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MBE Advance Access originally published online on June 15, 2005
Molecular Biology and Evolution 2005 22(10):2022-2026; doi:10.1093/molbev/msi192
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© The Author 2005. 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@oupjournals.org

Research Article

A Dissection of Volatility in Yeast

Nina Stoletzki*, John Welch{dagger}, Joachim Hermisson* and Adam Eyre-Walker{dagger}

* Section of Evolutionary Biology, Department Biology II, Ludwig-Maximilians-University Munich, Planegg-Martinsried, Germany; and {dagger} Centre for the Study of Evolution, University of Sussex, Brighton, United Kingdom

E-mail: stoletzki{at}zi.biologie.uni-muenchen.de; a.c.eyre-walker{at}sussex.ac.uk.

It has been suggested that volatility, the proportion of mutations which change an amino acid, can be used to infer the level of natural selection acting upon a gene. This conjecture is supported by a correlation between volatility and the rate of nonsynonymous substitution (dN), or the ratio of nonsynonymous and synonymous substitution rates, in a variety of organisms. These organisms include yeast, in which the correlations are quite strong. Here we show that these correlations are a by-product of a correlation between synonymous codon bias toward translationally optimal codons and dN. Although this analysis suggests that volatility is not a good measure of the selection, we suggest that it might be possible to infer something about the level of natural selection, from a single genome sequence, using translational codon bias.

Key Words: volatility • codon bias • selection • nonsynonymous substitution rate • yeast


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