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dc.contributor.authorMarakeby, Haithamen_US
dc.contributor.authorBadr, Emanen_US
dc.contributor.authorTorkey, Hanaaen_US
dc.contributor.authorSong, Yuhyunen_US
dc.contributor.authorLeman, Scotland C.en_US
dc.contributor.authorMonteil, Caroline L.en_US
dc.contributor.authorHeath, Lenwood S.en_US
dc.contributor.authorVinatzer, Boris A.en_US
dc.date.accessioned2016-09-15T02:10:56Z
dc.date.available2016-09-15T02:10:56Z
dc.date.issued2014-02-21en_US
dc.identifier.issn1932-6203en_US
dc.identifier.urihttp://hdl.handle.net/10919/72945
dc.description.abstractA broadly accepted and stable biological classification system is a prerequisite for biological sciences. It provides the means to describe and communicate about life without ambiguity. Current biological classification and nomenclature use the species as the basic unit and require lengthy and laborious species descriptions before newly discovered organisms can be assigned to a species and be named. The current system is thus inadequate to classify and name the immense genetic diversity within species that is now being revealed by genome sequencing on a daily basis. To address this lack of a general intra-species classification and naming system adequate for today’s speed of discovery of new diversity, we propose a classification and naming system that is exclusively based on genome similarity and that is suitable for automatic assignment of codes to any genome-sequenced organism without requiring any phenotypic or phylogenetic analysis. We provide examples demonstrating that genome similarity-based codes largely align with current taxonomic groups at many different levels in bacteria, animals, humans, plants, and viruses. Importantly, the proposed approach is only slightly affected by the order of code assignment and can thus provide codes that reflect similarity between organisms and that do not need to be revised upon discovery of new diversity. We envision genome similarity-based codes to complement current biological nomenclature and to provide a universal means to communicate unambiguously about any genome-sequenced organism in fields as diverse as biodiversity research, infectious disease control, human and microbial forensics, animal breed and plant cultivar certification, and human ancestry research.en
dc.format.extent? - ? (12) page(s)en_US
dc.languageEnglishen_US
dc.publisherPLOSen_US
dc.relation.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000331717900057&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=930d57c9ac61a043676db62af60056c1en_US
dc.rightsCreative Commons Attribution 4.0 International (CC BY 4.0)*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.subjectHUMAN MITOCHONDRIAL-DNAen_US
dc.subjectSPECIES DEFINITIONen_US
dc.subjectPROKARYOTESen_US
dc.subjectPHYLOGENYen_US
dc.titleA System to Automatically Classify and Name Any Individual Genome-Sequenced Organism Independently of Current Biological Classification and Nomenclatureen_US
dc.typeArticle - Refereed
dc.contributor.departmentCivil and Environmental Engineeringen_US
dc.contributor.departmentStatisticsen_US
dc.contributor.departmentSchool of Plant and Environmental Sciencesen_US
dc.description.notesPublished (Publication status)en_US
dc.title.serialPLOS ONEen_US
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0089142
dc.identifier.volume9en_US
dc.identifier.issue2en_US
pubs.organisational-group/Virginia Tech
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/CALS T&R Faculty
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/Plant Pathology, Physiology, & Weed Science
pubs.organisational-group/Virginia Tech/All T&R Faculty
pubs.organisational-group/Virginia Tech/Engineering
pubs.organisational-group/Virginia Tech/Engineering/COE T&R Faculty
pubs.organisational-group/Virginia Tech/Engineering/Computer Science
pubs.organisational-group/Virginia Tech/Faculty of Health Sciences


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Creative Commons Attribution 4.0 International (CC BY 4.0)
License: Creative Commons Attribution 4.0 International (CC BY 4.0)