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Measuring genome conservation across taxa: divided strains and united kingdoms

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Author

  • Victor Kunin
  • Dag Ahrén
  • Leon Goldovsky
  • Paul Janssen
  • Christos A. Ouzounis

Summary, in English

Species evolutionary relationships have traditionally been defined by sequence similarities of phylogenetic marker molecules, recently followed by whole-genome phylogenies based on gene order, average ortholog similarity or gene content. Here, we introduce genome conservation—a novel metric of evolutionary distances between species that simultaneously takes into account, both gene content and sequence similarity at the whole-genome level. Genome conservation represents a robust distance measure, as demonstrated by accurate phylogenetic reconstructions. The genome conservation matrix for all presently sequenced organisms exhibits a remarkable ability to define evolutionary relationships across all taxonomic ranges. An assessment of taxonomic ranks with genome conservation shows that certain ranks are inadequately described and raises the possibility for a more precise and quantitative taxonomy in the future. All phylogenetic reconstructions are available at the genome phylogeny server: <http://maine.ebi.ac.uk:8000/cgi-bin/gps/GPS.pl&gt;.

Publishing year

2005

Language

English

Pages

616-621

Publication/Series

Nucleic Acids Research

Volume

33

Issue

2

Document type

Journal article

Publisher

Oxford University Press

Topic

  • Biological Sciences

Keywords

  • genome phylogeny
  • Comparative genomics
  • evolution
  • Bioinformatics

Status

Published

Research group

  • Microbial Ecology

ISBN/ISSN/Other

  • ISSN: 1362-4962