Consequences of Substitution Model Selection on Protein Ancestral Sequence Reconstruction.

ABSTRACT: The selection of the best-fitting substitution model of molecular evolution is a traditional step for phylogenetic inferences, including ancestral sequence reconstruction (ASR). However, a few recent studies suggested that applying this procedure does not affect the accuracy of phylogenetic tree reconstruction. Here, we revisited this debate topic by analyzing the influence of selection among substitution models of protein evolution, with focus on exchangeability matrices, on the accuracy of ASR using simulated and real data. We found that the selected best-fitting substitution model produces the most accurate ancestral sequences, especially if the data present large genetic diversity. Indeed, ancestral sequences reconstructed under substitution models with similar exchangeability matrices

SUBMITTER: Del Amparo R 

PROVIDER: S-EPMC9254009 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature