A simple, fast, and accurate method of phylogenomic inference
1 Genome Center, University of California, One Shields Avenue, Davis, CA 95616, USA
2 Section of Evolution and Ecology, College of Biological Sciences, University of California, One Shields Avenue, Davis, CA 95616, USA
3 Department of Medical Microbiology and Immunology, School of Medicine, University of California, One Shields Avenue, Davis, CA 95616, USA
Genome Biology 2008, 9:R151 doi:10.1186/gb-2008-9-10-r151Published: 13 October 2008
Additional data file 1:
Presented is a table listing the 578 complete bacterial genomes downloaded from the NCBI RefSeq database for this study.
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Additional data file 2:
Presented is a figure of a maximum likelihood genome tree of 578 bacterial species. Major taxonomic groups are highlighted by color.
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Additional data file 3:
Presented is a figure that compares γ-proteobacterial phylogenetic trees made from a super-matrix of 31 protein phylogenetic markers (A) and from the SSU rDNA (B). Bootstrap support values are shown along their corresponding branches.
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Additional data file 4:
Presented is a figure of a maximum likelihood tree of rpoB. Adding a novel genome (Thermomicrobium roseum) to the reference tree helped anchor a sequence read (ZAVAM73TF) from a Yellowstone hotspring metagenomic study.
Format: EPS Size: 299KB Download file