Short branch attraction in phylogenomic inference under the multispecies coalescent.

ABSTRACT: Accurate reconstruction of species trees often relies on the quality of input gene trees estimated from molecular sequences. Previous studies suggested that if the sequence length is fixed, the maximum likelihood may produce biased gene trees which subsequently mislead inference of species trees. Two key questions need to be answered in this context: what are the scenarios that may result in consistently biased gene trees? and for those scenarios, are there any remedies that may remove or at least reduce the misleading effects of consistently biased gene trees? In this article, we establish a theoretical framework to address these questions. Considering a scenario where the true gene tree is a 4-taxon star tree T*=S1,S2,S3,S4 with two short branches leading to the species S1 and S2 , we de

SUBMITTER: Liu L 

PROVIDER: S-EPMC11372852 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature