Diversity, evolution, and classification of virophages uncovered through global metagenomics

por Paez-Espino, David, Zhou, Jinglie, Roux, Simon, Nayfach, Stephen, Pavlopoulos, Georgios A., Schulz, Frederik, McMahon, Katherine D., Walsh, David, Woyke, Tanja, Ivanova, Natalia N., Eloe-Fadrosh, Emiley A., Tringe, Susannah G., Kyrpides, Nikos C.
Publicado 2019

Giant virus diversity and host interactions through global metagenomics

por Schulz, Frederik, Roux, Simon, Paez-Espino, David, Jungbluth, Sean, Walsh, David A., Denef, Vincent J., McMahon, Katherine D., Konstantinidis, Konstantinos T., Eloe-Fadrosh, Emiley A., Kyrpides, Nikos C., Woyke, Tanja
Publicado 2020

CheckV assesses the quality and completeness of metagenome-assembled viral genomes

por Nayfach, Stephen, Camargo, Antonio Pedro, Schulz, Frederik, Eloe-Fadrosh, Emiley, Roux, Simon, Kyrpides, Nikos C.
Publicado 2020

Expanding the genomic encyclopedia of Actinobacteria with 824 isolate reference genomes

por Seshadri, Rekha, Roux, Simon, Huber, Katharina J., Wu, Dongying, Yu, Sora, Udwary, Dan, Call, Lee, Nayfach, Stephen, Hahnke, Richard L., Pukall, Rüdiger, White, James R., Varghese, Neha J., Webb, Cody, Palaniappan, Krishnaveni, Reimer, Lorenz C., Sardà, Joaquim, Bertsch, Jonathon, Mukherjee, Supratim, Reddy, T.B.K., Hajek, Patrick P., Huntemann, Marcel, Chen, I-Min A., Spunde, Alex, Clum, Alicia, Shapiro, Nicole, Wu, Zong-Yen, Zhao, Zhiying, Zhou, Yuguang, Evtushenko, Lyudmila, Thijs, Sofie, Stevens, Vincent, Eloe-Fadrosh, Emiley A., Mouncey, Nigel J., Yoshikuni, Yasuo, Whitman, William B., Klenk, Hans-Peter, Woyke, Tanja, Göker, Markus, Kyrpides, Nikos C., Ivanova, Natalia N.
Publicado 2022

The reaction of organic peroxy radicals with unsaturated compounds controlled by a non-epoxide pathway under atmospheric conditions

por Nozière, Barbara, Durif, Olivier, Dubus, Eloé, Kylington, Stephanie, Emmer, Åsa, Fache, Fabienne, Piel, Felix, Wisthaler, Armin
Publicado 2023

Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota

por Seymour, Cale O., Palmer, Marike, Becraft, Eric D., Stepanauskas, Ramunas, Friel, Ariel D., Schulz, Frederik, Woyke, Tanja, Eloe-Fadrosh, Emiley, Lai, Dengxun, Jiao, Jian-Yu, Hua, Zheng-Shuang, Liu, Lan, Lian, Zheng-Han, Li, Wen-Jun, Chuvochina, Maria, Finley, Brianna K., Koch, Benjamin J., Schwartz, Egbert, Dijkstra, Paul, Moser, Duane P., Hungate, Bruce A., Hedlund, Brian P.
Publicado 2023

Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection

por Seshadri, Rekha, Leahy, Sinead C, Attwood, Graeme T, Teh, Koon Hoong, Lambie, Suzanne C, Cookson, Adrian L, Eloe-Fadrosh, Emiley A, Pavlopoulos, Georgios A, Hadjithomas, Michalis, Varghese, Neha J, Paez-Espino, David, Perry, Rechelle, Henderson, Gemma, Creevey, Christopher J, Terrapon, Nicolas, Lapebie, Pascal, Drula, Elodie, Lombard, Vincent, Rubin, Edward, Kyrpides, Nikos C, Henrissat, Bernard, Woyke, Tanja, Ivanova, Natalia N, Kelly, William J
Publicado 2018

Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom

por Nowinski, Brent, Smith, Christa B., Thomas, Courtney M., Esson, Kaitlin, Marin, Roman, Preston, Christina M., Birch, James M., Scholin, Christopher A., Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I.-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Glavina del Rio, Tijana, Whitman, William B., Kiene, Ronald P., Eloe-Fadrosh, Emiley A., Moran, Mary Ann
Publicado 2019

Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials

por Högfors-Rönnholm, Eva, Lopez-Fernandez, Margarita, Christel, Stephan, Brambilla, Diego, Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Harmon-Smith, Miranda, Eloe-Fadrosh, Emiley A., Lundin, Daniel, Engblom, Sten, Dopson, Mark
Publicado 2019

Expansion of Thaumarchaeota habitat range is correlated with horizontal transfer of ATPase operons

por Wang, Baozhan, Qin, Wei, Ren, Yi, Zhou, Xue, Jung, Man-Young, Han, Ping, Eloe-Fadrosh, Emiley A., Li, Meng, Zheng, Yue, Lu, Lu, Yan, Xin, Ji, Junbin, Liu, Yang, Liu, Linmeng, Heiner, Cheryl, Hall, Richard, Martens-Habbena, Willm, Herbold, Craig W., Rhee, Sung-keun, Bartlett, Douglas H., Huang, Li, Ingalls, Anitra E., Wagner, Michael, Stahl, David A., Jia, Zhongjun
Publicado 2019

Ecology and molecular targets of hypermutation in the global microbiome

por Roux, Simon, Paul, Blair G., Bagby, Sarah C., Nayfach, Stephen, Allen, Michelle A., Attwood, Graeme, Cavicchioli, Ricardo, Chistoserdova, Ludmila, Gruninger, Robert J., Hallam, Steven J., Hernandez, Maria E., Hess, Matthias, Liu, Wen-Tso, McAllister, Tim A., O’Malley, Michelle A., Peng, Xuefeng, Rich, Virginia I., Saleska, Scott R., Eloe-Fadrosh, Emiley A.
Publicado 2021

Metagenomic Methods for Addressing NASA's Planetary Protection Policy Requirements on Future Missions: A Workshop Report

por Green, Stefan J., Torok, Tamas, Allen, Jonathan E., Eloe-Fadrosh, Emiley, Jackson, Scott A., Jiang, Sunny C., Levine, Stuart S., Levy, Shawn, Schriml, Lynn M., Thomas, W. Kelley, Wood, Jason M., Tighe, Scott W.
Publicado 2023

Combined deletion of Xrcc4 and Trp53 in mouse germinal center B cells leads to novel B cell lymphomas with clonal heterogeneity

por Chen, Zhangguo, Elos, Mihret T., Viboolsittiseri, Sawanee S., Gowan, Katherine, Leach, Sonia M., Rice, Michael, Eder, Maxwell D., Jones, Kenneth, Wang, Jing H.
Publicado 2016

Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity

por Roux, Simon, Emerson, Joanne B., Eloe-Fadrosh, Emiley A., Sullivan, Matthew B.
Publicado 2017

Genomic variation and biogeography of Antarctic haloarchaea

por Tschitschko, Bernhard, Erdmann, Susanne, DeMaere, Matthew Z., Roux, Simon, Panwar, Pratibha, Allen, Michelle A., Williams, Timothy J., Brazendale, Sarah, Hancock, Alyce M., Eloe-Fadrosh, Emiley A., Cavicchioli, Ricardo
Publicado 2018

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

por Bowers, Robert M, Kyrpides, Nikos C, Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T B K, Schulz, Frederik, Jarett, Jessica, Rivers, Adam R, Eloe-Fadrosh, Emiley A, Tringe, Susannah G, Ivanova, Natalia N, Copeland, Alex, Clum, Alicia, Becraft, Eric D, Malmstrom, Rex R, Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M, Garrity, George M, Dodsworth, Jeremy A, Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O, Gilbert, Jack A, Nelson, William C, Hallam, Steven J, Jungbluth, Sean P, Ettema, Thijs J G, Tighe, Scott, Konstantinidis, Konstantinos T, Liu, Wen-Tso, Baker, Brett J, Rattei, Thomas, Eisen, Jonathan A, Hedlund, Brian, McMahon, Katherine D, Fierer, Noah, Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Tyson, Gene W, Rinke, Christian, Lapidus, Alla, Meyer, Folker, Yilmaz, Pelin, Parks, Donovan H, Murat Eren, A, Schriml, Lynn, Banfield, Jillian F, Hugenholtz, Philip, Woyke, Tanja
Publicado 2017

