{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,30]],"date-time":"2026-10-30T21:51:20Z","timestamp":1793397080772,"version":"4.5.0"},"reference-count":100,"publisher":"Public Library of Science (PLoS)","issue":"2","license":[{"start":{"date-parts":[[2023,2,13]],"date-time":"2023-02-13T00:00:00Z","timestamp":1676246400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\/"}],"funder":[{"DOI":"10.13039\/100010269","name":"Wellcome Trust","doi-asserted-by":"publisher","award":["WT108418AIA"],"award-info":[{"award-number":["WT108418AIA"]}],"id":[{"id":"10.13039\/100010269","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002341","name":"Academy of Finland","doi-asserted-by":"crossref","award":["331627"],"award-info":[{"award-number":["331627"]}],"id":[{"id":"10.13039\/501100002341","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100006306","name":"Sigrid Jus\u00e9liuksen S\u00e4\u00e4ti\u00f6","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100006306","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000092","name":"U.S. National Library of Medicine","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000092","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["HHSN272201800013C"],"award-info":[{"award-number":["HHSN272201800013C"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100011033","name":"Agencia Estatal de Investigaci\u00f3n","doi-asserted-by":"publisher","award":["RTI2018-095700-B-I00"],"award-info":[{"award-number":["RTI2018-095700-B-I00"]}],"id":[{"id":"10.13039\/501100011033","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100011033","name":"Agencia Estatal de Investigaci\u00f3n","doi-asserted-by":"publisher","award":["PID2019-103998GB-I00"],"award-info":[{"award-number":["PID2019-103998GB-I00"]}],"id":[{"id":"10.13039\/501100011033","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"publisher","award":["BBS\/E\/F\/000PR10353"],"award-info":[{"award-number":["BBS\/E\/F\/000PR10353"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"publisher","award":["BBS\/E\/F\/000PR10356"],"award-info":[{"award-number":["BBS\/E\/F\/000PR10356"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]},{"name":"United Kingdom Medical Research Council","award":["MC_UU_1201412"],"award-info":[{"award-number":["MC_UU_1201412"]}],"id":[{"id":"https:\/\/ror.org\/03x94j517","id-type":"ROR","asserted-by":"crossref"}]},{"DOI":"10.13039\/100012591","name":"Mississippi Agricultural and Forestry Experiment Station, Mississippi State University","doi-asserted-by":"publisher","award":["58-6066-9-033"],"award-info":[{"award-number":["58-6066-9-033"]}],"id":[{"id":"10.13039\/100012591","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100005825","name":"National Institute of Food and Agriculture","doi-asserted-by":"publisher","award":["1021494"],"award-info":[{"award-number":["1021494"]}],"id":[{"id":"10.13039\/100005825","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001602","name":"Science Foundation Ireland","doi-asserted-by":"crossref","award":["20\/FFP-P\/8664"],"award-info":[{"award-number":["20\/FFP-P\/8664"]}],"id":[{"id":"10.13039\/501100001602","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001602","name":"Science Foundation Ireland","doi-asserted-by":"crossref","award":["15\/SIRG\/3430"],"award-info":[{"award-number":["15\/SIRG\/3430"]}],"id":[{"id":"10.13039\/501100001602","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["U01 AI151807"],"award-info":[{"award-number":["U01 AI151807"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"crossref","award":["R24 AI120942"],"award-info":[{"award-number":["R24 AI120942"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]},{"name":"FINStruct and Instruct-ERIC research infrastructure"},{"DOI":"10.13039\/501100002428","name":"Austrian Science Fund","doi-asserted-by":"publisher","award":["P 28183"],"award-info":[{"award-number":["P 28183"]}],"id":[{"id":"10.13039\/501100002428","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100006132","name":"Office of Science","doi-asserted-by":"publisher","award":["DE-AC02-05CH11231"],"award-info":[{"award-number":["DE-AC02-05CH11231"]}],"id":[{"id":"10.13039\/100006132","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"National Science Foundation","doi-asserted-by":"publisher","award":["DEB 1453241, OIA 1545553"],"award-info":[{"award-number":["DEB 1453241, OIA 1545553"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100019180","name":"HORIZON EUROPE European Research Council","doi-asserted-by":"publisher","award":["865694"],"award-info":[{"award-number":["865694"]}],"id":[{"id":"10.13039\/100019180","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","award":["390713860"],"award-info":[{"award-number":["390713860"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100005156","name":"Alexander von Humboldt Foundation","doi-asserted-by":"crossref","award":["Alexander von Humboldt-Professorship"],"award-info":[{"award-number":["Alexander von Humboldt-Professorship"]}],"id":[{"id":"10.13039\/100005156","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100019180","name":"HORIZON EUROPE European Research