Visualization of the phylogenetic content of five ...[Genome Biol. 2004]

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1: Genome Biol. 2004;5(3):R20. Epub 2004 Feb 16. Links

Visualization of the phylogenetic content of five genomes using dekapentagonal maps.

Zhaxybayeva O, Hamel L, Raymond J, Gogarten JP.

Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT 06269-3125, USA.

The methods presented here summarize phylogenetic relationships of genomes in visually appealing and informative figures. Dekapentagonal maps depict phylogenetic information for orthologous genes present in five genomes, and provide a pre-screen for putatively horizontally transferred genes. If the majority of individual gene phylogenies are unresolved, bipartition histograms provide a means of uncovering and analyzing the plurality consensus. Analyses of genomes representing five photosynthetic bacterial phyla and of the prokaryotic contributions to the eukaryotic cell illustrate the utility of the methods.

PMID: 15003123 [PubMed - indexed for MEDLINE]

PMCID: PMC395770

PentaPlot: a software tool for the illustration of genome mosaicism. [BMC Bioinformatics. 2005]
Genome trees constructed using five different approaches suggest new major bacterial clades. [BMC Evol Biol. 2001]
Whole-genome analysis of photosynthetic prokaryotes. [Science. 2002]
ReviewGenome trees and the nature of genome evolution. [Annu Rev Microbiol. 2005]
ReviewExamining bacterial species under the specter of gene transfer and exchange. [Proc Natl Acad Sci U S A. 2005]

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Visualization of the phylogenetic content of five genomes using dekapentagonal maps.

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