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Accurate and universal delineation of prokaryotic species

Official URL:https://doi.org/10.1038/nmeth.2575
PubMed:View item in PubMed
Creators Name:Mende, D.R. and Sunagawa, S. and Zeller, G. and Bork, P.
Journal Title:Nature Methods
Journal Abbreviation:Nat Methods
Page Range:881-884
Date:September 2013
Keywords:16S Ribosomal RNA, Factual Databases, Genetic Markers, Genome, Phylogeny, Prochlorococcus, Prokaryotic Cells, Proteins, Sequence Alignment, Taxonomic DNA Barcoding
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.
Publisher:Nature Publishing Group (U.S.A.)
Item Type:Article

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