin of the wild allotetraploid Mimulus sookensis | Evolution | 78(8) 1464-1477 |
| 2024 | 10.34133/plantphenomics.0251 | Weihs, B. J., Z. Tang, Z. Tian, D. J. Heuschele, A. Siddique, T. H. Terrill, Z. Zhang, L. M. York, Z. Zhang and Z. Xu | Phenotyping Alfalfa (Medicago sativa L.) Root Structure Architecture via Integrating Confident Machine Learning with ResNet-18 | Plant Phenomics | 6 0251 |
| 2024 | 10.34133/plantphenomics.0178 | Weihs, B. J., D.-J. Heuschele, Z. Tang, L. M. York, Z. Zhang and Z. Xu | The State of the Art in Root System Architecture Image Analysis Using Artificial Intelligence: A Review | Plant Phenomics | 6 0178 |
| 2024 | 10.1186/s12934-024-02463-5 | Wei, H., V. V. Lunin, M. Alahuhta, M. E. Himmel, S. Huang, Y. J. Bomble and M. Zhang | Streamlining heterologous expression of top carbonic anhydrases in Escherichia coli: bioinformatic and experimental approaches | Microbial Cell Factories | 23(1) 190 |
| 2024 | 10.1038/s41563-024-02024-6 | Webber, M. S., J. Watson, J. Zhu, J. H. Jang, M. Çağlayan, J. S. Heyne, G. T. Beckham and Y. Román-Leshkov | Lignin deoxygenation for the production of sustainable aviation fuel blendstocks | Nature Materials | 23(12) 1622-1638 |
| 2024 | 10.1039/D3GC02239K | Wang, Y.-Y., Y. Wang, L. Liang, M. D. Smith, X. Meng, Y. Pu, M. Mazarei, R. Agarwal, S. J. Rukmani, B. H. Davison and A. J. Ragauskas | Characterization and molecular simulation of lignin in Cyrene pretreatment of switchgrass | Green Chemistry | 26(6) 3170–82 |
| 2024 | 10.1016/j.cej.2024.153046 | Wang, Y., X. Meng, A. J. Conte, M. Senanayake, Y. Pu, C. Geun Yoo, S. Venkatesh Pingali and A. J. Ragauskas | Investigation of Cyrene organosolv fractionation of softwood biomass and alkaline post-incubation | Chemical Engineering Journal | 494 153046 |
| 2024 | 10.1111/1751-7915.14330 | Wang, Y., R. F. Dall'Agnol, I. Bertani, C. Bez and V. Venturi | Identification of synthetic consortia from a set of plant-beneficial bacteria | Microbial Biotechnology | 17(2) e14330 |
| 2024 | 10.1021/jasms.4c00208 | Wang, X., M. Strobel, A. T. Aron, V. V. Phelan, D. D. Acharya, C. J. Brown, K. Clevenger, J. Hu, A. Kretsch, E. H. Mahood, C. Menegatti, Q. Xiong and M. Wang | Network Topology Evaluation and Transitive Alignments for Molecular Networking | Journal of the American Society for Mass Spectrometry | 35(9) 2165-2175 |
| 2024 | 10.1128/msystems.00006-24 | Wang, J., M. R. Appidi, L. H. Burdick, P. E. Abraham, R. L. Hettich, D. A. Pelletier and M. J. Doktycz | Formation of a constructed microbial community in a nutrient-rich environment indicates bacterial interspecific competition | mSystems | 9(4) e00006-24 |
| 2024 | 10.3390/fermentation10080422 | Walters, K. A., K. S. Myers, A. T. Ingle, T. J. Donohue and D. R. Noguera | Effect of Temperature and pH on Microbial Communities Fermenting a Dairy Coproduct Mixture | Fermentation | 10(8) 422 |
| 2024 | 10.1128/mra.00173-24 | Walters, K. A., K. S. Myers, T. J. Donohue and D. R. Noguera | Metagenome-assembled genomes from microbiomes fermenting dairy coproducts | Microbiology Resource Announcements | 13(7) e00173-24 |
| 2024 | 10.1021/jacsau.4c00469 | Vuong, T. V., M. Aghajohari, X. Feng, A. K. Woodstock, D. M. Nambiar, Z. C. Sleiman, B. R. Urbanowicz and E. R. Master | Enzymatic Routes to Designer Hemicelluloses for Use in Biobased Materials | JACS Au | 4(11) 4044-4065 |
| 2024 | 10.1007/s11104-024-06491-3 | von Haden, A. C., W. C. Eddy, M. B. Burnham, E. R. Brzostek, W. H. Yang and E. H. DeLucia | Root exudation links root traits to soil functioning in agroecosystems | Plant and Soil | |
| 2024 | 10.1039/D3NP00050H | Vitale, G. A., C. Geibel, V. Minda, M. Wang, A. T. Aron and D. Petras | Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products | Natural Product Reports | 41(6) 885-904 |
| 2024 | 10.1128/aem.01660-23 | Vilbert, A. C., W. S. Kontur, D. Gille, D. R. Noguera and T. J. Donohue | Engineering Novosphingobium aromaticivorans to produce cis,cis-muconic acid from biomass aromatics | Applied and Environmental Microbiology | 90(1) e01660-23 |
| 2024 | 10.1128/mra.00786-23 | Vighnesh, L., U. Jagadeeshwari, C. Sasikala and C. V. Ramana | Metagenome-assembled genome of Zalaria obscura strain JY119 | Microbiology Resource Announcements | 13(6) e00786-23 |
| 2024 | 10.1371/journal.pgen.1011072 | Veltsos, P. and J. K. Kelly | The quantitative genetics of gene expression in Mimulus guttatus | PLOS Genetics | 20(4) e1011072 |
| 2024 | 10.1016/j.biortech.2024.130982 | Vaz, L. P., H. B. Sears, E. A. Miranda, E. K. Holwerda and L. R. Lynd | Solubilization of sugarcane bagasse by mono and cocultures of thermophilic anaerobes with and without cotreatment | Bioresource Technology | 406 130982 |
| 2024 | 10.1016/j.syapm.2024.126504 | van Lill, M., S. N. Venter, E. K. Muema, M. Palmer, W. Y. Chan, C. W. Beukes and E. T. Steenkamp | SeqCode facilitates naming of South African rhizobia left in limbo | Systematic and Applied Microbiology | 47(2) 126504 |
| 2024 | 10.1016/j.fgb.2024.103925 | van Ingen-Buijs, V. A., A. C. van Westerhoven, P. Skiadas, X. C. L. Zuijdgeest, S. Haridas, et al. | Phyllosticta paracitricarpa is synonymous with the EU quarantine fungus P. citricarpa based on phylogenomic analyses | Fungal Genetics and Biology | 175 103925 |
| 2024 | 10.1111/1462-2920.16629 | Van Etten, J., T. G. Stephens, E. Chille, A. Lipzen, D. Peterson, K. Barry, I. V. Grigoriev and D. Bhattacharya | Diverse fates of ancient horizontal gene transfers in extremophilic red algae | Environmental Microbiology | 26(5) e16629 |
| 2024 | 10.1038/s41467-024-51759-y | Valenzuela, J. J., S. R. C. Immanuel, J. Wilson, S. Turkarslan, M. Ruiz, S. M. Gibbons, K. A. Hunt, N. Stopnisek, M. Auer, M. Zemla, D. A. Stahl and N. S. Baliga | Origin of biogeographically distinct ecotypes during laboratory evolution | Nature Communications | 15(1) 7451 |
| 2024 | 10.1029/2023EF003866 | Uludere Aragon, N., Y. Xie, D. Bigelow, T. J. Lark and A. J. Eagle | The Realistic Potential of Soil Carbon Sequestration in U.S. Croplands for Climate Mitigation | Earth's Future | 12(6) e2023EF003866 |
| 2024 | 10.1016/j.scitotenv.2024.175909 | Ullah, R., J. Farias, B. A. Feyissa, M. T.-K. Tsui, A. Chow, C. Williams, T. Karanfil and A. Ligaba-Osena | Combined effects of polyamide microplastic and sulfamethoxazole in modulating the growth and transcriptome profile of hydroponically grown rice (Oryza sativa L.) | Science of The Total Environment | 952 175909 |
| 2024 | 10.1038/s41586-024-07180-y | Tsuji, J. M., N. A. Shaw, S. Nagashima, J. J. Venkiteswaran, S. L. Schiff, T. Watanabe, M. Fukui, S. Hanada, M. Tank and J. D. Neufeld | Anoxygenic phototroph of the Chloroflexota uses a type I reaction centre | Nature | 627(8005) 915-922 |
| 2024 | 10.1186/s40168-023-01720-w | Tsola, S. L., Y. Zhu, Y. Chen, I. A. Sanders, C. K. Economou, V. Brüchert and Ö. Eyice | Methanolobus use unspecific methyltransferases to produce methane from dimethylsulphide in Baltic Sea sediments | Microbiome | 12(1) 3 |
| 2024 | 10.1186/s40793-024-00591-4 | Tsola, S. L., A. A. Prevodnik, L. F. Sinclair, I. A. Sanders, C. K. Economou and Ö. Eyice | Methanomethylovorans are the dominant dimethylsulfide-degrading methanogens in gravel and sandy river sediment microcosms | Environmental Microbiome | 19(1) 51 |
| 2024 | 10.1128/aem.00599-24 | Tothero, G. K., R. L. Hoover, I. F. Farag, D. I. Kaplan, P. Weisenhorn, D. Emerson and C. S. Chan | Leptothrix ochracea genomes reveal potential for mixotrophic growth on Fe(II) and organic carbon | Applied and Environmental Microbiology | 90(9) e00599-24 |
| 2024 | 10.1007/s11274-024-04075-y | Topalian, J., L. Navas, O. Ontañon, M. P. Valacco, D. G. Noseda, M. Blasco, M. J. Peña, B. R. Urbanowicz and E. Campos | Production of a bacterial secretome highly efficient for the deconstruction of xylans | World Journal of Microbiology and Biotechnology | 40(9) 266 |
| 2024 | 10.1128/msystems.00429-24 | Timouma, S., L. N. Balarezo-Cisneros, J.-M. Schwartz and D. Delneri | Development of a genome-scale metabolic model for the lager hybrid yeast S. pastorianus to understand the evolution of metabolic pathways in industrial settings | mSystems | 9(6) e00429-24 |
| 2024 | 10.1111/1751-7915.14456 | Timmis, K., J. E. Hallsworth, T. J. McGenity, R. Armstrong, M. F. Colom, et al. | A concept for international societally relevant microbiology education and microbiology knowledge promulgation in society | Microbial Biotechnology | 17(5) e14456 |
| 2024 | 10.1016/j.scitotenv.2024.175115 | Timilsina, A., P. Neupane, J. Yao, M. Raseduzzaman, F. Bizimana, B. Pandey, A. Feyissa, X. Li, W. Dong, R. K. P. Yadav, N. Gomez-Casanovas and C. Hu | Plants mitigate ecosystem nitrous oxide emissions primarily through reductions in soil nitrate content: Evidence from a meta-analysis | Science of The Total Environment | 949 175115 |
| 2024 | 10.1093/ismejo/wrae176 | Thorgersen, M. P., J. L. Goff, V. V. Trotter, F. L. Poole II, A. P. Arkin, A. M. Deutschbauer and M. W. W. Adams | Fitness factors impacting survival of a subsurface bacterium in contaminated groundwater | The ISME Journal | 18(1) |
| 2024 | 10.1002/ajb2.16310 | Thomas, S. K., K. V. Hoek, T. Ogoti, H. Duong, R. Angelovici, J. C. Pires, D. Mendoza-Cozatl, J. Washburn and C. A. Schenck | Halophytes and heavy metals: A multi-omics approach to understand the role of gene and genome duplication in the abiotic stress tolerance of Cakile maritima | American Journal of Botany | 111(8) e16310 |
| 2024 | 10.1371/journal.pgen.1011200 | Thieme, M., N. Minadakis, C. Himber, B. Keller, W. Xu, et al. | Transposition of HOPPLA in siRNA-deficient plants suggests a limited effect of the environment on retrotransposon mobility in Brachypodium distachyon | PLOS Genetics | 20(3) e1011200 |
| 2024 | 10.3390/jof10070507 | Theobald, S., T. C. Vesth, E. Geib, J. L. Nybo, J. C. Frisvad, et al. | Genomic Analysis of Aspergillus Section Terrei Reveals a High Potential in Secondary Metabolite Production and Plant Biomass Degradation | Journal of Fungi | 10(7) 507 |
| 2024 | 10.1093/jxb/erae057 | Tejera-Nieves, M., D. Y. Seong, L. Reist and B. J. Walker | The Dynamic Assimilation Technique measures photosynthetic CO2 response curves with similar fidelity to steady-state approaches in half the time | Journal of Experimental Botany | 75(10) 2819–28 |
| 2024 | 10.1186/s12864-024-10082-y | Tavis, S. and R. L. Hettich | Multi-Omics integration can be used to rescue metabolic information for some of the dark region of the Pseudomonas putida proteome | BMC Genomics | 25(1) 267 |
| 2024 | 10.1093/hr/uhae312 | Tang, M., J. Wang, B. Kannan, N. M. Koukoulidis, Y.-H. Lin, F. Altpeter and L.-Q. Chen | Tonoplast Sugar Transporters as Key Drivers of Sugar Accumulation, a Case Study in Sugarcane | Horticulture Research | |
| 2024 | 10.1093/jxb/erae395 | Tan, G. D., U. Chaudhuri, S. Varela, N. Ahuja and A. D. B. Leakey | Machine learning-enabled computer vision for plant phenotyping: a primer on AI/ML and a case study on stomatal patterning | Journal of Experimental Botany | 75(21) 6683-6703 |
| 2024 | 10.1016/j.compchemeng.2024.108616 | Taifan, G. S. P. and C. T. Maravelias | Multi-technology separation system synthesis | Computers & Chemical Engineering | 183 108616 |
| 2024 | 10.1016/j.ymben.2024.07.006 | Tafrishi, A., V. Trivedi, Z. Xing, M. Li, R. Mewalal, S. R. Cutler, I. Blaby and I. Wheeldon | Functional genomic screening in Komagataella phaffii enabled by high-activity CRISPR-Cas9 library | Metabolic Engineering | 85 73-83 |
| 2024 | 10.1111/nph.19591 | Tadesse, D., E. F. Yee, T. W. Wolabu, H. Wang, J. Yun, N. Grosjean, D. Kumaran, K. Santiago, W. Kong, A. Sharma, J. Chen, A. H. Paterson, M. Xie and M. Tadege | Sorghum SbGhd7 is a major regulator of floral transition and directly represses genes crucial for flowering activation | New Phytologist | 242(2) 786–96 |
| 2024 | 10.1038/s41598-024-61376-w | Sword, T. T., J. L. N. Dinglasan, G. S. K. Abbas, J. W. Barker, M. E. Spradley, E. R. Greene, D. S. Gooden, S. J. Emrich, M. A. Gilchrist, M. J. Doktycz and C. B. Bailey | Profiling expression strategies for a type III polyketide synthase in a lysate-based, cell-free system | Scientific Reports | 14(1) 12983 |
| 2024 | 10.1038/s41467-024-48185-5 | Suzuki, S., S. i. Ishii, G. L. Chadwick, Y. Tanaka, A. Kouzuma, K. Watanabe, F. Inagaki, M. Albertsen, P. H. Nielsen and K. H. Nealson | A non-methanogenic archaeon within the order Methanocellales | Nature Communications | 15(1) 4858 |
| 2024 | 10.1093/molbev/msae045 | Sun, L., K. T. David, J. F. Wolters, S. D. Karlen, C. Gonçalves, D. A. Opulente, A. L. LaBella, M. Groenewald, X. Zhou, X.-X. Shen, A. Rokas and C. T. Hittinger | Functional and Evolutionary Integration of a Fungal Gene With a Bacterial Operon | Molecular Biology and Evolution | 41(4) msae045 |
| 2024 | 10.1093/hr/uhae045 | Sun, H., A. Kalluri, D. Tang, J. Ding, L. Zhai, et al. | Engineered dsRNA–protein nanoparticles for effective systemic gene silencing in plants | Horticulture Research | 11(4) uhae045 |
| 2024 | 10.1111/1462-2920.16665 | Sun, C. L., A. A. Pratama, M. C. Gazitúa, D. Cronin, B. B. McGivern, J. M. Wainaina, D. R. Vik, A. A. Zayed, B. Bolduc, I. P. F. T. 2010-2017, I. E. P. Coordinators, K. C. Wrighton, V. I. Rich and M. B. Sullivan | Virus ecology and 7-year temporal dynamics across a permafrost thaw gradient | Environmental Microbiology | 26(8) e16665 |
| 2024 | 10.1016/j.copbio.2023.103063 | Su, Y., A. M. Mangus, W. T. Cordell and B. F. Pfleger | Overcoming barriers to medium-chain fatty alcohol production | Current Opinion in Biotechnology | 85 103063 |
| 2024 | 10.1093/mtomcs/mfae013 | Strenkert, D., S. Schmollinger, S. Paruthiyil, B. C. Brown, S. Green, C. M. Shafer, P. Salomé, H. Nelson, C. E. Blaby-Haas, J. L. Moseley and S. S. Merchant | Distinct function of Chlamydomonas CTRA-CTR transporters in Cu assimilation and intracellular mobilization | Metallomics | 16(3) |
| 2024 | 10.1128/msystems.01188-23 | Stewart, R. D., K. S. Myers, C. Amstadt, M. Seib, K. D. McMahon and D. R. Noguera | Refinement of the “Candidatus Accumulibacter” genus based on metagenomic analysis of biological nutrient removal (BNR) pilot-scale plants operated with reduced aeration | mSystems | 9(3) e01188-23 |
| 2024 | 10.1038/s42003-024-06681-w | Steindorff, A. S., M. V. Aguilar-Pontes, A. J. Robinson, B. Andreopoulos, K. LaButti, et al. | Comparative genomic analysis of thermophilic fungi reveals convergent evolutionary adaptations and gene losses | Communications Biology | 7(1) 1124 |
| 2024 | 10.1021/acschembio.3c00627 | Steele, T. S., I. Burkhardt, M. L. Moore, T. de Rond, H. K. Bone, K. Barry, V. M. Bunting, J. Grimwood, L. H. Handley, S. Rajasekar, J. Talag, T. P. Michael and B. S. Moore | Biosynthesis of Haloterpenoids in Red Algae via Microbial-like Type I Terpene Synthases | ACS Chemical Biology | 19(1) 185-192 |
| 2024 | 10.7554/eLife.92863 | Stajich, J. E., B. Lovett, E. Lee, A. M. Macias, A. E. Hajek, B. L. de Bivort, M. T. Kasson, H. H. De Fine Licht and C. Elya | Signatures of transposon-mediated genome inflation, host specialization, and photoentrainment in Entomophthora muscae and allied entomophthoralean fungi | eLife | 12 RP92863 |
| 2024 | 10.1016/j.syapm.2024.126507 | St. John, E. and A.-L. Reysenbach | Genomic comparison of deep-sea hydrothermal genera related to Aeropyrum, Thermodiscus and Caldisphaera, and proposed emended description of the family Acidilobaceae | Systematic and Applied Microbiology | 47(2) 126507 |
| 2024 | 10.1016/j.biortech.2024.130560 | Srivastava, S. and N. A. Dafale | Tailored microbial consortium producing hydrolytic enzyme cocktail for maximum saccharification of wheat straw | Bioresource Technology | 399 130560 |
| 2024 | 10.1093/jimb/kuae026 | Srinivasan, A., K. Chen-Xiao, D. Banerjee, A. Oka, V. R. Pidatala, A. Eudes, B. A. Simmons, T. Eng and A. Mukhopadhyay | Sustainable production of 2,3,5,6-Tetramethylpyrazine at high titer in engineered Corynebacterium glutamicum | Journal of Industrial Microbiology and Biotechnology | 51 |
| 2024 | 10.1016/j.syapm.2024.126523 | Sreya, P. K., A. Hari Naga Papa Rao, G. Suresh, C. Sasikala and C. Venkata Ramana | Genomic and functional insights of a mucin foraging Rhodopirellula halodulae sp. nov | Systematic and Applied Microbiology | 47(4) 126523 |
| 2024 | 10.1038/s41477-024-01713-z | Sreedasyam, A., J. T. Lovell, S. Mamidi, S. Khanal, J. W. Jenkins, et al. | Genome resources for three modern cotton lines guide future breeding efforts | Nature Plants | 10(6) 1039-1051 |
| 2024 | 10.1002/anie.202319344 | Sosa, M. B., J. T. Leeman, L. J. Washington, H. V. Scheller and M. C. Y. Chang | Biosynthesis of Strained Amino Acids by a PLP-Dependent Enzyme through Cryptic Halogenation | Angewandte Chemie International Edition | 63(31) e202319344 |
| 2024 | 10.1016/j.eehl.2024.03.001 | Song, Y., S. Yao, X. Li, T. Wang, X. Jiang, N. Bolan, C. R. Warren, T. R. Northen and S. X. Chang | Soil metabolomics: Deciphering underground metabolic webs in terrestrial ecosystems | Eco-Environment & Health | 3(2) 227–237 |
| 2024 | 10.1128/mra.00305-24 | Soghomonian, M., A. Soghomonian, M. Escobar, V. Thiel, M. Göker, N. Ivanova, R. Seshadri and K. Maitra | Draft genome sequence of Nitrobacter vulgaris DSM 10236T | Microbiology Resource Announcements | 13(8) e00305-24 |
| 2024 | 10.1128/mra.01130-23 | Smith, H. J., M. Dieser and C. M. Foreman | Eight genome sequences of bacterial, environmental isolates from Canada Glacier, Antarctica | Microbiology Resource Announcements | 13(8) e01130-23 |
| 2024 | 10.1093/g3journal/jkae156 | Smith, A., J. Fletcher, J. Swinnen, K. Jonckheere, A. Bazzicalupo, H.-L. Liao, G. Ragland, J. Colpaert, A. Lipzen, S. Tejomurthula, K. Barry, I. V. Grigoriev, J. Ruytinx and S. Branco | Comparative transcriptomics provides insights into molecular mechanisms of zinc tolerance in the ectomycorrhizal fungus Suillus luteus | G3 Genes|Genomes|Genetics | 14(9) |
| 2024 | 10.1016/j.jbc.2024.107602 | Sirirungruang, S., V. Blay, Y. F. Scott, J. H. Pereira, M. Hammel, C. R. Barnum, P. D. Adams and P. M. Shih | Structural and biochemical basis for regiospecificity of the flavonoid glycosyltransferase UGT95A1 | Journal of Biological Chemistry | 300(9) 107602 |
| 2024 | 10.1128/mra.01072-23 | Singh, S., A. P. d. A. Pereira, T. A. Pellegrinetti and J. P. Verma | Draft genome sequence of cellulose-degrading Bacillus stercoris BHUJPV-SS7 isolated from soil mixed with wood powder | Microbiology Resource Announcements | 13(9) e01072-23 |
