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MBE Advance Access originally published online on May 24, 2007
Molecular Biology and Evolution 2007 24(8):1604-1607; doi:10.1093/molbev/msm105
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© The Author 2007. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oxfordjournals.org

Letters

Rare Coding Sequence Changes are Consistent with Ecdysozoa, not Coelomata

Manuel Irimia*,{dagger}, Ignacio Maeso{dagger}, David Penny{ddagger}, Jordi Garcia-Fernàndez{dagger} and Scott William Roy*,{ddagger},§

{dagger} Departament de Genètica, Universitat de Barcelona, Barcelona, Spain
{ddagger} Allan Wilson Centre for Molecular Evolution and Ecology, Massey University, Palmerston North, New Zealand
§ National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland

E-mail: royscott{at}ncbi.nlm.nih.gov.

Accepted for publication May 21, 2007.

There is growing interest in the use of alternative, more slowly-evolving RGCs (rare genomic changes). Recently, Rogozin and coauthors (Rogozin et al. 2007) proposed a novel phylogenetic method employing rare amino acid changes, RGC-CAMs (rare genomic changes-conserved amino acids-multiple substitutions). They applied their method to 694 sets of eukaryotic orthologs in order to distinguish the relationship between nematodes, arthropods and deuterostomes. They concluded that such rare amino acid changes were consistent with the Coelomata hypothesis, which groups arthropods and deuterostomes to the exclusion of nematodes. Here we use newly available genomic sequences from Nematostella vectensis, a basal metazoan, and from Brugia malayi, an additional nematode. We show that the apparent support for Coelomata is likely to be the result of the rapid rate of evolution leading to Caenorhabditis nematodes. Including the additional species paints a very different picture, with 13 remaining characters consistent with Ecdysozoa versus only 1 consistent with Coelomata.

Key Words: Ecdysozoa • Coelomata • phylogeny • long branches • rare genomic changes

* These authors contributed equally to this work.

Herve Philippe, Associate Editor


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