期刊
JOURNAL OF MOLECULAR EVOLUTION
卷 50, 期 3, 页码 224-231出版社
SPRINGER VERLAG
DOI: 10.1007/s002399910025
关键词
phylogeny; nucleotide change location; base composition; mouse; mitochondrial control region; polymorphism; divergence; test of neutrality
A new, model-based method was devised to locate nucleotide changes in a given phylogenetic tree. For each site, the posterior probability of any possible change in each branch of the tree is computed. This probabilistic method is a valuable alternative to the maximum parsimony method when base composition is skewed (i.e., different from 25% A, 25% C, 25% G, 25% T): computer simulations showed that parsimony misses more rare --> common than common --> rare changes, resulting in biased inferred change matrices, whereas the new method appeared unbiased. The probabilistic method was applied to the analysis of the mutation and substitution processes in the mitochondrial control region of mouse. Distinct change patterns were found at the polymorphism (within species) and divergence (between species) levels, rejecting the hypothesis of a neutral evolution of base composition in mitochondrial DNA.
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