Council","doi-asserted-by":"publisher","award":["101001623"],"award-info":[{"award-number":["101001623"]}],"id":[{"id":"10.13039\/100019180","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","award":["Sonderforschungsbereich TRR 51"],"award-info":[{"award-number":["Sonderforschungsbereich TRR 51"]}],"id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","award":["U24AI162625"],"award-info":[{"award-number":["U24AI162625"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"name":"KU Leuven Research Council","award":["PDMt2\/21\/038"],"award-info":[{"award-number":["PDMt2\/21\/038"]}],"id":[{"id":"https:\/\/ror.org\/05f950310","id-type":"ROR","asserted-by":"crossref"}]},{"name":"Research Foundation \u2013 Flanders","award":["12D8623N"],"award-info":[{"award-number":["12D8623N"]}],"id":[{"id":"https:\/\/ror.org\/03qtxy027","id-type":"ROR","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000001","name":"US National Science Foundation","doi-asserted-by":"crossref","award":["OCE#1829831 and ABI#1759874"],"award-info":[{"award-number":["OCE#1829831 and ABI#1759874"]}],"id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Professional Association of the Alliance of International Science Organizations","award":["ANSO-PA-2020-07"],"award-info":[{"award-number":["ANSO-PA-2020-07"]}],"id":[{"id":"https:\/\/ror.org\/01c6a8q83","id-type":"ROR","asserted-by":"crossref"}]},{"name":"Open Biodiversity and Health Big Data Programme of IUBS"}],"content-domain":{"domain":["www.plosbiology.org"],"crossmark-restriction":false},"short-container-title":["PLoS Biol"],"abstract":"<jats:p>A universal taxonomy of viruses is essential for a comprehensive view of the virus world and for communicating the complicated evolutionary relationships among viruses. However, there are major differences in the conceptualisation and approaches to virus classification and nomenclature among virologists, clinicians, agronomists, and other interested parties. Here, we provide recommendations to guide the construction of a coherent and comprehensive virus taxonomy, based on expert scientific consensus. Firstly, assignments of viruses should be congruent with the best attainable reconstruction of their evolutionary histories, i.e., taxa should be monophyletic. This fundamental principle for classification of viruses is currently included in the International Committee on Taxonomy of Viruses (ICTV) code only for the rank of species. Secondly, phenotypic and ecological properties of viruses may inform, but not override, evolutionary relatedness in the placement of ranks. Thirdly, alternative classifications that consider phenotypic attributes, such as being vector-borne (e.g., \u201carboviruses\u201d), infecting a certain type of host (e.g., \u201cmycoviruses,\u201d \u201cbacteriophages\u201d) or displaying specific pathogenicity (e.g., \u201chuman immunodeficiency viruses\u201d), may serve important clinical and regulatory purposes but often create polyphyletic categories that do not reflect evolutionary relationships. Nevertheless, such classifications ought to be maintained if they serve the needs of specific communities or play a practical clinical or regulatory role. However, they should not be considered or called taxonomies. Finally, while an evolution-based framework enables viruses discovered by metagenomics to be incorporated into the ICTV taxonomy, there are essential requirements for quality control of the sequence data used for these assignments. Combined, these four principles will enable future development and expansion of virus taxonomy as the true evolutionary diversity of viruses becomes apparent.<\/jats:p>","DOI":"10.1371\/journal.pbio.3001922","type":"journal-article","created":{"date-parts":[[2023,2,13]],"date-time":"2023-02-13T14:23:40Z","timestamp":1676298220000},"page":"e3001922","update-policy":"https:\/\/doi.org\/10.1371\/journal.pbio.corrections_policy","source":"Crossref","is-referenced-by-count":154,"title":["Four principles to establish a universal virus taxonomy"],"prefix":"10.1371","volume":"21","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7964-4700","authenticated-orcid":true,"given":"Peter","family":"Simmonds","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Evelien M.","family":"Adriaenssens","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"F. Murilo","family":"Zerbini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicola G. A.","family":"Abrescia","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pakorn","family":"Aiewsakun","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Poliane","family":"Alfenas-Zerbini","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yiming","family":"Bao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jakub","family":"Barylski","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christian","family":"Drosten","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Siobain","family":"Duffy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"W. Paul","family":"Duprex","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bas E.","family":"Dutilh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Santiago F.","family":"Elena","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria