FCCC LOGO Faculty Publications
Tamura K , Tao Q , Kumar S
Theoretical Foundation of the RelTime Method for Estimating Divergence Times from Variable Evolutionary Rates
Mol Biol Evol. 2018 Jul 1;35(7) :1770-1782
PMID: 29893954    PMCID: PMC5995221   
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RelTime estimates divergence times by relaxing the assumption of a strict molecular clock in a phylogeny. It shows excellent performance in estimating divergence times for both simulated and empirical molecular sequence data sets in which evolutionary rates varied extensively throughout the tree. RelTime is computationally efficient and scales well with increasing size of data sets. Until now, however, RelTime has not had a formal mathematical foundation. Here, we show that the basis of the RelTime approach is a relative rate framework (RRF) that combines comparisons of evolutionary rates in sister lineages with the principle of minimum rate change between evolutionary lineages and their respective descendants. We present analytical solutions for estimating relative lineage rates and divergence times under RRF. We also discuss the relationship of RRF with other approaches, including the Bayesian framework. We conclude that RelTime will be useful for phylogenies with branch lengths derived not only from molecular data, but also morphological and biochemical traits.
1537-1719 Tamura, Koichiro Tao, Qiqing Kumar, Sudhir Journal Article United States Mol Biol Evol. 2018 Jul 1;35(7):1770-1782. doi: 10.1093/molbev/msy044.