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 |
|---|---|---|---|---|---|
| 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 |
| 2020 | Collaborative, O. C. B. E. | 1.21: BioFuel Project | Lab Manual: Introduction to Biotechnology | ||
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1093/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.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 |
| 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) |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 | 10.1007/978-1-0716-0966-8_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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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) |
| 2015 | 10.1163/9789004283756_021 | Motzki, H. | Abraham, hagar and ishmael at mecca a contribution to the problem of dating Muslim traditions | Islamic History and Civilization | 113 361-384 |
| 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 |
| 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) 966–82 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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) 45302 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1093/bioinformatics/btz592 | Ma, F. and M. Pellegrini | ACTINN: automated identification of cell types in single cell RNA sequencing | Bioinformatics | 36(2) 533–8 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 | 10.1186/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 | 10.1016/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 | 10.3389/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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/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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.3390/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 |
| 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 | 10.1093/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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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 |
| 2018 | 10.1002/9781118968130.ch11 | Deeg, M. | Along the silk road: From Aleppo to Chang'an | A Companion to Religion in Late Antiquity | 233-253 |
| 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 |
| 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 |
| 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 | 10.1007/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1093/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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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) |
| 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 | 10.3390/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.3390/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) |
| 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) |
| 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 |
| 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 |
| 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 | 10.1177/2472630320912692 | 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 |
| 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 |
| 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 |
| 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) 45312 |
| 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 |
| 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 | 10.1128/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) |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 | 10.1186/1471-2164-11-674 | 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1093/femsec/fiaa260 | Abramov, A., T. Vishnivetskaya and E. Rivkina | Are permafrost microorganisms as old as permafrost? | FEMS Microbiology Ecology | 97(2) |
| 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 | 10.1186/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1093/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) |
| 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 |
| 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 |
| 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) |
| 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(45418) 197–213 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | ||
| 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 |
| 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.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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 1–25 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1109/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) | |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 | |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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) 45309 |
| 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 |
| 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) |
| 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) |
| 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 | 10.1038/s41586-020-2468-5 | Yu, H. and J. R. Leadbetter | Bacterial chemolithoautotrophy via manganese oxidation | Nature | 583(7816) 453–8 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | e00422-24 |
| 2013 | 10.4155/bfs.13.44 | Brumm, P. J. | Bacterial genomes: What they teach us about cellulose degradation | Biofuels | 4(6) 669-681 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1007/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2016 | 10.1209/0295-5075/116/18007 | Trizac, E. and T. Shen | Bending stiff charged polymers: The electrostatic persistence length | Europhysics Letters | 116(1) |
| 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 |
| 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 |
| 2017 | 10.1002/wsbm.1391 | Voit, E. O. | The best models of metabolism | Wiley Interdisciplinary Reviews-Systems Biology and Medicine | 9(6) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 | 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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) 476–92 |
| 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) 132–56 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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 |
| 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 |
| 2019 | 10.1021/acs.chemrev.8b00439 | Cheng, X. and J. C. Smith | Biological Membrane Organization and Cellular Signaling | Chemical Reviews | 119(9) 5849–80 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.2134/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.1002/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(45513) 1264–73 |
| 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 | 10.1016/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 | 10.3868/11-00559-001 | Chen, J. | Biophysical Models and Applications in Ecosystem Analysis | Michigan State University Press | |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 45299 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2019 | 10.1002/aic.16716 | Wang, Y., X. Yu and H. Zhao | Biosystems design by directed evolution | AIChE Journal | 66(3) |
| 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 | 10.34133/2020/3686791 | 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 |
| 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 |
| 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 |
| 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 | 10.1128/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) |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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 |
| 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) 45308 |
| 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 |
| 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 |
| 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 |
| 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) 45303 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1155/2018/4961726 | 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 |
| 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 |
| 2017 | 10.1016/B978-0-323-35824-8.04001-9 | Gilbert, M. E. | Brydson's Plastics Materials (Eighth Edition) | Elsevier Science | |
| 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 |
| 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 |
| 2022 | Schroeder, W., D. Olson and C. D. Maranas | Building Bottom-up Kinetic Models for Optimizing Cell-Free Lignocellulose Degradation Systems | AIChE Annual Meeting | ||
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | 10.1111/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 | 10.1111/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) 45309 |
| 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) |
| 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 | 10.1007/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 |
| 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 |
| 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 |
| 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 | 10.1088/1748-9326/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 12085–94 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1039/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | ||
| 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 |
| 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 | 10.3791/59495 | 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 |
| 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 |
| 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 | 10.1038/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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 45299 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1039/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 |
| 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 |
| 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 | 10.1039/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1111/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 | 10.1016/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 |
| 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) 1453–8 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3390/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 |
| 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 |