| 2024 | 10.1016/j.algal.2024.103648 | Simonazzi, M., T. K. Shishido, E. Delbaje, M. Wahlsten, D. P. Fewer, K. Sivonen, L. Pezzolesi and R. Pistocchi | Biochemical, toxicological and genomic investigation of a high-biomass producing Limnothrix strain isolated from Italian shallow drinking water reservoir | Algal Research | 82 103648 |
| 2024 | 10.1111/nph.19660 | Simon, S. J., A. Furches, H. Chhetri, L. Evans, C. R. Abeyratne, P. Jones, G. Wimp, D. Macaya-Sanz, D. Jacobson, T. J. Tschaplinski, G. A. Tuskan and S. P. DiFazio | Genetic underpinnings of arthropod community distributions in Populus trichocarpa | New Phytologist | 242(3) 1307–23 |
| 2024 | 10.1093/insilicoplants/diae007 | Simas Coutinho Barbosa, J., W. L. Schroeder, P. F. Suthers, S. S. Jawdy, J.-G. Chen, W. Muchero and C. D. Maranas | A multi-tissue genome-scale model of Populus trichocarpa elucidates overexpression targets for improving drought tolerance | in silico Plants | 6(1) diae007 |
| 2024 | 10.1111/nph.20026 | Shu, M., T. B. Yates, C. John, A. E. Harman-Ware, R. M. Happs, N. Bryant, S. S. Jawdy, A. J. Ragauskas, G. A. Tuskan, W. Muchero and J.-G. Chen | Providing biological context for GWAS results using eQTL regulatory and co-expression networks in Populus | New Phytologist | 244(2) 603-617 |
| 2024 | 10.1002/cssc.202301460 | Shrestha, S., S. Goswami, D. Banerjee, V. Garcia, E. Zhou, C. N. Olmsted, E. L.-W. Majumder, D. Kumar, D. Awasthi, A. Mukhopadhyay, S. W. Singer, J. M. Gladden, B. A. Simmons and H. Choudhary | Perspective on Lignin Conversion Strategies That Enable Next Generation Biorefineries | ChemSusChem | 17(16) e202301460 |
| 2024 | 10.1371/journal.pbio.3002612 | Shiu, S.-H. and M. D. Lehti-Shiu | Assessing the evolution of research topics in a biological field using plant science as an example | PLOS Biology | 22(5) e3002612 |
| 2024 | 10.1093/ismejo/wrad012 | Sher, A. W., J. A. Aufrecht, D. Herrera, A. E. Zimmerman, Y.-M. Kim, et al. | Dynamic nitrogen fixation in an aerobic endophyte of Populus | The ISME Journal | 18(1) |
| 2024 | 10.1038/s41589-024-01571-y | Shen, Y., H. V. Dinh, E. R. Cruz, Z. Chen, C. R. Bartman, et al. | Mitochondrial ATP generation is more proteome efficient than glycolysis | Nature Chemical Biology | 20(9) 1123-1132 |
| 2024 | 10.1128/mra.00710-23 | Shelton, A. N., F. B. Yu, F. Bunbury, J. Yan, C. Rivas, A. Grossman and D. Bhaya | Draft genome of Chloroflexus sp. MS-CIW-1, of the Chloroflexus sp. MS-G group from Mushroom Spring, Yellowstone National Park | Microbiology Resource Announcements | 13(3) e00710-23 |
| 2024 | 10.1186/s13068-024-02591-5 | Sharma, B. D., S. Hon, E. Thusoo, D. M. Stevenson, D. Amador-Noguez, A. M. Guss, L. R. Lynd and D. G. Olson | Pyrophosphate-free glycolysis in Clostridium thermocellum increases both thermodynamic driving force and ethanol titers | Biotechnology for Biofuels and Bioproducts | 17(1) 146 |
| 2024 | 10.1021/acs.biomac.3c00951 | Sethuraman, V., J. V. Vermaas, L. Liang, A. J. Ragauskas, J. C. Smith and L. Petridis | Atomistic Simulations of Polydisperse Lignin Melts Using Simple Polydisperse Residue Input Generator | Biomacromolecules | 25(2) 767-777 |
| 2024 | 10.1016/j.tplants.2024.06.008 | Serrano, K., F. Tedeschi, S. U. Andersen and H. V. Scheller | Unraveling plant–microbe symbioses using single-cell and spatial transcriptomics | Trends in Plant Science | 29(12) 1356-1367 |
| 2024 | 10.1038/s41477-024-01666-3 | Serrano, K., M. Bezrutczyk, D. Goudeau, T. Dao, R. O’Malley, R. R. Malmstrom, A. Visel, H. V. Scheller and B. Cole | Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis | Nature Plants | 10(4) 673-688 |
| 2024 | 10.1021/acssynbio.3c00493 | Seo, H., G. Castro and C. T. Trinh | Engineering a Synthetic Escherichia coli Coculture for Compartmentalized de novo Biosynthesis of Isobutyl Butyrate from Mixed Sugars | ACS Synthetic Biology | 13(1) 259-268 |
| 2024 | 10.1038/s41467-024-51688-w | Sennett, L. B., C. A. Roco, N. Y. N. Lim, J. B. Yavitt, P. Dörsch, L. R. Bakken, J. P. Shapleigh and Å. Frostegård | Determining how oxygen legacy affects trajectories of soil denitrifier community dynamics and N2O emissions | Nature Communications | 15(1) 7298 |
| 2024 | 10.1021/acs.biomac.4c00187 | Senanayake, M., C.-Y. Lin, S. D. Mansfield, A. Eudes, B. H. Davison, S. V. Pingali and H. O’Neill | Ectopic Production of 3,4-Dihydroxybenzoate in Planta Affects Cellulose Structure and Organization | Biomacromolecules | 25(6) 3542-3553 |
| 2024 | 10.1111/nph.20151 | Seethepalli, A., C. Ottley, J. Childs, K. R. Cope, A. K. Fine, J. H. Lagergren, U. Kalluri, C. M. Iversen and L. M. York | Divide and conquer: using RhizoVision Explorer to aggregate data from multiple root scans using image concatenation and statistical methods | New Phytologist | 244(5) 2101-2108 |
| 2024 | 10.1002/lno.12505 | Sebastián, M., P. Sánchez, G. Salazar, X. A. Álvarez-Salgado, I. Reche, X. A. G. Morán, M. M. Sala, C. M. Duarte, S. G. Acinas and J. M. Gasol | Water aging and the quality of organic carbon sources drive niche partitioning of the active bathypelagic prokaryotic microbiome | Limnology and Oceanography | 69(3) 562-575 |
| 2024 | 10.1038/s44286-024-00060-2 | Scown, C. D. | The short- and long-run environmental value of waste conversion | Nature Chemical Engineering | 1(5) 326 |
| 2024 | 10.3390/metabo14070365 | Schroeder, W. L., P. F. Suthers, T. C. Willis, E. J. Mooney and C. D. Maranas | Current State, Challenges, and Opportunities in Genome-Scale Resource Allocation Models: A Mathematical Perspective | Metabolites | 14(7) 365 |
| 2024 | 10.1016/j.ultsonch.2023.106721 | Schieppati, D., M. Mohan, B. Blais, K. Fattahi, G. S. Patience, B. A. Simmons, S. Singh and D. C. Boffito | Characterization of the acoustic cavitation in ionic liquids in a horn-type ultrasound reactor | Ultrasonics Sonochemistry | 102 106721 |
| 2024 | 10.1089/ast.2021.0129 | Schaible, M. J., N. Szeinbaum, G. O. Bozdag, L. Chou, N. Grefenstette, et al. | Chapter 1: The Astrobiology Primer 3.0 | Astrobiology | 24(S1) S-4–S-39 |
| 2024 | 10.1371/journal.pbio.3002638 | Schaible, G. A., Z. J. Jay, J. Cliff, F. Schulz, C. Gauvin, D. Goudeau, R. R. Malmstrom, S. E. Ruff, V. Edgcomb and R. Hatzenpichler | Multicellular magnetotactic bacteria are genetically heterogeneous consortia with metabolically differentiated cells | PLOS Biology | 22(7) e3002638 |
| 2024 | 10.1038/s41597-024-03069-7 | Schadt, C., S. Martin, A. Carrell, A. Fortner, D. Hopp, et al. | An integrated metagenomic, metabolomic and transcriptomic survey of Populus across genotypes and environments | Scientific Data | 11(1) 339 |
| 2024 | 10.1099/ijsem.0.006369 | Saticioglu, I. B., H. Ay, S. Altun, N. Ajmi, E. S. Gunduz, H. Gocmen and M. Duman | Flavobacterium acetivorans sp. nov. and Flavobacterium galactosidilyticum sp. nov., psychrotolerant flavobacteria isolated from cultivated fish | International Journal of Systematic and Evolutionary Microbiology | 74(5) |
| 2024 | 10.1021/acs.est.4c00663 | Sanz-Sáez, I., A. G. Bravo, M. Ferri, J.-M. Carreras, O. Sánchez, M. Sebastian, C. Ruiz-González, E. Capo, C. M. Duarte, J. M. Gasol, P. Sánchez and S. G. Acinas | Microorganisms Involved in Methylmercury Demethylation and Mercury Reduction are Widely Distributed and Active in the Bathypelagic Deep Ocean Waters | Environmental Science & Technology | 58(31) 13795-13807 |
| 2024 | 10.1039/D4GC01896F | Santiago-Martínez, L., M. Li, P. Munoz-Briones, J. Vergara-Zambrano, S. Avraamidou, J. A. Dumesic and G. W. Huber | Carbon-negative hydrogen: aqueous phase reforming (APR) of glycerol over NiPt bimetallic catalyst coupled with CO2 sequestration | Green Chemistry | 26(12) 7212–30 |
| 2024 | 10.1021/acssynbio.4c00253 | Sanford, P. A. and B. M. Woolston | Development of a Recombineering System for the Acetogen Eubacterium limosum with Cas9 Counterselection for Markerless Genome Engineering | ACS Synthetic Biology | 13(8) 2505-2514 |
| 2024 | 10.1002/bit.28796 | Sanford, P. A., I. Blaby, Y. Yoshikuni and B. M. Woolston | An efficient cre-based workflow for genomic integration and expression of large biosynthetic pathways in Eubacterium limosum | Biotechnology and Bioengineering | 121(10) 3360-3366 |
| 2024 | 10.1007/s11262-024-02052-z | Salih Doğan, H., A. Karaynir, Ü. İ. Yilmaz, B. B. Başgöz, T. Hoşbul and B. Bozdoğan | Two novel phages, Klebsiella phage GADU21 and Escherichia phage GADU22, from the urine samples of patients with urinary tract infection | Virus Genes | 60(2) 208–21 |
| 2024 | 10.1128/mra.00945-23 | Saito, D., C. P. B. Saito, F. d. S. Cannavan and S. M. Tsai | Draft genome sequences of 13 putatively novel Haemophilus species and strains assembled from human saliva | Microbiology Resource Announcements | 13(3) e00945-23 |
| 2024 | 10.1186/s12934-024-02354-9 | Rzechonek, D. A., M. Szczepańczyk, I. Borodina, C. Neuvéglise and A. M. Mirończuk | Transcriptome analysis reveals multiple targets of erythritol-related transcription factor EUF1 in unconventional yeast Yarrowia Lipolytica | Microbial Cell Factories | 23(1) 77 |
| 2024 | 10.1128/msystems.00919-24 | Rush, T. A., A. M. Wymore, J. Miguel Rodríguez, S. Jawdy, R. J. Vilgalys, M. Z. Martin and H. B. Andrews | Fungal elemental profiling unleashed through rapid laser-induced breakdown spectroscopy (LIBS) | mSystems | 9(9) e00919-24 |
| 2024 | 10.1007/978-1-0716-3802-6_1 | Roze, L. V., A. Johnson, L. M. Gregory, M. Tejera-Nieves and B. J. Walker | High Throughput Phosphoglycolate Phosphatase Activity Assay Using Crude Leaf Extract and Recombinant Enzyme to Determine Kinetic Parameters Km and Vmax Using a Microplate Reader | Photorespiration: Methods and Protocols | 45733 |
| 2024 | 10.1186/s12864-024-10391-2 | Rosling, A., S. Eshghi Sahraei, F. Kalsoom Khan, A. Desirò, A. E. Bryson, S. J. Mondo, I. V. Grigoriev, G. Bonito and M. Sánchez-García | Evolutionary history of arbuscular mycorrhizal fungi and genomic signatures of obligate symbiosis | BMC Genomics | 25(1) 529 |
| 2024 | 10.1016/j.jbc.2024.107504 | Romero, M. F., J. B. Krall, P. J. Nichols, J. Vantreeck, M. A. Henen, E. Dejardin, F. Schulz, Q. Vicens, B. Vögeli and M. A. Diallo | Novel Z-DNA binding domains in giant viruses | Journal of Biological Chemistry | 300(8) 107504 |
| 2024 | 10.1128/mra.00141-24 | Roman, V. A., S. Haridas, C. S. Hung, J. Pangilinan, A. Lipzen, et al. | Draft genome sequence of the Tremellomycetes yeast Papiliotrema laurentii 5307AH, isolated from aircraft | Microbiology Resource Announcements | 13(8) e00141-24 |
| 2024 | 10.1128/aem.01694-23 | Roman, V. A., B. R. Crable, D. N. Wagner, A. Gryganskyi, S. Zelik, et al. | Identification and recombinant expression of a cutinase from Papiliotrema laurentii that hydrolyzes natural and synthetic polyesters | Applied and Environmental Microbiology | 90(5) e01694-23 |
| 2024 | 10.1021/acssynbio.4c00312 | Roghair Stroud, M. N., D. X. Vang and L. J. Halverson | Optimized CRISPR Interference System for Investigating Pseudomonas alloputida Genes Involved in Rhizosphere Microbiome Assembly | ACS Synthetic Biology | 13(9) 2912-2925 |
| 2024 | 10.1128/mra.00033-24 | Rodríguez-Ramos, J., C. D. Nicora, S. O. Purvine, M. A. Borton, B. B. McGivern, D. W. Hoyt, M. S. Lipton and K. C. Wrighton | Untargeted, tandem mass spectrometry metaproteome of Columbia River sediments | Microbiology Resource Announcements | 13(6) e00033-24 |
| 2024 | 10.1016/j.jbc.2024.107736 | Rodrigues, A. V., N. W. Moriarty, R. Kakumanu, A. DeGiovanni, J. H. Pereira, J. W. Gin, Y. Chen, E. E. K. Baidoo, C. J. Petzold and P. D. Adams | Characterization of lignin-degrading enzyme PmdC, which catalyzes a key step in the synthesis of polymer precursor 2-pyrone-4,6-dicarboxylic acid | Journal of Biological Chemistry | 300(10) 107736 |
| 2024 | 10.3389/fmicb.2024.1422941 | Robinson, D., R. M. Morgan-Kiss, Z. Wang and C. Takacs-Vesbach | Antarctic lake viromes reveal potential virus associated influences on nutrient cycling in ice-covered lakes | Frontiers in Microbiology | 15 |
| 2024 | 10.1371/journal.pcbi.1011171 | Roberts, J. B., A. A. Nava, A. N. Pearson, M. R. Incha, L. E. Valencia, M. Ma, A. Rao and J. D. Keasling | Foldy: An open-source web application for interactive protein structure analysis | PLOS Computational Biology | 20(2) e1011171 |
| 2024 | 10.1128/mra.01067-23 | Rizzo, G., M. Choudoir, R. Simoes, N. Dayarathne and K. M. DeAngelis | High-quality draft genome sequence of Paenibacillus sp. RC80, a candidate for biofuel production | Microbiology Resource Announcements | 13(7) e01067-23 |
| 2024 | 10.1186/s13068-023-02450-9 | Rivera Vazquez, J., E. Trujillo, J. Williams, F. She, F. Getahun, M. M. Callaghan, J. J. Coon and D. Amador-Noguez | Lipid membrane remodeling and metabolic response during isobutanol and ethanol exposure in Zymomonas mobilis | Biotechnology for Biofuels and Bioproducts | 17(1) 14 |
| 2024 | 10.1094/pdis-07-24-1532-pdn | Rijal, S., M. J. Willis, B. Ghimire, S. Sapkota, T. H. Pendergast, M. Mazarei, G. C. Bergstrom, C. N. Stewart, A. Missaoui, K. M. Devos, A. D. Martinez-Espinoza, J. W. Buck and B. A. Bahri | First Report of Ergot Caused by Claviceps clavispora in Switchgrass (Panicum virgatum) in Georgia, U.S.A | Plant Disease | 108(12) 3661 |
| 2024 | 10.1111/ele.14331 | Ridgeway, J., J. Kane, E. Morrissey, H. Starcher and E. Brzostek | Roots selectively decompose litter to mine nitrogen and build new soil carbon | Ecology Letters | 27(1) e14331 |
| 2024 | 10.1016/j.scitotenv.2024.172916 | Rempfert, K. R., S. L. Bell, C. P. Kasanke, Q. Zhao, X. Zhao, A. S. Lipton and K. S. Hofmockel | Biomolecular budget of persistent, microbial-derived soil organic carbon: The importance of underexplored pools | Science of The Total Environment | 932 172916 |
| 2024 | 10.1128/msystems.00314-24 | Rasmussen, A. N., B. B. Tolar, J. R. Bargar, K. Boye and C. A. Francis | Diverse and unconventional methanogens, methanotrophs, and methylotrophs in metagenome-assembled genomes from subsurface sediments of the Slate River floodplain, Crested Butte, CO, USA | mSystems | 9(7) e00314-24 |
| 2024 | 10.1093/ismejo/wrae148 | Rasmussen, A. N. and C. A. Francis | Dynamics and activity of an ammonia-oxidizing archaea bloom in South San Francisco Bay | The ISME Journal | 18(1) |
| 2024 | 10.1038/s44286-023-00002-4 | Rapp, J. T., B. J. Bremer and P. A. Romero | Self-driving laboratories to autonomously navigate the protein fitness landscape | Nature Chemical Engineering | 1(1) 97–107 |
| 2024 | 10.1128/aem.01438-24 | Ranaivoarisoa, T. O., W. Bai, R. Karthikeyan, H. Steele, M. Silberman, J. Olabode, E. Conners, B. Gallagher and A. Bose | Overexpression of RuBisCO form I and II genes in Rhodopseudomonas palustris TIE-1 augments polyhydroxyalkanoate production heterotrophically and autotrophically | Applied and Environmental Microbiology | 90(9) e01438-24 |
| 2024 | 10.1016/j.indcrop.2024.118127 | Raj, T. and V. Singh | Natural deep eutectic solvents (NADES) assisted deconstruction of oilcane bagasse for high lipid and sugar recovery | Industrial Crops and Products | 210 118127 |
| 2024 | 10.1016/j.cej.2024.152657 | Raj, T., B. S. Dien and V. Singh | Process strategies for recovery of sugars, lipids, and lignin from oilcane bagasse using natural deep eutectic solvents (NADES) | Chemical Engineering Journal | 493 152657 |
| 2024 | 10.1371/journal.pone.0301871 | Price, M. N. and A. P. Arkin | A fast comparative genome browser for diverse bacteria and archaea | PLOS ONE | 19(4) e0301871 |
| 2024 | 10.1016/j.syapm.2024.126502 | Pragya, K., P. Sreya, L. Vighnesh, D. Mahima, M. Sushmita, C. Sasikala and C. Venkata Ramana | Phylogenomic analysis of metagenome-assembled genomes indicates new taxa in the order Spirochaetales and proposal of Thalassospirochaeta sargassi gen. nov. sp. nov. from seaweeds | Systematic and Applied Microbiology | 47(2) 126502 |
| 2024 | 10.1128/mra.01250-23 | Powell, T., D. Y. Sumner, A. D. Jungblut, I. Hawes, T. Mackey and C. Grettenberger | Metagenome-assembled bacterial genomes from benthic microbial mats in ice-covered Lake Vanda, Antarctica | Microbiology Resource Announcements | 13(5) e01250-23 |
| 2024 | 10.1016/j.isci.2024.108987 | Pontes, A., F. Paraíso, Y.-C. Liu, S. Limtong, S. Jindamorakot, L. Jespersen, C. Gonçalves, C. A. Rosa, I. J. Tsai, A. Rokas, C. T. Hittinger, P. Gonçalves and J. P. Sampaio | Tracking alternative versions of the galactose gene network in the genus Saccharomyces and their expansion after domestication | iScience | 27(2) 108987 |
| 2024 | 10.1007/s12010-024-04980-w | Poddar, B. J. and A. A. Khardenavis | Genomic Insights into the Landfill Microbial Community: Denitrifying Activity Supporting One-Carbon Utilization | Applied Biochemistry and Biotechnology | 196(12) 8866-8891 |
| 2024 | 10.1128/mra.00851-24 | Podar, M., L. H. Hochanadel, W. G. Alexander, C. W. Schadt and D. A. Pelletier | Complete genome sequence of Promicromonospora sp. strain Populi, an actinobacterium isolated from Populus trichocarpa rhizosphere | Microbiology Resource Announcements | 13(12) e00851-24 |
| 2024 | 10.3389/fpls.2024.1450646 | Ployet, R., K. Feng, J. Zhang, I. Baxter, D. C. Glasgow, H. B. Andrews, M. Rodriguez, J.-G. Chen, G. A. Tuskan, T. J. Tschaplinski, D. J. Weston, M. Z. Martin and W. Muchero | Elemental profiling and genome-wide association studies reveal genomic variants modulating ionomic composition in Populus trichocarpa leaves | Frontiers in Plant Science | 15 |
| 2024 | 10.1007/978-3-031-41648-4_10 | Plett, J. M., A. Kohler and F. Martin | Masters of Manipulation: How Our Molecular Understanding of Model Symbiotic Fungi and Their Hosts Is Changing the Face of “Mutualism” | Fungal Associations | 249-272 |
| 2024 | 10.1016/j.chroma.2024.465460 | Plavchak, C. L., A. Z. Werner, E. Betz, D. Salvachúa, G. T. Beckham and S. Kim Ratanathanawongs Williams | Determination of particle number concentration for biological particles using AF4-MALS: Dependencies on light scattering model and refractive index | Journal of Chromatography A | 1737 465460 |
| 2024 | 10.1093/ismeco/ycae048 | Pitot, T. M., J. Z. Rapp, F. Schulz, C. Girard, S. Roux and A. I. Culley | Distinct and rich assemblages of giant viruses in Arctic and Antarctic lakes | ISME Communications | 4(1) |
