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Statistical Methods for Detecting Molecular Adaptation (2000)
| Venue: | RR n\Sigma2848 34 Renzo G. AVESANI |
| Citations: | 299 - 11 self |
BibTeX
@INPROCEEDINGS{Yang00statisticalmethods,
author = {Z. Yang and J. P. Bielawski and Ziheng Yang and Ziheng Yang},
title = {Statistical Methods for Detecting Molecular Adaptation},
booktitle = {RR n\Sigma2848 34 Renzo G. AVESANI},
year = {2000},
publisher = {Springer}
}
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Abstract
nally, synonymous and nonsynonymous substitution rates (Box 1) are defined in the context of comparing two DNA sequences, with d S and d N as the numbers of synonymous and nonsynonymous substitutions per site, respectively . Thus, the ratio v 5 d N /d S measures the difference between the two rates and is most easily understood from a mathematical description of a codon substitution model (Box 2). If an amino acid change is neutral, it will be fixed at the same rate as a synonymous mutation, with v 5 1. If the amino acid change is deleterious, purifying selection (Box 1) will reduce its fixation rate, thus v , 1. Only when the amino acid change offers a selective advantage is it fixed at a higher rate than a synonymous mutation, with v . 1. Therefore, an v ratio significantly higher than one is convincing evidence for diversifying selection. The codon-based analysis (Box 2) cannot infer whether synonymous substitutions are driven by mutation or selection, but it does not assume tha
