DNA data has been widely used in animal phylogenetic studies over the past 15 years. Here
we review how these studies have used advances in knowledge of molecular evolutionary …

Phylogenomics refers to the inference of historical relationships among species using
genome-scale sequence data and to the use of phylogenetic analysis to infer protein …

ModelTest-NG is a reimplementation from scratch of jModelTest and ProtTest, two popular
tools for selecting the best-fit nucleotide and amino acid substitution models, respectively …

Phylogenomics, the use of large-scale data matrices in phylogenetic analyses, has been
viewed as the ultimate solution to the problem of resolving difficult nodes in the tree of life …

Abstract jModelTest is a new program for the statistical selection of models of nucleotide
substitution based on “Phyml”(. A simple, fast, and accurate algorithm to estimate large …

In phylogenetics, the unrooted model of phylogeny and the strict molecular clock model are
two extremes of a continuum. Despite their dominance in phylogenetic inference, it is …

Abstract Model selection is a topic of special relevance in molecular phylogenetics that
affects many, if not all, stages of phylogenetic inference. Here we discuss some fundamental …

The field of molecular evolution has experienced explosive growth in recent years due to the
rapid accumulation of genetic sequence data, continuous improvements to computer …

Background In recent years, model based approaches such as maximum likelihood have
become the methods of choice for constructing phylogenies. A number of authors have …

Despite the recent progress in molecular phylogenetics, many of the deepest relationships
among the main lineages of the largest fungal phylum, Ascomycota, remain unresolved. To …