| 2024 | 10.1371/journal.pone.0305336 | Pidatala, V. R., M. Lei, H. Choudhary, C. J. Petzold, H. Garcia Martin, B. A. Simmons, J. M. Gladden and A. Rodriguez | A miniaturized feedstocks-to-fuels pipeline for screening the efficiency of deconstruction and microbial conversion of lignocellulosic biomass | PLOS ONE | 19(10) e0305336 |
| 2024 | 10.3390/biom14030324 | Pham, L. T. M., K. Deng, H. Choudhary, T. R. Northen, S. W. Singer, P. D. Adams, B. A. Simmons and K. L. Sale | An Engineered Laccase from Fomitiporia mediterranea Accelerates Lignocellulose Degradation | Biomolecules | 14(3) 324 |
| 2024 | 10.1111/1462-2920.16616 | Peoples, L. M., M. H. Seixas, K. A. Evans, E. M. Bilbrey, J. R. Ranieri, T. H. Tappenbeck, J. E. Dore, A. Baumann and M. J. Church | Out of sight, but not out of season: Nitrifier distributions and population dynamics in a large oligotrophic lake | Environmental Microbiology | 26(3) e16616 |
| 2024 | 10.1371/journal.pone.0306008 | Pennetti, V. J., P. R. LaFayette and W. A. Parrott | MultiGreen: A multiplexing architecture for GreenGate cloning | PLOS ONE | 19(9) e0306008 |
| 2024 | 10.1016/j.dib.2024.110143 | Peng, T. C., P. Lavin, R. O. Pedraza, N. Fierro-Vásquez, C. Purcarea, S. T. Yong and C. M. V. L. Wong | Draft genome sequence data of Antarctic Penicillium sp. strain E22, from Deception Island | Data in Brief | 53 110143 |
| 2024 | 10.1093/gbe/evae074 | Pena, M. M., R. Bhandari, R. M. Bowers, K. Weis, E. Newberry, N. Wagner, T. Pupko, J. B. Jones, T. Woyke, B. A. Vinatzer, M.-A. Jacques and N. Potnis | Genetic and Functional Diversity Help Explain Pathogenic, Weakly Pathogenic, and Commensal Lifestyles in the Genus Xanthomonas | Genome Biology and Evolution | 16(4) |
| 2024 | 10.1093/ismeco/ycae031 | Pellitier, P. T., M. Van Nuland, A. Salamov, I. V. Grigoriev and K. G. Peay | Potential for functional divergence in ectomycorrhizal fungal communities across a precipitation gradient | ISME Communications | 4(1) |
| 2024 | 10.1128/mra.00234-24 | Pelletier, D. A., W. Alexander, L. H. Burdick, T. A. Rush, J. Tannous, A. B. Webb and J. L. Morrell-Falvey | Complete genome of Pseudomonas putida strain WBB028 isolated from leaf litter | Microbiology Resource Announcements | 13(7) e00234-24 |
| 2024 | 10.1007/s42770-024-01268-3 | Pellegrinetti, T. A., I. de Cássia Mesquita da Cunha, M. G. d. Chaves, A. S. d. Freitas, G. S. Passos, A. V. R. d. Silva, S. R. Cotta, S. M. Tsai and L. W. Mendes | Genomic insights of Fictibacillus terranigra sp. nov., a versatile metabolic bacterium from Amazonian Dark Earths | Brazilian Journal of Microbiology | 55(2) 1817–28 |
| 2024 | 10.1111/pce.14797 | Peláez-Vico, M. Á., S. I. Zandalinas, A. R. Devireddy, R. Sinha and R. Mittler | Systemic stomatal responses in plants: Coordinating development, stress, and pathogen defense under a changing climate | Plant, Cell & Environment | 47(4) 1171–84 |
| 2024 | 10.1016/j.jbc.2024.107559 | Pech-Canul, A., S. K. Hammer, S. J. Ziegler, I. D. Richardson, B. D. Sharma, M. I. Maloney, Y. J. Bomble, L. R. Lynd and D. G. Olson | The role of AdhE on ethanol tolerance and production in Clostridium thermocellum | Journal of Biological Chemistry | 300(8) |
| 2024 | 10.1021/acssynbio.3c00441 | Pearson, A. N., M. R. Incha, C. N. Ho, M. Schmidt, J. B. Roberts, A. A. Nava and J. D. Keasling | Characterization and Diversification of AraC/XylS Family Regulators Guided by Transposon Sequencing | ACS Synthetic Biology | 13(1) 206-219 |
| 2024 | 10.1093/plcell/koae045 | Paterson, A. H. and C. Queitsch | Genome organization and botanical diversity | The Plant Cell | 36(5) 1186-1204 |
| 2024 | 10.1111/pbi.14527 | Park, K., T. Quach, T. J. Clark, H. Kim, T. Zhang, et al. | Development of vegetative oil sorghum: From lab-to-field | Plant Biotechnology Journal | |
| 2024 | 10.1016/j.biortech.2024.131214 | Panich, J., E. Toppari, S. Tejedor-Sanz, B. Fong, E. Dugan, Y. Chen, C. J. Petzold, Z. Zhao, Y. Yoshikuni, D. F. Savage and S. W. Singer | Functional plasticity of HCO3– uptake and CO2 fixation in Cupriavidus necator H16 | Bioresource Technology | 410 131214 |
| 2024 | 10.1038/s41570-024-00652-9 | Palumbo, C. T., E. T. Ouellette, J. Zhu, Y. Román-Leshkov, S. S. Stahl and G. T. Beckham | Accessing monomers from lignin through carbon–carbon bond cleavage | Nature Reviews Chemistry | 8(11) 799-816 |
| 2024 | 10.1038/s41467-024-45038-z | Palumbo, C. T., N. X. Gu, A. C. Bleem, K. P. Sullivan, R. Katahira, L. M. Stanley, J. K. Kenny, M. A. Ingraham, K. J. Ramirez, S. J. Haugen, C. R. Amendola, S. S. Stahl and G. T. Beckham | Catalytic carbon–carbon bond cleavage in lignin via manganese–zirconium-mediated autoxidation | Nature Communications | 15(1) 862 |
| 2024 | 10.3390/data9080097 | Palma, L., Y. Bel and B. Escriche | Genomic Insights into Bacillus thuringiensis V-CO3.3: Unveiling Its Genetic Potential against Nematodes | Data | 9(8) 97 |
| 2024 | 10.1371/journal.pone.0304810 | Pal, S., R. Yuvaraj, H. Krishnan, B. Venkatraman, J. Abraham and A. Gopinathan | Unraveling radiation resistance strategies in two bacterial strains from the high background radiation area of Chavara-Neendakara: A comprehensive whole genome analysis | PLOS ONE | 19(6) e0304810 |
| 2024 | 10.1038/s41596-024-01046-3 | Pakkir Shah, A. K., A. Walter, F. Ottosson, F. Russo, M. Navarro-Diaz, et al. | Statistical analysis of feature-based molecular networking results from non-targeted metabolomics data | Nature Protocols | |
| 2024 | 10.1126/science.adj4503 | Opulente, D. A., A. L. LaBella, M.-C. Harrison, J. F. Wolters, C. Liu, et al. | Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts | Science | 384(6694) eadj4503 |
| 2024 | 10.1021/acssuschemeng.3c08032 | Omolabake, S., C. Holland, D. N. Dülger, Z. Yuan, E. L. Hegg, D. B. Hodge and S. S. Stahl | Recovery of p-Hydroxybenzoic Acid from Cu-Catalyzed Alkaline Hydrogen Peroxide Pretreatment of Hybrid Poplar | ACS Sustainable Chemistry & Engineering | 12(15) 5726-5730 |
| 2024 | 10.1038/s41597-024-03826-8 | Oliver, T., N. Varghese, S. Roux, F. Schulz, M. Huntemann, et al. | Coassembly and binning of a twenty-year metagenomic time-series from Lake Mendota | Scientific Data | 11(1) 966 |
| 2024 | 10.1038/s41560-024-01532-8 | O’Neill, E. G., C. H. Geissler and C. T. Maravelias | Large-scale spatially explicit analysis of carbon capture at cellulosic biorefineries | Nature Energy | 9(7) 828-838 |
| 2024 | 10.1016/j.oneear.2024.08.012 | Nordahl, S. L., R. J. Hanes, K. K. Mayfield, C. Myers, S. E. Baker and C. D. Scown | Carbon accounting for carbon dioxide removal | One Earth | 7(9) 1494-1500 |
| 2024 | 10.1038/s41564-023-01573-x | Ning, D., Y. Wang, Y. Fan, J. Wang, J. D. Van Nostrand, et al. | Environmental stress mediates groundwater microbial community assembly | Nature Microbiology | 9(2) 490–501 |
| 2024 | 10.1021/acssynbio.3c00542 | Nguyen, V., Y. Li and T. Lu | Emergence of Orchestrated and Dynamic Metabolism of Saccharomyces cerevisiae | ACS Synthetic Biology | 13(5) 1442–53 |
| 2024 | 10.1128/mra.00980-23 | Nguyen, T. M., N. Pombubpa, M. Huntemann, A. Clum, B. Foster, et al. | Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert | Microbiology Resource Announcements | 13(3) e00980-23 |
| 2024 | 10.1016/j.watres.2024.121479 | Nguyen Quoc, B., S. K. Cavanaugh, K. A. Hunt, S. J. Bryson and M. K. H. Winkler | Impact of aerobic granular sludge sizes and dissolved oxygen concentration on greenhouse gas N2O emission | Water Research | 255 121479 |
| 2024 | 10.1093/ismejo/wrae047 | Nelson, A. R., T. S. Fegel, R. E. Danczak, M. V. Caiafa, H. K. Roth, O. I. Dunn, C. A. Turvold, T. Borch, S. I. Glassman, R. T. Barnes, C. C. Rhoades and M. J. Wilkins | Soil microbiome feedbacks during disturbance-driven forest ecosystem conversion | The ISME Journal | 18(1) |
| 2024 | 10.7150/jgen.92255 | Navarro, D., E. Drula, D. Chaduli, R. Cazenave, S. Ahrendt, J. Wang, A. Lipzen, C. Daum, K. Barry, I. V. Grigoriev, A. Favel, M. N. Rosso and F. Martin | Draft genome sequencing and assembly of Favolaschia claudopus CIRM-BRFM 2984 isolated from oak limbs | Journal of Genomics | 12 44-46 |
| 2024 | 10.1111/gcbb.13139 | Namoi, N., C. Jang, G. D. Behnke, J. W. Lee, W. Yang and D. Lee | Nitrogen fertilization effects on aged Miscanthus × giganteus stands: Exploring biomass yield, yield components, and biomass prediction using in-season morphological traits | GCB Bioenergy | 16(5) e13139 |
| 2024 | 10.1002/bit.28604 | Nain, P., R. M. Dickey, V. Somasundaram, M. Sulzbach and A. M. Kunjapur | Reductive amination cascades in cell-free and resting whole cell formats for valorization of lignin deconstruction products | Biotechnology and Bioengineering | 121(2) 593-604 |
| 2024 | 10.1093/g3journal/jkae026 | Nagle, M. F., J. Yuan, D. Kaur, C. Ma, E. Peremyslova, et al. | GWAS supported by computer vision identifies large numbers of candidate regulators of in planta regeneration in Populus trichocarpa | G3 Genes|Genomes|Genetics | 14(4) jkae026 |
| 2024 | 10.1111/nph.19737 | Nagle, M. F., J. Yuan, D. Kaur, C. Ma, E. Peremyslova, Y. Jiang, G. S. Goralogia, A. Magnuson, J. Y. Li, W. Muchero, L. Fuxin and S. H. Strauss | Genome-wide association study and network analysis of in vitro transformation in Populus trichocarpa support key roles of diverse phytohormone pathways and cross talk | New Phytologist | 242(5) 2059–76 |
| 2024 | 10.1073/pnas.2316422121 | Murali, R., L. A. Pace, R. A. Sanford, L. M. Ward, M. M. Lynes, R. Hatzenpichler, U. F. Lingappa, W. W. Fischer, R. B. Gennis and J. Hemp | Diversity and evolution of nitric oxide reduction in bacteria and archaea | Proceedings of the National Academy of Sciences | 121(26) e2316422121 |
| 2024 | 10.1128/mra.00114-24 | Mulay, S. A., C. R. Hahn, D. M. Klingeman, M. S. Elshahed, N. H. Youssef and M. Podar | Metagenomic sequencing of a Patescibacteria-containing enrichment from Zodletone spring in Oklahoma, USA | Microbiology Resource Announcements | 13(4) e00114-24 |
| 2024 | 10.1093/femsec/fiae012 | Mukhia, S., A. Kumar and R. Kumar | Bacterial community distribution and functional potentials provide key insights into their role in the ecosystem functioning of a retreating Eastern Himalayan glacier | FEMS Microbiology Ecology | 100(3) fiae012 |
| 2024 | 10.1128/msystems.01225-23 | Mudbhari, S., L. Lofgren, M. R. Appidi, R. Vilgalys, R. L. Hettich and P. E. Abraham | Decoding the chemical language of Suillus fungi: genome mining and untargeted metabolomics uncover terpene chemical diversity | mSystems | 9(4) e01225-23 |
| 2024 | 10.1021/acssynbio.4c00077 | Mubayi, V., C. B. Ahern, M. Calusinska and M. A. O’Malley | Toward a Circular Bioeconomy: Designing Microbes and Polymers for Biodegradation | ACS Synthetic Biology | 13(7) 1978-1993 |
| 2024 | 10.1111/gcbb.13125 | Mosier, S., L. Kelly, E. Ozlu and G. P. Robertson | Switchgrass (Panicum virgatum L.) cultivars have similar impacts on soil carbon and nitrogen stocks and microbial function | GCB Bioenergy | 16(3) e13125 |
| 2024 | 10.1111/nph.20071 | Mortimer, J. C. and H. V. Scheller | Evolutionary arms race: the role of xylan modifications in plant–pathogen interactions | New Phytologist | 244(3) 749-751 |
| 2024 | 10.1016/j.copbio.2024.103069 | Morgan, M. F., J. Diab, M. Gilliham and J. C. Mortimer | Green horizons: how plant synthetic biology can enable space exploration and drive on Earth sustainability | Current Opinion in Biotechnology | 86 103069 |
| 2024 | 10.1073/pnas.2321190121 | Morgan, C. J., E. Enustun, E. G. Armbruster, E. A. Birkholz, A. Prichard, et al. | An essential and highly selective protein import pathway encoded by nucleus-forming phage | Proceedings of the National Academy of Sciences | 121(19) e2321190121 |
| 2024 | 10.3389/fmicb.2024.1340413 | Moore, L. R., R. Caspi, D. A. Campbell, J. R. Casey, S. Crevecoeur, D. J. Lea-Smith, B. Long, N. M. Omar, S. M. Paley, N. M. Schmelling, A. Torrado, J. P. Zehr and P. D. Karp | CyanoCyc cyanobacterial web portal | Frontiers in Microbiology | 15 |
| 2024 | 10.1021/acs.jctc.3c01163 | Mohan, M., K. D. Jetti, M. D. Smith, O. N. Demerdash, M. K. Kidder and J. C. Smith | Accurate Machine Learning for Predicting the Viscosities of Deep Eutectic Solvents | Journal of Chemical Theory and Computation | 20(9) 3911-3926 |
| 2024 | 10.1021/acssuschemeng.4c00631 | Mohan, M., K. D. Jetti, S. Guggilam, M. D. Smith, M. K. Kidder and J. C. Smith | High-Throughput Screening and Accurate Prediction of Ionic Liquid Viscosities Using Interpretable Machine Learning | ACS Sustainable Chemistry & Engineering | 12(18) 7040-7054 |
| 2024 | 10.1021/acsomega.4c01175 | Mohan, M., O. N. Demerdash, B. A. Simmons, S. Singh, M. K. Kidder and J. C. Smith | Physics-Based Machine Learning Models Predict Carbon Dioxide Solubility in Chemically Reactive Deep Eutectic Solvents | ACS Omega | 9(17) 19548-19559 |
| 2024 | 10.1146/annurev-marine-033023-083652 | Moffett, J. W. and R. M. Boiteau | Metal Organic Complexation in Seawater: Historical Background and Future Directions | Annual Review of Marine Science | 16 577–99 |
| 2024 | 10.1021/acschembio.4c00169 | Miyada, M. G., Y. Choi, R. Stepanauskas, T. Woyke, J. J. La Clair and M. D. Burkart | Fluorometric Analysis of Carrier-Protein-Dependent Biosynthesis through a Conformationally Sensitive Solvatochromic Pantetheinamide Probe | ACS Chemical Biology | 19(7) 1416-1425 |
| 2024 | 10.1128/mra.01293-23 | Mitra, M. and A. Stanescu | Complete genome sequence of Acidovorax temperans strain LMJ isolated from a contaminated Chlamydomonas reinhardtii Tris-Acetate-Phosphate medium culture plate | Microbiology Resource Announcements | 13(4) e01293-23 |
| 2024 | 10.1128/spectrum.04256-23 | Misra, J., E. L. Mettert and P. J. Kiley | Functional analysis of the methylerythritol phosphate pathway terminal enzymes IspG and IspH from Zymomonas mobilis | Microbiology Spectrum | 12(7) e04256-23 |
| 2024 | 10.1186/s12934-024-02414-0 | Mishra, S., A. Deewan, H. Zhao and C. V. Rao | Nitrogen starvation causes lipid remodeling in Rhodotorula toruloides | Microbial Cell Factories | 23(1) 141 |
| 2024 | 10.1073/pnas.2303754120 | Mills, D. B., R. L. Simister, T. R. Sehein, S. J. Hallam, E. A. Sperling and S. A. Crowe | Constraining the oxygen requirements for modern microbial eukaryote diversity | Proceedings of the National Academy of Sciences | 121(2) e2303754120 |
| 2024 | 10.1128/mbio.00181-24 | Miliotis, G., P. Sengupta, A. Hameed, M. Chuvochina, F. McDonagh, A. C. Simpson, C. W. Parker, N. K. Singh, P. D. Rekha, D. Morris, K. Raman, N. C. Kyrpides, P. Hugenholtz and K. Venkateswaran | Novel spore-forming species exhibiting intrinsic resistance to third- and fourth-generation cephalosporins and description of Tigheibacillus jepli gen. nov., sp. nov | mBio | 15(4) e00181-24 |
| 2024 | 10.1016/j.watres.2024.121460 | Michael, J. P., A. D. Putt, Y. Yang, B. G. Adams, K. R. McBride, et al. | Reproducible responses of geochemical and microbial successional patterns in the subsurface to carbon source amendment | Water Research | 255 121460 |
| 2024 | 10.1111/1462-2920.16640 | Messyasz, A., M. K. Männistö, L. J. Kerkhof and M. M. Häggblom | Genome analysis and description of Tunturibacter gen. nov. expands the diversity of Terriglobia in tundra soils | Environmental Microbiology | 26(5) e16640 |
| 2024 | 10.1186/s40168-024-01751-x | Messer, L. F., C. E. Lee, R. Wattiez and S. Matallana-Surget | Novel functional insights into the microbiome inhabiting marine plastic debris: critical considerations to counteract the challenges of thin biofilms using multi-omics and comparative metaproteomics | Microbiome | 12(1) 36 |
| 2024 | 10.1128/mra.00845-23 | McLoon, A. L., P. A. Asante, T. Anderson, K. Cahill, D. Cochrane, K. Cohen, J. German, C. M. Hrubes, I. LaCroix, K. McNamee, A. Mossakowski, A. M. Nichter, J. L. Pepe and A. T. Schofield | Five draft genome assemblies from Bacillaceae isolated from a degraded wetland environment | Microbiology Resource Announcements | 13(2) e00845-23 |
| 2024 | 10.1038/s41564-024-01691-0 | McGivern, B. B., D. R. Cronin, J. B. Ellenbogen, M. A. Borton, E. L. Knutson, et al. | Microbial polyphenol metabolism is part of the thawing permafrost carbon cycle | Nature Microbiology | 9(6) 1454-1466 |
| 2024 | 10.1002/saj2.20761 | McDaniel, M. D. and T. A. Middleton | Putting the soil health principles to the test in Iowa | Soil Science Society of America Journal | 88(6) 2238-2253 |
| 2024 | 10.1111/tpj.16605 | Mathieu, D., A. E. Bryson, B. Hamberger, V. Singan, K. Keymanesh, M. Wang, K. Barry, S. Mondo, J. Pangilinan, M. Koriabine, I. V. Grigoriev, G. Bonito and B. Hamberger | Multilevel analysis between Physcomitrium patens and Mortierellaceae endophytes explores potential long-standing interaction among land plants and fungi | The Plant Journal | 118(2) 304–323 |
| 2024 | 10.3390/microorganisms12071277 | Mashzhan, A., A. Kistaubayeva, R. Javier-López, A. Bissenbay and N.-K. Birkeland | Caldanaerobacter subterraneus subsp. keratinolyticus subsp. nov., a Novel Feather-Degrading Anaerobic Thermophile | Microorganisms | 12(7) 1277 |
| 2024 | 10.1093/ismejo/wrae231 | Martínez Martínez, J., D. Talmy, J. A. Kimbrel, P. K. Weber and X. Mayali | Coastal bacteria and protists assimilate viral carbon and nitrogen | The ISME Journal | 18(1) |
| 2024 | 10.1111/nph.19541 | Martin, F. M. and M. G. A. van der Heijden | The mycorrhizal symbiosis: research frontiers in genomics, ecology, and agricultural application | New Phytologist | 242(4) 1486-1506 |
| 2024 | 10.1038/s41564-023-01582-w | Marschmann, G. L., J. Tang, K. Zhalnina, U. Karaoz, H. Cho, B. Le, J. Pett-Ridge and E. L. Brodie | Predictions of rhizosphere microbiome dynamics with a genome-informed and trait-based energy budget model | Nature Microbiology | 9(2) 421-433 |
| 2024 | 10.1111/nph.19609 | Marqués-Gálvez, J. E., G. Pandharikar, V. Basso, A. Kohler, N. D. Lackus, K. Barry, K. Keymanesh, J. Johnson, V. Singan, I. V. Grigoriev, R. Vilgalys, F. Martin and C. Veneault-Fourrey | Populus MYC2 orchestrates root transcriptional reprogramming of defence pathway to impair Laccaria bicolor ectomycorrhizal development | New Phytologist | 242(2) 658–674 |
| 2024 | 10.1002/pld3.70000 | Markel, K., L. Waldburger and P. M. Shih | Expression of a mammalian RNA demethylase increases flower number and floral stem branching in Arabidopsis thaliana | Plant Direct | 8(8) e70000 |
| 2024 | 10.1021/acssynbio.4c00404 | Markel, K., J. Sabety, S. Wijesinghe and P. M. Shih | Design and Characterization of a Transcriptional Repression Toolkit for Plants | ACS Synthetic Biology | 13(10) 3137-3143 |
