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"given": "John", "initials": "J"}, {"family": "Vuillemin", "given": "Aur\u00e8le", "initials": "A"}, {"family": "Waldo", "given": "Nicholas B", "initials": "NB"}, {"family": "Walsh", "given": "David A", "initials": "DA"}, {"family": "Weimer", "given": "Bart C", "initials": "BC"}, {"family": "Whitman", "given": "Thea", "initials": "T"}, {"family": "van der Wielen", "given": "Paul", "initials": "P"}, {"family": "Wilkins", "given": "Michael", "initials": "M"}, {"family": "Williams", "given": "Timothy J", "initials": "TJ"}, {"family": "Woodcroft", "given": "Ben", "initials": "B", "orcid": "0000-0003-0670-7480", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d9354f0e11d746e9ac16ca276a594963.json"}}, {"family": "Woolet", "given": "Jamie", "initials": "J"}, {"family": "Wrighton", "given": "Kelly", "initials": "K"}, {"family": "Ye", "given": "Jun", "initials": "J"}, {"family": "Young", "given": "Erica B", "initials": "EB"}, {"family": "Youssef", "given": "Noha H", "initials": "NH"}, {"family": "Yu", "given": "Feiqiao Brian", "initials": "FB"}, {"family": "Zemskaya", "given": "Tamara I", "initials": "TI"}, {"family": "Ziels", "given": "Ryan", "initials": "R"}, {"family": "Woyke", "given": "Tanja", "initials": "T", "orcid": "0000-0002-9485-5637", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/c4ea0870d668462da8a6c6602448fe21.json"}}, {"family": "Mouncey", "given": "Nigel J", "initials": "NJ", "orcid": "0000-0001-5380-1256", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/029d534c545143c28fc1b93785287ae8.json"}}, {"family": "Ivanova", "given": "Natalia N", "initials": "NN", "orcid": "0000-0002-5802-9485", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/22d18bff85e846e29368eb8de7d7a0b6.json"}}, {"family": "Kyrpides", "given": "Nikos C", "initials": "NC", "orcid": "0000-0002-6131-0462", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/1cdb1d5a1bc54996a7c3c2607c7df185.json"}}, {"family": "Eloe-Fadrosh", "given": "Emiley A", "initials": "EA", "orcid": "0000-0002-8162-1276", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/2e36c5ae1c17490fa309def0f9454e97.json"}}], "type": "journal-article", "published": "2021-04-00", "journal": {"title": "Nat Biotechnol", "issn": "1087-0156", "issn-l": "1087-0156", "volume": "39", "issue": "4", "pages": "499-509"}, "abstract": "The reconstruction of bacterial and archaeal genomes from shotgun metagenomes has enabled insights into the ecology and evolution of environmental and host-associated microbiomes. Here we applied this approach to >10,000 metagenomes collected from diverse habitats covering all of Earth's continents and oceans, including metagenomes from human and animal hosts, engineered environments, and natural and agricultural soils, to capture extant microbial, metabolic and functional potential. This comprehensive catalog includes 52,515 metagenome-assembled genomes representing 12,556 novel candidate species-level operational taxonomic units spanning 135 phyla. The catalog expands the known phylogenetic diversity of bacteria and archaea by 44% and is broadly available for streamlined comparative analyses, interactive exploration, metabolic modeling and bulk download. We demonstrate the utility of this collection for understanding secondary-metabolite biosynthetic potential and for resolving thousands of new host linkages to uncultivated viruses. This resource underscores the value of genome-centric approaches for revealing genomic properties of uncultivated microorganisms that affect ecosystem processes.", "doi": "10.1038/s41587-020-0718-6", "pmid": "33169036", "labels": {"Sarahi Garcia": null, "SciLifeLab Fellow": null}, "xrefs": [{"db": "pmc", "key": "PMC8041624"}, {"db": "pii", "key": "10.1038/s41587-020-0718-6"}], "notes": [], "created": "2020-11-10T19:09:30.473Z", "modified": "2026-09-22T20:07:56.358Z"}, {"entity": "publication", "iuid": "2a24e335eba849cb84530573df68efd0", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/2a24e335eba849cb84530573df68efd0.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/2a24e335eba849cb84530573df68efd0"}}, "title": "Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.", "authors": [{"family": "Bowers", "given": "Robert M", "initials": "RM"}, {"family": "Kyrpides", "given": "Nikos C", "initials": "NC"}, {"family": "Stepanauskas", "given": "Ramunas", "initials": "R", "orcid": "0000-0003-4458-3108", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/09207b2463614a4683b26a1da10fcaa9.json"}}, {"family": "Harmon-Smith", "given": "Miranda", "initials": "M"}, {"family": "Doud", "given": "Devin", "initials": "D"}, {"family": "Reddy", "given": "T B K", "initials": "TBK"}, {"family": "Schulz", "given": "Frederik", "initials": "F", "orcid": "0000-0002-4932-4677", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/0fa147d26ae848eeb35aad7866f102cd.json"}}, {"family": "Jarett", "given": "Jessica", "initials": "J"}, {"family": "Rivers", "given": "Adam R", "initials": "AR"}, {"family": "Eloe-Fadrosh", "given": "Emiley A", "initials": "EA"}, {"family": "Tringe", "given": "Susannah