Laura","family":"Garc\u00eda","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sandra","family":"Junglen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Aris","family":"Katzourakis","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eugene V.","family":"Koonin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mart","family":"Krupovic","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jens H.","family":"Kuhn","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Amy J.","family":"Lambert","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elliot J.","family":"Lefkowitz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ma\u0142gorzata","family":"\u0141obocka","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"C\u00e9dric","family":"Lood","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jennifer","family":"Mahony","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jan P.","family":"Meier-Kolthoff","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Arcady R.","family":"Mushegian","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hanna M.","family":"Oksanen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Minna M.","family":"Poranen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alejandro","family":"Reyes-Mu\u00f1oz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David L.","family":"Robertson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Simon","family":"Roux","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Luisa","family":"Rubino","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sead","family":"Sabanadzovic","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stuart","family":"Siddell","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tim","family":"Skern","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Donald B.","family":"Smith","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matthew B.","family":"Sullivan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nobuhiro","family":"Suzuki","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dann","family":"Turner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Koenraad","family":"Van Doorslaer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne-Mieke","family":"Vandamme","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Arvind","family":"Varsani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nikos","family":"Vasilakis","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2023,2,13]]},"reference":[{"key":"pbio.3001922.ref001","first-page":"145","article-title":"Classifying viruses at higher levels: Symmetry and structure of virus particles as criteria","volume":"XII","author":"P. Wildy","year":"1961","journal-title":"Symp Soc Gen Microbiol"},{"key":"pbio.3001922.ref002","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1038\/190302a0","article-title":"A chemical basis for the classification of animal viruses","volume":"190","author":"PD Cooper","year":"1961","journal-title":"Nature"},{"key":"pbio.3001922.ref003","doi-asserted-by":"crossref","first-page":"1040","DOI":"10.3181\/00379727-112-28247","article-title":"Contributions to characterization and classification of animal viruses","volume":"112","author":"VV Hamparian","year":"1963","journal-title":"Proc Soc Exp Biol Med"},{"key":"pbio.3001922.ref004","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1146\/annurev.mi.20.100166.000401","article-title":"The classification of viruses","volume":"20","author":"A Lwoff","year":"1966","journal-title":"Annu Rev Microbiol"},{"key":"pbio.3001922.ref005","doi-asserted-by":"crossref","first-page":"100991","DOI":"10.1016\/j.nmni.2022.100991","article-title":"It is time for a new type of type to facilitate naming the microbial world.","volume":"47","author":"M Palmer","year":"2022","journal-title":"New Microbes New Infect."},{"key":"pbio.3001922.ref006","doi-asserted-by":"crossref","first-page":"2399","DOI":"10.1038\/ismej.2017.113","article-title":"Uncultivated microbes in need of their own taxonomy.","volume":"11","author":"KT Konstantinidis","year":"2017","journal-title":"ISME J"},{"key":"pbio.3001922.ref007","doi-asserted-by":"crossref","first-page":"e3000106","DOI":"10.1371\/journal.pbio.3000106","article-title":"A census-based estimate of Earth\u2019s bacterial and archaeal diversity","volume":"17","author":"S Louca","year":"2019","journal-title":"PLoS Biol"},{"key":"pbio.3001922.ref008","doi-asserted-by":"crossref","first-page":"226","DOI":"10.3390\/jof8030226","article-title":"Current insight into traditional and modern methods in fungal diversity estimates.","volume":"8","author":"AK Gautam","year":"2022","journal-title":"J Fungi"},{"key":"pbio.3001922.ref009","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1038\/nrmicro.2016.177","article-title":"Consensus statement: Virus taxonomy in the age of metagenomics","volume":"15","author":"P Simmonds","year":"2017","journal-title":"Nat Rev Microbiol"},{"key":"pbio.3001922.ref010","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1038\/nbt.4306","article-title":"Minimum Information about an Uncultivated Virus Genome (MIUViG).","volume":"37","author":"S Roux","year":"2019","journal-title":"Nat Biotechnol"},{"key":"pbio.3001922.ref011","doi-asserted-by":"crossref","first-page":"207","DOI":"10.1016\/j.coviro.2021.10.011","article-title":"Perspective