title: Accurate and universal delineation of prokaryotic species.
abstract: The exponentially increasing number of sequenced genomes necessitates fast, accurate, universally applicable and automated approaches for the delineation of prokaryotic species. We developed specI (species identification tool; http://www.bork.embl.de/software/specI/), a method to group organisms into species clusters based on 40 universal, single-copy phylogenetic marker genes. Applied to 3,496 prokaryotic genomes, specI identified 1,753 species clusters. Of 314 discrepancies with a widely used taxonomic classification, >62% were resolved by literature support.
authors.affiliation: European Molecular Biology Laboratory, Heidelberg, Germany.
authors.forename: Daniel R
authors.initials: DR
authors.lastname: Mende
authors.forename: Shinichi
authors.initials: S
authors.lastname: Sunagawa
authors.forename: Georg
authors.initials: G
authors.lastname: Zeller
authors.forename: Peer
authors.initials: P
authors.lastname: Bork
mesh_terms: D058893:DNA Barcoding, Taxonomic / Q000379:methods*; D016208:Databases, Factual; D005819:Genetic Markers; D016678:Genome; D010802:Phylogeny; D048929:Prochlorococcus / Q000145:classification / Q000235:genetics; D011387:Prokaryotic Cells / Q000502:physiology*; D011506:Proteins / Q000235:genetics; D012336:RNA, Ribosomal, 16S; D016415:Sequence Alignment / Q000379:methods
chemical_list: D005819:Genetic Markers; D011506:Proteins; D012336:RNA, Ribosomal, 16S
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