Simon Roux (S Roux)

ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 59

Top Venues

Microbiology resource announcements

PLoS biology

The ISME journal

mSystems

DOE Joint Genome Institute

This page only lists publications with an associated author ORCID identifier.

Affiliation History

DOE Joint Genome Institute Jan 09 2017

United States

Research scientist

Publications

Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Metatranscriptomes of two biological soil crust types from the Mojave desert in response to wetting. Microbiology resource announcements 13 (2) (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert. Microbiology resource announcements (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert. Microbiology resource announcements 13 (3) (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert. Microbiology resource announcements 13 (3) (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Metatranscriptomes of two biological soil crust types from the Mojave desert in response to wetting. Microbiology resource announcements 13 (2) (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Metatranscriptomes of two biological soil crust types from the Mojave desert in response to wetting. Microbiology resource announcements 13 (2) (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Metatranscriptomes of two biological soil crust types from the Mojave desert in response to wetting. Microbiology resource announcements (2024)
Thuy M Nguyen, Nuttapon Pombubpa, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Christopher Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Nicole Pietrasiak, Jason E Stajich, Erik F Y Hom
Whole community shotgun metagenomes of two biological soil crust types from the Mojave Desert. Microbiology resource announcements 13 (3) (2024)
Simon Roux, Matthias G Fischer, Thomas Hackl, Laura A Katz, Frederik Schulz, Natalya Yutin
Updated Virophage Taxonomy and Distinction from Polinton-like Viruses. Biomolecules 13 (2) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Matthias G Fischer, Thomas Hackl, Laura A Katz, Frederik Schulz, Natalya Yutin
Updated Virophage Taxonomy and Distinction from Polinton-like Viruses. Biomolecules 13 (2) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Matthias G Fischer, Thomas Hackl, Laura A Katz, Frederik Schulz, Natalya Yutin
Updated Virophage Taxonomy and Distinction from Polinton-like Viruses. Biomolecules 13 (2) (2023)
Simon Roux, Jennifer R Brum
Counting dots or counting reads? Complementary approaches to estimate virus-to-microbe ratios. The ISME journal (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Antonio Pedro Camargo, Lee Call, Simon Roux, Stephen Nayfach, Marcel Huntemann, Krishnaveni Palaniappan, Anna Ratner, Ken Chu, Supratim Mukherjee, T B K Reddy, I-Min A Chen, Natalia N Ivanova, Emiley A Eloe-Fadrosh, Tanja Woyke, David A Baltrus, Salvador Castañeda-Barba, María de Toro, Barbara E Funnell, James P J Hall, Aindrila Mukhopadhyay, Eduardo P C Rocha, Thibault Stalder, Eva M Top, Nikos C Kyrpides
IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata. Nucleic acids research (2023)
David T Jones, Frederik Schulz, Simon Roux, Steven D Brown
Solvent-Producing Clostridia Revisited. Microorganisms 11 (9) (2023)
Simon Roux, Antonio Pedro Camargo, Felipe H Coutinho, Shareef M Dabdoub, Bas E Dutilh, Stephen Nayfach, Andrew Tritt
iPHoP: An integrated machine learning framework to maximize host prediction for metagenome-derived viruses of archaea and bacteria. PLoS biology 21 (4) (2023)