on taxonomic classification of uncultivated viruses.","volume":"51","author":"BE Dutilh","year":"2021","journal-title":"Curr Opin Virol"},{"key":"pbio.3001922.ref012","doi-asserted-by":"crossref","first-page":"539","DOI":"10.1038\/nature20167","article-title":"Redefining the invertebrate RNA virosphere","volume":"540","author":"M Shi","year":"2016","journal-title":"Nature"},{"key":"pbio.3001922.ref013","doi-asserted-by":"crossref","first-page":"1262","DOI":"10.1038\/s41564-020-0755-4","article-title":"Doubling of the known set of RNA viruses by metagenomic analysis of an aquatic virome","volume":"5","author":"YI Wolf","year":"2020","journal-title":"Nat Microbiol"},{"key":"pbio.3001922.ref014","doi-asserted-by":"crossref","first-page":"1261498","DOI":"10.1126\/science.1261498","article-title":"Ocean plankton. Patterns and ecological drivers of ocean viral communities","volume":"348","author":"JR Brum","year":"2015","journal-title":"Science"},{"key":"pbio.3001922.ref015","doi-asserted-by":"crossref","first-page":"e00061","DOI":"10.1128\/MMBR.00061-19","article-title":"Global organization and proposed megataxonomy of the virus world","volume":"84","author":"EV Koonin","year":"2020","journal-title":"Microbiol Mol Biol Rev"},{"key":"pbio.3001922.ref016","doi-asserted-by":"crossref","first-page":"359","DOI":"10.1146\/annurev-genet-110711-155600","article-title":"Plant virus metagenomics: Biodiversity and ecology","volume":"46","author":"MJ Roossinck","year":"2012","journal-title":"Annu Rev Genet"},{"key":"pbio.3001922.ref017","doi-asserted-by":"crossref","first-page":"e05378","DOI":"10.7554\/eLife.05378","article-title":"Unprecedented genomic diversity of RNA viruses in arthropods reveals the ancestry of negative-sense RNA viruses","volume":"4","author":"CX Li","year":"2015","journal-title":"elife"},{"key":"pbio.3001922.ref018","doi-asserted-by":"crossref","first-page":"e1008224","DOI":"10.1371\/journal.ppat.1008224","article-title":"Re-assessing the diversity of negative strand RNA viruses in insects","volume":"15","author":"S K\u00e4fer","year":"2019","journal-title":"PLoS Pathog"},{"key":"pbio.3001922.ref019","doi-asserted-by":"crossref","first-page":"661","DOI":"10.1038\/s41579-020-0408-x","article-title":"The LUCA and its complex virome","volume":"18","author":"M Krupovic","year":"2020","journal-title":"Nat Rev Microbiol"},{"key":"pbio.3001922.ref020","doi-asserted-by":"crossref","first-page":"959","DOI":"10.1016\/j.tim.2020.08.003","article-title":"Investigating the concept and origin of viruses","volume":"28","author":"A Nasir","year":"2020","journal-title":"Trends Microbiol"},{"key":"pbio.3001922.ref021","doi-asserted-by":"crossref","first-page":"2263","DOI":"10.1098\/rstb.2009.0036","article-title":"The not so universal Tree of Life or the place of viruses in the living world","volume":"364","author":"H. Brussow","year":"2009","journal-title":"Philos Trans R Soc Lond Ser B Biol Sci"},{"key":"pbio.3001922.ref022","doi-asserted-by":"crossref","first-page":"449","DOI":"10.1038\/s41579-019-0205-6","article-title":"Origin of viruses: primordial replicators recruiting capsids from hosts","volume":"17","author":"M Krupovic","year":"2019","journal-title":"Nat Rev Microbiol"},{"key":"pbio.3001922.ref023","doi-asserted-by":"crossref","first-page":"6854","DOI":"10.1073\/pnas.95.12.6854","article-title":"The universal ancestor","volume":"95","author":"C. Woese","year":"1998","journal-title":"Proc Natl Acad Sci U S A"},{"key":"pbio.3001922.ref024","doi-asserted-by":"crossref","first-page":"318","DOI":"10.1038\/d41586-019-00599-8","article-title":"Classify viruses\u2014the gain is worth the pain","volume":"566","author":"JH Kuhn","year":"2019","journal-title":"Nature"},{"key":"pbio.3001922.ref025","doi-asserted-by":"crossref","first-page":"12476","DOI":"10.1128\/JVI.01489-10","article-title":"Order to the viral universe","volume":"84","author":"M Krupovic","year":"2010","journal-title":"J Virol"},{"key":"pbio.3001922.ref026","doi-asserted-by":"crossref","first-page":"e0067321","DOI":"10.1128\/JVI.00673-21","article-title":"Adnaviria: a new realm for archaeal filamentous viruses with linear A-form double-stranded DNA genomes","volume":"95","author":"M Krupovic","year":"2021","journal-title":"J Virol"},{"key":"pbio.3001922.ref027","doi-asserted-by":"crossref","first-page":"4551","DOI":"10.1093\/nar\/gkw322","article-title":"The logic of DNA replication in double-stranded DNA viruses: insights from global analysis of viral genomes","volume":"44","author":"D Kazlauskas","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"pbio.3001922.ref028","doi-asserted-by":"crossref","first-page":"E2401","DOI":"10.1073\/pnas.1621061114","article-title":"Multiple origins of viral capsid proteins from cellular ancestors","volume":"114","author":"M Krupovic","year":"2017","journal-title":"Proc Natl Acad Sci U S A"},{"key":"pbio.3001922.ref029","doi-asserted-by":"crossref","first-page":"3425","DOI":"10.1038\/s41467-019-11433-0","article-title":"Multiple origins of prokaryotic and eukaryotic single-stranded DNA viruses from bacterial and archaeal plasmids","volume":"10","author":"D