| 2024 | 10.1093/plphys/kiae001 | Markel, K., V. Novak, B. P. Bowen, Y. Tian, Y.-C. Chen, S. Sirirungruang, A. Zhou, K. B. Louie, T. R. Northen, A. Eudes, H. V. Scheller and P. M. Shih | Cynipid wasps systematically reprogram host metabolism and restructure cell walls in developing galls | Plant Physiology | 195(1) 698-712 |
| 2024 | 10.1128/spectrum.01144-23 | Marinos, G., I. K. Hamerich, R. Debray, N. Obeng, C. Petersen, et al. | Metabolic model predictions enable targeted microbiome manipulation through precision prebiotics | Microbiology Spectrum | 12(2) e01144-23 |
| 2024 | 10.1016/j.fgb.2024.103913 | Marian, I. M., I. D. Valdes, R. D. Hayes, K. LaButti, K. Duffy, M. Chovatia, J. Johnson, V. Ng, L. G. Lugones, H. A. B. Wösten, I. V. Grigoriev and R. A. Ohm | High phenotypic and genotypic plasticity among strains of the mushroom-forming fungus Schizophyllum commune | Fungal Genetics and Biology | 173 103913 |
| 2024 | 10.1111/mec.17261 | Mantel, S. J. and A. L. Sweigart | Postzygotic barriers persist despite ongoing introgression in hybridizing Mimulus species | Molecular Ecology | 33(4) e17261 |
| 2024 | 10.1128/mra.00386-24 | Manning, V. A., P. A. Moore and K. M. Trippe | Metagenome-assembled genomes of an acid-tolerant nitrifying bacterial community isolated from a bioreactor used in ammonium scrubbers at animal-rearing facilities | Microbiology Resource Announcements | 13(7) e00386-24 |
| 2024 | 10.1128/mra.01227-23 | Makete, G. and T. P. Mamphogoro | De novo genome assembly of a probiotic Lacticaseibacillus rhamnosus ISO20, isolated from raw milk in South Africa | Microbiology Resource Announcements | 13(3) e01227-23 |
| 2024 | 10.1128/msystems.00746-24 | Majzoub, M. E., L. D. W. Luu, C. Haifer, S. Paramsothy, T. J. Borody, R. W. Leong, T. Thomas and N. O. Kaakoush | Refining microbial community metabolic models derived from metagenomics using reference-based taxonomic profiling | mSystems | 9(9) e00746-24 |
| 2024 | 10.1016/j.cej.2024.150450 | Maitra, S., M.-H. Cheng, H. Liu, V. D. Cao, B. Kannan, S. P. Long, J. Shanklin, F. Altpeter and V. Singh | Sustainable co-production of plant lipids and cellulosic sugars from transgenic energycane at an industrially relevant scale: A proof of concept for alternative feedstocks | Chemical Engineering Journal | 487 150450 |
| 2024 | 10.1038/s41564-024-01799-3 | Maini Rekdal, V., J. M. Villalobos-Escobedo, N. Rodriguez-Valeron, M. Olaizola Garcia, D. Prado Vásquez, et al. | Neurospora intermedia from a traditional fermented food enables waste-to-food conversion | Nature Microbiology | 9(10) 2666-2683 |
| 2024 | 10.1038/s41467-024-46314-8 | Maini Rekdal, V., C. R. B. van der Luijt, Y. Chen, R. Kakumanu, E. E. K. Baidoo, C. J. Petzold, P. Cruz-Morales and J. D. Keasling | Edible mycelium bioengineered for enhanced nutritional value and sensory appeal using a modular synthetic biology toolkit | Nature Communications | 15(1) 2099 |
| 2024 | 10.1016/j.oneear.2024.04.016 | Maertens, A., L. Dai, S. I. Mussatto, S. W. Sheehan, P. Watthaisong, P. Chaiyen, S. Banerjee, J. I. Allan, K. Lan and S. Ramakrishna | Transforming to a sustainable and circular chemical sector | One Earth | 7(5) 733–37 |
| 2024 | 10.1007/s10482-024-01996-4 | Machin, E. V., D. M. Roldán and R. J. Menes | Sphaerotilus uruguayifluvii sp. nov., a novel filamentous bacterium isolated from river water | Antonie van Leeuwenhoek | 117(1) 96 |
| 2024 | 10.1007/s11103-024-01467-4 | Machado, R., S. E. Muchut, C. Dezar, A. G. Reutemann, C. A. Alesso, M. M. Günthardt, A. C. Vegetti, J. Vogel and N. G. Uberti Manassero | BdRCN4, a Brachypodium distachyon TFL1 homologue, is involved in regulation of apical meristem fate | Plant Molecular Biology | 114(4) 81 |
| 2024 | 10.1038/s41477-023-01608-5 | Ma, X., S. Vanneste, J. Chang, L. Ambrosino, K. Barry, et al. | Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment | Nature Plants | 10(2) 240-255 |
| 2024 | 10.1088/1748-9326/ad601a | Lynd, L., A. R. Kemanian, J. Smith, T. L. Richard, A. Arifi, S. Bozzetto, C. Fabbri, J. Field, C. H. Pries, M. Kubis, P. Smith, M. Wang and M. Hoey | Soil application of high-lignin fermentation byproduct to increase the sustainability of liquid biofuel production from crop residues | Environmental Research Letters | 19(8) 083002 |
| 2024 | 10.1093/jxb/erae271 | Lunn, D., B. Kannan, A. Germon, A. Leverett, T. E. Clemente, F. Altpeter and A. D. B. Leakey | Greater aperture counteracts effects of reduced stomatal density on water use efficiency: a case study on sugarcane and meta-analysis | Journal of Experimental Botany | 75(21) 6837-6849 |
| 2024 | 10.3389/fmicb.2023.1330602 | Lumian, J., C. Grettenberger, A. D. Jungblut, T. J. Mackey, I. Hawes, E. Alatorre-Acevedo and D. Y. Sumner | Genomic profiles of four novel cyanobacteria MAGs from Lake Vanda, Antarctica: insights into photosynthesis, cold tolerance, and the circadian clock | Frontiers in Microbiology | 14 |
| 2024 | 10.1128/msystems.00242-24 | Lui, L. M. and T. N. Nielsen | Decomposing a San Francisco estuary microbiome using long-read metagenomics reveals species- and strain-level dominance from picoeukaryotes to viruses | mSystems | 9(9) e00242-24 |
| 2024 | 10.1016/j.ymben.2023.11.009 | Luckie, B. A., M. Kashyap, A. N. Pearson, Y. Chen, Y. Liu, L. E. Valencia, A. Carrillo Romero, G. A. Hudson, X. B. Tao, B. Wu, C. J. Petzold and J. D. Keasling | Development of Corynebacterium glutamicum as a monoterpene production platform | Metabolic Engineering | 81 110-122 |
| 2024 | 10.3390/metabo14040184 | Lu, W., M. J. McBride, W. D. Lee, X. Xing, X. Xu, X. Li, A. M. Oschmann, Y. Shen, C. Bartman and J. D. Rabinowitz | Selected Ion Monitoring for Orbitrap-Based Metabolomics | Metabolites | 14(4) 184 |
| 2024 | 10.1093/lambio/ovae038 | Louie, T. S., A. Kumar, E. Bini and M. M. Häggblom | Mo than meets the eye: genomic insights into molybdoenzyme diversity of Seleniivibrio woodruffii strain S4T | Letters in Applied Microbiology | 77(4) |
| 2024 | 10.1093/plphys/kiae262 | Lopez, B. N. K., P. H. O. Ceciliato, Y. Takahashi, F. J. Rangel, E. A. Salem, et al. | CO2 response screen in grass Brachypodium reveals the key role of a MAP kinase in CO2-triggered stomatal closure | Plant Physiology | 196(1) 495-510 |
| 2024 | 10.1111/nph.19700 | Lofgren, L., N. H. Nguyen, P. G. Kennedy, E. Pérez-Pazos, J. Fletcher, et al. | Suillus: an emerging model for the study of ectomycorrhizal ecology and evolution | New Phytologist | 242(4) 1448-1475 |
| 2024 | 10.1038/s41586-024-07345-9 | Liu, Y., X. Zhao, F. Gan, X. Chen, K. Deng, et al. | Complete biosynthesis of QS-21 in engineered yeast | Nature | 629(8013) 937–44 |
| 2024 | 10.1093/hr/uhae232 | Liu, Y., F. Zhang, A. R. Devireddy, R. A. Ployet, T. A. Rush, et al. | A small secreted protein serves as a plant-derived effector mediating symbiosis between Populus and Laccaria bicolor | Horticulture Research | 11(10) |
| 2024 | 10.1093/ismeco/ycae051 | Liu, X. J. A., S. Han, S. D. Frey, J. M. Melillo, J. Zhou and K. M. DeAngelis | Microbial responses to long-term warming differ across soil microenvironments | ISME Communications | 4(1) |
| 2024 | 10.1093/ismejo/wrae022 | Liu, M. D., Y. Du, S. K. Koupaei, N. R. Kim, M. S. Fischer, W. Zhang and M. F. Traxler | Surface-active antibiotic production as a multifunctional adaptation for postfire microorganisms | The ISME Journal | 18(1) |
| 2024 | 10.1016/j.biortech.2024.130903 | Liu, L.-Y., X. Wang, C.-C. Dang, Z.-C. Zhao, D.-F. Xing, B.-F. Liu, N.-Q. Ren and G.-J. Xie | Anaerobic ammonium oxidation coupled with sulfate reduction links nitrogen with sulfur cycle | Bioresource Technology | 403 130903 |
| 2024 | 10.1038/s41579-024-01069-3 | Liu, H. | Bacterial barcoding facilitates plant microbiome studies | Nature Reviews Microbiology | 22(8) 459 |
| 2024 | 10.1021/acs.est.3c06118 | Liu, G., K. Chen, Z. Wu, Y. Ji, L. Lu, S. Liu, Z.-L. Li, R. Ji, S.-J. Liu, J. Jiang and W. Qiao | Genome-Centric Metatranscriptomic Characterization of a Humin-Facilitated Anaerobic Tetrabromobisphenol A-Dehalogenating Consortium | Environmental Science & Technology | 58(2) 1299–311 |
| 2024 | 10.1016/j.crbiot.2024.100243 | Liu, D., L. Xu, M. Peng, A. Lipzen, V. Ng, E. Savage, Y. Zhang, I. V. Grigoriev, S. Garrigues and R. P. de Vries | AraR plays a more dominant role than XlnR in plant biomass conversion in Penicillium subrubescens | Current Research in Biotechnology | 8 100243 |
| 2024 | 10.1093/sysbio/syae031 | Liu, C., X. Zhou, Y. Li, C. T. Hittinger, R. Pan, J. Huang, X.-x. Chen, A. Rokas, Y. Chen and X.-X. Shen | The Influence of the Number of Tree Searches on Maximum Likelihood Inference in Phylogenomics | Systematic Biology | 73(5) 807-822 |
| 2024 | 10.3389/fenrg.2024.1348464 | Lindstrom, J. K., C. A. Peterson, P. N. Ciesielski, J. Ralph, M. Chen, J. E. Jakes, P. A. Johnston, S. A. Rollag and R. C. Brown | Structural and chemical changes in hardwood cell walls during early stages of flash pyrolysis | Frontiers in Energy Research | 12 |
| 2024 | 10.1038/s42003-024-05950-y | Lin, Z., X. Zhang, P. Nandi, Y. Lin, L. Wang, Y. S. Chu, T. Paape, Y. Yang, X. Xiao and Q. Liu | Correlative single-cell hard X-ray computed tomography and X-ray fluorescence imaging | Communications Biology | 7(1) 280 |
| 2024 | 10.1094/pbiomes-06-23-0050-r | Lin, H.-H., M. Torres, C. A. Adams, P. F. Andeer, T. K. Owens, K. Zhalnina, L. K. Jabusch, H. K. Carlson, J. V. Kuehl, A. M. Deutschbauer, T. R. Northen, N. L. Glass and J. C. Mortimer | Impact of Inoculation Practices on Microbiota Assembly and Community Stability in a Fabricated Ecosystem | Phytobiomes Journal | 8(2) 155–67 |
| 2024 | 10.1016/j.bioadv.2023.213711 | Lin, A. Y. W., Z.-Y. Wu, A. J. Pattison, I. E. Müller, Y. Yoshikuni, W. Theis and P. Ercius | Statistical 3D morphology characterization of vaterite microspheres produced by engineered Escherichia coli | Biomaterials Advances | 156 213711 |
| 2024 | 10.1021/acssynbio.3c00537 | Liao, C., P. Priyanka, Y.-H. Lai, C. V. Rao and T. Lu | How Does Escherichia coli Allocate Proteome? | ACS Synthetic Biology | 13(9) 2718-2732 |
| 2024 | 10.1002/tpg2.20319 | Liang, Q., M. Muñoz-Amatriaín, S. Shu, S. Lo, X. Wu, et al. | A view of the pan-genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.) | The Plant Genome | 17(1) e20319 |
| 2024 | 10.1016/j.soilbio.2024.109370 | Liang, D., N. Ji, A. Kent and W. H. Yang | Distinct mechanisms drive plant-nitrifier interactions in topsoil and subsoil | Soil Biology and Biochemistry | 192 109370 |
| 2024 | 10.1038/s41467-024-47755-x | Li, Z., A. N. Kravchenko, A. Cupples, A. K. Guber, Y. Kuzyakov, G. Philip Robertson and E. Blagodatskaya | Composition and metabolism of microbial communities in soil pores | Nature Communications | 15(1) 3578 |
| 2024 | 10.1128/msphere.00259-24 | Li, Y., Y. Xue, T. R. Chowdhury, D. E. Graham, S. G. Tringe, J. K. Jansson and N. Taş | Genomic insights into redox-driven microbial processes for carbon decomposition in thawing Arctic soils and permafrost | mSphere | 9(7) e00259-24 |
| 2024 | 10.3389/fmicb.2024.1369102 | Li, S., E. Nilsson, L. Seidel, M. Ketzer, A. Forsman, M. Dopson and S. Hylander | Baltic Sea coastal sediment-bound eukaryotes have increased year-round activities under predicted climate change related warming | Frontiers in Microbiology | 15 |
| 2024 | 10.1111/gcb.17500 | Li, S., C. M. Montes, E. K. Aspray and E. A. Ainsworth | How do drought and heat affect the response of soybean seed yield to elevated O3? An analysis of 15 seasons of free-air O3 concentration enrichment studies | Global Change Biology | 30(9) e17500 |
| 2024 | 10.1016/j.apcatb.2023.123648 | Li, M., J. Zhang, S. C. Purdy, F. Lin, K. A. Unocic, M. Cordon, Z. Wu, H. Wang, J. Hall, A. J. Kropf, T. R. Krause, B. Davison, Z. Li and A. D. Sutton | Tailoring olefin distribution via tuning rare earth metals in bifunctional Cu-RE/beta-zeolite catalysts for ethanol upgrading | Applied Catalysis B: Environment and Energy | 344 123648 |
| 2024 | 10.1126/science.adk8464 | Li, M., Y. Yuan, W. Harrison, Z. Zhang and H. Zhao | Asymmetric photoenzymatic incorporation of fluorinated motifs into olefins | Science | 385(6707) 416-421 |
| 2024 | 10.1021/jacs.3c14066 | Li, L., W. Zhong, H. Liu, P. Espinosa-Artiles, Y.-m. Xu, C. Wang, J. M. Verdugo Robles, T. A. Paz, M. Cascaes Inácio, F. Chen, Y. Xu, A. A. L. Gunatilaka and I. Molnár | Biosynthesis of Cytosporones in Leotiomycetous Filamentous Fungi | Journal of the American Chemical Society | 146(9) 6189-6198 |
| 2024 | 10.1016/j.jag.2024.104206 | Li, K., C. Jiang, K. Guan, G. Wu, Z. Ma and Z. Li | Evaluation of average leaf inclination angle quantified by indirect optical instruments in crop fields | International Journal of Applied Earth Observation and Geoinformation | 134 104206 |
| 2024 | 10.1021/acssuschemeng.3c07129 | Li, J., R. C. Van Lehn and C. T. Maravelias | An Explainable Classification Framework for Determining and Understanding the Suitability of Solvent Extraction for Bioproduct Recovery | ACS Sustainable Chemistry & Engineering | 12(14) 5436–46 |
| 2024 | 10.1073/pnas.2312607121 | Li, C., D. Wickell, L.-Y. Kuo, X. Chen, B. Nie, et al. | Extraordinary preservation of gene collinearity over three hundred million years revealed in homosporous lycophytes | Proceedings of the National Academy of Sciences | 121(4) e2312607121 |
| 2024 | 10.1094/phytofr-08-23-0108-a | Leng, Y., Y. Du, J. Fiedler, S. Haridas, I. V. Grigoriev and S. Zhong | A Telomere-to-Telomere Genome Assembly Resource of Bipolaris sorokiniana, the Fungal Pathogen Causing Spot Blotch and Common Root Rot Diseases in Barley and Wheat | PhytoFrontiers™ | 4(2) 247-250 |
| 2024 | 10.1016/j.biortech.2023.129854 | Leggieri, P. A., E. M. Blair, T. S. Lankiewicz and M. A. O'Malley | Continuous culture of anaerobic fungi enables growth and metabolic flux tuning without use of genetic tools | Bioresource Technology | 391 129854 |
| 2024 | 10.1016/j.biortech.2024.130641 | Lee, Y.-G., N. K. Kang, C. Kim, V. G. Tran, M. Cao, Y. Yoshikuni, H. Zhao and Y.-S. Jin | Self-Buffering System for Cost-Effective Production of Lactic Acid from Glucose and Xylose Using Acid-Tolerant Issatchenkia orientalis | Bioresource Technology | 399 130641 |
| 2024 | 10.1002/csc2.21131 | Lee, M. S., R. A. Boyd, C. Jang, J. W. Lee and D. K. Lee | Identifying biomass yield potential of tetra-, hexa-, and octoploid prairie cordgrass populations grown on marginal lands | Crop Science | 64(1) 523–33 |
| 2024 | 10.1146/annurev-phyto-021622-114434 | LeBoldus, J. M., S. C. Lynch, A. E. Newhouse, K. L. Søndreli, G. Newcombe, P. I. Bennett, W. Muchero, J.-G. Chen, P. E. Busby, M. Gordon and H. Liang | Biotechnology and Genomic Approaches to Mitigating Disease Impacts on Forest Health | Annual Review of Phytopathology | 62(62) 309-335 |
| 2024 | 10.1038/s41467-024-50365-2 | Lax, C., S. J. Mondo, M. Osorio-Concepción, A. Muszewska, M. Corrochano-Luque, et al. | Symmetric and asymmetric DNA N6-adenine methylation regulates different biological responses in Mucorales | Nature Communications | 15(1) 6066 |
| 2024 | 10.1093/jxb/erae425 | Lawson, T. and A. D. B. Leakey | Stomata: custodians of leaf gaseous exchange | Journal of Experimental Botany | 75(21) 6677-6682 |
| 2024 | 10.1186/s40168-023-01740-6 | Lavecchia, A., B. Fosso, A. H. Engelen, S. Borin, C. Manzari, E. Picardi, G. Pesole and A. Placido | Macroalgal microbiomes unveil a valuable genetic resource for halogen metabolism | Microbiome | 12(1) 47 |
| 2024 | 10.1186/s12866-024-03390-6 | Laux, M., L. P. Ciapina, F. M. de Carvalho, A. L. Gerber, A. P. C. Guimarães, M. Apolinário, J. E. S. Paes, C. R. Jonck and A. T. R. de Vasconcelos | Living in mangroves: a syntrophic scenario unveiling a resourceful microbiome | BMC Microbiology | 24(1) 228 |
| 2024 | 10.1111/1365-2435.14517 | Lash, C. L., M. A. Cregger, A. M. Kinkopf, N. Buerger, D. M. Klingeman and C. Kwit | Ant handling changes myrmecochore seed coat microbiomes and alters diversity of seed-borne plant pathogenic fungi | Functional Ecology | 38(4) 861–74 |
| 2024 | 10.1111/gcbb.13167 | LaBonte, N. R., D. P. Zerpa-Catanho, S. Liu, L. Xiao, H. Dong, L. V. Clark and E. J. Sacks | Improving precision and accuracy of genetic mapping with genotyping-by-sequencing data in outcrossing species | GCB Bioenergy | 16(7) e13167 |
| 2024 | 10.1002/bit.28774 | Kumar, R., S. Bhagia, A. Mittal and C. E. Wyman | Effect of cellulose reducing ends and primary hydroxyl groups modifications on cellulose-cellulase interactions and cellulose hydrolysis | Biotechnology and Bioengineering | 121(9) 2793-2807 |
| 2024 | 10.1016/j.molliq.2024.124471 | Kumar, N., M. Mohan, J. C. Smith, B. A. Simmons, S. Singh and T. Banerjee | Inhibition of asphaltene aggregation using deep eutectic solvents: COSMO-RS calculations and experimental validation | Journal of Molecular Liquids | 400 124471 |
| 2024 | 10.3390/md22010010 | Kumar, G., N. Kallscheuer, M. Kashif, S. Ahamad, U. Jagadeeshwari, S. Pannikurungottu, T. Haufschild, M. Kabuu, C. Sasikala, C. Jogler and C. V. Ramana | Gemmata algarum, a Novel Planctomycete Isolated from an Algal Mat, Displays Antimicrobial Activity | Marine Drugs | 22(1) 10 |
| 2024 | 10.1038/s41586-024-07829-8 | Krukenberg, V., A. J. Kohtz, Z. J. Jay and R. Hatzenpichler | Methyl-reducing methanogenesis by a thermophilic culture of Korarchaeia | Nature | 632(8027) 1131-1136 |
| 2024 | 10.1186/s40168-024-01831-y | Krinos, Arianna I., Robert M. Bowers, Robin R. Rohwer, Katherine D. McMahon, T. Woyke and F. Schulz | Time-series metagenomics reveals changing protistan ecology of a temperate dimictic lake | Microbiome | 12(1) 133 |
| 2024 | 10.1128/mra.01089-23 | Kridler, M. R., I. A. Viney, J. M. Custer, B. Schlottman, R. Bartelme and P. Carini | Draft genome sequences of Arthrobacter sp. AZCC_0090 and Mycobacterium sp. AZCC_0083 isolated from oligotrophic subsurface forest soil in the Santa Catalina mountains of Southern Arizona | Microbiology Resource Announcements | 13(3) e01089-23 |
| 2024 | 10.1128/msystems.00709-23 | Krausfeldt, L. E., E. Shmakova, H. W. Lee, V. Mazzei, K. A. Loftin, R. P. Smith, E. Karwacki, P. E. Fortman, B. H. Rosen, H. Urakawa, M. Dadlani, R. R. Colwell and J. V. Lopez | Microbial diversity, genomics, and phage–host interactions of cyanobacterial harmful algal blooms | mSystems | 9(7) e00709-23 |
