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MBE Advance Access published online on October 5, 2007
Molecular Biology and Evolution, doi:10.1093/molbev/msm218
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Published by Oxford University Press 2007.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Letter

Analysis of Rare Amino Acid Replacements Supports the Coelomata Clade

Igor B. Rogozin, Yuri I. Wolf, Liran Carmel and Eugene V. Koonin*

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda MD, USA

* Address for correspondence and reprints: E.V.Koonin, NCBI/NLM/NIH, 8600 Rockville Pike, Bldg. 38A, Bethesda, MD 20894, USA. E-mail: koonin{at}ncbi.nlm.nih.gov, Fax: (301) 435-7793, Tel.: (301) 435-5913

Received for publication August 28, 2007. Revision received September 26, 2007. Accepted for publication September 27, 2007.

The recent analysis of a novel class of rare genomic changes, RGC_CAMs (after Conserved Amino acids-Multiple substitutions), supported the Coelomata clade of animals as opposed to the Ecdysozoa clade (Rogozin et al. 2007). A subsequent re-analysis, with the sequences from the sea anemone Nematostella vectensis included in the set of outgroup species, suggested that this result was an artefact caused by reverse amino replacements and claimed support for Ecdysozoa (Irimia et al. 2007). We show that the internal branch connecting the sea anemone to the bilaterian animals is extremely short, resulting in a weak statistical support for the Coelomata clade. Direct estimation of the level of homoplasy, combined with taxon sampling with different sets of outgroup species, reinforces the support for Coelomata whereas the effect of reversals is shown to be relatively minor.

Key Words: Phylogenetic analysis • cladistics • rare genomic changes • coelomata • ecdysozoa


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Home page
 Mol Biol EvolHome page
S. W. Roy and M. Irimia
Rare Genomic Characters Do Not Support Coelomata: Intron Loss/Gain
Mol. Biol. Evol., April 1, 2008; 25(4): 620 - 623.
[Abstract] [Full Text] [PDF]


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