G", "initials": "SG", "orcid": "0000-0001-6479-8427", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a37d13f11d264ad6bc640fe9b349686d.json"}}, {"family": "Ivanova", "given": "Natalia N", "initials": "NN"}, {"family": "Copeland", "given": "Alex", "initials": "A"}, {"family": "Clum", "given": "Alicia", "initials": "A"}, {"family": "Becraft", "given": "Eric D", "initials": "ED"}, {"family": "Malmstrom", "given": "Rex R", "initials": "RR"}, {"family": "Birren", "given": "Bruce", "initials": "B"}, {"family": "Podar", "given": "Mircea", "initials": "M"}, {"family": "Bork", "given": "Peer", "initials": "P"}, {"family": "Weinstock", "given": "George M", "initials": "GM"}, {"family": "Garrity", "given": "George M", "initials": "GM"}, {"family": "Dodsworth", "given": "Jeremy A", "initials": "JA"}, {"family": "Yooseph", "given": "Shibu", "initials": "S"}, {"family": "Sutton", "given": "Granger", "initials": "G", "orcid": "0000-0001-7498-8048", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a514be4962c54bf3aa4bacaffeed9a60.json"}}, {"family": "Gl\u00f6ckner", "given": "Frank O", "initials": "FO"}, {"family": "Gilbert", "given": "Jack A", "initials": "JA"}, {"family": "Nelson", "given": "William C", "initials": "WC"}, {"family": "Hallam", "given": "Steven J", "initials": "SJ"}, {"family": "Jungbluth", "given": "Sean P", "initials": "SP", "orcid": "0000-0001-9265-8341", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/df77eb970265456dad01933f774192fa.json"}}, {"family": "Ettema", "given": "Thijs J G", "initials": "TJG"}, {"family": "Tighe", "given": "Scott", "initials": "S"}, {"family": "Konstantinidis", "given": "Konstantinos T", "initials": "KT"}, {"family": "Liu", "given": "Wen-Tso", "initials": "WT"}, {"family": "Baker", "given": "Brett J", "initials": "BJ"}, {"family": "Rattei", "given": "Thomas", "initials": "T"}, {"family": "Eisen", "given": "Jonathan A", "initials": "JA"}, {"family": "Hedlund", "given": "Brian", "initials": "B"}, {"family": "McMahon", "given": "Katherine D", "initials": "KD"}, {"family": "Fierer", "given": "Noah", "initials": "N"}, {"family": "Knight", "given": "Rob", "initials": "R", "orcid": "0000-0002-0975-9019", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/7829c8905d5b404da4eaa5d8aad5fce9.json"}}, {"family": "Finn", "given": "Rob", "initials": "R"}, {"family": "Cochrane", "given": "Guy", "initials": "G"}, {"family": "Karsch-Mizrachi", "given": "Ilene", "initials": "I"}, {"family": "Tyson", "given": "Gene W", "initials": "GW"}, {"family": "Rinke", "given": "Christian", "initials": "C", "orcid": "0000-0003-4632-1187", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/4b7aa7d810634210a9dfe2f13dc00032.json"}}, {"family": "Genome Standards Consortium", "given": "", "initials": ""}, {"family": "Lapidus", "given": "Alla", "initials": "A", "orcid": "0000-0003-0427-8731", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/17d83e437ed3441f8e74b13f61d1b1f6.json"}}, {"family": "Meyer", "given": "Folker", "initials": "F"}, {"family": "Yilmaz", "given": "Pelin", "initials": "P", "orcid": "0000-0003-4724-323X", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/98368cadb0074dc8b34074d43416bc87.json"}}, {"family": "Parks", "given": "Donovan H", "initials": "DH", "orcid": "0000-0001-6662-9010", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ac368bdf2316487b9bac9d4ec31d1eaa.json"}}, {"family": "Eren", "given": "A M", "initials": "AM", "orcid": "0000-0001-9013-4827", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/33ea1338878a49ee853f7543dcef51e7.json"}}, {"family": "Schriml", "given": "Lynn", "initials": "L"}, {"family": "Banfield", "given": "Jillian F", "initials": "JF"}, {"family": "Hugenholtz", "given": "Philip", "initials": "P"}, {"family": "Woyke", "given": "Tanja", "initials": "T"}], "type": "journal article", "published": "2017-08-08", "journal": {"title": "Nat. Biotechnol.", "issn": "1546-1696", "volume": "35", "issue": "8", "pages": "725-731", "issn-l": "1087-0156"}, "abstract": "We present two standards developed by the Genomic Standards Consortium (GSC) for reporting bacterial and archaeal genome sequences. Both are extensions of the Minimum Information about Any (x) Sequence (MIxS). The standards are the Minimum Information about a Single Amplified Genome (MISAG) and the Minimum Information about a Metagenome-Assembled Genome (MIMAG), including, but not limited to, assembly quality, and estimates of genome completeness and contamination. These standards can be used in combination with other GSC checklists, including the Minimum Information about a Genome Sequence (MIGS), Minimum Information about a Metagenomic Sequence (MIMS), and Minimum Information about a Marker Gene Sequence (MIMARKS). Community-wide adoption of MISAG and MIMAG will facilitate more robust comparative genomic analyses of bacterial and archaeal diversity.", "doi": "10.1038/nbt.3893", "pmid": "28787424", "labels": [], "xrefs": [{"db": "mid", "key": "NIHMS1015158"}, {"db": "pmc", "key": "PMC6436528"}, {"db": "pii", "key": "nbt.3893"}], "notes": [], "created": "2018-12-05T09:37:27.955Z", "modified": "2026-09-22T19:57:59.363Z"}]}