| 2024 | 10.1016/j.ympev.2024.108010 | Kraisitudomsook, N., S. Ahrendt, R. Riley, K. LaButti, A. Lipzen, C. Daum, K. Barry, I. V. Grigoriev, T. Rämä, F. Martin and M. E. Smith | On the origin of bird’s nest fungi: Phylogenomic analyses of fungi in the Nidulariaceae (Agaricales, Basidiomycota) | Molecular Phylogenetics and Evolution | 193 108010 |
| 2024 | 10.1073/pnas.2405524121 | Koper, K., S.-W. Han, R. Kothadia, H. Salamon, Y. Yoshikuni and H. A. Maeda | Multisubstrate specificity shaped the complex evolution of the aminotransferase family across the tree of life | Proceedings of the National Academy of Sciences | 121(26) e2405524121 |
| 2024 | 10.1038/s41586-024-07631-6 | Kohtz, A. J., N. Petrosian, V. Krukenberg, Z. J. Jay, M. Pilhofer and R. Hatzenpichler | Cultivation and visualization of a methanogen of the phylum Thermoproteota | Nature | 632(8027) 1118-1123 |
| 2024 | 10.1016/j.copbio.2023.103059 | Koh, H. G., S. Yook, H. Oh, C. V. Rao and Y.-S. Jin | Toward rapid and efficient utilization of nonconventional substrates by nonconventional yeast strains | Current Opinion in Biotechnology | 85 103059 |
| 2024 | 10.1038/s41576-024-00710-4 | Ko, D. K. and F. Brandizzi | Dynamics of ER stress-induced gene regulation in plants | Nature Reviews Genetics | 25(7) 513–25 |
| 2024 | 10.3389/frmbi.2024.1452476 | Klimasmith, I. M., B. Wang, S. Yu, Y. Yoshikuni and A. D. Kent | Translating macroecological models to predict microbial establishment probability in an agricultural inoculant introduction | Frontiers in Microbiomes | 3 |
| 2024 | 10.1039/D3EE02532B | Klein, B. C., B. Scheidemantle, R. J. Hanes, A. W. Bartling, N. J. Grundl, et al. | Economics and global warming potential of a commercial-scale delignifying biorefinery based on co-solvent enhanced lignocellulosic fractionation to produce alcohols, sustainable aviation fuels, and co-products from biomass | Energy & Environmental Science | 17(3) 1202–15 |
| 2024 | 10.1016/j.chemphyslip.2024.105397 | Kinnun, J. J., J. M. Y. Carrillo, C. P. Collier, M. D. Smith and J. Katsaras | Amantadine interactions with phase separated lipid membranes | Chemistry and Physics of Lipids | 262 105397 |
| 2024 | 10.1038/s42004-024-01242-y | Kim, Y., S. H. Lee, P. Gade, M. Nattermann, N. Maltseva, et al. | Revealing reaction intermediates in one-carbon elongation by thiamine diphosphate/CoA-dependent enzyme family | Communications Chemistry | 7(1) 160 |
| 2024 | 10.1099/ijsem.0.006371 | Kim, S., J. Heo, H. Choi, D. Lee, S.-W. Kwon and Y. Kim | Sphingobacterium oryzagri sp. nov., isolated from rice paddy soil | International Journal of Systematic and Evolutionary Microbiology | 74(5) |
| 2024 | 10.1038/s41598-024-58444-6 | Kim, K., A. Juyal and A. Kravchenko | Soil pore characteristics and the fate of new switchgrass-derived carbon in switchgrass and prairie bioenergy cropping systems | Scientific Reports | 14(1) 7824 |
| 2024 | 10.1039/D4GC01975J | Kim, B., J. M. Perez, S. D. Karlen, J. Coplien, T. J. Donohue and D. R. Noguera | Achieving high productivity of 2-pyrone-4,6-dicarboxylic acid from aqueous aromatic streams with Novosphingobium aromaticivorans | Green Chemistry | 26(13) 7997-8009 |
| 2024 | 10.1128/mra.00531-24 | Kiledal, E. A., I. Moxley, O. Shevchenko, J. L. Goff and J. A. Maresca | Genome sequence of Methylobacterium fujisawaense strain C14, isolated from concrete | Microbiology Resource Announcements | 13(8) e00531-24 |
| 2024 | 10.1038/s43247-024-01663-6 | Khanna, M., D. Zilberman, G. Hochman and B. Basso | An economic perspective of the circular bioeconomy in the food and agricultural sector | Communications Earth & Environment | 5(1) 507 |
| 2024 | 10.1111/nph.19595 | Kfoury, B., W. F. C. Rodrigues, S.-J. Kim, F. Brandizzi and L.-E. Del-Bem | Multiple horizontal gene transfer events have shaped plant glycosyl hydrolase diversity and function | New Phytologist | 242(2) 809–24 |
| 2024 | 10.1021/jacsau.4c00126 | Kenny, J. K., S. R. Neefe, D. G. Brandner, M. L. Stone, R. M. Happs, I. Kumaniaev, W. P. Mounfield, III, A. E. Harman-Ware, K. M. Devos, T. H. I. V. Pendergast, J. W. Medlin, Y. Román-Leshkov and G. T. Beckham | Design and Validation of a High-Throughput Reductive Catalytic Fractionation Method | JACS Au | 4(6) 2173-2187 |
| 2024 | 10.1016/j.csbj.2024.09.018 | Kelliher, J. M., Y. Xu, M. C. Flynn, M. Babinski, S. Canon, et al. | Standardized and accessible multi-omics bioinformatics workflows through the NMDC EDGE resource | Computational and Structural Biotechnology Journal | 23 3575-3583 |
| 2024 | 10.1039/D4MA00281D | Karoki, P. K., S. Zhang, Y. Pu and A. J. Ragauskas | Lignin-based vitrimers: valorization and utilization of lignin in high-value applications | Materials Advances | 5(18) 7075-7096 |
| 2024 | 10.1002/cssc.202400234 | Karlen, S. D., V. I. Timokhin, C. Sener, J. K. Mobley, T. Runge and J. Ralph | Production of Biomass-Derived p-Hydroxybenzamide: Synthesis of p-Aminophenol and Paracetamol | ChemSusChem | 17(8) e202400234 |
| 2024 | 10.1016/j.plaphy.2024.108612 | Karimzadegan, V., M. Koirala, S. Sobhanverdi, N. Merindol, B. B. Majhi, S.-E. Gélinas, V. I. Timokhin, J. Ralph, M. Dastmalchi and I. Desgagné-Penix | Characterization of cinnamate 4-hydroxylase (CYP73A) and p-coumaroyl 3′-hydroxylase (CYP98A) from Leucojum aestivum, a source of Amaryllidaceae alkaloids | Plant Physiology and Biochemistry | 210 108612 |
| 2024 | 10.1099/ijsem.0.006432 | Kapinusova, G., J. Suman, M. Strejcek, P. Pajer, T. Cajthaml, P. Ulbrich, M. Neumann-Schaal and O. Uhlik | Svornostia abyssi gen. nov., sp. nov. isolated from the world’s deepest silver–uranium mine currently devoted to the extraction of radon-saturated water | International Journal of Systematic and Evolutionary Microbiology | 74(6) |
| 2024 | 10.3389/fpls.2024.1324608 | Kangi, E., E. R. Brzostek, R. J. Bills, S. J. Callister, E. M. Zink, Y.-M. Kim, P. E. Larsen and J. R. Cumming | A multi-omic survey of black cottonwood tissues highlights coordinated transcriptomic and metabolomic mechanisms for plant adaptation to phosphorus deficiency | Frontiers in Plant Science | 15 |
| 2024 | 10.1099/ijsem.0.006386 | Jung, Y.-H., Y. M. Kwon, D. Chung, W.-J. Yu, G. Choi, T. W. Kim and S. S. Bae | Lutimonas zeaxanthinifaciens sp. nov., a zeaxanthin-producing marine bacterium isolated from coastal sediment | International Journal of Systematic and Evolutionary Microbiology | 74(5) |
| 2024 | 10.1099/ijsem.0.006400 | Jung, Y., G. Chhetri, I. Kim, Y. So, S. Park, H. Woo and T. Seo | Lysobacter stagni sp. nov. and Limnohabitans lacus sp. nov., isolated from a pond | International Journal of Systematic and Evolutionary Microbiology | 74(5) |
| 2024 | 10.1029/2023JG007625 | Juice, S. M., J. R. Ridgeway, M. D. Hartman, W. J. Parton, D. M. Berardi, B. N. Sulman, K. E. Allen and E. R. Brzostek | Reparameterizing Litter Decomposition Using a Simplified Monte Carlo Method Improves Litter Decay Simulated by a Microbial Model and Alters Bioenergy Soil Carbon Estimates | Journal of Geophysical Research: Biogeosciences | 129(3) e2023JG007625 |
| 2024 | 10.1186/s44316-024-00009-8 | Josey, D. C., N. S. Yadavalli, J. C. Moore, M. J. Peña, S. Minko and B. R. Urbanowicz | Valorization of hemicellulose waste streams for moisture barrier coatings and hydrophobic films | Biotechnology for Sustainable Materials | 1(1) 9 |
| 2024 | 10.1007/s11783-024-1852-z | Johs, A., S. Qian, L. Coates, B. H. Davison, J. G. Elkins, X. Gu, J. Morrell-Falvey, H. O’Neill, J. M. Warren, E. M. Pierce and K. Herwig | New Opportunities for Neutrons in Environmental and Biological Sciences | Frontiers of Environmental Science & Engineering | 18(7) 92 |
| 2024 | 10.1038/s41589-024-01681-7 | Jo, S., A. El-Demerdash, C. Owen, V. Srivastava, D. Wu, et al. | Unlocking saponin biosynthesis in soapwort | Nature Chemical Biology | |
| 2024 | 10.1016/j.crbiot.2024.100244 | Jiménez, I., G. Roscales, E. Garde, E. Chuina Tomazeli, Y. Honda, A. Lipzen, K. Lail, D. Bauer, K. Barry, I. V. Grigoriev and L. Ramírez | In silico analysis of the expression profile of AA9 Lytic Polysaccharide Monooxygenases (LPMOs) and the CDH Cellobiose Dehydrogenase enzyme in wood-degrader Agaricomycetes. The Pleurotus ostreatus case | Current Research in Biotechnology | 8 100244 |
| 2024 | 10.1111/tpj.16582 | Jiao, Y., D. Nigam, K. Barry, C. Daum, Y. Yoshinaga, et al. | A large sequenced mutant library – valuable reverse genetic resource that covers 98% of sorghum genes | The Plant Journal | 117(5) 1543–1557 |
| 2024 | 10.1186/s40168-024-01836-7 | Jiao, J.-Y., S.-C. Ma, N. Salam, Z. Zhou, Z.-H. Lian, et al. | Cultivation of novel Atribacterota from oil well provides new insight into their diversity, ecology, and evolution in anoxic, carbon-rich environments | Microbiome | 12(1) 123 |
| 2024 | 10.1039/D4GC04270K | Jia, Y., S. Maitra, L. Kudli, J. S. Guest and V. Singh | Economic and environmental sustainability of bio-based HMF production and recovery from lignocellulosic biomass | Green Chemistry | 26(22) 11340-11350 |
| 2024 | 10.1111/gcbb.13148 | Ji, N., D. Liang, A. J. Studer, S. P. Moose and A. D. Kent | Altering plant carbon allocation to stems has distinct effects on rhizosphere soil microbiome assembly, interactions, and potential functions in sorghum | GCB Bioenergy | 16(6) e13148 |
| 2024 | 10.1038/s41597-024-03210-6 | Jensen, R. O., F. Schulz, S. Roux, D. M. Klingeman, W. P. Mitchell, et al. | Phylogenomics and genetic analysis of solvent-producing Clostridium species | Scientific Data | 11(1) 432 |
| 2024 | 10.1021/acssuschemeng.4c04089 | Jang, J. H., J. Callejón Álvarez, Q. S. Neuendorf, Y. Román-Leshkov and G. T. Beckham | Reducing Solvent Consumption in Reductive Catalytic Fractionation through Lignin Oil Recycling | ACS Sustainable Chemistry & Engineering | 12(34) 12919-12926 |
| 2024 | 10.1016/j.fcr.2024.109475 | Jang, C., J. W. Lee, N. Namoi, J. Kim, M.-S. Lee, D. Crozier, W. Yang, W. Rooney and D. K. Lee | Optimizing bioenergy sorghum productivity and nutrient removal in Illinois: Impact of nitrogen fertilization under diverse marginal conditions | Field Crops Research | 315 109475 |
| 2024 | 10.34133/bdr.0029 | Islam, M. T., Y. Liu, M. M. Hassan, P. E. Abraham, J. Merlet, A. Townsend, D. Jacobson, C. R. Buell, G. A. Tuskan and X. Yang | Advances in the Application of Single-Cell Transcriptomics in Plant Systems and Synthetic Biology | BioDesign Research | 6 0029 |
| 2024 | 10.1007/s00284-024-03615-x | Inan Bektas, K., A. Nalcaoglu, H. İ. Guler, S. Canakci and A. O. Belduz | Genome-Based Reclassification of Anoxybacillus geothermalis Filippidou et al. 2016 as a Later Heterotypic Synonym of Anoxybacillus rupiensis Derekova et al. 2007 | Current Microbiology | 81(4) 102 |
| 2024 | 10.1128/mra.00801-24 | Imai, S., B. Allen, L. H. Hochanadel, W. G. Alexander, R. W. Cottingham, C. W. Schadt, D. A. Pelletier and M. Podar | Complete genome sequence of Luteolibacter sp. strain Populi, a member of phylum Verrucomicrobiota isolated from the Populus trichocarpa rhizosphere | Microbiology Resource Announcements | 13(11) e00801-24 |
| 2024 | 10.1111/tpj.16541 | Im, J. H., S. Son, W.-C. Kim, K. Kim, N. Mitsuda, J.-H. Ko and K.-H. Han | Jasmonate activates secondary cell wall biosynthesis through MYC2-MYB46 module | The Plant Journal | 117(4) 1099–114 |
| 2024 | 10.1002/jmv.29489 | Ijeomah, I. M., F. O. C. Temitope, D. C. Lander, A. T. Sheriff, G. E. Uwem, et al. | Classic human astrovirus 4, 8, MLB-3, and likely new genotype 5 sublineage in stool samples of children in Nigeria | Journal of Medical Virology | 96(3) e29489 |
| 2024 | 10.3390/microorganisms12030500 | Hurt, A., J. D. Bibik, N. C. Martinez-Gomez and B. Hamberger | Engineering Terpene Production Pathways in Methylobacterium extorquens AM1 | Microorganisms | 12(3) 500 |
| 2024 | 10.1016/j.cels.2024.05.007 | Hummel, N. F. C., K. Markel, J. Stefani, M. V. Staller and P. M. Shih | Systematic identification of transcriptional activation domains from non-transcription factor proteins in plants and yeast | Cell Systems | 15(7) 662-672.e4 |
| 2024 | 10.1007/s11427-023-2470-5 | Huang, J. and J. D. Keasling | Carbene chemistry for unnatural biosynthesis | Science China Life Sciences | 67(1) 204-207 |
| 2024 | 10.1021/acssynbio.4c00193 | Hu, Z., D. Gu, W. Skyrud, Y. Du, R. Zhai, J. Wang and W. Zhang | Engineered Biosynthesis and Anticancer Studies of Ring-Expanded Antimycin-Type Depsipeptides | ACS Synthetic Biology | 13(5) 1562-1571 |
| 2024 | 10.3390/plants13233444 | Hu, R., J. Zhang, S. Jawdy, A. Sreedasyam, A. Lipzen, et al. | Transcriptomic Analysis of the CAM Species Kalanchoë fedtschenkoi Under Low- and High-Temperature Regimes | Plants | 13(23) 3444 |
| 2024 | 10.1016/j.ymben.2024.02.002 | Hu, M., P. F. Suthers and C. D. Maranas | KETCHUP: Parameterizing of large-scale kinetic models using multiple datasets with different reference states | Metabolic Engineering | 82 123–33 |
| 2024 | 10.1038/s41540-024-00384-y | Hsieh, Y. E., K. Tandon, H. Verbruggen and Z. Nikoloski | Comparative analysis of metabolic models of microbial communities reconstructed from automated tools and consensus approaches | npj Systems Biology and Applications | 10(1) 54 |
| 2024 | 10.1093/ismejo/wrae055 | Howard-Varona, C., M. M. Lindback, J. D. Fudyma, A. Krongauz, N. E. Solonenko, et al. | Environment-specific virocell metabolic reprogramming | The ISME Journal | 18(1) |
| 2024 | 10.1109/MCSE.2024.3402546 | Hofmeyr, S., A. Buluç, R. Riley, R. Egan, O. Selvitopi, L. Oliker, K. Yelick, M. Shakya, B. Youtsey and A. Azad | Exabiome: Advancing Microbial Science through Exascale Computing | Computing in Science & Engineering | 26(2) 45884 |
| 2024 | 10.1128/msystems.00887-23 | Hoang, D. Q., L. R. Wilson, A. J. Scheftgen, G. Suen and C. R. Currie | Disturbance–diversity relationships of microbial communities change based on growth substrate | mSystems | 9(2) e00887-23 |
| 2024 | 10.1128/msystems.00736-24 | Hirose, Y., D. C. Zielinski, S. Poudel, K. Rychel, J. L. Baker, Y. Toya, M. Yamaguchi, A. Heinken, I. Thiele, S. Kawabata, B. O. Palsson and V. Nizet | A genome-scale metabolic model of a globally disseminated hyperinvasive M1 strain of Streptococcus pyogenes | mSystems | 9(9) e00736-24 |
| 2024 | 10.3390/plants13050691 | Hiraoka, Y., S. P. Ferrante, G. A. Wu, C. T. Federici and M. L. Roose | Development and Assessment of SNP Genotyping Arrays for Citrus and Its Close Relatives | Plants | 13(5) 691 |
| 2024 | 10.1007/978-1-0716-3549-0_3 | Heinrichs, M. E., G. J. Piedade, O. Popa, P. Sommers, G. Trubl, J. Weissenbach and J. Rahlff | Breaking the Ice: A Review of Phages in Polar Ecosystems | Bacteriophages: Methods and Protocols | 31–71 |
| 2024 | 10.1038/s41586-024-07231-4 | Healey, A. L., O. Garsmeur, J. T. Lovell, S. Shengquiang, A. Sreedasyam, et al. | The complex polyploid genome architecture of sugarcane | Nature | 628(8009) 804-810 |
| 2024 | 10.1128/msystems.00936-23 | Hartman, W. H., C. P. B. d. Mesquita, S. M. Theroux, C. Morgan-Lang, D. D. Baldocchi and S. G. Tringe | Multiple microbial guilds mediate soil methane cycling along a wetland salinity gradient | mSystems | 9(1) e00936-23 |
| 2024 | 10.1021/jacs.4c00620 | Harrison, W., G. Jiang, Z. Zhang, M. Li, H. Chen and H. Zhao | Photoenzymatic Asymmetric Hydroamination for Chiral Alkyl Amine Synthesis | Journal of the American Chemical Society | 146(15) 10716–22 |
| 2024 | 10.1073/pnas.2315314121 | Harrison, M.-C., E. J. Ubbelohde, A. L. LaBella, D. A. Opulente, J. F. Wolters, X. Zhou, X.-X. Shen, M. Groenewald, C. T. Hittinger and A. Rokas | Machine learning enables identification of an alternative yeast galactose utilization pathway | Proceedings of the National Academy of Sciences | 121(18) e2315314121 |
| 2024 | 10.1016/j.xgen.2024.100586 | Harder, C. B., S. Miyauchi, M. Virágh, A. Kuo, E. Thoen, et al. | Extreme overall mushroom genome expansion in Mycena s.s. irrespective of plant hosts or substrate specializations | Cell Genomics | 4(7) 100586 |
| 2024 | 10.1021/acssuschemeng.3c05770 | Happs, R. M., R. J. Hanes, A. W. Bartling, J. L. Field, A. E. Harman-Ware, et al. | Economic and Sustainability Impacts of Yield and Composition Variation in Bioenergy Crops: Switchgrass (Panicum virgatum L.) | ACS Sustainable Chemistry & Engineering | 12(5) 1897-1910 |
| 2024 | 10.1111/jipb.13717 | Hao, Y., F. Lu, S. W. Pyo, M. H. Kim, J. H. Ko, X. Yan, J. Ralph and Q. Li | PagMYB128 regulates secondary cell wall formation by direct activation of cell wall biosynthetic genes during wood formation in poplar | Journal of Integrative Plant Biology | 66(8) 1658-1674 |
| 2024 | 10.1038/s41579-023-01002-0 | Hammack, A. T. and C. E. Blaby-Haas | Machine learning sheds light on microbial dark proteins | Nature Reviews Microbiology | 22(2) 63 |
| 2024 | 10.1128/spectrum.00169-24 | Haghani, N. B., R. H. Lampe, B. S. Samuel, S. H. Chalasani and M. A. Matty | Identification and characterization of a skin microbiome on Caenorhabditis elegans suggests environmental microbes confer cuticle protection | Microbiology Spectrum | 12(8) e00169-24 |
| 2024 | 10.1186/s13068-024-02500-w | Haddad Momeni, M., A. Zitting, V. Jäämuru, R. Turunen, P. Penttilä, G. W. Buchko, S. Hiltunen, N. Maiorova, A. Koivula, J. Sapkota, K. Marjamaa and E. R. Master | Insights into the action of phylogenetically diverse microbial expansins on the structure of cellulose microfibrils | Biotechnology for Biofuels and Bioproducts | 17(1) 56 |
| 2024 | 10.3389/fcosc.2023.1283225 | Haan, N. L., J. A. Helms and D. A. Landis | Bioenergy cropping systems shape ant community composition and functional roles | Frontiers in Conservation Science | 4 |
| 2024 | 10.1038/s41893-024-01424-5 | Gurgel, A. C., J. E. A. Seabra, S. M. Arantes, M. M. R. Moreira, L. R. Lynd and R. Galindo | Contribution of double-cropped maize ethanol in Brazil to sustainable development | Nature Sustainability | 7(11) 1429-1440 |
| 2024 | 10.1016/j.rhisph.2024.100862 | Guber, A. and A. Kravchenko | 2-D soil zymography: Accounting for the spatial variation of pH | Rhizosphere | 29 100862 |
| 2024 | 10.1038/s41467-024-47486-z | Grosjean, N., E. F. Yee, D. Kumaran, K. Chopra, M. Abernathy, et al. | A hemoprotein with a zinc-mirror heme site ties heme availability to carbon metabolism in cyanobacteria | Nature Communications | 15(1) 3167 |
| 2024 | 10.1111/nph.20326 | Groover, A., N. M. Holbrook, A. Polle, A. Sala, B. Medlyn, et al. | Tree drought physiology: critical research questions and strategies for mitigating climate change effects on forests | New Phytologist | |
