The fossil record is well known to be incomplete. Read literally, it provides a distorted view of
the history of species divergence and extinction, because different species have different …

Complex enzymes with multiple catalytic activities are hypothesized to have evolved from
more primitive precursors. Global analysis of the Phytophthora sojae genome using …

Introduction The practice of molecular dating is an essential tool for hypothesis testing in
evolutionary biology. Vagaries of fossilization and taphonomic bias commonly engender …

Orthologs generally are under selective pressure against loss of function, while paralogs
usually accumulate mutations and finally die or deviate in terms of function or regulation …

Background Recent developments in sequencing technologies make it possible to obtain
genome sequences from a large number of isolates in a very short time. Bayesian …

Phylogenomic studies based on genome-scale amounts of data have greatly improved
understanding of the tree of life. Despite their diversity, ecological significance, and …

Motivation Precise time calibrations needed to estimate ages of species divergence are not
always available due to fossil records' incompleteness. Consequently, clock calibrations …

Phylogenomic datasets have been successfully used to address questions involving
evolutionary relationships, patterns of genome structure, signatures of selection, and gene …

For decades, molecular clocks have helped to illuminate the evolutionary timescale of life,
but now genomic data pose a challenge for time estimation methods. It is unclear how to …

Evolutionary timescales can be inferred by molecular-clock analyses of genetic data and
fossil evidence. Bayesian phylogenetic methods such as tip dating provide a powerful …