Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity
Tian, Renmao, Ning, Daliang, He, Zhili, Zhang, Ping, Spencer, Sarah J, Gao, Shuhong, Shi, Weiling, Wu, Linwei, Zhang, Ya, Yang, Yunfeng, Adams, Benjamin G, Rocha, Andrea M, Detienne, Brittny L, Lowe, Kenneth A, Joyner, Dominique C, Klingeman, Dawn M, Arkin, Adam P, Fields, Matthew W, Hazen, Terry C, Stahl, David A, Alm, Eric J, Zhou, Jizhong
Published in Microbiome (06.04.2020)
Published in Microbiome (06.04.2020)
Get full text
Journal Article
Microbial Functional Gene Diversity Predicts Groundwater Contamination and Ecosystem Functioning
He, Zhili, Zhang, Ping, Wu, Linwei, Rocha, Andrea M, Tu, Qichao, Shi, Zhou, Wu, Bo, Qin, Yujia, Wang, Jianjun, Yan, Qingyun, Curtis, Daniel, Ning, Daliang, Van Nostrand, Joy D, Wu, Liyou, Yang, Yunfeng, Elias, Dwayne A, Watson, David B, Adams, Michael W W, Fields, Matthew W, Alm, Eric J, Hazen, Terry C, Adams, Paul D, Arkin, Adam P, Zhou, Jizhong
Published in mBio (20.02.2018)
Published in mBio (20.02.2018)
Get full text
Journal Article
Large Circular Plasmids from Groundwater Plasmidomes Span Multiple Incompatibility Groups and Are Enriched in Multimetal Resistance Genes
Kothari, Ankita, Wu, Yu-Wei, Chandonia, John-Marc, Charrier, Marimikel, Rajeev, Lara, Rocha, Andrea M, Joyner, Dominique C, Hazen, Terry C, Singer, Steven W, Mukhopadhyay, Aindrila
Published in mBio (26.02.2019)
Published in mBio (26.02.2019)
Get full text
Journal Article
Construction of Viable Soil Defined Media Using Quantitative Metabolomics Analysis of Soil Metabolites
Jenkins, Stefan, Swenson, Tami L, Lau, Rebecca, Rocha, Andrea M, Aaring, Alex, Hazen, Terry C, Chakraborty, Romy, Northen, Trent R
Published in Frontiers in microbiology (22.12.2017)
Published in Frontiers in microbiology (22.12.2017)
Get full text
Journal Article
NIBBS-search for fast and accurate prediction of phenotype-biased metabolic systems
Schmidt, Matthew C, Rocha, Andrea M, Padmanabhan, Kanchana, Shpanskaya, Yekaterina, Banfield, Jill, Scott, Kathleen, Mihelcic, James R, Samatova, Nagiza F
Published in PLoS computational biology (01.05.2012)
Published in PLoS computational biology (01.05.2012)
Get full text
Journal Article
Advances in monitoring environmental microbes
Hazen, Terry C, Rocha, Andrea M, Techtmann, Stephen M
Published in Current opinion in biotechnology (01.06.2013)
Published in Current opinion in biotechnology (01.06.2013)
Get full text
Journal Article
Natural bacterial communities serve as quantitative geochemical biosensors
Smith, Mark B, Rocha, Andrea M, Smillie, Chris S, Olesen, Scott W, Paradis, Charles, Wu, Liyou, Campbell, James H, Fortney, Julian L, Mehlhorn, Tonia L, Lowe, Kenneth A, Earles, Jennifer E, Phillips, Jana, Techtmann, Steve M, Joyner, Dominique C, Elias, Dwayne A, Bailey, Kathryn L, Hurt, Jr, Richard A, Preheim, Sarah P, Sanders, Matthew C, Yang, Joy, Mueller, Marcella A, Brooks, Scott, Watson, David B, Zhang, Ping, He, Zhili, Dubinsky, Eric A, Adams, Paul D, Arkin, Adam P, Fields, Matthew W, Zhou, Jizhong, Alm, Eric J, Hazen, Terry C
Published in mBio (12.05.2015)
Published in mBio (12.05.2015)
Get full text
Journal Article
In-silico identification of phenotype-biased functional modules
Padmanabhan, Kanchana, Wilson, Kevin, Rocha, Andrea M, Wang, Kuangyu, Mihelcic, James R, Samatova, Nagiza F
Published in Proteome science (21.06.2012)
Published in Proteome science (21.06.2012)
Get full text
Journal Article
Rapid detection of microbial cell abundance in aquatic systems
Rocha, Andrea M., Yuan, Quan, Close, Dan M., O’Dell, Kaela B., Fortney, Julian L., Wu, Jayne, Hazen, Terry C.
