The effect of heterotachy in multigene analysis using the neighbor joining method.

Abstract:

: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.

journal_name

Mol Phylogenet Evol

authors

Som A,Fuellen G

doi

10.1016/j.ympev.2009.05.025

subject

Has Abstract

pub_date

2009-09-01 00:00:00

pages

846-51

issue

3

eissn

1055-7903

issn

1095-9513

pii

S1055-7903(09)00207-3

journal_volume

52

pub_type

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