Simon Roux, Matthias G Fischer, Thomas Hackl, Laura A Katz, Frederik Schulz, Natalya Yutin
Updated Virophage Taxonomy and Distinction from Polinton-like Viruses. Biomolecules 13 (2) (2023)
Mikayla A Borton, Bridget B McGivern, Kathryn R Willi, Benjamin J Woodcroft, Annika C Mosier, Ted Bambakidis, Derick M Singleton, Filipe Liu, Janaka N Edirisinghe, José P Faria, Ikaia Leleiwi, Rebecca A Daly, Amy E Goldman, Michael J Wilkins, Ed K Hall, Christa Pennacchio, Simon Roux, Emiley A Eloe-Fadrosh, Matthew B Sullivan, Christopher S Henry, Elisha M Wood-Charlson, Matthew R V Ross, Christopher S Miller, Byron C Crump, James C Stegen, Kelly C Wrighton
A functional microbiome catalog crowdsourced from North American rivers. bioRxiv : the preprint server for biology (2023)
Antonio Pedro Camargo, Stephen Nayfach, I-Min A Chen, Krishnaveni Palaniappan, Anna Ratner, Ken Chu, Stephan J Ritter, T B K Reddy, Supratim Mukherjee, Frederik Schulz, Lee Call, Russell Y Neches, Tanja Woyke, Natalia N Ivanova, Emiley A Eloe-Fadrosh, Nikos C Kyrpides, Simon Roux
IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata. Nucleic acids research (2022)
Tatiana A Demina, Anne-Mari Luhtanen, Simon Roux, Hanna M Oksanen
Virus-Host Interactions and Genetic Diversity of Antarctic Sea Ice Bacteriophages. mBio 13 (3) (2022)
Eric Olo Ndela, Simon Roux, Christian Henke, Alexander Sczyrba, Télesphore Sime Ngando, Darren P Martin, François Enault
Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages. Virus evolution 9 (1) (2022)
Eric Olo Ndela, Simon Roux, Christian Henke, Alexander Sczyrba, Télesphore Sime Ngando, Darren P Martin, François Enault
Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages. Virus evolution 9 (1) (2022)
I-Min A Chen, Ken Chu, Krishnaveni Palaniappan, Anna Ratner, Jinghua Huang, Marcel Huntemann, Patrick Hajek, Stephan J Ritter, Cody Webb, Dongying Wu, Neha J Varghese, T B K Reddy, Supratim Mukherjee, Galina Ovchinnikova, Matt Nolan, Rekha Seshadri, Simon Roux, Axel Visel, Tanja Woyke, Emiley A Eloe-Fadrosh, Nikos C Kyrpides, Natalia N Ivanova
The IMG/M data management and analysis system v.7: content updates and new features. Nucleic acids research (2022)
Ying Liu, Tatiana A Demina, Simon Roux, Pakorn Aiewsakun, Darius Kazlauskas, Peter Simmonds, David Prangishvili, Hanna M Oksanen, Mart Krupovic
Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes. PLoS biology 19 (11) (2021)
Charles Bachy, Charmaine C M Yung, David M Needham, Maria Consuelo Gazitúa, Simon Roux, Alexander J Limardo, Chang Jae Choi, Danielle M Jorgens, Matthew B Sullivan, Alexandra Z Worden
Viruses infecting a warm water picoeukaryote shed light on spatial co-occurrence dynamics of marine viruses and their hosts. The ISME journal 15 (11) (2021)
Maureen Berg, Danielle Goudeau, Charles N Olmsted, Katherine D McMahon, Senay Yitbarek, Jennifer L Thweatt, Donald A Bryant, Emiley A Eloe-Fadrosh, Rex R Malmstrom, Simon Roux
Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. The ISME journal 15 (6) (2021)
Sophie K Jurgensen, Simon Roux, Sarah M Schwenck, Frank J Stewart, Matthew B Sullivan, Jennifer R Brum
Viral community analysis in a marine oxygen minimum zone indicates increased potential for viral manipulation of microbial physiological state. The ISME journal (2021)
Maureen Berg, Simon Roux
Extreme dimensions - how big (or small) can tailed phages be? Nature reviews. Microbiology 19 (7) (2021)