Published in Biosensors & bioelectronics (15.11.2016)
Published in Biosensors & bioelectronics (15.11.2016)
Get full text
Journal Article
Molybdenum Availability Is Key to Nitrate Removal in Contaminated Groundwater Environments
Thorgersen, Michael P, Lancaster, W Andrew, Vaccaro, Brian J, Poole, Farris L, Rocha, Andrea M, Mehlhorn, Tonia, Pettenato, Angelica, Ray, Jayashree, Waters, R Jordan, Melnyk, Ryan A, Chakraborty, Romy, Hazen, Terry C, Deutschbauer, Adam M, Arkin, Adam P, Adams, Michael W W
Published in Applied and Environmental Microbiology (01.08.2015)
Published in Applied and Environmental Microbiology (01.08.2015)
Get full text
Journal Article
SPICE: discovery of phenotype-determining component interplays
Chen, Zhengzhang, Padmanabhan, Kanchana, Rocha, Andrea M, Shpanskaya, Yekaterina, Mihelcic, James R, Scott, Kathleen, Samatova, Nagiza F
Published in BMC systems biology (14.05.2012)
Published in BMC systems biology (14.05.2012)
Get full text
Journal Article
DENSE: efficient and prior knowledge-driven discovery of phenotype-associated protein functional modules
Hendrix, Willam, Rocha, Andrea M, Padmanabhan, Kanchana, Choudhary, Alok, Scott, Kathleen, Mihelcic, James R, Samatova, Nagiza F
Published in BMC systems biology (24.10.2011)
Published in BMC systems biology (24.10.2011)
Get full text
Journal Article
Rapid detection of microbial cell abundance in aquatic systems
Rocha, Andrea M., Yuan, Quan, Close, Dan M., O’Dell, Kaela B., Fortney, Julian L., Wu, Jayne, Hazen, Terry C.
Published in Biosensors & bioelectronics (01.11.2016)
Published in Biosensors & bioelectronics (01.11.2016)
Get full text
Journal Article
Peculiar citric acid cycle of hydrothermal vent chemolithoautotroph Hydrogenovibrio crunogenus, and insights into carbon metabolism by obligate autotrophs
Quasem, Ishtiaque, Achille, Alexandra N., Caddick, Brittany A., Carter, Travis A., Daniels, Camille, Delaney, Jennifer A., Delic, Vedad, Denton, Kimberly A., Duran, Martina C., Fatica, Marianne K., Ference, Christopher M., Galkiewicz, Julie P., Garcia, Ana M., Hendrick, Jacqueline D., Horton, Steven A., Kun, Mey S., Koch, Phoebe W., Lee, Tien Min, McCabe, Christie R., McHale, Sean, McDaniel, Lauren D., Menning, Damian M., Menning, Kristy J., Mirzaei-Souderjani, Hamed, Mostajabian, Salina, Nicholson, David A., Nugent, Courtney K., Osman, Nicholas P., Pappas, Desiree I., Rocha, Andrea M., Rosario, Karyna, Rubelmann, Haydn, Schwartz, Julie A., Seeley, Kent W., Staley, Christopher M., Wallace, Elizabeth M., Wong, Terianne M., Zielinski, Brian L., Hanson, Thomas E., Scott, Kathleen M.
Published in FEMS microbiology letters (01.08.2017)
Published in FEMS microbiology letters (01.08.2017)
Get full text
Journal Article
Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity
Tian, Renmao, Ning, Daliang, He, Zhili, Zhang, Ping, Spencer, Sarah J., Gao, Shuhong, Shi, Weiling, Wu, Linwei, Zhang, Ya, Yang, Yunfeng, Adams, Benjamin G., Rocha, Andrea M., Detienne, Brittny L., Lowe, Kenneth A., Joyner, Dominique C., Klingeman, Dawn M., Arkin, Adam P., Fields, Matthew W., Hazen, Terry C., Stahl, David A., Alm, Eric J., Zhou, Jizhong
Published in Microbiome (06.04.2020)
Get full text
Published in Microbiome (06.04.2020)
Journal Article
Molybdenum Availability Is Key to Nitrate Removal in Contaminated Groundwater Environments
Thorgersen, Michael P., Lancaster, W. Andrew, Vaccaro, Brian J., Poole, Farris L., Rocha, Andrea M., Mehlhorn, Tonia, Pettenato, Angelica, Ray, Jayashree, Waters, R. Jordan, Melnyk, Ryan A., Chakraborty, Romy, Hazen, Terry C., Deutschbauer, Adam M., Arkin, Adam P., Adams, Michael W. W., Voordouw, G.
Published in Applied and environmental microbiology (15.05.2015)
Get full text
Published in Applied and environmental microbiology (15.05.2015)
Journal Article
Efficient [alpha] , [beta] -motif finder for identification of phenotype-related functional modules
Schmidt, Matthew C, Rocha, Andrea M, Padmanabhan, Kanchana, Chen, Zhengzhang, Scott, Kathleen, Mihelcic, James R, Samatova, Nagiza F
Published in BMC bioinformatics (11.11.2011)
Published in BMC bioinformatics (11.11.2011)
Get full text
Journal Article
Natural Bacterial Communities Serve as Quantitative Geochemical Biosensors
Smith, Mark B., Rocha, Andrea M., Smillie, Chris S., Olesen, Scott W., Paradis, Charles, Wu, Liyou, Campbell, James H., Fortney, Julian L., Mehlhorn, Tonia L., Lowe, Kenneth A., Earles, Jennifer E., Phillips, Jana, Techtmann, Steve M., Joyner, Dominique C., Elias, Dwayne A., Bailey, Kathryn L., Hurt, Richard A., Preheim, Sarah P., Sanders, Matthew C., Yang, Joy, Mueller, Marcella A., Brooks, Scott, Watson, David B., Zhang, Ping, He, Zhili, Dubinsky, Eric A., Adams, Paul D., Arkin, Adam P., Fields, Matthew W., Zhou, Jizhong, Alm, Eric J., Hazen, Terry C.
Published in mBio (12.05.2015)
Get full text
Published in mBio (12.05.2015)
Journal Article