{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T23:20:26Z","timestamp":1790810426074,"version":"4.1.0"},"reference-count":72,"publisher":"Oxford University Press (OUP)","issue":"W1","license":[{"start":{"date-parts":[[2023,5,19]],"date-time":"2023-05-19T00:00:00Z","timestamp":1684454400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000193","name":"International Development Research Centre","doi-asserted-by":"publisher","award":["109304-001"],"award-info":[{"award-number":["109304-001"]}],"id":[{"id":"10.13039\/501100000193","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001665","name":"Agence Nationale de la Recherche","doi-asserted-by":"publisher","award":["ANR-19-JAMR-0004"],"award-info":[{"award-number":["ANR-19-JAMR-0004"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,7,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Metagenomics can be used to monitor the spread of antibiotic resistance genes (ARGs). ARGs found in databases such as ResFinder and CARD primarily originate from culturable and pathogenic bacteria, while ARGs from non-culturable and non-pathogenic bacteria remain understudied. Functional metagenomics is based on phenotypic gene selection and can identify ARGs from non-culturable bacteria with a potentially low identity shared with known ARGs. In 2016, the ResFinderFG v1.0 database was created to collect ARGs from functional metagenomics studies. Here, we present the second version of the database, ResFinderFG v2.0, which is available on the Center of Genomic Epidemiology web server (https:\/\/cge.food.dtu.dk\/services\/ResFinderFG\/). It comprises 3913 ARGs identified by functional metagenomics from 50 carefully curated datasets. We assessed its potential to detect ARGs in comparison to other popular databases in gut, soil and water (marine\u00a0+\u00a0freshwater) Global Microbial Gene Catalogues (https:\/\/gmgc.embl.de). ResFinderFG v2.0 allowed for the detection of ARGs that were not detected using other databases. These included ARGs conferring resistance to beta-lactams, cycline, phenicol, glycopeptide\/cycloserine and trimethoprim\/sulfonamide. Thus, ResFinderFG v2.0 can be used to identify ARGs differing from those found in conventional databases and therefore improve the description of resistomes.<\/jats:p>","DOI":"10.1093\/nar\/gkad384","type":"journal-article","created":{"date-parts":[[2023,5,19]],"date-time":"2023-05-19T16:21:48Z","timestamp":1684513308000},"page":"W493-W500","source":"Crossref","is-referenced-by-count":78,"title":["ResFinderFG v2.0: a database of antibiotic resistance genes obtained by functional metagenomics"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7741-9764","authenticated-orcid":false,"given":"R\u00e9mi","family":"Gschwind","sequence":"first","affiliation":[{"name":"University of Paris Cit\u00e9 , INSERM UMR 1137 IAME, F-75018 Paris , France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Svetlana","family":"Ugarcina\u00a0Perovic","sequence":"additional","affiliation":[{"name":"Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University , Shanghai 200433 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maja","family":"Weiss","sequence":"additional","affiliation":[{"name":"Research Group for Genomic Epidemiology, Technical University of Denmark , Kgs, Lyngby \u00a02800, Denmark"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marie","family":"Petitjean","sequence":"additional","affiliation":[{"name":"University of Paris Cit\u00e9 , INSERM UMR 1137 IAME, F-75018 Paris , France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5290-3098","authenticated-orcid":false,"given":"Julie","family":"Lao","sequence":"additional","affiliation":[{"name":"University of Paris Cit\u00e9 , INSERM UMR 1137 IAME, F-75018 Paris , France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9280-7885","authenticated-orcid":false,"given":"Luis\u00a0Pedro","family":"Coelho","sequence":"additional","affiliation":[{"name":"Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University , Shanghai 200433 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Etienne","family":"Rupp\u00e9","sequence":"additional","affiliation":[{"name":"University of Paris Cit\u00e9 , INSERM UMR 1137 IAME, F-75018 Paris , France"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,5,19]]},"reference":[{"key":"2023070505001119200_B1","article-title":"Antimicrobial resistance","author":"World Health Organization","year":"2021"},{"key":"2023070505001119200_B2","doi-asserted-by":"crossref","first-page":"252","DOI":"10.1038\/s41586-021-04233-4","article-title":"Towards the biogeography of prokaryotic genes","volume":"601","author":"Coelho","year":"2022","journal-title":"Nature"},{"key":"2023070505001119200_B3","doi-asserted-by":"crossref","first-page":"88","DOI":"10.3390\/tropicalmed4020088","article-title":"The one health approach\u2014why is it so important?","volume":"4","author":"Mackenzie","year":"2019","journal-title":"Trop. 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