Kazlauskas","year":"2019","journal-title":"Nat Commun"},{"key":"pbio.3001922.ref030","doi-asserted-by":"crossref","first-page":"699","DOI":"10.1099\/jgv.0.001436","article-title":"ICTV Virus Taxonomy Profile: Alphaflexiviridae","volume":"101","author":"JF Kreuze","year":"2020","journal-title":"J Gen Virol"},{"key":"pbio.3001922.ref031","doi-asserted-by":"crossref","first-page":"2700","DOI":"10.1038\/ncomms3700","article-title":"Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses","volume":"4","author":"S Roux","year":"2013","journal-title":"Nat Commun"},{"key":"pbio.3001922.ref032","doi-asserted-by":"crossref","first-page":"e01410","DOI":"10.1128\/mBio.01410-20","article-title":"Unveiling crucivirus diversity by mining metagenomic data.","volume":"11","author":"I de la Higuera","year":"2020","journal-title":"MBio"},{"key":"pbio.3001922.ref033","doi-asserted-by":"crossref","first-page":"114","DOI":"10.1016\/j.virol.2017.02.001","article-title":"Evolutionary history of ssDNA bacilladnaviruses features horizontal acquisition of the capsid gene from ssRNA nodaviruses","volume":"504","author":"D Kazlauskas","year":"2017","journal-title":"Virology"},{"key":"pbio.3001922.ref034","doi-asserted-by":"crossref","first-page":"17112","DOI":"10.1038\/nmicrobiol.2017.112","article-title":"Bacteriophage evolution differs by host, lifestyle and genome.","volume":"2","author":"TN Mavrich","year":"2017","journal-title":"Nat Microbiol."},{"key":"pbio.3001922.ref035","doi-asserted-by":"crossref","first-page":"e01870","DOI":"10.1128\/mBio.01870-17","article-title":"Gene co-occurrence networks reflect bacteriophage ecology and evolution","volume":"9","author":"JW Shapiro","year":"2018","journal-title":"MBio"},{"key":"pbio.3001922.ref036","doi-asserted-by":"crossref","first-page":"2124","DOI":"10.1126\/science.284.5423.2124","article-title":"Phylogenetic classification and the universal tree","volume":"284","author":"WF Doolittle","year":"1999","journal-title":"Science"},{"key":"pbio.3001922.ref037","doi-asserted-by":"crossref","first-page":"3293","DOI":"10.1007\/s00705-014-2197-x","article-title":"Improvements to pairwise sequence comparison (PASC): A genome-based web tool for virus classification.","volume":"159","author":"Y Bao","year":"2014","journal-title":"Arch Virol"},{"key":"pbio.3001922.ref038","doi-asserted-by":"crossref","first-page":"3905","DOI":"10.1128\/JVI.07174-11","article-title":"Toward genetics-based virus taxonomy: comparative analysis of a genetics-based classification and the taxonomy of picornaviruses.","volume":"86","author":"C Lauber","year":"2012","journal-title":"J Virol"},{"key":"pbio.3001922.ref039","doi-asserted-by":"crossref","first-page":"1268","DOI":"10.3390\/v12111268","article-title":"VIRIDIC\u2014A novel tool to calculate the intergenomic similarities of prokaryote-infecting viruses.","volume":"12","author":"C Moraru","year":"2020","journal-title":"Viruses."},{"key":"pbio.3001922.ref040","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1101\/gr.8.3.163","article-title":"Phylogenomics: improving functional predictions for uncharacterized genes by evolutionary analysis","volume":"8","author":"JA Eisen","year":"1998","journal-title":"Genome Res"},{"key":"pbio.3001922.ref041","first-page":"451","article-title":"Heterogeneous molecular processes among the causes of how sequence similarity scores can fail to recapitulate phylogeny","volume":"18","author":"SA Smith","year":"2017","journal-title":"Brief Bioinform"},{"key":"pbio.3001922.ref042","doi-asserted-by":"crossref","first-page":"3396","DOI":"10.1093\/bioinformatics\/btx440","article-title":"VICTOR: genome-based phylogeny and classification of prokaryotic viruses","volume":"33","author":"JP Meier-Kolthoff","year":"2017","journal-title":"Bioinformatics"},{"key":"pbio.3001922.ref043","doi-asserted-by":"crossref","first-page":"W244","DOI":"10.1093\/nar\/gki408","article-title":"The HHpred interactive server for protein homology detection and structure prediction","volume":"33","author":"J S\u00f6ding","year":"2005","journal-title":"Nucleic Acids Res"},{"key":"pbio.3001922.ref044","doi-asserted-by":"crossref","first-page":"e3243","DOI":"10.7717\/peerj.3243","article-title":"vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria","volume":"5","author":"B Bolduc","year":"2017","journal-title":"PeerJ"},{"key":"pbio.3001922.ref045","doi-asserted-by":"crossref","first-page":"632","DOI":"10.1038\/s41587-019-0100-8","article-title":"Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks","volume":"37","author":"H Bin Jang","year":"2019","journal-title":"Nat Biotechnol"},{"key":"pbio.3001922.ref046","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1186\/s40168-018-0422-7","article-title":"The genomic underpinnings of eukaryotic virus taxonomy: creating a sequence-based framework for family-level virus classification.","volume":"6","author":"P Aiewsakun","year":"2018","journal-title":"Microbiome."