Evaluation of the models handling heterotachy in phylogenetic inference |
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Authors: | Yan Zhou Nicolas Rodrigue Nicolas Lartillot Hervé Philippe |
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Affiliation: | 1.Canadian Institute for Advanced Research. Département de Biochimie,Université de Montréal, Succursale Centre-Ville,Montréal,Canada;2.Laboratoire d'Informatique,de Robotique et de Microélectronique de Montpellier. CNRS,Montpellier Cedex 5,France |
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Abstract: | Background The evolutionary rate at a given homologous position varies across time. When sufficiently pronounced, this phenomenon – called heterotachy – may produce artefactual phylogenetic reconstructions under the commonly used models of sequence evolution. These observations have motivated the development of models that explicitly recognize heterotachy, with research directions proposed along two main axes: 1) the covarion approach, where sites switch from variable to invariable states; and 2) the mixture of branch lengths (MBL) approach, where alignment patterns are assumed to arise from one of several sets of branch lengths, under a given phylogeny. |
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