Combining multiple functional annotation tools increases coverage of metabolic annotation
Griesemer, Marc, Kimbrel, Jeffrey A, Zhou, Carol E, Navid, Ali, D'haeseleer, Patrik
Published in BMC genomics (19.12.2018)
Published in BMC genomics (19.12.2018)
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Journal Article
Active virus-host interactions at sub-freezing temperatures in Arctic peat soil
Trubl, Gareth, Kimbrel, Jeffrey A, Liquet-Gonzalez, Jose, Nuccio, Erin E, Weber, Peter K, Pett-Ridge, Jennifer, Jansson, Janet K, Waldrop, Mark P, Blazewicz, Steven J
Published in Microbiome (18.10.2021)
Published in Microbiome (18.10.2021)
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Journal Article
Differential laboratory passaging of SARS-CoV-2 viral stocks impacts the in vitro assessment of neutralizing antibodies
Avila-Herrera, Aram, Kimbrel, Jeffrey A, Manuel Martí, Jose, Thissen, James, Saada, Edwin A, Weisenberger, Tracy, Arrildt, Kathryn T, Segelke, Brent W, Allen, Jonathan E, Zemla, Adam, Borucki, Monica K
Published in PloS one (25.01.2024)
Published in PloS one (25.01.2024)
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Journal Article
HT-SIP: a semi-automated stable isotope probing pipeline identifies cross-kingdom interactions in the hyphosphere of arbuscular mycorrhizal fungi
Nuccio, Erin E, Blazewicz, Steven J, Lafler, Marissa, Campbell, Ashley N, Kakouridis, Anne, Kimbrel, Jeffrey A, Wollard, Jessica, Vyshenska, Dariia, Riley, Robert, Tomatsu, Andy, Hestrin, Rachel, Malmstrom, Rex R, Firestone, Mary, Pett-Ridge, Jennifer
Published in Microbiome (25.11.2022)
Published in Microbiome (25.11.2022)
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Journal Article
Microbial Community Structure and Functional Potential Along a Hypersaline Gradient
Kimbrel, Jeffrey A, Ballor, Nicholas, Wu, Yu-Wei, David, Maude M, Hazen, Terry C, Simmons, Blake A, Singer, Steven W, Jansson, Janet K
Published in Frontiers in microbiology (10.07.2018)
Published in Frontiers in microbiology (10.07.2018)
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Journal Article
Melanization slows the rapid movement of fungal necromass carbon and nitrogen into both bacterial and fungal decomposer communities and soils
Maillard, François, Michaud, Talia J, See, Craig R, DeLancey, Lang C, Blazewicz, Steven J, Kimbrel, Jeffrey A, Pett-Ridge, Jennifer, Kennedy, Peter G
Published in mSystems (20.06.2023)
Published in mSystems (20.06.2023)
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Journal Article
Quantitative Stable-Isotope Probing (qSIP) with Metagenomics Links Microbial Physiology and Activity to Soil Moisture in Mediterranean-Climate Grassland Ecosystems
Greenlon, Alex, Sieradzki, Ella, Zablocki, Olivier, Koch, Benjamin J, Foley, Megan M, Kimbrel, Jeffrey A, Hungate, Bruce A, Blazewicz, Steven J, Nuccio, Erin E, Sun, Christine L, Chew, Aaron, Mancilla, Cynthia-Jeanette, Sullivan, Matthew B, Firestone, Mary, Pett-Ridge, Jennifer, Banfield, Jillian F
Published in mSystems (20.12.2022)
Published in mSystems (20.12.2022)
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Journal Article
Bacterial Community Assembly, Succession, and Metabolic Function during Outdoor Cultivation of Microchloropsis salina
Morris, Megan M., Kimbrel, Jeffrey A., Geng, Haifeng, Tran-Gyamfi, Mary Bao, Yu, Eizadora T., Sale, Kenneth L., Lane, Todd W., Mayali, Xavier
Published in mSphere (31.08.2022)
Published in mSphere (31.08.2022)
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Journal Article
Terabase-Scale Coassembly of a Tropical Soil Microbiome
Riley, Robert, Bowers, Robert M, Camargo, Antonio Pedro, Campbell, Ashley, Egan, Rob, Eloe-Fadrosh, Emiley A, Foster, Brian, Hofmeyr, Steven, Huntemann, Marcel, Kellom, Matthew, Kimbrel, Jeffrey A, Oliker, Leonid, Yelick, Katherine, Pett-Ridge, Jennifer, Salamov, Asaf, Varghese, Neha J, Clum, Alicia