},{"key":"pbio.3001922.ref047","doi-asserted-by":"crossref","first-page":"e3001442","DOI":"10.1371\/journal.pbio.3001442","article-title":"Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes","volume":"19","author":"Y Liu","year":"2021","journal-title":"PLoS Biol"},{"key":"pbio.3001922.ref048","first-page":"110","article-title":"Analysis of spounaviruses as a case study for the overdue reclassification of tailed phages","author":"J Barylski","year":"2019","journal-title":"Syst Biol"},{"key":"pbio.3001922.ref049","doi-asserted-by":"crossref","first-page":"2379","DOI":"10.1093\/bioinformatics\/btx157","article-title":"ViPTree: the viral proteomic tree server","volume":"33","author":"Y Nishimura","year":"2017","journal-title":"Bioinformatics"},{"key":"pbio.3001922.ref050","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.jsb.2013.05.007","article-title":"Automatic comparison and classification of protein structures","volume":"183","author":"J Ravantti","year":"2013","journal-title":"J Struct Biol"},{"key":"pbio.3001922.ref051","doi-asserted-by":"crossref","first-page":"3133","DOI":"10.1021\/acs.biochem.5b00114","article-title":"Cryo-electron microscopy and the amazing race to atomic resolution","volume":"54","author":"E Binshtein","year":"2015","journal-title":"Biochemistry"},{"key":"pbio.3001922.ref052","doi-asserted-by":"crossref","first-page":"1184","DOI":"10.1038\/s41467-019-08927-2","article-title":"Structural basis for assembly of vertical single \u03b2-barrel viruses.","volume":"10","author":"I Santos-P\u00e9rez","year":"2019","journal-title":"Nat Commun"},{"key":"pbio.3001922.ref053","doi-asserted-by":"crossref","first-page":"706","DOI":"10.1038\/s41586-019-1923-7","article-title":"Improved protein structure prediction using potentials from deep learning","volume":"577","author":"AW Senior","year":"2020","journal-title":"Nature"},{"key":"pbio.3001922.ref054","doi-asserted-by":"crossref","first-page":"871","DOI":"10.1126\/science.abj8754","article-title":"Accurate prediction of protein structures and interactions using a three-track neural network","volume":"373","author":"M Baek","year":"2021","journal-title":"Science"},{"key":"pbio.3001922.ref055","doi-asserted-by":"crossref","first-page":"104883","DOI":"10.1016\/j.compbiomed.2021.104883","article-title":"Testing machine learning techniques for general application by using protein secondary structure prediction. A brief survey with studies of pitfalls and benefits using a simple progressive learning approach","volume":"138","author":"B. Robson","year":"2021","journal-title":"Comput Biol Med"},{"key":"pbio.3001922.ref056","doi-asserted-by":"crossref","first-page":"e00289","DOI":"10.1128\/mBio.00289-19","article-title":"Can sequence phylogenies safely infer the origin of the global virome?","volume":"10","author":"EC Holmes","year":"2019","journal-title":"mBio"},{"key":"pbio.3001922.ref057","unstructured":"Edgar RC. MUSCLE v5 enables improved estimates of phylogenetic tree confidence by ensemble bootstrapping. bioRxiv. 2021:2021.06.20.449169."},{"key":"pbio.3001922.ref058","doi-asserted-by":"crossref","first-page":"313","DOI":"10.3390\/v13020313","article-title":"Structure unveils relationships between RNA virus polymerases","volume":"13","author":"HAM M\u00f6nttinen","year":"2021","journal-title":"Viruses"},{"key":"pbio.3001922.ref059","first-page":"e02329","article-title":"Origins and evolution of the global RNA virome","volume":"9","author":"YI Wolf","year":"2018","journal-title":"MBio"},{"key":"pbio.3001922.ref060","doi-asserted-by":"crossref","first-page":"e01402","DOI":"10.1128\/mBio.01402-19","article-title":"New phylogenetic grouping of positive-sense RNA viruses is concordant with replication complex morphology","volume":"10","author":"T. Ahola","year":"2019","journal-title":"MBio"},{"key":"pbio.3001922.ref061","doi-asserted-by":"crossref","first-page":"795","DOI":"10.1146\/annurev-biochem-060910-095130","article-title":"Structure unifies the viral universe","volume":"81","author":"NG Abrescia","year":"2012","journal-title":"Annu Rev Biochem"},{"key":"pbio.3001922.ref062","doi-asserted-by":"crossref","first-page":"1146","DOI":"10.3390\/v12101146","article-title":"Superimposition of viral protein structures: A means to decipher the phylogenies of viruses.","volume":"12","author":"JJ Ravantti","year":"2020","journal-title":"Viruses"},{"key":"pbio.3001922.ref063","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1038\/nrmicro2033","article-title":"Virus evolution: how far does the double beta-barrel viral lineage extend?","volume":"6","author":"M Krupovic","year":"2008","journal-title":"Nat Rev Microbiol"},{"key":"pbio.3001922.ref064","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1186\/s12985-018-0974-y","article-title":"Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis.","volume":"15","author":"N Yutin","year":"2018","journal-title":"Virol J"},{"key":"pbio.3001922.ref065","doi-asserted-by":"crossref","first-page":"e02275","DOI":"10.1128\/JVI.02275-16","article-title":"Nucleic and amino acid sequences support structure-based viral classification","volume":"91","author":"RM Sinclair","year":"2017","journal-title":"J Virol"},{"key":"pbio.3001922.ref066","doi-asserted-by":"crossref","first-page":"vex027","DOI":"10.1093\/ve\/vex027","article-title":"Unique genome organization of non-mammalian papillomaviruses provides insights into the evolution of viral early proteins","volume":"3","author":"K Van Doorslaer","year":"2017","journal-title":"Virus