A dissection of volatility in yeast.
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.
Stoletzki
Nina
N
Section of Evolutionary Biology, Department Biology II, Ludwig-Maximilians-University Munich, Planegg-Martinsried, Germany. stoletzki@zi.biologie.uni-muenchen.de
Welch
John
J
Hermisson
Joachim
J
Eyre-Walker
Adam
A
D001483:Base Sequence; D003062:Codon / Q000235:genetics; D019143:Evolution, Molecular; D005800:Genes, Fungal; D014176:Protein Biosynthesis; D012440:Saccharomyces / Q000145:classification / Q000235:genetics*; D012441:Saccharomyces cerevisiae / Q000145:classification / Q000235:genetics*; D012641:Selection, Genetic; D016415:Sequence Alignment; D018709:Statistics, Nonparametric
D003062:Codon