Site-specific time heterogeneity of the substitution process and its impact on phylogenetic inference.

ABSTRACT:

Background

Model violations constitute the major limitation in inferring accurate phylogenies. Characterizing properties of the data that are not being correctly handled by current models is therefore of prime importance. One of the properties of protein evolution is the variation of the relative rate of substitutions across sites and over time, the latter is the phenomenon called heterotachy. Its effect on phylogenetic inference has recently obtained considerable attention, which led to the development of new models of sequence evolution. However, thus far focus has been on the quantitative heterogeneity of the evolutionary process, thereby overlooking more qualitative variations.

Results

We studied the importance of variation of the site-specific amino-acid substitution pr

SUBMITTER: Roure B 

PROVIDER: S-EPMC3034684 | biostudies-literature | 2011 Jan

REPOSITORIES: biostudies-literature