Evol"},{"key":"pbio.3001922.ref067","doi-asserted-by":"crossref","first-page":"655","DOI":"10.1016\/j.sbi.2005.10.012","article-title":"What does structure tell us about virus evolution","volume":"15","author":"DH Bamford","year":"2005","journal-title":"Curr Opin Struct Biol"},{"key":"pbio.3001922.ref068","first-page":"259","article-title":"Molecular variation, evolution and geographical distribution of louping ill virus","volume":"41","author":"GF Gao","year":"1997","journal-title":"Acta Virol"},{"key":"pbio.3001922.ref069","doi-asserted-by":"crossref","first-page":"194","DOI":"10.1089\/phage.2021.0008","article-title":"From trees to clouds: PhageClouds for fast comparison of \u223c640,000 phage genomic sequences and host-centric visualization using genomic network graphs.","volume":"2","author":"G Rangel-Pineros","year":"2021","journal-title":"Phage."},{"key":"pbio.3001922.ref070","doi-asserted-by":"crossref","first-page":"e108277","DOI":"10.1371\/journal.pone.0108277","article-title":"SDT: a virus classification tool based on pairwise sequence alignment and identity calculation.","volume":"9","author":"BM Muhire","year":"2014","journal-title":"PLoS ONE"},{"key":"pbio.3001922.ref071","doi-asserted-by":"crossref","unstructured":"Moraru C. VirClust\u2013a tool for hierarchical clustering, core gene detection and annotation of (prokaryotic) viruses. bioRxiv. 2021:2021.06.14.448304.","DOI":"10.1101\/2021.06.14.448304"},{"key":"pbio.3001922.ref072","doi-asserted-by":"crossref","first-page":"1306","DOI":"10.1038\/s41564-019-0448-z","article-title":"Evaluation of a concatenated protein phylogeny for classification of tailed double-stranded DNA viruses belonging to the order Caudovirales","volume":"4","author":"SJ Low","year":"2019","journal-title":"Nat Microbiol"},{"key":"pbio.3001922.ref073","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1016\/j.coviro.2021.11.003","article-title":"Bioinformatics of virus taxonomy: foundations and tools for developing sequence-based hierarchical classification","volume":"52","author":"AE Gorbalenya","year":"2022","journal-title":"Curr Opin Virol"},{"key":"pbio.3001922.ref074","doi-asserted-by":"crossref","first-page":"156","DOI":"10.1126\/science.abm5847","article-title":"Cryptic and abundant marine viruses at the evolutionary origins of Earth\u2019s RNA virome","volume":"376","author":"AA Zayed","year":"2022","journal-title":"Science"},{"key":"pbio.3001922.ref075","doi-asserted-by":"crossref","first-page":"e2120620119","DOI":"10.1073\/pnas.2120620119","article-title":"Cellular homologs of the double jelly-roll major capsid proteins clarify the origins of an ancient virus kingdom","volume":"119","author":"M Krupovic","year":"2022","journal-title":"Proc Natl Acad Sci U S A"},{"key":"pbio.3001922.ref076","doi-asserted-by":"crossref","first-page":"127","DOI":"10.1016\/bs.aivir.2020.09.004","article-title":"Structure and assembly of archaeal viruses","volume":"108","author":"DP Baquero","year":"2020","journal-title":"Adv Virus Res"},{"key":"pbio.3001922.ref077","article-title":"The global virome: How much diversity and how many independent origins?","author":"EV Koonin","year":"2022","journal-title":"Environ Microbiol"},{"key":"pbio.3001922.ref078","doi-asserted-by":"crossref","first-page":"2933","DOI":"10.1007\/s00705-018-3915-6","article-title":"Increasing the number of available ranks in virus taxonomy from five to ten and adopting the Baltimore classes as taxa at the basal rank","volume":"163","author":"AE Gorbalenya","year":"2018","journal-title":"Arch Virol"},{"key":"pbio.3001922.ref079","doi-asserted-by":"crossref","first-page":"2","DOI":"10.1099\/jgv.0.000672","article-title":"ICTV Virus Taxonomy Profile: Flaviviridae","volume":"98","author":"P Simmonds","year":"2017","journal-title":"J Gen Virol"},{"key":"pbio.3001922.ref080","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1099\/jgv.0.001365","article-title":"ICTV Virus Taxonomy Profile: Peribunyaviridae","volume":"101","author":"HR Hughes","year":"2020","journal-title":"J Gen Virol"},{"key":"pbio.3001922.ref081","doi-asserted-by":"crossref","first-page":"11","DOI":"10.4269\/ajtmh.18-0038","article-title":"Bunyavirus taxonomy: Limitations and misconceptions associated with the current ICTV criteria used for species demarcation.","volume":"99","author":"BJ Blitvich","year":"2018","journal-title":"Am J Trop Med Hyg"},{"key":"pbio.3001922.ref082","doi-asserted-by":"crossref","first-page":"3337","DOI":"10.1093\/bioinformatics\/btab338","article-title":"Alignment free sequence comparison methods and reservoir host prediction","volume":"37","author":"B Lee","year":"2021","journal-title":"Bioinformatics"},{"key":"pbio.3001922.ref083","doi-asserted-by":"crossref","first-page":"577","DOI":"10.1126\/science.aap9072","article-title":"Predicting reservoir hosts and arthropod vectors from evolutionary signatures in RNA virus genomes","volume":"362","author":"SA Babayan","year":"2018","journal-title":"Science"},{"key":"pbio.3001922.ref084","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1186\/s13059-019-1755-7","article-title":"Benchmarking of alignment-free sequence comparison methods","volume":"20","author":"A Zielezinski","year":"2019","journal-title":"Genome