Published in Microbiology spectrum (17.08.2023)
Published in Microbiology spectrum (17.08.2023)
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Journal Article
An improved, high-quality draft genome sequence of the Germination-Arrest Factor-producing Pseudomonas fluorescens WH6
Kimbrel, Jeffrey A, Givan, Scott A, Halgren, Anne B, Creason, Allison L, Mills, Dallice I, Banowetz, Gary M, Armstrong, Donald J, Chang, Jeff H
Published in BMC genomics (28.09.2010)
Published in BMC genomics (28.09.2010)
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Journal Article
GENE-counter: a computational pipeline for the analysis of RNA-Seq data for gene expression differences
Cumbie, Jason S, Kimbrel, Jeffrey A, Di, Yanming, Schafer, Daniel W, Wilhelm, Larry J, Fox, Samuel E, Sullivan, Christopher M, Curzon, Aron D, Carrington, James C, Mockler, Todd C, Chang, Jeff H
Published in PloS one (06.10.2011)
Published in PloS one (06.10.2011)
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Journal Article
Copper Delivery by the Copper Chaperone for Chloroplast and Cytosolic Copper/Zinc- Superoxide Dismutases: Regulation and Unexpected Phenotypes in an Arabidopsis Mutant
Cohu, Christopher M., Abdel-Ghany, Salah E., Gogolin Reynolds, Kathryn A., Onofrio, Alexander M., Bodecker, Jared R., Kimbrel, Jeffrey A., Niyogi, Krishna K., Pilon, Marinus
Published in Molecular plant (01.11.2009)
Published in Molecular plant (01.11.2009)
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Journal Article
The ModelSEED Biochemistry Database for the integration of metabolic annotations and the reconstruction, comparison and analysis of metabolic models for plants, fungi and microbes
Seaver, Samuel M D, Liu, Filipe, Zhang, Qizhi, Jeffryes, James, Faria, José P, Edirisinghe, Janaka N, Mundy, Michael, Chia, Nicholas, Noor, Elad, Beber, Moritz E, Best, Aaron A, DeJongh, Matthew, Kimbrel, Jeffrey A, D’haeseleer, Patrik, McCorkle, Sean R, Bolton, Jay R, Pearson, Erik, Canon, Shane, Wood-Charlson, Elisha M, Cottingham, Robert W, Arkin, Adam P, Henry, Christopher S
Published in Nucleic acids research (08.01.2021)
Published in Nucleic acids research (08.01.2021)
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Journal Article
Plant-associated fungi support bacterial resilience following water limitation
Hestrin, Rachel, Kan, Megan, Lafler, Marissa, Wollard, Jessica, Kimbrel, Jeffrey A., Ray, Prasun, Blazewicz, Steven J., Stuart, Rhona, Craven, Kelly, Firestone, Mary, Nuccio, Erin E., Pett-Ridge, Jennifer
Published in The ISME Journal (01.12.2022)
Published in The ISME Journal (01.12.2022)
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Journal Article
Sequencing and De Novo Transcriptome Assembly of Brachypodium sylvaticum (Poaceae)
Fox, Samuel E, Preece, Justin, Kimbrel, Jeffrey A, Marchini, Gina L, Sage, Abigail, Youens-Clark, Ken, Cruzan, Mitchell B, Jaiswal, Pankaj
Published in Applications in plant sciences (01.03.2013)
Published in Applications in plant sciences (01.03.2013)
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Journal Article
Prokaryotic Genome Annotation
Kimbrel, Jeffrey A, Jeffrey, Brendan M, Ward, Christopher S
Published in Methods in molecular biology (Clifton, N.J.) (2022)
Published in Methods in molecular biology (Clifton, N.J.) (2022)
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Journal Article
Microbiome processing of organic nitrogen input supports growth and cyanotoxin production of Microcystis aeruginosa cultures
Li, Wei, Baliu-Rodriguez, David, Premathilaka, Sanduni H, Thenuwara, Sharmila I, Kimbrel, Jeffrey A, Samo, Ty J, Ramon, Christina, Kiledal, Erik Anders, Rivera, Sara R, Kharbush, Jenan, Isailovic, Dragan, Weber, Peter K, Dick, Gregory J, Mayali, Xavier
Published in The ISME Journal (08.01.2024)
Published in The ISME Journal (08.01.2024)
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Journal Article