Zobrazeno 1 - 10
of 244
pro vyhledávání: '"Simon Roux"'
Autor:
Brook L. Nunn, Emma Timmins-Schiffman, Miranda C. Mudge, Deanna L. Plubell, Gabriella Chebli, Julia Kubanek, Michael Riffle, William S. Noble, Elizabeth Harvey, Tasman A. Nunn, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Simon Roux, Krishnaveni Palaniappan, Supratim Mukherjee, T. B. K. Reddy, Chris Daum, Alex Copeland, I-Min A. Chen, Natalia N. Ivanova, Nikos C. Kyrpides, Tijana Glavina del Rio, Emiley A. Eloe-Fadrosh
Publikováno v:
Scientific Data, Vol 11, Iss 1, Pp 1-8 (2024)
Abstract In May and June of 2021, marine microbial samples were collected for DNA sequencing in East Sound, WA, USA every 4 hours for 22 days. This high temporal resolution sampling effort captured the last 3 days of a Rhizosolenia sp. bloom, the ini
Externí odkaz:
https://doaj.org/article/8208ac76a20e4255af7934254cb67d6f
Autor:
Tiffany Oliver, Neha Varghese, Simon Roux, Frederik Schulz, Marcel Huntemann, Alicia Clum, Brian Foster, Bryce Foster, Robert Riley, Kurt LaButti, Robert Egan, Patrick Hajek, Supratim Mukherjee, Galina Ovchinnikova, T. B. K. Reddy, Sara Calhoun, Richard D. Hayes, Robin R. Rohwer, Zhichao Zhou, Chris Daum, Alex Copeland, I-Min A. Chen, Natalia N. Ivanova, Nikos C. Kyrpides, Nigel J. Mouncey, Tijana Glavina del Rio, Igor V. Grigoriev, Steven Hofmeyr, Leonid Oliker, Katherine Yelick, Karthik Anantharaman, Katherine D. McMahon, Tanja Woyke, Emiley A. Eloe-Fadrosh
Publikováno v:
Scientific Data, Vol 11, Iss 1, Pp 1-7 (2024)
Abstract The North Temperate Lakes Long-Term Ecological Research (NTL-LTER) program has been extensively used to improve understanding of how aquatic ecosystems respond to environmental stressors, climate fluctuations, and human activities. Here, we
Externí odkaz:
https://doaj.org/article/eedd08c620c9493ebd2d5a49aa266009
Publikováno v:
mSystems, Vol 9, Iss 10 (2024)
ABSTRACT While numerous computational frameworks and workflows are available for recovering prokaryote and eukaryote genomes from metagenome data, only a limited number of pipelines are designed specifically for viromics analysis. With many viromics
Externí odkaz:
https://doaj.org/article/466d9153d7a947ac8e0f52e6a6d94b8d
Autor:
Rasmus O. Jensen, Frederik Schulz, Simon Roux, Dawn M. Klingeman, Wayne P. Mitchell, Daniel Udwary, Sarah Moraïs, Vinicio Reynoso, James Winkler, Shilpa Nagaraju, Sashini De Tissera, Nicole Shapiro, Natalia Ivanova, T. B. K. Reddy, Itzhak Mizrahi, Sagar M. Utturkar, Edward A. Bayer, Tanja Woyke, Nigel J. Mouncey, Michael C. Jewett, Séan D. Simpson, Michael Köpke, David T. Jones, Steven D. Brown
Publikováno v:
Scientific Data, Vol 11, Iss 1, Pp 1-20 (2024)
Abstract The genus Clostridium is a large and diverse group within the Bacillota (formerly Firmicutes), whose members can encode useful complex traits such as solvent production, gas-fermentation, and lignocellulose breakdown. We describe 270 genome
Externí odkaz:
https://doaj.org/article/1d13a347d3f84967a3c06b01d08f7dbe
Autor:
Justine Charon, Ingrida Olendraite, Marco Forgia, Li Chuin Chong, Luke S. Hillary, Simon Roux, Anne Kupczok, Humberto Debat, Shoichi Sakaguchi, Rachid Tahzima, So Nakagawa, Artem Babaian, Aare Abroi, Nicolas Bejerman, Karima Ben Mansour, Katherine Brown, Anamarija Butkovic, Amelia Cervera, Florian Charriat, Guowei Chen, Yuto Chiba, Lander De Coninck, Tatiana Demina, Guillermo Dominguez-Huerta, Jeremy Dubrulle, Serafin Gutierrez, Erin Harvey, Fhilmar Raj Jayaraj Mallika, Dimitris Karapliafis, Shen Jean Lim, Sunitha Manjari Kasibhatla, Jonathon C. O. Mifsud, Yosuke Nishimura, Ayda Susana Ortiz-Baez, Milica Raco, Ricardo Rivero, Sabrina Sadiq, Shahram Saghaei, James Emmanuel San, Hisham Mohammed Shaikh, Ella Tali Sieradzki, Matthew B. Sullivan, Yanni Sun, Michelle Wille, Yuri I. Wolf, Nikita Zrelovs, Uri Neri
