… These parameters are used to define a matrix Q, where Qij represents the instantaneous
rate of substitution from base i to base j. Using the convention of ordering the bases in …

Phylogenetic inference is fundamental to our understanding of most aspects of the origin and
evolution of life, and in recent years, there has been a concentration of interest in statistical …

Several authors have argued recently that extensive taxon sampling has a positive and
important effect on the accuracy of phylogenetic estimates. However, other authors have argued …

… Derrick J Zwickl … Zwickl and Hillis and Pollock et al. showed that these conclusions of
Rosenberg and Kumar could not be supported either by analyses of their original data or by new …

Four New World genera of dwarf boas (Exiliboa, Trachyboa, Tropidophis, and Ungaliophis)
have been placed by many systematists in a single group (traditionally called Tropidophiidae…

Until recently, it was believed that complex phylogenies might be extremely difficult to
reconstruct due to the phenomenal rate of increase in the number of possible phylogenies as the …

The genus Oryza is a model system for the study of molecular evolution over time scales
ranging from a few thousand to 15 million years. Using 13 reference genomes spanning the …

Background Higher-level relationships within the Lepidoptera, and particularly within the
species-rich subclade Ditrysia, are generally not well understood, although recent studies have …

We introduce molecularevolution.org, a publicly available gateway for high-throughput,
maximum-likelihood phylogenetic analysis powered by grid computing. The gateway features a …

Phylogenetic relationships across the Tree of Life form the basis for comparing and
organizing the Earth’s biodiversity. In addition to providing information about the evolution of …