期刊
MOLECULAR PHYLOGENETICS AND EVOLUTION
卷 52, 期 3, 页码 846-851出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.ympev.2009.05.025
关键词
Heterotachy; Phylogenetic inference; Concatenation approach; Weighted distance approach; Neighbor joining method
Sequence alignments of multiple genes are routinely used to infer phylogenetic relationships among species. The analysis of their concatenation is more likely to give correct results under an assumption of homotachy (i.e., the evolutionary rates within lineages in each of the concatenated genes are constant during evolution). Here, we examine how the violation of homotachy (i.e., presence of within-site rate variation, called heterotachy) distorts species phylogenies. A theoretical examination has been conducted using a four taxon case and the neighbor joining (NJ) method, concluding that NJ recovers the incorrect tree when concatenated genes exhibit heterotachy. The application of average and weighted-average distance approaches, where gene boundaries are kept intact, overcomes the detrimental effect of heterotachy in multigene analysis using the NJ method. (C) 2009 Elsevier Inc. All rights reserved.
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