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Phylogenomic approaches to bacterial phylogeny

Part 4. Bioinformatics

4.4. Comparative Analysis and Phylogeny

Short Specialist Review

  1. Vincent Daubin1,2

Published Online: 15 OCT 2004

DOI: 10.1002/047001153X.g404303

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

How to Cite

Daubin, V. 2004. Phylogenomic approaches to bacterial phylogeny. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. 4:4.4:44.

Author Information

  1. 1

    University of Arizona, Tucson, AZ, USA

  2. 2

    Université Claude-Bernard Lyon 1, Villeurbanne, France

Publication History

  1. Published Online: 15 OCT 2004

Abstract

Reconstructing the history of bacterial species is one of the most challenging question molecular phylogeneticists have to answer. Both the antiquity of bacteria and their mode of evolution constitute barriers to the elucidation of the relationships among phyla. Time, on one side, has eroded the phylogenetic signal that would allow reconstructing the deep branches of this several billion years old tree. In addition, because of frequent gene exchanges among distantly related bacteria, even an accurate gene phylogeny may no longer represent the species tree. Methods aimed at using complete genomes for phylogenetic inference may however help resolve this issue.

Keywords:

  • phylogenomics;
  • lateral gene transfer;
  • concatenation method;
  • supertree;
  • organismal phylogeny