| 2021 | Kim, K. | Change of Soil Micro-Environments During Plant Decomposition and Its Effect on Carbon and Nitrogen Dynamics | Dissertation | (28866173) 164 | |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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™ | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 | 10.1021/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1063/1.5004141 | 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 | 10.1002/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 | 10.1093/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.1126/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 2013 | 10.4324/9780203066317 | Ackerman, F. and E. A. Stanton | Climate economics: The state of the art | ||
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 3801–9 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2019 | 10.1007/978-1-4939-8757-3_16 | Heinemann, J. | Cluster Analysis of Untargeted Metabolomic Experiments | Microbial Metabolomics: Methods and Protocols | 275–85 |
| 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 |
| 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 |
| 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/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 | 10.1007/978-3-319-44535-9_5-1 | Hazen, T. C. | Cometabolic Bioremediation | Consequences of Microbial Interactions with Hydrocarbons, Oils, and Lipids: Biodegradation and Bioremediation | 1–15 |
| 2018 | 10.1104/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1091/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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 | |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 1393–408 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | |
| 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 | 10.1186/1754-6834-7-71 | 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | e00234-24 |
| 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 | 10.1128/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) |
| 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 |
| 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 |
| 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.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 | 10.1128/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) |
| 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) |
| 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) |
| 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 |
| 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) |
| 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) |
| 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) |
| 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) |
| 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 |
| 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 |
| 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 | 10.1128/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 |
| 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 |
| 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 | 10.1128/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 |
| 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 |
| 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 | 10.1128/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 |
| 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) |
| 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/s40793-015-0031-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) |
| 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 | 10.1128/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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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) |
| 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) |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 | 10.1073/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/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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3390/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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1074/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 45299 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 69 262–74 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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) |
| 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 |
| 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) 45590 |
| 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/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 | 10.1002/9783527814794.ch13 | Harman-Ware, A. E. | Conversion of Terpenes to Chemicals and Related Products | Chemical Catalysts for Biomass Upgrading | 529–68 |
| 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 | 10.1007/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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/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 | 10.1093/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 |
| 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/s41467-023-37164-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 |
| 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 | 10.1002/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 |
| 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 |
| 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 | 10.1128/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) |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1002/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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 2018 | Cates, A. M. | Cover Crop Effects on the Carbon Cycle | Journal | 137 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 2021 | 10.1089/crispr.2021.29126.rba | Barrangou, R. | The CRISPR Chronicles and the Power of Storytelling | The CRISPR Journal | 4(2) 158–9 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1007/978-1-0716-1657-4_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 | 10.1111/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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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 |
| 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 |
| 2015 | 10.1080/21645698.2015.1091553 | Tsai, C. J. and L. J. Xue | CRISPRing into the woods | GM Crops & Food | 6(4) 206–15 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1039/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.7554/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 | 10.1038/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 |
| 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 | 10.1038/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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2019 | 10.1128/mSystems.00072-19 | Price, M. N. and A. P. Arkin | Curated BLAST for Genomes | mSystems | 4(2) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 45303 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 | 10.1074/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 |
| 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 |
| 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 | 10.1007/s00299-023-03062-1 | Hooghvorst, I. and F. Altpeter | dCas9-3xSRDX-mediated transcriptional repression in sugarcane | Plant Cell Reports | 42(11) 1837–40 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.1007/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1515/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 |
| 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 |
| 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 |
| 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 |
| 2023 | 10.1002/mlf2.12080 | Robertson, G. P. | Denitrification and the challenge of scaling microsite knowledge to the globe | mLife | 2(3) 229–38 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1039/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 | 10.1021/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) 2917–32 |
| 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/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1038/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) |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 | 10.1111/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 |
| 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 |
| 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(45387) 745–57 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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/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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 645–61 |
| 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 | 10.1038/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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 | 10.3389/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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | ||
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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) 45304 |
| 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 | 10.1101/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 | 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 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 111–7 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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 |
| 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) 1269–79 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 2017 | 10.1038/ismej.2016.118 | Shade, A. | Diversity is the question, not the answer | ISME Journal | 11(1) 45297 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) 2561–77 |
| 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 | 10.1128/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 | 10.1038/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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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 |
| 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) |
| 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) |
| 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 | e00188-24 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1128/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) |
| 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) |
| 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) |
| 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) |