Pajau Vangay, Josephine Burgin, Anjanette Johnston, Kristen L Beck, Daniel C Berrios, Kai Blumberg, Shane Canon, Patrick Chain, John-Marc Chandonia, Danielle Christianson, Sylvain V Costes, Joan Damerow, William D Duncan, José Pablo Dundore-Arias, Kjiersten Fagnan, Jonathan M Galazka, Sean M Gibbons, David Hays, William Judson Hervey, Bin Hu, Bonnie L Hurwitz, Pankaj Jaiswal, Marcin P Joachimiak, Linda Kinkel, Joshua Ladau, Stanton L Martin, Lee Ann McCue, Kayd Miller, Nigel Mouncey, Chris Mungall, Evangelos Pafilis, T B K Reddy, Lorna Richardson, Simon Roux, Lynn M Schriml, Justin P Shaffer, Jagadish Chandrabose Sundaramurthi, Luke R Thompson, Ruth E Timme, Jie Zheng, Elisha M Wood-Charlson, Emiley A Eloe-Fadrosh
Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities". mSystems 6 (3) (2021)
Alicia Clum, Marcel Huntemann, Brian Bushnell, Brian Foster, Bryce Foster, Simon Roux, Patrick P Hajek, Neha Varghese, Supratim Mukherjee, T B K Reddy, Chris Daum, Yuko Yoshinaga, Ronan O'Malley, Rekha Seshadri, Nikos C Kyrpides, Emiley A Eloe-Fadrosh, I-Min A Chen, Alex Copeland, Natalia N Ivanova
DOE JGI Metagenome Workflow. mSystems 6 (3) (2021)
Silvia G Acinas, Pablo Sánchez, Guillem Salazar, Francisco Miguel Cornejo-Castillo, Marta Sebastián, Ramiro Logares, Marta Royo-Llonch, Lucas Paoli, Shinichi Sunagawa, Pascal Hingamp, Hiroyuki Ogata, Gipsi Lima-Mendez, Simon Roux, José M González, Jesús Maria Arrieta, Intikhab S Alam, Allan Kamau, Chris Bowler, Jeroen Raes, Stéphane Pesant, Peer Bork, Susana Agustí, Takashi Gojobori, Dolors Vaqué, Matthew B Sullivan, Carlos Pedrós-Alió, Ramon Massana, Carlos M Duarte, Josep M Gasol
Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities. Communications biology 4 (1) (2021)
Pajau Vangay, Josephine Burgin, Anjanette Johnston, Kristen L Beck, Daniel C Berrios, Kai Blumberg, Shane Canon, Patrick Chain, John-Marc Chandonia, Danielle Christianson, Sylvain V Costes, Joan Damerow, William D Duncan, José Pablo Dundore-Arias, Kjiersten Fagnan, Jonathan M Galazka, Sean M Gibbons, David Hays, William Judson Hervey, Bin Hu, Bonnie L Hurwitz, Pankaj Jaiswal, Marcin P Joachimiak, Linda Kinkel, Joshua Ladau, Stanton L Martin, Lee Ann McCue, Kayd Miller, Nigel Mouncey, Chris Mungall, Evangelos Pafilis, T B K Reddy, Lorna Richardson, Simon Roux, Lynn M. Schriml, Justin P Shaffer, Jagadish Chandrabose Sundaramurthi, Luke R Thompson, Ruth E Timme, Jie Zheng, Elisha M Wood-Charlson, Emiley A Eloe-Fadrosh
Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities. mSystems 6 (1) (2021)
Simon Roux, Blair G Paul, Sarah C Bagby, Stephen Nayfach, Michelle A Allen, Graeme Attwood, Ricardo Cavicchioli, Ludmila Chistoserdova, Robert J Gruninger, Steven James Hallam, Maria E Hernandez, Matthias Hess, Wen-Tso Liu, Tim A McAllister, Michelle A OʼMalley, Xuefeng Peng, Virginia I Rich, Scott R Saleska, Emiley A Eloe-Fadrosh
Ecology and molecular targets of hypermutation in the global microbiome. Nature communications 12 (1) (2021)
Julie C Dunning Hotopp, David A Baltrus, Vincent M Bruno, John J Dennehy, Steven R Gill, Julia A Maresca, Jelle Matthijnssens, Irene L G Newton, Catherine Putonti, David A Rasko, Antonis Rokas, Simon Roux, Jason E Stajich, Kenneth M Stedman, Frank J Stewart, J Cameron Thrash
Best Practices for Successfully Writing and Publishing a Genome Announcement in Microbiology Resource Announcements. Microbiology resource announcements 9 (36) (2020)
