{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,20]],"date-time":"2026-05-20T08:24:51Z","timestamp":1779265491562,"version":"3.51.4"},"reference-count":35,"publisher":"Oxford University Press (OUP)","issue":"D1","license":[{"start":{"date-parts":[[2022,11,18]],"date-time":"2022-11-18T00:00:00Z","timestamp":1668729600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Programme for Fostering Excellence in Scientific and Technical Research","award":["PGC2018-098073-A-I00 MCIU\/AEI\/FEDER"],"award-info":[{"award-number":["PGC2018-098073-A-I00 MCIU\/AEI\/FEDER"]}]},{"DOI":"10.13039\/100014989","name":"Chan Zuckerberg Initiative","doi-asserted-by":"publisher","award":["2020-218584"],"award-info":[{"award-number":["2020-218584"]}],"id":[{"id":"10.13039\/100014989","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000923","name":"Silicon Valley Community Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000923","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Severo Ochoa Centres of Excellence Programme from the State Research Agency (AEI) of Spain","award":["SEV-2016\u20130672"],"award-info":[{"award-number":["SEV-2016\u20130672"]}]},{"name":"Severo Ochoa Centres of Excellence Programme from the State Research Agency (AEI) of Spain","award":["2017\u20132021"],"award-info":[{"award-number":["2017\u20132021"]}]},{"name":"Research Technical Support Staff Aid","award":["PTA2019-017593-I\/AEI\/10.13039\/501100011033"],"award-info":[{"award-number":["PTA2019-017593-I\/AEI\/10.13039\/501100011033"]}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Foundation","doi-asserted-by":"publisher","award":["NNF14CC0001"],"award-info":[{"award-number":["NNF14CC0001"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100021373","name":"Swiss Institute of Bioinformatics","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100021373","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,1,6]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>The eggNOG (evolutionary gene genealogy Non-supervised Orthologous Groups) database is a bioinformatics resource providing orthology data and comprehensive functional information for organisms from all domains of life. Here, we present a major update of the database and website (version 6.0), which increases the number of covered organisms to 12 535 reference species, expands functional annotations, and implements new functionality. In total, eggNOG 6.0 provides a hierarchy of over 17M orthologous groups (OGs) computed at 1601 taxonomic levels, spanning 10 756 bacterial, 457 archaeal and 1322 eukaryotic organisms. OGs have been thoroughly annotated using recent knowledge from functional databases, including KEGG, Gene Ontology, UniProtKB, BiGG, CAZy, CARD, PFAM and SMART. eggNOG also offers phylogenetic trees for all OGs, maximising utility and versatility for end users while allowing researchers to investigate the evolutionary history of speciation and duplication events as well as the phylogenetic distribution of functional terms within each OG. Furthermore, the eggNOG 6.0 website contains new functionality to mine orthology and functional data with ease, including the possibility of generating phylogenetic profiles for multiple OGs across species or identifying single-copy OGs at custom taxonomic levels. eggNOG 6.0 is available at http:\/\/eggnog6.embl.de.<\/jats:p>","DOI":"10.1093\/nar\/gkac1022","type":"journal-article","created":{"date-parts":[[2022,11,18]],"date-time":"2022-11-18T18:33:35Z","timestamp":1668796415000},"page":"D389-D394","source":"Crossref","is-referenced-by-count":295,"title":["eggNOG 6.0: enabling comparative genomics across 12\u00a0535 organisms"],"prefix":"10.1093","volume":"51","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9844-7999","authenticated-orcid":false,"given":"Ana","family":"Hern\u00e1ndez-Plaza","sequence":"first","affiliation":[{"name":"Centro de Biotecnolog\u00eda y Gen\u00f3mica de Plantas, Universidad Polit\u00e9cnica de Madrid (UPM) - Instituto Nacional de Investigaci\u00f3n y Tecnolog\u00eda Agraria y Alimentaria (INIA-CSIC) , Campus de Montegancedo-UPM ,\u00a028223\u00a0 Pozuelo de Alarc\u00f3n , Madrid , Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4052-5069","authenticated-orcid":false,"given":"Damian","family":"Szklarczyk","sequence":"additional","affiliation":[{"name":"Department