| 2024 | 10.1093/plcell/koae003 | Grones, C., T. Eekhout, D. Shi, M. Neumann, L. S. Berg, et al. | Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics | The Plant Cell | 36(4) 812-828 |
| 2024 | 10.1038/s41579-024-01046-w | Greenblum, S. | Microbial adaptability in changing environments | Nature Reviews Microbiology | 22(6) 327 |
| 2024 | 10.1038/s41564-024-01686-x | Graham, E. B., A. P. Camargo, R. Wu, R. Y. Neches, M. Nolan, et al. | A global atlas of soil viruses reveals unexplored biodiversity and potential biogeochemical impacts | Nature Microbiology | 9(7) 1873-1883 |
| 2024 | 10.1128/mra.01133-23 | Grady, K. L. and A. Shade | Bacterial isolate collection from switchgrass rhizosphere | Microbiology Resource Announcements | 13(7) e01133-23 |
| 2024 | 10.1016/j.crbiot.2024.100198 | Gonzalez Ramos, V. M., A. Mueller, M. Peng, M. Pawlowski, A. Lipzen, V. Ng, V. Singan, M. Wang, R. P. de Vries, I. V. Grigoriev, J. E. Kowalczyk and M. R. Mäkelä | Transcriptional response of the white-rot fungus Dichomitus squalens to polysaccharides reveals a co-expression network of plant biomass conversion related genes | Current Research in Biotechnology | 7 100198 |
| 2024 | 10.1007/978-3-031-41648-4_3 | Gonçalves, C., C. T. Hittinger and A. Rokas | Horizontal Gene Transfer in Fungi and Its Ecological Importance | Fungal Associations | 59–81 |
| 2024 | 10.3389/ffunb.2024.1418145 | Gomez-Gutierrrez, S. V., W. R. Sic-Hernandez, S. Haridas, K. LaButti, J. Eichenberger, N. Kaur, A. Lipzen, K. Barry, S. B. Goodwin, M. Gribskov and I. V. Grigoriev | Comparative genomics of the extremophile Cryomyces antarcticus and other psychrophilic Dothideomycetes | Frontiers in Fungal Biology | 5 |
| 2024 | 10.1111/gcbb.70003 | Gomez-Casanovas, N., E. Blanc-Betes, Carl J. Bernacchi, Elizabeth H. Boughton, W. Yang, C. Moore, Taylor L. Pederson, A. Saha and Evan H. DeLucia | Impact of Sugarcane Cultivation on C Cycling in Southeastern United States Following Conversion From Grazed Pastures | GCB Bioenergy | 16(10) e70003 |
| 2024 | 10.1186/s40793-024-00570-9 | Goff, J. L., E. G. Szink, K. L. Durrence, L. M. Lui, T. N. Nielsen, et al. | Genomic and environmental controls on Castellaniella biogeography in an anthropogenically disturbed subsurface | Environmental Microbiome | 19(1) 26 |
| 2024 | 10.1093/ismeco/ycae064 | Goff, J. L., L. M. Lui, T. N. Nielsen, F. L. Poole, H. J. Smith, K. F. Walker, T. C. Hazen, M. W. Fields, A. P. Arkin and M. W. W. Adams | Mixed waste contamination selects for a mobile genetic element population enriched in multiple heavy metal resistance genes | ISME Communications | 4(1) ycae064 |
| 2024 | 10.1128/mra.00532-24 | Goff, J. L., C. Hahn, R. A. Ingrassia, C. Tiyapun, G. G. Waldschmidt, E. R. Smith, M. N. Marini, O. Shevchenko and J. A. Maresca | Genome sequences of four bacterial strains isolated from organofluorine enrichment cultures | Microbiology Resource Announcements | 13(8) e00532-24 |
| 2024 | 10.1016/j.rser.2023.114276 | Geissler, C. H., J. Ryu and C. T. Maravelias | The future of biofuels in the United States transportation sector | Renewable and Sustainable Energy Reviews | 192 114276 |
| 2024 | 10.1038/s41561-023-01354-5 | García-Palacios, P., M. A. Bradford, I. Benavente-Ferraces, M. de Celis, M. Delgado-Baquerizo, et al. | Dominance of particulate organic carbon in top mineral soils in cold regions | Nature Geoscience | 17(2) 145-150 |
| 2024 | 10.1128/mra.01023-23 | Garcia-Fuentes, E. V. and C. A. Lopez | Draft genome sequence of Metabacillus indicus strain EGFCL74 isolated from spontaneously fermented apple cider | Microbiology Resource Announcements | 13(2) e01023-23 |
| 2024 | 10.1111/tpj.16690 | Fu, J., B. McKinley, B. James, W. Chrisler, L. M. Markillie, M. J. Gaffrey, H. D. Mitchell, M. R. Riaz, B. Marcial, G. Orr, K. Swaminathan, J. Mullet and A. Marshall-Colon | Cell-type-specific transcriptomics uncovers spatial regulatory networks in bioenergy sorghum stems | The Plant Journal | 118(5) 1668–88 |
| 2024 | 10.1038/s42003-024-06765-7 | Freyria, N. J., T. C. de Oliveira, M. Chovatia, J. Johnson, A. Kuo, A. Lipzen, K. W. Barry, I. V. Grigoriev and C. Lovejoy | Stress responses in an Arctic microalga (Pelagophyceae) following sudden salinity change revealed by gene expression analysis | Communications Biology | 7(1) 1084 |
| 2024 | 10.1128/mra.00422-24 | Freitas, A. S. d., L. F. G. Zagatto, G. S. Rocha, T. A. Pellegrinetti, L. d. C. M. Alves, V. M. d. Lara, J. A. Mandro, G. L. Martins, A. W. Muniz, R. E. Hanada, L. F. W. Roesch and S. M. Tsai | Bacterial genomes recovered from litter’s metagenomes in Amazonian Dark Earths | Microbiology Resource Announcements | 13(7) e00422-24 |
| 2024 | 10.1038/s41467-023-44431-4 | Freeman, E. C., E. J. S. Emilson, T. Dittmar, L. P. P. Braga, C. E. Emilson, T. Goldhammer, C. Martineau, G. Singer and A. J. Tanentzap | Universal microbial reworking of dissolved organic matter along environmental gradients | Nature Communications | 15(1) 187 |
| 2024 | 10.1186/s40168-024-01888-9 | Fracchia, F., F. Guinet, N. L. Engle, T. J. Tschaplinski, C. Veneault-Fourrey and A. Deveau | Microbial colonisation rewires the composition and content of poplar root exudates, root and shoot metabolomes | Microbiome | 12(1) 173 |
| 2024 | 10.1128/mra.00744-23 | Foreman, C. M., H. J. Smith and M. Dieser | Seven genome sequences of bacterial, environmental isolates from Pony Lake, Antarctica | Microbiology Resource Announcements | 13(1) e00744-23 |
| 2024 | 10.1093/ismejo/wrae126 | Fonseca-García, C., D. Pettinga, A. Wilson, J. R. Elmore, R. McClure, J. Atim, J. Pedraza, R. Hutmacher, H. Turumtay, Y. Tian, A. Eudes, H. V. Scheller, R. G. Egbert and D. Coleman-Derr | Defined synthetic microbial communities colonize and benefit field-grown sorghum | The ISME Journal | 18(1) |
| 2024 | 10.1525/elementa.2023.00135 | Fong, A. A., C. J. M. Hoppe, N. Aberle, C. J. Ashjian, P. Assmy, et al. | Overview of the MOSAiC expedition: Ecosystem | Elementa: Science of the Anthropocene | 12(1) |
| 2024 | 10.1016/j.devcel.2024.11.002 | Feyissa, B. A., E. M. de Becker, C. E. Salesse-Smith, J. Zhang, T. B. Yates, et al. | An orphan gene BOOSTER enhances photosynthetic efficiency and plant productivity | Developmental Cell | |
| 2024 | 10.1016/j.watres.2024.121492 | Ferrinho, S., H. Connaris, N. J. Mouncey and R. J. M. Goss | Compendium of Metabolomic and Genomic Datasets for Cyanobacteria: Mined the Gap | Water Research | 256 121492 |
| 2024 | 10.1093/jxb/erae289 | Ferguson, J. N., P. Schmuker, A. Dmitrieva, T. Quach, T. Zhang, Z. Ge, N. Nersesian, S. J. Sato, T. E. Clemente and A. D. B. Leakey | Reducing stomatal density by expression of a synthetic epidermal patterning factor increases leaf intrinsic water use efficiency and reduces plant water use in a C4 crop | Journal of Experimental Botany | 75(21) 6823-6836 |
| 2024 | 10.1038/s41588-024-01737-3 | Feng, X., J. Zheng, I. Irisarri, H. Yu, B. Zheng, et al. | Genomes of multicellular algal sisters to land plants illuminate signaling network evolution | Nature Genetics | 56(5) 1018-1031 |
| 2024 | 10.1038/s42003-024-05931-1 | Felipe Benites, L., T. G. Stephens, J. Van Etten, T. James, W. C. Christian, K. Barry, I. V. Grigoriev, T. R. McDermott and D. Bhattacharya | Hot springs viruses at Yellowstone National Park have ancient origins and are adapted to thermophilic hosts | Communications Biology | 7(1) 312 |
| 2024 | 10.3390/metabo14020082 | Feitosa-Junior, O. R., A. Lubbe, S. M. Kosina, J. Martins-Junior, D. Barbosa, C. Baccari, P. A. Zaini, B. P. Bowen, T. R. Northen, S. E. Lindow and A. M. da Silva | The Exometabolome of Xylella fastidiosa in Contact with Paraburkholderia phytofirmans Supernatant Reveals Changes in Nicotinamide, Amino Acids, Biotin, and Plant Hormones | Metabolites | 14(2) 82 |
| 2024 | 10.1007/s11104-024-06720-9 | Favela, A., M. O. Bohn and A. D. Kent | Genetic variation in Zea mays influences microbial nitrification and denitrification in conventional agroecosystems | Plant and Soil | |
| 2024 | 10.1021/acs.est.4c01949 | Fan, X., M. Khanna, Y. Lee, J. Kent, R. Shi, J. S. Guest and D. Lee | Spatially Varying Costs of GHG Abatement with Alternative Cellulosic Feedstocks for Sustainable Aviation Fuels | Environmental Science & Technology | 58(26) 11352–62 |
| 2024 | 10.3390/v16081188 | Faleye, T. O. C., P. Skidmore, A. Elyaderani, S. Adhikari, N. Kaiser, A. Smith, A. Yanez, T. Perleberg, E. M. Driver, R. U. Halden, A. Varsani and M. Scotch | Exploring Canine Picornavirus Diversity in the USA Using Wastewater Surveillance: From High-Throughput Genomic Sequencing to Immuno-Informatics and Capsid Structure Modeling | Viruses | 16(8) 1188 |
| 2024 | 10.1128/msystems.01059-23 | Fadum, J. M., M. A. Borton, R. A. Daly, K. C. Wrighton and E. K. Hall | Dominant nitrogen metabolisms of a warm, seasonally anoxic freshwater ecosystem revealed using genome resolved metatranscriptomics | mSystems | 9(2) e01059-23 |
| 2024 | 10.1111/tpj.17026 | Espina, M. J. C., J. T. Lovell, J. Jenkins, S. Shu, A. Sreedasyam, et al. | Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean | The Plant Journal | 120(3) 1221-1235 |
| 2024 | 10.1128/spectrum.03165-23 | Enriquez-Felix, E. E., C. Pérez-Salazar, J. G. Rico-Ruiz, A. C. d. Carvalho, P. Cruz-Morales, J. M. Villalobos-Escobedo and A. Herrera-Estrella | Argonaute and Dicer are essential for communication between Trichoderma atroviride and fungal hosts during mycoparasitism | Microbiology Spectrum | 12(4) e03165-23 |
| 2024 | 10.1007/978-1-0716-3838-5_20 | Eloe-Fadrosh, E. A., C. J. Mungall, M. A. Miller, M. Smith, S. S. Patil, et al. | A Practical Approach to Using the Genomic Standards Consortium MIxS Reporting Standard for Comparative Genomics and Metagenomics | Comparative Genomics: Methods and Protocols | 587-609 |
| 2024 | 10.1128/msystems.00698-23 | Ellenbogen, J. B., M. A. Borton, B. B. McGivern, D. R. Cronin, D. W. Hoyt, et al. | Methylotrophy in the Mire: direct and indirect routes for methane production in thawing permafrost | mSystems | 9(1) e00698-23 |
| 2024 | 10.1128/mra.00350-24 | Elkassas, S. M., M. H. Serres, D. Richardson, T. N. Zhilina and J. A. Huber | Draft genome sequence of Methanocalculus natronophilus sp. strain Z-7105T, an alkaliphilic, methanogenic archaeon isolated from a soda lake | Microbiology Resource Announcements | e00350-24 |
| 2024 | 10.1128/aem.02099-23 | Elbon, C. E., F. J. Stewart and J. B. Glass | Novel Alphaproteobacteria transcribe genes for nitric oxide transformation at high levels in a marine oxygen-deficient zone | Applied and Environmental Microbiology | 90(4) e02099-23 |
| 2024 | 10.1111/nph.20080 | Eichfeld, R., L. K. Mahdi, C. De Quattro, L. Armbruster, A. B. Endeshaw, et al. | Transcriptomics reveal a mechanism of niche defense: two beneficial root endophytes deploy an antimicrobial GH18-CBM5 chitinase to protect their hosts | New Phytologist | 244(3) 980-996 |
| 2024 | 10.1016/j.copbio.2024.103168 | Edwards, R. A., X. Y. Ng, M. R. Tucker and J. C. Mortimer | Plant synthetic biology as a tool to help eliminate hidden hunger | Current Opinion in Biotechnology | 88 103168 |
| 2024 | 10.1128/mbio.00582-24 | Dziuba, M. K., K. M. McIntire, K. Seto, E. S. Davenport, M. A. Rogalski, et al. | Phylogeny, morphology, virulence, ecology, and host range of Ordospora pajunii (Ordosporidae), a microsporidian symbiont of Daphnia spp | mBio | 15(6) e00582-24 |
| 2024 | 10.1111/pbi.14186 | Dwivedi, N., S. Yamamoto, Y. Zhao, G. Hou, F. Bowling, Y. Tobimatsu and C.-J. Liu | Simultaneous suppression of lignin, tricin and wall-bound phenolic biosynthesis via the expression of monolignol 4-O-methyltransferases in rice | Plant Biotechnology Journal | 22(2) 330–46 |
| 2024 | 10.1002/ajb2.16349 | Durant, P. C., A. Bhasin, T. E. Juenger and R. W. Heckman | Genetically correlated leaf tensile and morphological traits are driven by growing season length in a widespread perennial grass | American Journal of Botany | 111(5) e16349 |
| 2024 | 10.1093/ismejo/wrae140 | Dupuis, S., U. F. Lingappa, X. Mayali, E. S. Sindermann, J. L. Chastain, P. K. Weber, R. Stuart and S. S. Merchant | Scarcity of fixed carbon transfer in a model microbial phototroph–heterotroph interaction | The ISME Journal | 18(1) |
| 2024 | 10.1128/spectrum.02536-23 | Dubinkina, V., S. Bhogale, P. H. Hsieh, P. Dibaeinia, A. Nambiar, S. Maslov, Y. Yoshikuni and S. Sinha | A transcriptomic atlas of acute stress response to low pH in multiple Issatchenkia orientalis strains | Microbiology Spectrum | 12(1) e0253623 |
| 2024 | 10.1128/spectrum.02536-23 | Dubinkina, V., S. Bhogale, P.-H. Hsieh, P. Dibaeinia, A. Nambiar, S. Maslov, Y. Yoshikuni and S. Sinha | A transcriptomic atlas of acute stress response to low pH in multiple Issatchenkia orientalis strains | Microbiology Spectrum | 12(1) e02536-23 |
| 2024 | 10.1111/gcbb.13143 | Duan, D. and A. D. Kent | Nitrogen acquisition and retention pathways in sustainable perennial bioenergy grass cropping systems | GCB Bioenergy | 16(6) e13143 |
| 2024 | 10.3389/fbioe.2024.1344260 | Doron, L., D. Raval and C. A. Kerfeld | Towards using bacterial microcompartments as a platform for spatial metabolic engineering in the industrially important and metabolically versatile Zymomonas mobilis | Frontiers in Bioengineering and Biotechnology | 12 |
| 2024 | 10.1073/pnas.2316469121 | Doré, H., A. R. Eisenberg, E. N. Junkins, G. E. Leventhal, A. Ganesh, O. X. Cordero, B. G. Paul, D. L. Valentine, M. A. O’Malley and E. G. Wilbanks | Targeted hypermutation of putative antigen sensors in multicellular bacteria | Proceedings of the National Academy of Sciences | 121(9) e2316469121 |
| 2024 | 10.1007/s11262-024-02050-1 | Doğan, Ö., M. Budak, M. Ş. Salman and E. M. Korkmaz | Comparative genomics of the Neodiprion sertifer nucleopolyhedrovirus from Turkey with the fewest ORFs among baculoviruses | Virus Genes | 60(2) 194–207 |
| 2024 | 10.1146/annurev-arplant-062923-022602 | Dixon, R. A., A. Puente-Urbina, G. T. Beckham and Y. Román-Leshkov | Enabling Lignin Valorization Through Integrated Advances in Plant Biology and Biorefining | Annual Review of Plant Biology | 75(75) 239-263 |
| 2024 | 10.1093/plphys/kiad596 | Dixon, R. A. and A. J. Dickinson | A century of studying plant secondary metabolism—From “what?” to “where, how, and why?” | Plant Physiology | 195(1) 48–66 |
| 2024 | 10.1128/mra.01129-23 | Dieser, M., H. J. Smith and C. M. Foreman | Seven genome sequences of airborne, bacterial isolates from Antarctica | Microbiology Resource Announcements | 13(6) e01129-23 |
| 2024 | 10.1039/D4SE00520A | Deshavath, N. N., W. Woodruff and V. Singh | Sustainable strategies to achieve industrial ethanol titers from different bioenergy feedstocks: scale-up approach for better ethanol yield | Sustainable Energy & Fuels | 8(15) 3386-3398 |
| 2024 | 10.1016/j.biortech.2024.130594 | Deshavath, N. N., W. Woodruff, F. Eller, V. Susanto, C. Yang, C. V. Rao and V. Singh | Scale-up of microbial lipid and bioethanol production from oilcane | Bioresource Technology | 399 130594 |
| 2024 | 10.1128/msystems.00753-24 | Denison, E. R., B. N. Zepernick, R. M. L. McKay and S. W. Wilhelm | Metatranscriptomic analysis reveals dissimilarity in viral community activity between an ice-free and ice-covered winter in Lake Erie | mSystems | 9(7) e00753-24 |
| 2024 | 10.1093/plcell/koad325 | Delmer, D., R. A. Dixon, K. Keegstra and D. Mohnen | The plant cell wall—dynamic, strong, and adaptable—is a natural shapeshifter | The Plant Cell | 36(5) 1257–311 |
| 2024 | 10.1021/acssuschemeng.3c06266 | DeChellis, A., B. Nemmaru, D. Sammond, J. Douglass, N. Patil, O. Reste and S. P. S. Chundawat | Supercharging Carbohydrate Binding Module Alone Enhances Endocellulase Thermostability, Binding, and Activity on Cellulosic Biomass | ACS Sustainable Chemistry & Engineering | 12(9) 3500-3516 |
| 2024 | 10.1007/s12257-024-00009-5 | de Almeida, E. L. M., E. J. Kerkhoven and W. B. da Silveira | Reconstruction of genome-scale metabolic models of non-conventional yeasts: current state, challenges, and perspectives | Biotechnology and Bioprocess Engineering | 29(1) 35–67 |
| 2024 | 10.1128/mbio.00781-24 | Day, L. A., H. K. Carlson, D. R. Fonseca, A. P. Arkin, M. N. Price, A. M. Deutschbauer and K. C. Costa | High-throughput genetics enables identification of nutrient utilization and accessory energy metabolism genes in a model methanogen | mBio | 15(9) e00781-24 |
| 2024 | 10.1073/pnas.2316031121 | David, K. T., M.-C. Harrison, D. A. Opulente, A. L. LaBella, J. F. Wolters, X. Zhou, X.-X. Shen, M. Groenewald, M. Pennell, C. T. Hittinger and A. Rokas | Saccharomycotina yeasts defy long-standing macroecological patterns | Proceedings of the National Academy of Sciences | 121(10) e2316031121 |
| 2024 | 10.1016/j.ese.2024.100438 | Dang, C.-C., Y.-Z. Jin, X. Tan, W.-B. Nie, Y. Lu, B.-F. Liu, D.-F. Xing, N.-Q. Ren and G.-J. Xie | Nitrite-driven anaerobic ethane oxidation | Environmental Science and Ecotechnology | 21 100438 |
| 2024 | 10.1021/acssuschemeng.4c05826 | Dalton, J. C., T. Huntington, V. Pidatala, M. Lei, C. Hill, J. Angeles, D. Putnam, J. Dahlberg, J. Gladden, B. A. Simmons, R. Hutmacher, C. D. Scown and H. V. Scheller | Impact of Drought Stress on Sorghum bicolor Yield, Deconstruction, and Microbial Conversion Determined in a Feedstocks-to-Fuels Pipeline | ACS Sustainable Chemistry & Engineering | 12(42) 15613-15622 |
| 2024 | 10.1016/j.apsoil.2023.105156 | Da Silva, C. G. N., M. S. Vidal, F. d. S. Dourado, E. S. Dias, A. C. Howe and E. d. C. Jesus | Specific primers for the rapid detection and quantitation of Rhizobium elite strains of common beans in the plant and environment | Applied Soil Ecology | 193 105156 |
| 2024 | 10.3389/fbioe.2024.1356551 | Czajka, J. J., Y. Han, J. Kim, S. J. Mondo, B. A. Hofstad, et al. | Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces | Frontiers in Bioengineering and Biotechnology | 12 |
| 2024 | 10.1093/bioinformatics/btae224 | Curry, K. D., F. B. Yu, S. E. Vance, S. Segarra, D. Bhaya, R. Chikhi, E. P. C. Rocha and T. J. Treangen | Reference-free structural variant detection in microbiomes via long-read co-assembly graphs | Bioinformatics | 40(Supplement_1) i58-i67 |