Franziska Hufsky, Niko Beerenwinkel, Irmtraud M Meyer, Simon Roux, Georgia May Cook, Cormac M Kinsella, Kevin Lamkiewicz, Mike Marquet, David F Nieuwenhuijse, Ingrida Olendraite, Sofia Paraskevopoulou, Francesca Young, Ronald Dijkman, Bashar Ibrahim, Jenna Kelly, Philippe Le Mercier, Manja Marz, Alban Ramette, Volker Thiel
The International Virus Bioinformatics Meeting 2020. Viruses 12 (12) (2020)
Robert E Danczak, R A Daly, M A Borton, James C Stegen, Simon Roux, K C Wrighton, M J Wilkins
Ecological Assembly Processes Are Coordinated between Bacterial and Viral Communities in Fractured Shale Ecosystems. mSystems 5 (2) (2020)
Maria Consuelo Gazitúa, Dean R Vik, Simon Roux, Ann C Gregory, Benjamin Bolduc, Brittany Widner, Margaret R Mulholland, Steven James Hallam, Osvaldo Ulloa, Matthew B Sullivan
Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters. The ISME journal 15 (4) (2020)
Brent Nowinski, Christa B Smith, Courtney M Thomas, Kaitlin Esson, Roman Marin, Christina M Preston, James M Birch, Christopher A Scholin, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Chris Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Tijana Glavina Del Rio, William B Whitman, Ronald P Kiene, Emiley A Eloe-Fadrosh, Mary Ann Moran
Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom. Scientific data 6 (1) (2019)
Eva Högfors-Rönnholm, Margarita Lopez-Fernandez, Stephan Christel, Diego Brambilla, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Chris Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Miranda Harmon-Smith, Emiley A Eloe-Fadrosh, Daniel Lundin, Sten Engblom, Mark Dopson
Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials. Scientific data 6 (1) (2019)
Antonio Pedro Camargo, Rafael Soares Correa de Souza, Patrícia de Britto Costa, Isabel Rodrigues Gerhardt, Ricardo Augusto Dante, Grazielle Sales Teodoro, Anna Abrahão, Hans Lambers, Marcelo Falsarella Carazzolle, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Neha Varghese, Supratim Mukherjee, T B K Reddy, Chris Daum, Alex Copeland, I-Min A Chen, Natalia N Ivanova, Nikos C Kyrpides, Christa Pennacchio, Emiley A Eloe-Fadrosh, Paulo Arruda, Rafael Silva Oliveira
Microbiomes of Velloziaceae from phosphorus-impoverished soils of the campos rupestres, a biodiversity hotspot. Scientific data 6 (1) (2019)
Marc W Van Goethem, Tami L Swenson, Gareth Trubl, Simon Roux, Trent R Northen
Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust. mBio 10 (6) (2019)
David A Baltrus, Christina A Cuomo, John J Dennehy, Julie C Dunning Hotopp, Julia A Maresca, Irene L G Newton, David A Rasko, Antonis Rokas, Simon Roux, Jason E Stajich
Future-Proofing Your Microbiology Resource Announcements Genome Assembly for Reproducibility and Clarity. Microbiology resource announcements 8 (36) (2019)
Simon Roux, Mart Krupovic, Rebecca A Daly, Adair L Borges, Stephen Nayfach, Frederik Schulz, Allison Sharrar, Paula B Matheus Carnevali, Jan-Fang Cheng, Natalia N Ivanova, Joseph Bondy-Denomy, Kelly C Wrighton, Tanja Woyke, Axel Visel, Nikos C Kyrpides, Emiley A Eloe-Fadrosh
Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes. Nature microbiology 4 (11) (2019)
Carolina M Mizuno, Charlotte Guyomar, Simon Roux, Régis Lavigne, Francisco Rodriguez-Valera, Matthew B Sullivan, Reynald Gillet, Patrick Forterre, Mart Krupovic
Numerous cultivated and uncultivated viruses encode ribosomal proteins. Nature communications 10 (1) (2019)
Simon Roux
A Viral Ecogenomics Framework To Uncover the Secrets of Nature's "Microbe Whisperers". mSystems 4 (3) (2019)