Microbiomes of Velloziaceae from phosphorus-impoverished soils of the campos rupestres, a biodiversity hotspot

por Camargo, Antonio Pedro, de Souza, Rafael Soares Correa, de Britto Costa, Patrícia, Gerhardt, Isabel Rodrigues, Dante, Ricardo Augusto, Teodoro, Grazielle Sales, Abrahão, Anna, Lambers, Hans, Carazzolle, Marcelo Falsarella, Huntemann, Marcel, Clum, Alicia, Foster, Brian, Foster, Bryce, Roux, Simon, Palaniappan, Krishnaveni, Varghese, Neha, Mukherjee, Supratim, Reddy, T. B. K., Daum, Chris, Copeland, Alex, Chen, I.-Min A., Ivanova, Natalia N., Kyrpides, Nikos C., Pennacchio, Christa, Eloe-Fadrosh, Emiley A., Arruda, Paulo, Oliveira, Rafael Silva
Publicado 2019

Minimum Information about an Uncultivated Virus Genome (MIUViG)

por Roux, Simon, Adriaenssens, Evelien M, Dutilh, Bas E, Koonin, Eugene V, Kropinski, Andrew M, Krupovic, Mart, Kuhn, Jens H, Lavigne, Rob, Brister, J Rodney, Varsani, Arvind, Amid, Clara, Aziz, Ramy K, Bordenstein, Seth R, Bork, Peer, Breitbart, Mya, Cochrane, Guy R, Daly, Rebecca A, Desnues, Christelle, Duhaime, Melissa B, Emerson, Joanne B, Enault, François, Fuhrman, Jed A, Hingamp, Pascal, Hugenholtz, Philip, Hurwitz, Bonnie L, Ivanova, Natalia N, Labonté, Jessica M, Lee, Kyung-Bum, Malmstrom, Rex R, Martinez-Garcia, Manuel, Mizrachi, Ilene Karsch, Ogata, Hiroyuki, Páez-Espino, David, Petit, Marie-Agnès, Putonti, Catherine, Rattei, Thomas, Reyes, Alejandro, Rodriguez-Valera, Francisco, Rosario, Karyna, Schriml, Lynn, Schulz, Frederik, Steward, Grieg F, Sullivan, Matthew B, Sunagawa, Shinichi, Suttle, Curtis A, Temperton, Ben, Tringe, Susannah G, Thurber, Rebecca Vega, Webster, Nicole S, Whiteson, Katrine L, Wilhelm, Steven W, Wommack, K Eric, Woyke, Tanja, Wrighton, Kelly C, Yilmaz, Pelin, Yoshida, Takashi, Young, Mark J, Yutin, Natalya, Allen, Lisa Zeigler, Kyrpides, Nikos C, Eloe-Fadrosh, Emiley A
Publicado 2018

Terabase-scale metagenome coassembly with MetaHipMer

por Hofmeyr, Steven, Egan, Rob, Georganas, Evangelos, Copeland, Alex C., Riley, Robert, Clum, Alicia, Eloe-Fadrosh, Emiley, Roux, Simon, Goltsman, Eugene, Buluç, Aydın, Rokhsar, Daniel, Oliker, Leonid, Yelick, Katherine
Publicado 2020

Insights into the dynamics between viruses and their hosts in a hot spring microbial mat

por Jarett, Jessica K., Džunková, Mária, Schulz, Frederik, Roux, Simon, Paez-Espino, David, Eloe-Fadrosh, Emiley, Jungbluth, Sean P., Ivanova, Natalia, Spear, John R., Carr, Stephanie A., Trivedi, Christopher B., Corsetti, Frank A., Johnson, Hope A., Becraft, Eric, Kyrpides, Nikos, Stepanauskas, Ramunas, Woyke, Tanja
Publicado 2020