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Open Access Method

Visualization of the phylogenetic content of five genomes using dekapentagonal maps

Olga Zhaxybayeva1, Lutz Hamel2, Jason Raymond3 and J Peter Gogarten1*

Author Affiliations

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

2 Department of Computer Science and Statistics, University of Rhode Island, Kingston, RI 02881, USA

3 Department of Chemistry and Biochemistry, Arizona State University, Tempe, AZ 85287-1604, USA

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Genome Biology 2004, 5:R20  doi:10.1186/gb-2004-5-3-r20

Published: 16 February 2004

Abstract

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.