Ho Bin Jang, Benjamin Bolduc, Olivier Zablocki, Jens H Kuhn, Simon Roux, Evelien M Adriaenssens, J Rodney Brister, Andrew M Kropinski, Mart Krupovic, Rob Lavigne, Dann Turner, Matthew B Sullivan
Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks. Nature biotechnology 37 (6) (2019)
Simon Roux, Evelien M Adriaenssens, Bas E Dutilh, Eugene V Koonin, Andrew M Kropinski, Mart Krupovic, Jens H Kuhn, Rob Lavigne, J Rodney Brister, Darren P Martin, Clara Amid, Ramy K Aziz, Seth R Bordenstein, Peer Bork, Mya Breitbart, Guy R Cochrane, Rebecca A Daly, Christelle Desnues, Melissa B Duhaime, Joanne B Emerson, François Enault, Jed A Fuhrman, Pascal Hingamp, Philip Hugenholtz, Bonnie L Hurwitz, Natalia N Ivanova, Jessica M Labonté, Kyung-Bum Lee, Rex R Malmstrom, Manuel Martinez-Garcia, Ilene Karsch Mizrachi, Hiroyuki Ogata, A David Páez-Espino, Marie-Agnès Petit, Catherine Putonti, Thomas Rattei, Alejandro Reyes, Francisco Rodriguez-Valera, Karyna Rosario, Lynn Schriml, Frederik Schulz, Grieg F Steward, Matthew B Sullivan, Shinichi Sunagawa, Curtis A Suttle, Ben Temperton, Susannah G Tringe, Rebecca Vega Thurber, Nicole Suzanne Webster, Katrine L Whiteson, Steven W Wilhelm, K Eric Wommack, Tanja Woyke, Kelly C Wrighton, Pelin Yilmaz, Takashi Yoshida, Mark J Young, Natalya Yutin, Lisa Zeigler Allen, Nikos C Kyrpides, Emiley A Eloe-Fadrosh
Minimum Information about an Uncultivated Virus Genome (MIUViG). Nature biotechnology 37 (1) (2018)
Lindsey M Solden, Adrian E Naas, Simon Roux, Rebecca A Daly, William B Collins, Carrie D Nicora, Sam O Purvine, David W Hoyt, Julia Schückel, Bodil Jørgensen, William Willats, Donald E Spalinger, Jeffrey L Firkins, Mary S Lipton, Matthew B Sullivan, Phillip Byron Pope, Kelly C Wrighton
Interspecies cross-feeding orchestrates carbon degradation in the rumen ecosystem. Nature microbiology 3 (11) (2018)
Simon Roux, Jennifer R Brum
A viral reckoning: viruses emerge as essential manipulators of global ecosystems. Environmental microbiology reports 11 (1) (2018)
Stephanie A Eichorst, Daniela Trojan, Simon Roux, Craig W Herbold, Thomas Rattei, Dagmar Woebken
Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments. Environmental microbiology 20 (3) (2018)
Mikayla A Borton, David W Hoyt, Simon Roux, Rebecca A Daly, Susan A Welch, Carrie D Nicora, Samuel Purvine, Elizabeth K Eder, Andrea J Hanson, Julie M Sheets, David M Morgan, Richard A Wolfe, Shikha Sharma, Timothy R Carr, David R Cole, Paula J Mouser, Mary S Lipton, Michael J Wilkins, Kelly C Wrighton
Coupled laboratory and field investigations resolve microbial interactions that underpin persistence in hydraulically fractured shales. Proceedings of the National Academy of Sciences of the United States of America 115 (28) (2018)
Simon Roux, Leong-Keat Chan, Rob Egan, Rex R Malmstrom, Katherine D McMahon, Matthew B Sullivan
Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics. Nature communications 8 (1) (2017)
François Enault, Arnaud Briet, Léa Bouteille, Simon Roux, Matthew B Sullivan, Marie-Agnès Petit
Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses. The ISME journal 11 (1) (2016)
Benjamin Bolduc, Ken Youens-Clark, Simon Roux, Bonnie L Hurwitz, Matthew B Sullivan
iVirus: facilitating new insights in viral ecology with software and community data sets imbedded in a cyberinfrastructure. The ISME journal 11 (1) (2016)

Simon Roux.css-eqlu8i{font-size:small;padding-left:4px;} (S Roux)

Publication Activity (10 Years)

Top Topics

Top Venues

Simon Roux (S Roux)