Inferring the root of a phylogenetic tree

被引：160

作者：

Huelsenbeck, JP ^{[1
]}

Bollback, JP ^{[1
]}

Levine, AM ^{[1
]}

机构：

[1] Univ Rochester, Dept Biol, Rochester, NY 14627 USA

来源：

SYSTEMATIC BIOLOGY | 2002年 / 51卷 / 01期

关键词：

Bayesian estimation; hierarchical Bayes; nonreversible models; outgroup; rooting;

D O I：

10.1080/106351502753475862

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Phylogenetic trees can be rooted by a number of criteria. Here, we introduce a Bayesian method for inferring the root of a phylogenetic tree by using one of several criteria: the outgroup, molecular clock, and nonreversible model of DNA substitution. We perform simulation analyses to examine the relative ability of these three criteria to correctly identify the root of the tree. The outgroup and molecular clock criteria were best able to identify the root of the tree, whereas the nonreversible model was able to identify the root only when the substitution process was highly nonreversible. We also examined the performance of the criteria for a tree of four species for which the topology and root position are well supported. Results of the analyses of these data are consistent with the simulation results.

引用

页码：32 / 43

页数：12