Document Detail


Large-scale analysis of orthologs and paralogs under covarion-like and constant-but-different models of amino acid evolution.
MedLine Citation:
PMID:  20551039     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Functional divergence between homologous proteins is expected to affect amino acid sequences in two main ways, which can be considered as proxies of biochemical divergence: a "covarion-like" pattern of correlated changes in evolutionary rates, and switches in conserved residues ("conserved but different"). Although these patterns have been used in case studies, a large-scale analysis is needed to estimate their frequency and distribution. We use a phylogenomic framework of animal genes to answer three questions: 1) What is the prevalence of such patterns? 2) Can we link such patterns at the amino acid level with selection inferred at the codon level? 3) Are patterns different between paralogs and orthologs? We find that covarion-like patterns are more frequently detected than "constant but different," but that only the latter are correlated with signal for positive selection. Finally, there is no obvious difference in patterns between orthologs and paralogs.
Authors:
Romain A Studer; Marc Robinson-Rechavi
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2010-06-15
Journal Detail:
Title:  Molecular biology and evolution     Volume:  27     ISSN:  1537-1719     ISO Abbreviation:  Mol. Biol. Evol.     Publication Date:  2010 Nov 
Date Detail:
Created Date:  2010-10-18     Completed Date:  2011-01-27     Revised Date:  2013-05-29    
Medline Journal Info:
Nlm Unique ID:  8501455     Medline TA:  Mol Biol Evol     Country:  United States    
Other Details:
Languages:  eng     Pagination:  2618-27     Citation Subset:  IM    
Affiliation:
Department of Ecology and Evolution, Biophore, University of Lausanne, Lausanne, Switzerland.
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MeSH Terms
Descriptor/Qualifier:
Amino Acids / genetics*
Animals
Databases, Nucleic Acid
Evolution, Molecular*
Gene Duplication / genetics
Humans
Models, Genetic*
Selection, Genetic
Sequence Homology, Amino Acid*
Chemical
Reg. No./Substance:
0/Amino Acids
Comments/Corrections

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