Publikováno v:
Frontiers in Virology, Vol 4 (2024)
Improved RNA virus understanding is critical to studying animal and plant health, and environmental processes. However, the continuous and rapid RNA virus evolution makes their identification and characterization challenging. While recent sequence-ba
Externí odkaz:
https://doaj.org/article/a0bb22203bc041028ec451fd68752adb
Autor:
Clement Coclet, Patrick O. Sorensen, Ulas Karaoz, Shi Wang, Eoin L. Brodie, Emiley A. Eloe-Fadrosh, Simon Roux
Publikováno v:
Microbiome, Vol 11, Iss 1, Pp 1-19 (2023)
Abstract Background Viruses impact nearly all organisms on Earth, including microbial communities and their associated biogeochemical processes. In soils, highly diverse viral communities have been identified, with a global distribution seemingly dri
Externí odkaz:
https://doaj.org/article/4458f844a5c24778ad7bc0a43022edbb
Autor:
Cassandra L. Ettinger, Morgan Saunders, Laura Selbmann, Manuel Delgado-Baquerizo, Claudio Donati, Davide Albanese, Simon Roux, Susannah Tringe, Christa Pennacchio, Tijana G. del Rio, Jason E. Stajich, Claudia Coleine
Publikováno v:
Microbiome, Vol 11, Iss 1, Pp 1-8 (2023)
Abstract Background Rock-dwelling microorganisms are key players in ecosystem functioning of Antarctic ice free-areas. Yet, little is known about their diversity and ecology, and further still, viruses in these communities have been largely unexplore
Externí odkaz:
https://doaj.org/article/26275f71c6ea45c7a44596c42d0a02b8
Autor:
Cristina Howard-Varona, Simon Roux, Benjamin P. Bowen, Leslie P. Silva, Rebecca Lau, Sarah M. Schwenck, Samuel Schwartz, Tanja Woyke, Trent Northen, Matthew B. Sullivan, Sheri A. Floge
Publikováno v:
ISME Communications, Vol 2, Iss 1, Pp 1-14 (2022)
Abstract The fate of oceanic carbon and nutrients depends on interactions between viruses, prokaryotes, and unicellular eukaryotes (protists) in a highly interconnected planktonic food web. To date, few controlled mechanistic studies of these interac
Externí odkaz:
https://doaj.org/article/6c9dc62f02ee444eb7d4a73fcbe536d0
Publikováno v:
Microbiome, Vol 10, Iss 1, Pp 1-18 (2022)
Abstract Background DNA methylation in prokaryotes is involved in many different cellular processes including cell cycle regulation and defense against viruses. To date, most prokaryotic methylation systems have been studied in culturable microorgani
Externí odkaz:
https://doaj.org/article/f1b6fbedb8ea42d3b3599c70c95d7bf5
Autor:
Dariia Vyshenska, Pranav Sampara, Kanwar Singh, Andy Tomatsu, W. Berkeley Kauffman, Erin E. Nuccio, Steven J. Blazewicz, Jennifer Pett-Ridge, Katherine B. Louie, Neha Varghese, Matthew Kellom, Alicia Clum, Robert Riley, Simon Roux, Emiley A. Eloe-Fadrosh, Ryan M. Ziels, Rex R. Malmstrom
Publikováno v:
mSystems, Vol 8, Iss 4 (2023)
ABSTRACT Stable isotope probing (SIP) facilitates culture-independent identification of active microbial populations within complex ecosystems through isotopic enrichment of nucleic acids. Many DNA-SIP studies rely on 16S rRNA gene sequences to ident
Externí odkaz:
https://doaj.org/article/89714e1557644055a52c06f7ca084abc