of Molecular Life Sciences, University of Zurich ,\u00a08057\u00a0 Zurich , Switzerland"},{"name":"SIB Swiss Institute of Bioinformatics ,\u00a01015\u00a0 Lausanne , Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7292-8981","authenticated-orcid":false,"given":"Jorge","family":"Botas","sequence":"additional","affiliation":[{"name":"Centro de Biotecnolog\u00eda y Gen\u00f3mica de Plantas, Universidad Polit\u00e9cnica de Madrid (UPM) - Instituto Nacional de Investigaci\u00f3n y Tecnolog\u00eda Agraria y Alimentaria (INIA-CSIC) , Campus de Montegancedo-UPM ,\u00a028223\u00a0 Pozuelo de Alarc\u00f3n , Madrid , Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5263-533X","authenticated-orcid":false,"given":"Carlos\u00a0P","family":"Cantalapiedra","sequence":"additional","affiliation":[{"name":"Centro de Biotecnolog\u00eda y Gen\u00f3mica de Plantas, Universidad Polit\u00e9cnica de Madrid (UPM) - Instituto Nacional de Investigaci\u00f3n y Tecnolog\u00eda Agraria y Alimentaria (INIA-CSIC) , Campus de Montegancedo-UPM ,\u00a028223\u00a0 Pozuelo de Alarc\u00f3n , Madrid , Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1553-8295","authenticated-orcid":false,"given":"Joaqu\u00edn","family":"Giner-Lamia","sequence":"additional","affiliation":[{"name":"Centro de Biotecnolog\u00eda y Gen\u00f3mica de Plantas, Universidad Polit\u00e9cnica de Madrid (UPM) - Instituto Nacional de Investigaci\u00f3n y Tecnolog\u00eda Agraria y Alimentaria (INIA-CSIC) , Campus de Montegancedo-UPM ,\u00a028223\u00a0 Pozuelo de Alarc\u00f3n , Madrid , Spain"},{"name":"Departamento de Biotecnolog\u00eda-Biolog\u00eda Vegetal, Escuela T\u00e9cnica Superior de Ingenier\u00eda Agron\u00f3mica, Alimentaria y de Biosistemas, Universidad Polit\u00e9cnica de Madrid (UPM) , Madrid \u00a028040, Spain"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6831-4557","authenticated-orcid":false,"given":"Daniel R","family":"Mende","sequence":"additional","affiliation":[{"name":"Department of Medical Microbiology, Amsterdam University Medical Centers , Amsterdam , The Netherlands"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rebecca","family":"Kirsch","sequence":"additional","affiliation":[{"name":"Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen , 2200 Copenhagen N , Denmark"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0592-7791","authenticated-orcid":false,"given":"Thomas","family":"Rattei","sequence":"additional","affiliation":[{"name":"University of Vienna, Centre for Microbiology and Environmental Systems Science , Djerassiplatz 1 1030 , Vienna , Austria"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3560-4288","authenticated-orcid":false,"given":"Ivica","family":"Letunic","sequence":"additional","affiliation":[{"name":"Biobyte solutions GmbH , Bothestr. 142 , 69117\u00a0 Heidelberg , Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7885-715X","authenticated-orcid":false,"given":"Lars\u00a0J","family":"Jensen","sequence":"additional","affiliation":[{"name":"Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen , 2200 Copenhagen N , Denmark"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2627-833X","authenticated-orcid":false,"given":"Peer","family":"Bork","sequence":"additional","affiliation":[{"name":"Structural and Computational Biology Unit, European Molecular Biology Laboratory ,\u00a069117\u00a0 Heidelberg , Germany"},{"name":"Yonsei Frontier Lab (YFL), Yonsei University , 03722 Seoul , South Korea"},{"name":"Department of Bioinformatics, Biocenter, University of W\u00fcrzburg ,\u00a097074\u00a0 W\u00fcrzburg , Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7734-9102","authenticated-orcid":false,"given":"Christian","family":"von\u00a0Mering","sequence":"additional","affiliation":[{"name":"Department of Molecular Life Sciences, University of Zurich ,\u00a08057\u00a0 Zurich , Switzerland"},{"name":"SIB Swiss Institute of Bioinformatics ,\u00a01015\u00a0 Lausanne , Switzerland"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4195-5025","authenticated-orcid":false,"given":"Jaime","family":"Huerta-Cepas","sequence":"additional","affiliation":[{"name":"Centro de Biotecnolog\u00eda y Gen\u00f3mica de Plantas, Universidad Polit\u00e9cnica de Madrid (UPM) - 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