Biol"},{"key":"pbio.3001922.ref085","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1186\/s12915-020-00938-6","article-title":"Prokaryotic virus host predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics.","volume":"19","author":"C Lu","year":"2021","journal-title":"BMC Biol"},{"key":"pbio.3001922.ref086","doi-asserted-by":"crossref","first-page":"e1009428","DOI":"10.1371\/journal.pcbi.1009428","article-title":"Comprehensive discovery of CRISPR-targeted terminally redundant sequences in the human gut metagenome: Viruses, plasmids, and more.","volume":"17","author":"R Sugimoto","year":"2021","journal-title":"PLoS Comput Biol"},{"key":"pbio.3001922.ref087","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1016\/j.coviro.2021.05.003","article-title":"Global overview and major challenges of host prediction methods for uncultivated phages.","volume":"49","author":"C Coclet","year":"2021","journal-title":"Curr Opin Virol"},{"key":"pbio.3001922.ref088","doi-asserted-by":"crossref","first-page":"258","DOI":"10.1093\/femsre\/fuv048","article-title":"Computational approaches to predict bacteriophage-host relationships","volume":"40","author":"RA Edwards","year":"2016","journal-title":"FEMS Microbiol Rev"},{"key":"pbio.3001922.ref089","doi-asserted-by":"crossref","first-page":"387","DOI":"10.1016\/j.chom.2017.07.019","article-title":"Deciphering the origin and evolution of hepatitis B viruses by means of a family of non-enveloped fish viruses","volume":"22","author":"C Lauber","year":"2017","journal-title":"Cell Host Microbe"},{"issue":"12","key":"pbio.3001922.ref090","doi-asserted-by":"crossref","first-page":"001712","DOI":"10.1099\/jgv.0.001712","article-title":"ICTV Virus Taxonomy Profile: Retroviridae 2021","volume":"102","author":"J Coffin","year":"2021","journal-title":"J Gen Virol"},{"key":"pbio.3001922.ref091","doi-asserted-by":"crossref","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets","volume":"33","author":"S Kumar","year":"2016","journal-title":"Mol Biol Evol"},{"key":"pbio.3001922.ref092","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1038\/s41564-020-0695-z","article-title":"The species Severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2.","volume":"5","author":"AE Gorbalenya","year":"2020","journal-title":"Nat Microbiol."},{"key":"pbio.3001922.ref093","doi-asserted-by":"crossref","first-page":"107411","DOI":"10.1016\/j.ympev.2022.107411","article-title":"Delimitation of the tick-borne flaviviruses. Resolving the tick-borne encephalitis virus and louping-ill virus paraphyletic taxa","volume":"169","author":"AN Bondaryuk","year":"2022","journal-title":"Mol Phylogenet Evol"},{"key":"pbio.3001922.ref094","doi-asserted-by":"crossref","first-page":"8973","DOI":"10.1128\/JVI.77.16.8973-8984.2003","article-title":"Complete genomic sequencing shows that polioviruses and members of human enterovirus species C are closely related in the noncapsid coding region","volume":"77","author":"B Brown","year":"2003","journal-title":"J Virol"},{"key":"pbio.3001922.ref095","first-page":"1624","volume-title":"Harrison\u2019s Principles of Internal Medicine.","author":"JH Kuhn","year":"2022"},{"key":"pbio.3001922.ref096","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1128\/br.35.3.235-241.1971","article-title":"Expression of animal virus genomes","volume":"35","author":"D. Baltimore","year":"1971","journal-title":"Bacteriol Rev"},{"key":"pbio.3001922.ref097","doi-asserted-by":"crossref","first-page":"e0005321","DOI":"10.1128\/MMBR.00053-21","article-title":"The Baltimore classification of viruses 50 years later: How Does it stand in the light of virus evolution?","volume":"85","author":"EV Koonin","year":"2021","journal-title":"Microbiol Mol Biol Rev"},{"key":"pbio.3001922.ref098","doi-asserted-by":"crossref","first-page":"352","DOI":"10.1099\/jgv.0.000740","article-title":"ICTV Virus Taxonomy Profile: Potyviridae","volume":"98","author":"SJ Wylie","year":"2017","journal-title":"J Gen Virol"},{"key":"pbio.3001922.ref099","doi-asserted-by":"crossref","first-page":"1231","DOI":"10.1007\/s00705-021-05323-4","article-title":"Differentiating between viruses and virus species by writing their names correctly","volume":"167","author":"FM Zerbini","year":"2022","journal-title":"Arch Virol"},{"key":"pbio.3001922.ref100","doi-asserted-by":"crossref","first-page":"e01360","DOI":"10.1128\/mBio.01360-14","article-title":"Standards for sequencing viral genomes in the era of high-throughput sequencing.","volume":"5","author":"JT Ladner","year":"2014","journal-title":"MBio."}],"container-title":["PLOS Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pbio.3001922","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,13]],"date-time":"2023-02-13T14:24:58Z","timestamp":1676298298000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pbio.3001922"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,2,13]]},"references-count":100,"journal-issue":{"issue":"2","published-online":{"date-parts":[[2023,2,13]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pbio.3001922","relation":{},"ISSN":["1545-7885"],"issn-type":[{"value":"1545-7885","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,2,13]]}}}