| 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 | 10.1128/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) |
| 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) |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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 |
| 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 |
| 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 |
| 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 | 10.1128/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 |
| 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 |
| 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 |
| 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 | 10.1128/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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 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.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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 | 10.1128/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) |
| 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) |
| 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 | 10.1128/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 |
| 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) |
| 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.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) |
| 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/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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) |
| 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) |
| 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) |
| 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) |
| 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 |
| 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 | 10.1128/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 2021 | 10.1002/ecs2.3562 | Wang, B. and S. D. Allison | Drought legacies mediated by trait trade-offs in soil microbiomes | Ecosphere | 12(6) |
| 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 |
| 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 | 10.1101/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 | 10.1111/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 |
| 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 |
| 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 |
| 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 | 10.1016/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 | 10.1146/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 |
| 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 |
| 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) 470–80 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2013 | 10.1063/1.4793573 | Reznik, E., T. J. Kaper and D. Segrè | The dynamics of hybrid metabolic-genetic oscillators | Chaos | 23(1) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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 |
| 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 |
| 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) |
| 2019 | 10.1128/mbio.01262-19 | Shih, P. M. | Early Cyanobacteria and the Innovation of Microbial Sunscreens | mBio | 10(3) |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 1853–63 |
| 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 |
| 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(45355) 419-429 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1029/2019WR026058 | 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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(45293) 445–58 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2022 | 10.1016/j.mib.2022.102144 | Donohue, T. J. | Editorial overview: Microbial activities powering society | Current Opinion in Microbiology | 67 102144 |
| 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 |
| 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 |
| 2020 | 10.3389/fpls.2020.621380 | Zhang, J., J. Barros-Rios and M. Lu | Editorial: Biofuels and Bioenergy | Frontiers in Plant Science | 11 |
| 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 |
| 2022 | 10.3389/ffunb.2022.1063609 | Gabaldón, T. and C. T. Hittinger | Editorial: Genomic insights on fungal hybrids | Frontiers in Fungal Biology | 3 |
| 2022 | 10.3389/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 | 10.3389/fpls.2022.866164 | Cesarino, I., A. Eudes, B. Urbanowicz and M. Xie | Editorial: Phenylpropanoid Systems Biology and Biotechnology | Frontiers in Plant Science | 13 866164 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | ||
| 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 |
| 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 |
| 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 |
| 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 | 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 | 10.3389/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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.7717/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 |
| 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) |
| 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 |
| 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 | 10.1080/09670262.2020.1817569 | 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1093/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 45582 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3389/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 | 10.1128/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 | 10.1099/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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/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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) 475–85 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.3390/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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1128/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) |
| 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 |
| 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) |
| 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) |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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.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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1111/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2011 | 10.3390/info2010017 | Lee, C. | Empirical information metrics for prediction power and experiment planning | Information (Switzerland) | 2(1) 17-40 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 66 229–38 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 | |||
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1186/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 |
| 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 |
| 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 |
| 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 | 10.3389/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 |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 | 10.1016/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 |
| 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 | 66 179–90 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1021/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 |
| 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 |
| 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 | 10.1038/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 | 10.1186/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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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) |
| 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 |
| 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 |
| 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 |
| 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) |
| 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) 45306 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 | 10.1016/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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) |
| 2023 | 10.1038/s41559-022-01936-3 | Price, M. | Erroneous predictions of auxotrophies by CarveMe | Nature Ecology & Evolution | 7(2) 194–95 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 | 10.5194/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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | ||
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 2023 | 10.1002/yea.3890 | Krause, D. J. | The evolution of anaerobic growth in Saccharomycotina yeasts | Yeast | 40(9) 395–400 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1073/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 |
| 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 |
| 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 | 10.1002/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 | 10.1111/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 |
| 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 | 10.1111/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 |
| 2021 | 10.1128/mSystems.00774-21 | Rodríguez-Verdugo, A. | Evolving interactions and emergent functions in microbial consortia | mSystems | 6(4) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 2017 | 10.3390/metabo7040050 | Lubbe, A., B. P. Bowen and T. Northen | Exometabolomic Analysis of Cross-Feeding Metabolites | Metabolites | 7(4) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | |
| 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 |
| 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 |
| 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 |
| 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 | 10.1038/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) 377–96 |
| 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 |
| 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(45355) 696-709 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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) |
| 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 |
| 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 |
| 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 |
| 2021 | 10.3389/fmicb.2021.655987 | Alster, C. J., S. D. Allison, S. I. Glassman, A. C. Martin |