| 2024 | 10.1007/s00203-024-04088-z | Cupples, A. M., H. Dang, K. Foss, A. Bernstein and J.-R. Thelusmond | An investigation of soil and groundwater metagenomes for genes encoding soluble and particulate methane monooxygenase, toluene-4-monoxygenase, propane monooxygenase and phenol hydroxylase | Archives of Microbiology | 206(8) 363 |
| 2024 | 10.1021/acssuschemeng.4c02120 | Cui, Y., E. P. Weeda, S. Omolabake, S. D. Karlen, C. M. Holland and S. S. Stahl | Oxidative Catalytic Fractionation of Lignocellulosic Biomass Using a Co-N-P-C Catalyst and One-Step Isolation of Aromatic Monomers via Centrifugal Partition Chromatography | ACS Sustainable Chemistry & Engineering | 12(26) 9795-9804 |
| 2024 | 10.1371/journal.pone.0309321 | Craig, M. E., A. E. Harman-Ware, K. R. Cope and U. C. Kalluri | Intraspecific variability in plant and soil chemical properties in a common garden plantation of the energy crop Populus | PLOS ONE | 19(10) e0309321 |
| 2024 | 10.3389/fmicb.2024.1355444 | Covington, J. K., N. Torosian, A. M. Cook, M. Palmer, S. G. Bryan, et al. | Biochemical characterization of Fsa16295Glu from “Fervidibacter sacchari,” the first hyperthermophilic GH50 with β-1,3-endoglucanase activity and founding member of the subfamily GH50_3 | Frontiers in Microbiology | 15 |
| 2024 | 10.1099/ijsem.0.006228 | Couceiro, J. F., M. Marques, S. G. Silva, T. Keller-Costa and R. Costa | Aquimarina aquimarini sp. nov. and Aquimarina spinulae sp. nov., novel bacterial species with versatile natural product biosynthesis potential isolated from marine sponges | International Journal of Systematic and Evolutionary Microbiology | 74(1) |
| 2024 | 10.1111/gcbb.13183 | Cortés-Peña, Y. R., W. Woodruff, S. Banerjee, Y. Li, V. Singh, C. V. Rao and J. S. Guest | Integration of plant and microbial oil processing at oilcane biorefineries for more sustainable biofuel production | GCB Bioenergy | 16(11) e13183 |
| 2024 | 10.1099/mgen.0.001206 | Cooper, H. B., B. Vezina, J. Hawkey, V. Passet, S. López-Fernández, J. M. Monk, S. Brisse, K. E. Holt and K. L. Wyres | A validated pangenome-scale metabolic model for the Klebsiella pneumoniae species complex | Microbial Genomics | 10(2) |
| 2024 | 10.1017/qpb.2024.5 | Coomey, J. H., K. J. M. MacKinnon, I. W. McCahill, B. Khahani, P. P. Handakumbura, et al. | Mechanically induced localisation of SECONDARY WALL INTERACTING bZIP is associated with thigmomorphogenic and secondary cell wall gene expression | Quantitative Plant Biology | 5 e5 |
| 2024 | 10.1093/ismeco/ycae079 | Cook, R., A. Telatin, G. Bouras, A. P. Camargo, M. Larralde, R. A. Edwards and E. M. Adriaenssens | Driving through stop signs: predicting stop codon reassignment improves functional annotation of bacteriophages | ISME Communications | 4(1) |
| 2024 | 10.1007/978-1-0716-3854-5_15 | Conway, J. M., P. J. Martinez, E. D. Wilson, N. M. Del Risco and J. L. Dangl | Arabidopsis Root Microbiome Microfluidic (ARMM) Device for Imaging Bacterial Colonization and Morphogenesis of Arabidopsis Roots | Tissue Morphogenesis: Methods and Protocols | 213-228 |
| 2024 | 10.1089/ast.2021.0116 | Colón-Santos, S., A. Vázquez-Salazar, A. Adams, J. A. Campillo-Balderas, R. Hernández-Morales, R. Jácome, I. Muñoz-Velasco, L. E. Rodriguez, M. J. Schaible, G. A. Schaible, N. Szeinbaum, J. L. Thweatt and G. Trubl | Chapter 2: What Is Life? | Astrobiology | 24(S1) S-40–S-56 |
| 2024 | 10.1038/s41467-024-51841-5 | Colman, D. R., L. M. Keller, E. Arteaga-Pozo, E. Andrade-Barahona, B. St. Clair, A. Shoemaker, A. Cox and E. S. Boyd | Covariation of hot spring geochemistry with microbial genomic diversity, function, and evolution | Nature Communications | 15(1) 7506 |
| 2024 | 10.1016/j.ymeth.2024.01.020 | Collier, C. P., D. Bolmatov, J. G. Elkins and J. Katsaras | Nanoscopic lipid domains determined by microscopy and neutron scattering | Methods | 223 127-135 |
| 2024 | 10.1016/j.scitotenv.2024.170290 | Coleine, C., D. Albanese, A. E. Ray, M. Delgado-Baquerizo, J. E. Stajich, T. J. Williams, S. Larsen, S. Tringe, C. Pennacchio, B. C. Ferrari, C. Donati and L. Selbmann | Metagenomics untangles potential adaptations of Antarctic endolithic bacteria at the fringe of habitability | Science of The Total Environment | 917 170290 |
| 2024 | 10.1016/j.orggeochem.2024.104880 | Coffey, N. R., C. Dewey, K. Manning, Y. Corilo, W. Kew, L. Babcock-Adams, A. M. McKenna, R. K. Stuart and R. M. Boiteau | Annotation of DOM metabolomes with an ultrahigh resolution mass spectrometry molecular formula library | Organic Geochemistry | 197 104880 |
| 2024 | 10.1128/msystems.00888-24 | Coclet, C., A. P. Camargo and S. Roux | MVP: a modular viromics pipeline to identify, filter, cluster, annotate, and bin viruses from metagenomes | mSystems | 9(10) e00888-24 |
| 2024 | 10.1128/mra.00127-24 | Clark, M. M. and N. A. Broderick | Whole-genome sequencing of Chromobacterium subtsugae strains exhibiting toxicity to Drosophila melanogaster | Microbiology Resource Announcements | 13(6) e00127-24 |
| 2024 | 10.3389/fgeoc.2024.1410338 | Clance, J. J., J. M. C. Shaffer, M. L. Cable, C. Stenner, G. Williams-Jones, A. Szynkiewicz, M. Paton, K. Graham, O. Vinnes and J. A. Mikucki | Biogeochemistry of the rare sulfidic glaciovolcanic cave system on Mount Meager, British Columbia, Canada | Frontiers in Geochemistry | 2 |
| 2024 | 10.1128/mra.00322-24 | Chuckran, P. F., K. Estera-Molina, M. Huntemann, B. Foster, S. Roux, et al. | Metatranscriptomes of California grassland soil microbial communities in response to rewetting | Microbiology Resource Announcements | 13(6) e00322-24 |
| 2024 | 10.1128/msystems.00717-24 | Chowdhury, N. B., N. Pokorzynski, E. A. Rucks, S. P. Ouellette, R. A. Carabeo and R. Saha | Metabolic model guided CRISPRi identifies a central role for phosphoglycerate mutase in Chlamydia trachomatis persistence | mSystems | 9(7) e00717-24 |
| 2024 | 10.1089/ast.2021.0104 | Chou, L., N. Grefenstette, S. Borges, T. Caro, E. Catalano, C. E. Harman, J. McKaig, C. G. Raj, G. Trubl and A. Young | Chapter 8: Searching for Life Beyond Earth | Astrobiology | 24(S1) S-164–S-185 |
| 2024 | 10.1039/D4GC00765D | Choi, H., M. Alherech, J. H. Jang, S. P. Woodworth, K. J. Ramirez, E. M. Karp and G. T. Beckham | Counter-current chromatography for lignin monomer–monomer and monomer–oligomer separations from reductive catalytic fractionation oil | Green Chemistry | 26(10) 5900-5913 |
| 2024 | 10.1128/msystems.00064-24 | Chodkowski, J. L. and A. Shade | Bioactive exometabolites drive maintenance competition in simple bacterial communities | mSystems | 9(4) e00064-24 |
| 2024 | 10.1111/gcbb.13119 | Chipkar, S., K. Kahmark, S. Bohm, M. Z. Hussain, L. Joshi, et al. | High temperatures and low soil moisture synergistically reduce switchgrass yields from marginal field sites and inhibit fermentation | GCB Bioenergy | 16(2) |
| 2024 | 10.1016/j.mec.2024.e00243 | Chiarelli, D. P., B. D. Sharma, S. Hon, L. W. Bergamo, L. R. Lynd and D. G. Olson | Expression and characterization of monofunctional alcohol dehydrogenase enzymes in Clostridium thermocellum | Metabolic Engineering Communications | 19 e00243 |
| 2024 | 10.1093/ismejo/wrae151 | Chen, M., V. V. Trotter, P. J. Walian, Y. Chen, R. Lopez, et al. | Molecular mechanisms and environmental adaptations of flagellar loss and biofilm growth of Rhodanobacter under environmental stress | The ISME Journal | 18(1) |
| 2024 | 10.3389/fmicb.2024.1401794 | Chen, M., S. M. Acharya, M. O. Yee, K. G. M. Cabugao and R. Chakraborty | Developing stable, simplified, functional consortia from Brachypodium rhizosphere for microbial application in sustainable agriculture | Frontiers in Microbiology | 15 |
| 2024 | 10.1038/s41564-023-01598-2 | Chen, L. and J. F. Banfield | COBRA improves the completeness and contiguity of viral genomes assembled from metagenomes | Nature Microbiology | 9(3) 737-750 |
| 2024 | 10.1016/j.agrformet.2024.110105 | Chen, J., K. T. Paw U, M. North and J. F. Franklin | The contributions of microclimatic information in advancing ecosystem science | Agricultural and Forest Meteorology | 355 110105 |
| 2024 | 10.1016/j.indcrop.2024.118303 | Chen, G. Q., N. Dong, K. Johnson, C. Dong, H. V. Scheller, T. Williams and D. F. Wood | A guayule C-repeat binding factor is highly activated in guayule under freezing temperature and enhances freezing tolerance when expressed in Arabidopsis thaliana | Industrial Crops and Products | 212 118303 |
| 2024 | 10.3389/fviro.2024.1371958 | Charon, J., I. Olendraite, M. Forgia, L. C. Chong, L. S. Hillary, et al. | Consensus statement from the first RdRp Summit: advancing RNA virus discovery at scale across communities | Frontiers in Virology | 4 |
| 2024 | 10.1016/j.biortech.2023.129989 | Chandrasekar, M., J. L. Collins, S. Habibi and R. G. Ong | Microfluidic reactor designed for time-lapsed imaging of pretreatment and enzymatic hydrolysis of lignocellulosic biomass | Bioresource Technology | 393 129989 |
| 2024 | 10.1021/jacs.3c12393 | Champagne, S. E., C.-H. Chiang, P. M. Gemmel, C. L. Brooks, III and A. R. H. Narayan | Biocatalytic Stereoselective Oxidation of 2-Arylindoles | Journal of the American Chemical Society | 146(4) 2728-2735 |
| 2024 | 10.1016/j.tim.2023.08.007 | Chakraborty, S., M. Venkataraman, V. Infante, B. F. Pfleger and J.-M. Ané | Scripting a new dialogue between diazotrophs and crops | Trends in Microbiology | 32(6) 577–89 |
| 2024 | 10.1128/msystems.01190-23 | Chai, Y. N., Y. Qi, E. Goren, D. Chiniquy, A. M. Sheflin, S. G. Tringe, J. E. Prenni, P. Liu and D. P. Schachtman | Root-associated bacterial communities and root metabolite composition are linked to nitrogen use efficiency in sorghum | mSystems | 9(1) e01190-23 |
| 2024 | 10.3390/plants13233364 | Chaffin, T. A., W. Wang, J.-G. Chen and F. Chen | Function and Evolution of the Plant MES Family of Methylesterases | Plants | 13(23) 3364 |
| 2024 | 10.1128/aem.02220-23 | Chadwick, G. L., G. A. Dury and D. D. Nayak | Physiological and transcriptomic response to methyl-coenzyme M reductase limitation in Methanosarcina acetivorans | Applied and Environmental Microbiology | 90(7) e02220-23 |
| 2024 | 10.3389/fsysb.2024.1394084 | Casey, J., B. Bennion, P. D’haeseleer, J. Kimbrel, G. Marschmann and A. Navid | Transporter annotations are holding up progress in metabolic modeling | Frontiers in Systems Biology | 4 |
| 2024 | 10.1128/mra.00188-24 | Casanova, A., D. A. Esquivel-Hernández, D. Reyes-Duarte, S. Hernández and I. Ortíz | Draft genome of Bacillus subtilis sp. strain UAMC isolated from agricultural soil with historical use of pesticides in Argentina | Microbiology Resource Announcements | 13(7) e00188-24 |
| 2024 | 10.7717/peerj.17206 | Carhuaricra-Huaman, D., I. H. L. Gonzalez, P. L. Ramos, A. M. da Silva and J. C. Setubal | Analysis of twelve genomes of the bacterium Kerstersia gyiorum from brown-throated sloths (Bradypus variegatus), the first from a non-human host | PeerJ | 12 e17206 |
| 2024 | 10.1111/mec.17513 | Campos, M., E. Pérez-Collazos, A. Díaz-Pérez, D. López-Alvarez, A. Oumouloud, L. A. J. Mur, J. P. Vogel and P. Catalán | Repeated migration, interbreeding and bottlenecking shaped the phylogeography of the selfing grass Brachypodium stacei | Molecular Ecology | 33(19) e17513 |
| 2024 | 10.1038/s41587-023-01953-y | Camargo, A. P., S. Roux, F. Schulz, M. Babinski, Y. Xu, B. Hu, P. S. G. Chain, S. Nayfach and N. C. Kyrpides | Identification of mobile genetic elements with geNomad | Nature Biotechnology | 42(8) 1303-1312 |
| 2024 | 10.1038/s41579-024-01093-3 | Camargo, A. P. | Unveiling plasmid diversity in nature | Nature Reviews Microbiology | 22(10) 597 |
| 2024 | 10.1111/pbi.14403 | Cai, Y., Y. Liang, H. Shi, J. Cui, S. Prakash, J. Zhang, S. Anaokar, J. Chai, J. Schwender, C. Lu, X.-H. Yu and J. Shanklin | Creating yellow seed Camelina sativa with enhanced oil accumulation by CRISPR-mediated disruption of Transparent Testa 8 | Plant Biotechnology Journal | 22(10) 2773-2784 |
| 2024 | 10.1016/j.envpol.2024.124424 | Cachetas, D., I. Vaz-Moreira, V. Pereira and C. M. Manaia | Towards the definition of an antibiotic resistome signature in wastewater and downstream environments | Environmental Pollution | 357 124424 |
| 2024 | 10.1099/mgen.0.001207 | Bustos-Diaz, E. D., A. Cruz-Perez, D. Garfias-Gallegos, apos, P. M. Agostino, M. M. Gehringer, A. Cibrian-Jaramillo and F. Barona-Gomez | Phylometagenomics of cycad coralloid roots reveals shared symbiotic signals | Microbial Genomics | 10(3) |
| 2024 | 10.1093/ismejo/wrae162 | Buscaglia, M., J. L. Iriarte, F. Schulz and B. Díez | Adaptation strategies of giant viruses to low-temperature marine ecosystems | The ISME Journal | 18(1) |
| 2024 | 10.1016/j.funeco.2024.101383 | Bueno de Mesquita, C. P., L. Vimercati, D. Wu, M. K. Childress, A. Danz, et al. | Fungal diversity and function in metagenomes sequenced from extreme environments | Fungal Ecology | 72 101383 |
| 2024 | 10.1093/ismeco/ycae040 | Bueno de Mesquita, C. P., W. H. Hartman, M. Ardón and S. G. Tringe | Disentangling the effects of sulfate and other seawater ions on microbial communities and greenhouse gas emissions in a coastal forested wetland | ISME Communications | 4(1) |
| 2024 | 10.1029/2024JG008133 | Bueno de Mesquita, C. P., W. H. Hartman, M. Ardón, E. S. Bernhardt, S. C. Neubauer, N. B. Weston and S. G. Tringe | Microbial Ecology and Site Characteristics Underlie Differences in Salinity-Methane Relationships in Coastal Wetlands | Journal of Geophysical Research: Biogeosciences | 129(6) e2024JG008133 |
| 2024 | 10.1128/mra.01205-23 | Brown, K. M., C. S. Ward and G. S. Bullerjahn | Metagenome-assembled genome sequences of two cyanobacterial cultures from Homa Bay County, Kenya | Microbiology Resource Announcements | 13(3) e01205-23 |
| 2024 | 10.3389/fmicb.2024.1388973 | Brooks, C. N. and E. K. Field | Microbial community response to hydrocarbon exposure in iron oxide mats: an environmental study | Frontiers in Microbiology | 15 |
| 2024 | 10.3389/fgeed.2024.1505844 | Brant, E. J., D. May, A. Eid and F. Altpeter | Comparison of genotyping assays for detection of targeted CRISPR/Cas mutagenesis in highly polyploid sugarcane | Frontiers in Genome Editing | 6 |
| 2024 | 10.1111/pbi.14380 | Brant, E. J., A. Eid, B. Kannan, M. C. Baloglu and F. Altpeter | The extent of multiallelic, co-editing of LIGULELESS1 in highly polyploid sugarcane tunes leaf inclination angle and enables selection of the ideotype for biomass yield | Plant Biotechnology Journal | 22(10) 2660-2671 |
| 2024 | 10.1111/pbi.14199 | Brainard, S. H., D. M. Sanders, T. Bruna, S. Shu and J. C. Dawson | The first two chromosome-scale genome assemblies of American hazelnut enable comparative genomic analysis of the genus Corylus | Plant Biotechnology Journal | 22(2) 472-483 |
| 2024 | 10.1089/ast.2021.0119 | Bozdag, G. O., N. Szeinbaum, P. L. Conlin, K. Chen, S. M. Fos, A. Garcia, P. I. Penev, G. A. Schaible and G. Trubl | Chapter 5: Major Biological Innovations in the History of Life on Earth | Astrobiology | 24(S1) S-107–S-123 |
| 2024 | 10.1093/ismeco/ycae085 | Bowers, R. M., V. Gonzalez-Pena, K. Wardhani, D. Goudeau, M. J. Blow, D. Udwary, D. Klein, A. C. Vill, I. L. Brito, T. Woyke, R. R. Malmstrom and C. Gawad | scMicrobe PTA: near complete genomes from single bacterial cells | ISME Communications | 4(1) |
| 2024 | 10.1002/anie.202404442 | Bourmaud, C. L., S. Bertella, A. Bosch Rico, S. D. Karlen, J. Ralph and J. S. Luterbacher | Quantification of Native Lignin Structural Features with Gel-Phase 2D-HSQC0 Reveals Lignin Structural Changes During Extraction | Angewandte Chemie International Edition | 63(31) e202404442 |
| 2024 | 10.1128/msystems.00942-23 | Borchert, A. J., A. C. Bleem, H. G. Lim, K. Rychel, K. D. Dooley, Z. A. Kellermyer, T. L. Hodges, B. O. Palsson and G. T. Beckham | Machine learning analysis of RB-TnSeq fitness data predicts functional gene modules in Pseudomonas putida KT2440 | mSystems | 9(3) e00942-23 |
| 2024 | 10.1093/nar/gkae062 | Boob, A. G., Z. Zhu, P. Intasian, M. Jain, Vassily A. Petrov, S. T. Lane, S.-I. Tan, G. Xun and H. Zhao | CRISPR-COPIES: an in silico platform for discovery of neutral integration sites for CRISPR/Cas-facilitated gene integration | Nucleic Acids Research | 52(6) e30 |
| 2024 | 10.1016/j.ymben.2023.11.006 | Boob, A. G., J. Chen and H. Zhao | Enabling pathway design by multiplex experimentation and machine learning | Metabolic Engineering | 81 70–87 |
| 2024 | 10.1128/mra.00900-23 | Bollmann, A., C. J. Sedlacek, L. Sayavedra-Soto and J. M. Norton | Metagenome-assembled genomes of two nitrifying microorganisms from the freshwater archaeal ammonia-oxidizing enrichment culture BO1 | Microbiology Resource Announcements | 13(2) e00900-23 |
| 2024 | 10.1016/j.tcsw.2024.100121 | Boerjan, W., V. Burlat, D. J. Cosgrove, C. Dunand, P. Dupree, K. T. Haas, G. Ingram, E. Jamet, D. Mohnen, S. Moussu, A. Peaucelle, S. Persson, C. Voiniciuc and H. Höfte | Top five unanswered questions in plant cell surface research | The Cell Surface | 11 100121 |
| 2024 | 10.1038/s41579-024-01019-z | Blow, M. J. | Mapping the microbiome milieu | Nature Reviews Microbiology | 22(4) 190 |
| 2024 | 10.1016/j.ymben.2024.06.009 | Bleem, A. C., E. Kuatsjah, J. Johnsen, E. T. Mohamed, W. G. Alexander, Z. A. Kellermyer, A. L. Carroll, R. Rossi, I. B. Schlander, G. L. Peabody V, A. M. Guss, A. M. Feist and G. T. Beckham | Evolution and engineering of pathways for aromatic O-demethylation in Pseudomonas putida KT2440 | Metabolic Engineering | 84 145-157 |
| 2024 | 10.1002/btpr.3484 | Blair, E. M., J. L. Brown, D. Li, P. A. Holden and M. A. O'Malley | Metagenomics analysis yields assembled genomes from prokaryotic anaerobes with polymer-degrading potential | Biotechnology Progress | 40(6) e3484 |
| 2024 | 10.1038/s44320-024-00068-z | Biggs, B. W., M. N. Price, D. Lai, J. Escobedo, Y. Fortanel, Y. Y. Huang, K. Kim, V. V. Trotter, J. V. Kuehl, L. M. Lui, R. Chakraborty, A. M. Deutschbauer and A. P. Arkin | High-throughput protein characterization by complementation using DNA barcoded fragment libraries | Molecular Systems Biology | 20(11) 1207-1229 |
| 2024 | 10.3390/synbio2010005 | Bielski, R. G. and M. A. Islam | Pangenome-Scale Mathematical Modelling of ANAMMOX Bacteria Metabolism | SynBio | 2(1) 70–84 |
| 2024 | 10.1111/pbi.14345 | Bibik, J. D., A. Sahu, B. Kim, F. Unda, T. B. Andersen, S. D. Mansfield, C. T. Maravelias, T. D. Sharkey and B. R. Hamberger | Engineered poplar for bioproduction of the triterpene squalene | Plant Biotechnology Journal | 22(8) 2301-2311 |
