Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection
2018
Seshadri, Rekha | Leahy, Sinead | Attwood, Graeme | Teh, Koon Hoong | Lambie, Suzanne | Cookson, Adrian | Eloe-Fadrosh, Emiley | Pavlopoulos, Georgios | Hadjithomas, Michalis | Varghese, Neha | Páez-Espino, David | Perry, Rechelle | Henderson, Gemma | Creevey, Christopher, J. | Terrapon, Nicolas | Lapébie, Pascal | Drula, Elodie | Lombard, Vincent | Rubin, Edward, M. | Kyrpides, Nikos | Henrissat, Bernard | Woyke, Tanja | Ivanova, Natalia | Kelly, William | Palevich, Nikola | Janssen, Peter | Ronimus, Ron | Noel, Samantha | Soni, Priya | Reilly, Kerri | Atherly, Todd | Ziemer, Cherie | Wright, Andre-Denis | Ishaq, Suzanne | Cotta, Michael | Thompson, Stephanie | Crosley, Katie | Mckain, Nest | Wallace, R John | Flint, Harry | Martin, Jennifer | Forster, Robert | Gruninger, Robert | Mcallister, Tim | Gilbert, Rosalind | Ouwerkerk, Diane | Klieve, Athol | Jassim, Rafat Al | Denman, Stuart | Mcsweeney, Chris | Rosewarne, Carly | Koike, Satoshi | Kobayashi, Yasuo | Mitsumori, Makoto | Shinkai, Takumi | Cravero, Silvio | Cucchi, María Cerón | Creevey, Chris | US Department of Energy Joint Genome Institute, Walnut Creek CA, USA | DOE Joint Genome Institute [Walnut Creek] | Grasslands Research Centre ; AgResearch [Nouvelle-Zélande] | AgResearch Limited | Grasslands Res Ctr ; AgResearch | Department of Biology [JHU Baltimore] ; Johns Hopkins University (JHU) | US Department of Energy Joint Genome Institute, Walnut Creek CA, USA ; US Department of Energy Joint Genome Institute, Walnut Creek CA, USA | Animal & Grassland Research and Innovation Centre ; Teagasc - The Agriculture and Food Development Authority (Teagasc) | Aberystwyth University | Architecture et fonction des macromolécules biologiques (AFMB) ; Institut National de la Recherche Agronomique (INRA)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS) | Centre d'océanologie de Marseille (COM) ; Université de la Méditerranée - Aix-Marseille 2-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS) | Biodiversité et Biotechnologie Fongiques (BBF) ; Institut National de la Recherche Agronomique (INRA)-Aix Marseille Université (AMU)-École Centrale de Marseille (ECM) | Department of Energy / Joint Genome Institute (DOE) ; Los Alamos National Laboratory (LANL) | Rowett Inst Nutr & Hlth, Microbial Ecol Grp ; University of Aberdeen | Laboratoire de Psycholinguistique Expérimentale (FAPSE) ; Université de Genève = University of Geneva (UNIGE) | Tohoku University [Sendai] | Animal Bioscience Centre ; Animal Bioscience Centre | New Zealand Government - Livestock Research Group of the Global Research Alliance on Agricultural Greenhouse Gases ; US Department of Energy Joint Genome Institute (JGI) through their Community Science Program [CSP 612, DE-AC02-05CH11231] ; Office of Science of the US Department of Energy | European Project: 322820,EC:FP7:ERC,ERC-2012-ADG_20120314,HUMAN MICROBIOTA(2013)
Hungate1000 project collaborators: Nikola Palevich, Peter H. Janssen, Ron S. Ronimus, Samantha Noel, Priya Soni, Kerri Reilly, Todd Atherly, Cherie Ziemer, Andre-Denis Wright, Suzanne Ishaq, Michael Cotta, Stephanie Thompson, Katie Crosley, Nest McKain, R. John Wallace, Harry J. Flint, Jennifer C. Martin, Robert J. Forster, Robert J. Gruninger, Tim McAllister, Rosalind Gilbert, Diane Ouwerkerk, Athol Klieve, Rafat Al Jassim, Stuart Denman, Chris McSweeney, Carly Rosewarne, Satoshi Koike, Yasuo Kobayashi, Makoto Mitsumori, Takumi Shinkai, Silvio Cravero & María Cerón Cucchi
اظهر المزيد [+] اقل [-]International audience
اظهر المزيد [+] اقل [-]إنجليزي. Productivity of ruminant livestock depends on the rumen microbiota, which ferment indigestible plant polysaccharides into nutrients used for growth. Understanding the functions carried out by the rumen microbiota is important for reducing greenhouse gas production by ruminants and for developing biofuels from lignocellulose. We present 410 cultured bacteria and archaea, together with their reference genomes, representing every cultivated rumen-associated archaeal and bacterial family. We evaluate polysaccharide degradation, short-chain fatty acid production and methanogenesis pathways, and assign specific taxa to functions. A total of 336 organisms were present in available rumen metagenomic data sets, and 134 were present in human gut microbiome data sets. Comparison with the human microbiome revealed rumen-specific enrichment for genes encoding de novo synthesis of vitamin B12, ongoing evolution by gene loss and potential vertical inheritance of the rumen microbiome based on underrepresentation of markers of environmental stress. We estimate that our Hungate genome resource represents ∼75% of the genus-level bacterial and archaeal taxa present in the rumen.
اظهر المزيد [+] اقل [-]المعلومات البيبليوغرافية
تم تزويد هذا السجل من قبل Institut national de la recherche agronomique