| 2024 | 10.1007/978-1-0716-3658-9_1 | Bibik, J. D. and B. Hamberger | Plant Engineering to Enable Platforms for Sustainable Bioproduction of Terpenoids | Synthetic Biology: Methods and Protocols | 3–20 |
| 2024 | 10.1007/978-1-0716-3658-9_2 | Bibik, J. D., A. E. Bryson and B. Hamberger | Compartmentalized Terpenoid Production in Plants Using Agrobacterium-Mediated Transient Expression | Synthetic Biology: Methods and Protocols | 21–34 |
| 2024 | 10.1186/s12866-024-03391-5 | Bhat, A., R. Sharma, K. Desigan, M. M. Lucas, A. Mishra, R. M. Bowers, T. Woyke, B. Epstein, P. Tiffin, J. J. Pueyo and T. Paape | Horizontal gene transfer of the Mer operon is associated with large effects on the transcriptome and increased tolerance to mercury in nitrogen-fixing bacteria | BMC Microbiology | 24(1) 247 |
| 2024 | 10.1186/s13068-024-02521-5 | Bharadwaj, A., E. K. Holwerda, J. M. Regan, L. R. Lynd and T. L. Richard | Enhancing anaerobic digestion of lignocellulosic biomass by mechanical cotreatment | Biotechnology for Biofuels and Bioproducts | 17(1) 76 |
| 2024 | 10.1083/jcb.202307066 | Bhandari, D. D. and F. Brandizzi | Logistics of defense: The contribution of endomembranes to plant innate immunity | Journal of Cell Biology | 223(6) |
| 2024 | 10.1016/j.ympev.2024.108158 | Bessa, M. H., M. S. Gottschalk and L. J. Robe | Whole genome phylogenomics helps to resolve the phylogenetic position of the Zygothrica genus group (Diptera, Drosophilidae) and the causes of previous incongruences | Molecular Phylogenetics and Evolution | 199 108158 |
| 2024 | 10.1128/mra.00517-24 | Berner, K., M. Zoza-Veloz, M. Nolan, D. Graham, N. Ivanova, R. Seshadri, S. Spring and M. Escobar | Draft genome sequences of Butyrivibrio hungatei DSM 14810 (JK 615T) and Butyrivibrio fibrisolvens DSM 3071 (D1T) | Microbiology Resource Announcements | 13(10) e00517-24 |
| 2024 | 10.1016/j.geoderma.2024.116851 | Berardi, D. M., M. D. Hartman, E. R. Brzostek, C. J. Bernacchi, E. H. DeLucia, A. C. von Haden, I. Kantola, C. E. Moore, W. H. Yang, T. W. Hudiburg and W. J. Parton | Microbial-explicit processes and refined perennial plant traits improve modeled ecosystem carbon dynamics | Geoderma | 443 116851 |
| 2024 | 10.1016/j.ecoenv.2023.115808 | Ben Ayed, A., I. Akrout, K. Staita, Q. Albert, S. Greff, et al. | Genome sequencing of Porostereum spadiceum to study the degradation of levofloxacin | Ecotoxicology and Environmental Safety | 270 115808 |
| 2024 | 10.1007/s42770-024-01263-8 | Belhassan, M., A. Farhat, H. E. Abed, Z. Chaabeen, F. Bouzid, A. Elleuch, I. fendri and B. Khemakhem | Isolation and identification of a new Bacillus glycinifermentans strain from date palm rhizosphere and its effect on barley seeds under heavy metal stress | Brazilian Journal of Microbiology | 55(1) 843–54 |
| 2024 | 10.1094/phyto-02-24-0054-kc | Beattie, G. A., K. L. Bayliss, D. A. Jacobson, R. Broglie, M. Burkett-Cadena, A. Sessitsch, P. Kankanala, J. Stein, K. Eversole and A. Lichens-Park | From Microbes to Microbiomes: Applications for Plant Health and Sustainable Agriculture | Phytopathology | 114(8) 1742-1752 |
| 2024 | 10.1111/tpj.17196 | Baysal, C., A. P. Kausch, J. P. Cody, F. Altpeter and D. F. Voytas | Rapid and efficient in planta genome editing in sorghum using foxtail mosaic virus-mediated sgRNA delivery | The Plant Journal | |
| 2024 | 10.1093/ismejo/wrae172 | Bayer, B., S. Liu, K. Louie, T. R. Northen, M. Wagner, H. Daims, C. A. Carlson and A. E. Santoro | Metabolite release by nitrifiers facilitates metabolic interactions in the ocean | The ISME Journal | 18(1) |
| 2024 | 10.1186/s13068-024-02467-8 | Barros, K. O., M. Mader, D. J. Krause, J. Pangilinan, B. Andreopoulos, A. Lipzen, S. J. Mondo, I. V. Grigoriev, C. A. Rosa, T. K. Sato and C. T. Hittinger | Oxygenation influences xylose fermentation and gene expression in the yeast genera Spathaspora and Scheffersomyces | Biotechnology for Biofuels and Bioproducts | 17(1) 20 |
| 2024 | 10.3389/fcimb.2024.1377077 | Barrett, K. A., F. J. Kassama, W. Surks, A. J. Mulholland, K. D. Moulton and D. H. Dube | Helicobacter pylori glycan biosynthesis modulates host immune cell recognition and response | Frontiers in Cellular and Infection Microbiology | 14 |
| 2024 | 10.1093/gigascience/giae036 | Baroncelli, R., J. F. Cobo-Díaz, T. Benocci, M. Peng, E. Battaglia, et al. | Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi | GigaScience | 13 |
| 2024 | 10.1038/s43016-024-00996-x | Barnum, C. R., B. Paviani, G. Couture, C. Masarweh, Y. Chen, Y.-P. Huang, K. Markel, D. A. Mills, C. B. Lebrilla, D. Barile, M. Yang and P. M. Shih | Engineered plants provide a photosynthetic platform for the production of diverse human milk oligosaccharides | Nature Food | 5(6) 480-490 |
| 2024 | 10.1094/pbiomes-02-24-0012-r | Barnes, E. M., K. Hartman, D. Chiniquy, W. Zhao, P. Liu, C. Creech, D. P. Schachtman and S. G. Tringe | Abiotic Stress Reorganizes Rhizosphere and Endosphere Network Structure of Sorghum bicolor | Phytobiomes Journal | 8(4) 499-511 |
| 2024 | 10.15376/biores.19.3.4056-4086 | Baral, N. R., D. Banerjee, A. Mukhopadhyay, B. A. Simmons, S. W. Singer and C. D. Scown | Integration of genome-scale metabolic model with biorefinery process model reveals market-competitive carbon-negative sustainable aviation fuel utilizing microbial cell mass lipids and biogenic CO2 | BioResources | 19(3) 4056-4086 |
| 2024 | 10.1021/acssuschemeng.3c05541 | Baral, N. R., D. Banerjee, A. Mukhopadhyay, B. A. Simmons, S. W. Singer and C. D. Scown | Economic and Environmental Trade-Offs of Simultaneous Sugar and Lignin Utilization for Biobased Fuels and Chemicals | ACS Sustainable Chemistry & Engineering | 12(7) 2563-2576 |
| 2024 | 10.1111/gcbb.13173 | Banerjee, S. and V. Singh | Economic and environmental bottlenecks in the industrial-scale production of lipid-derived biofuels from oleaginous yeasts: A review of the current trends and future prospects | GCB Bioenergy | 16(7) e13173 |
| 2024 | 10.1002/aocs.12844 | Banerjee, S., K. K. Eilts and V. Singh | Harnessing the potential of oilcane waste mud for recovering biobased waxes | Journal of the American Oil Chemists' Society | 101(12) 1417-1430 |
| 2024 | 10.1186/s13068-024-02561-x | Banerjee, S., B. S. Dien and V. Singh | Hydrothermal conditioning of oleaginous yeast cells to enable recovery of lipids as potential drop-in fuel precursors | Biotechnology for Biofuels and Bioproducts | 17(1) 114 |
| 2024 | 10.1016/j.cej.2024.150117 | Banerjee, S., B. S. Dien, K. K. Eilts, E. J. Sacks and V. Singh | Pilot-scale processing of Miscanthus x giganteus for recovery of anthocyanins integrated with production of microbial lipids and lignin-rich residue | Chemical Engineering Journal | 485 150117 |
| 2024 | 10.1016/j.ymben.2024.02.004 | Banerjee, D., I. S. Yunus, X. Wang, J. Kim, A. Srinivasan, et al. | Genome-scale and pathway engineering for the sustainable aviation fuel precursor isoprenol production in Pseudomonas putida | Metabolic Engineering | 82 157-170 |
| 2024 | 10.1099/ijsem.0.006240 | Baltrus, D. A., M. Carter, M. Clark, C. Smith, J. Spraker, P. Inderbitzin and A. E. Arnold | Luteibacter mycovicinus sp. nov., a yellow-pigmented gammaproteobacterium found as an endohyphal symbiont of endophytic Ascomycota | International Journal of Systematic and Evolutionary Microbiology | 74(5) |
| 2024 | 10.1038/s41467-024-45024-5 | Bálint, B., Z. Merényi, B. Hegedüs, I. V. Grigoriev, Z. Hou, C. Földi and L. G. Nagy | ContScout: sensitive detection and removal of contamination from annotated genomes | Nature Communications | 15(1) 936 |
| 2024 | 10.1093/jimb/kuae022 | Bales, M. K., M. M. Vergara and C. A. Eckert | Application of functional genomics for domestication of novel non-model microbes | Journal of Industrial Microbiology and Biotechnology | 51 |
| 2024 | 10.3390/agriculture14081375 | Baldwin, B. S., A. L. Hale, W. A. Eason and J. I. Morrison | Phenotypic Evaluation of Saccharum spp. Genotypes during the Plant-Cane Crop for Biomass Production in Northcentral Mississippi | Agriculture | 14(8) 1375 |
| 2024 | 10.1073/pnas.2303439121 | Baker, N. R., K. Zhalnina, M. Yuan, D. Herman, J. A. Ceja-Navarro, et al. | Nutrient and moisture limitations reveal keystone metabolites linking rhizosphere metabolomes and microbiomes | Proceedings of the National Academy of Sciences | 121(32) e2303439121 |
| 2024 | 10.1128/mra.00877-23 | Babalola, O. O., A. O. Akanmu and A. S. Ayangbenro | Draft genome sequence of Bacillus velezensis strains AOA1 and AKS2, the potential plant growth-promoting rhizobacteria | Microbiology Resource Announcements | 13(4) e00877-23 |
| 2024 | 10.1021/acssynbio.3c00396 | Babaei, M., P. T. Thomsen, M. C. Pastor, M. K. Jensen and I. Borodina | Coupling High-Throughput and Targeted Screening for Identification of Nonobvious Metabolic Engineering Targets | ACS Synthetic Biology | 13(1) 168-182 |
| 2024 | 10.1016/j.jiac.2024.01.019 | Azuma, S., H. Kawasuji, R. Nakai, H. Yamada, Y. Yoshida, H. Kawahara, M. Suzuki, S. Mori, M. Hirata, K. Sugie, H. Niimi, Y. Morinaga and Y. Yamamoto | The fatal case of ”Pigmentibacter” bacteremia following aspiration pneumonia in elderly patient | Journal of Infection and Chemotherapy | 30(8) 806–11 |
| 2024 | 10.1111/nph.19471 | Auer, L., M. Buée, L. Fauchery, V. Lombard, K. W. Barry, et al. | Metatranscriptomics sheds light on the links between the functional traits of fungal guilds and ecological processes in forest soil ecosystems | New Phytologist | 242(4) 1676-1690 |
| 2024 | 10.1038/s41467-024-47308-2 | Arthofer, P., F. Panhölzl, V. Delafont, A. Hay, S. Reipert, N. Cyran, S. Wienkoop, A. Willemsen, I. Sifaoui, I. Arberas-Jiménez, F. Schulz, J. Lorenzo-Morales and M. Horn | A giant virus infecting the amoeboflagellate Naegleria | Nature Communications | 15(1) 3307 |
| 2024 | 10.1128/mra.00489-24 | Ariano, K., T. Farrington and P. Schweiger | Draft genome sequences of two Gluconobacter strains isolated from spoiled orange juice | Microbiology Resource Announcements | 13(8) e00489-24 |
| 2024 | 10.1128/msystems.00886-23 | Argiroff, W. A., A. A. Carrell, D. M. Klingeman, N. C. Dove, W. Muchero, A. M. Veach, T. Wahl, S. J. Lebreux, A. B. Webb, K. Peyton, C. W. Schadt and M. A. Cregger | Seasonality and longer-term development generate temporal dynamics in the Populus microbiome | mSystems | 9(3) e00886-23 |
| 2024 | 10.1099/ijsem.0.006414 | Arahal, D. R., C. T. Bull, H. Christensen, M. Chuvochina, C. Dunlap, M. del Carmen Montero-Calasanz, C. T. Parker, P. Vandamme, A. Ventosa, S. Ventura, P. Young and M. Göker | Judicial Opinion 130 | International Journal of Systematic and Evolutionary Microbiology | 74(6) |
| 2024 | 10.1099/ijsem.0.006064 | Arahal, D. R., C. T. Bull, H. Christensen, M. Chuvochina, S. N. Dedysh, P.-E. Fournier, K. T. Konstantinidis, C. T. Parker, A. Ventosa, P. Young and M. Göker | Judicial Opinion 129 | International Journal of Systematic and Evolutionary Microbiology | 74(2) |
| 2024 | 10.1094/pbiomes-08-24-0081-r | Appidi, M. R., A. N. Bible, P. E. Abraham, S. S. Jawdy, R. L. Hettich and J. L. Morrell-Falvey | Unraveling bacterial adaptation strategies in the microbiome shaped by the chemical environment of the plant rhizosphere | Phytobiomes Journal | |
| 2024 | 10.1016/j.csbj.2024.04.060 | Aplakidou, E., N. Vergoulidis, M. Chasapi, N. K. Venetsianou, M. Kokoli, E. Panagiotopoulou, I. Iliopoulos, E. Karatzas, E. Pafilis, I. Georgakopoulos-Soares, N. C. Kyrpides, G. A. Pavlopoulos and F. A. Baltoumas | Visualizing metagenomic and metatranscriptomic data: A comprehensive review | Computational and Structural Biotechnology Journal | 23 2011-2033 |
| 2024 | 10.1128/mbio.00323-24 | Aoun, N., S. J. Georgoulis, J. K. Avalos, K. J. Grulla, K. Miqueo, C. Tom and T. M. Lowe-Power | A pangenomic atlas reveals eco-evolutionary dynamics that shape type VI secretion systems in plant-pathogenic Ralstonia | mBio | 15(10) e00323-24 |
| 2024 | 10.1111/nph.19548 | Anaokar, S., Y. Liang, X.-H. Yu, Y. Cai, Y. Cai and J. Shanklin | The expression of genes encoding novel Sesame oleosin variants facilitates enhanced triacylglycerol accumulation in Arabidopsis leaves and seeds | New Phytologist | 243(1) 271–83 |
| 2024 | 10.1093/database/baae093 | Amusat, O. O., H. Hegde, C. J. Mungall, A. Giannakou, N. P. Byers, D. Gunter, K. Fagnan and L. Ramakrishnan | Automated annotation of scientific texts for ML-based keyphrase extraction and validation | Database | 2024 |
| 2024 | 10.1021/acs.jafc.3c05199 | Amos, B. K., V. Pook, E. Prates, J. Stork, M. Shah, D. A. Jacobson and S. DeBolt | Discovery and Characterization of Fluopipamine, a Putative Cellulose Synthase 1 Antagonist within Arabidopsis | Journal of Agricultural and Food Chemistry | 72(6) 3171–79 |
| 2024 | 10.1016/bs.mie.2024.02.001 | Alsup, T. A., M. O. Opoku and J. D. Rudolf | Chapter Fifteen - Characterization of UbiA terpene synthases with a precursor overproduction system in Escherichia coli | Methods in Enzymology | 699 395-417 |
| 2024 | 10.3390/app14156681 | Albdaiwi, R. N., T. Alhindi, H. Khyami-Horani, S. Hasan and H. M. Al-Younes | Isolation, Characterization, and Genome Insight of Pseudomonas jordanii: A Novel Endophyte Enhancing Durum Wheat (Triticum turgidum ssp. durum) Growth under Salinity Stress | Applied Sciences | 14(15) 6681 |
| 2024 | 10.1093/jxb/erae251 | Akyuz Turumtay, E., H. Turumtay, Y. Tian, C.-Y. Lin, Y. N. Chai, et al. | Expression of dehydroshikimate dehydratase in poplar induces transcriptional and metabolic changes in the phenylpropanoid pathway | Journal of Experimental Botany | 75(16) 4960-4977 |
| 2024 | 10.1186/s12866-023-03172-6 | Ahmed, N., M. Azab, S. Enany and A. Hanora | Draft genome sequence of novel Candidatus Ornithobacterium hominis carrying antimicrobial resistance genes in Egypt | BMC Microbiology | 24(1) 47 |
| 2024 | 10.1016/j.biombioe.2024.107276 | Ahmed, M. W., C. A. Esquerre, K. Eilts, D. P. Allen, S. M. McCoy, S. Varela, V. Singh, A. D. B. Leakey and M. Kamruzzaman | Rapid and high-throughput determination of sorghum (Sorghum bicolor) biomass composition using near infrared spectroscopy and chemometrics | Biomass and Bioenergy | 186 107276 |
| 2024 | 10.1186/s13068-023-02452-7 | Ahlawat, Y. K., A. K. Biswal, S. Harun, A. E. Harman-Ware, C. Doeppke, N. Sharma, C. P. Joshi and B. B. Hankoua | Heterologous expression of Arabidopsis laccase2, laccase4 and peroxidase52 driven under developing xylem specific promoter DX15 improves saccharification in populus | Biotechnology for Biofuels and Bioproducts | 17(1) 5 |
| 2024 | 10.1016/j.soilbio.2023.109253 | Ahkami, A. H., O. Qafoku, T. Roose, Q. Mou, Y. Lu, Z. G. Cardon, Y. Wu, C. Chou, J. B. Fisher, T. Varga, P. Handakumbura, J. A. Aufrecht, A. Bhattacharjee and J. J. Moran | Emerging sensing, imaging, and computational technologies to scale nano-to macroscale rhizosphere dynamics – Review and research perspectives | Soil Biology and Biochemistry | 189 109253 |
| 2024 | 10.1128/mra.01201-23 | Adefiranye, O. O., A. A. Adeniji, O. J. Akinjogunla, O. F. Obidi, G. O. Oyetibo, M. O. Ilori and O. O. Babalola | Draft genome sequence of Staphylococcus auricularis PAPLE_T1 isolate of Carica papaya revealing biosynthetic clusters for beneficial metabolites | Microbiology Resource Announcements | 13(4) e01201-23 |
| 2024 | 10.1126/sciadv.adi7965 | Addison, B., L. Bu, V. Bharadwaj, M. F. Crowley, A. E. Harman-Ware, M. F. Crowley, Y. J. Bomble and P. N. Ciesielski | Atomistic, macromolecular model of the Populus secondary cell wall informed by solid-state NMR | Science Advances | 10(1) eadi7965 |
| 2024 | 10.1016/j.cej.2023.147824 | Achinivu, E. C., B. W. Blankenship, N. R. Baral, H. Choudhary, R. Kakumanu, M. Mohan, E. E. K. Baidoo, C. D. Scown, A. George, B. A. Simmons and J. Gladden | Biomass pretreatment with distillable ionic liquids for an effective recycling and recovery approach | Chemical Engineering Journal | 479 147824 |
| 2024 | 10.1038/s41587-023-01982-7 | Fast and accurate identification of plasmids and viruses in sequencing data using geNomad | Nature Biotechnology | 42(8) 1196-1197 | |
| 2025 | 10.1016/j.biortech.2024.131806 | Yook, S., A. Deewan, L. Ziolkowski, S. Lane, P. Tohidifar, M.-H. Cheng, V. Singh, M. J. Stasiewicz, C. V. Rao and Y.-S. Jin | Engineering and evolution of Yarrowia lipolytica for producing lipids from lignocellulosic hydrolysates | Bioresource Technology | 416 131806 |
| 2025 | 10.1002/bit.28877 | Tan, S.-I., I.-S. Ng and H. Zhao | Metabolic Engineering of Nonmodel Yeast Issatchenkia orientalis SD108 for 5-Aminolevulinic Acid Production | Biotechnology and Bioengineering | 122(2) 415-423 |
| 2025 | 10.1039/D4SU00346B | Singh, R., N. Kumar, P. Parameswaran, B. A. Simmons, K. Sale and N. Sun | Volatile fatty acid extraction from fermentation broth using a hydrophobic ionic liquid and in situ enzymatic esterification | RSC Sustainability | |
| 2025 | 10.1111/nph.20298 | Salesse-Smith, C. E., Y. Wang and S. P. Long | Increasing Rubisco as a simple means to enhance photosynthesis and productivity now without lowering nitrogen use efficiency | New Phytologist | 245(3) 951-965 |
| 2025 | 10.1111/gcbb.70018 | Lee, J., P. Villanueva, K. Glanville, A. Vanloocke, W. H. Yang, A. Kent, M. McDaniel, S. J. Hall and A. Howe | Impacts of Legacy and Contemporary Nitrogen Inputs on N2O and CO2 Emissions in Miscanthus and Maize Cultivated Soils | GCB Bioenergy | 17(2) e70018 |
| 2025 | 10.1111/gcbb.70015 | Kumari, A., J. N. Njuguna, X. Zheng, J. Kromdijk, E. J. Sacks and K. Glowacka | Genetic Basis of Non-Photochemical Quenching and Photosystem II Efficiency Responses to Chilling in the Biomass Crop Miscanthus | GCB Bioenergy | 17(1) e70015 |
| 2025 | 10.1016/j.apcatb.2024.124952 | Kiani, D., F. Ibrahim, S. Hayden, I. Hermans and G. T. Beckham | Understanding the origin of negative temperature dependence and activity of N-coordinated cobalt sites during ethylene dimerization | Applied Catalysis B: Environment and Energy | 365 124952 |
| 2025 | 10.1016/j.copbio.2024.103241 | Belaffif, M. B., M. C. Brown, B. Marcial, C. Baysal and K. Swaminathan | New strategies to advance plant transformation | Current Opinion in Biotechnology | 91 103241 |
| 2025 | 10.1111/gcbb.70012 | Aslan-Sungur , G., N. Boersma, C. E. Moore, E. Heaton, C. J. Bernacchi and A. Vanloocke | Advances in Miscanthus × Giganteus Planting Techniques May Increase Carbon Uptake in the Establishment Year | GCB Bioenergy | 17(1) e70012 |