UNLABELLED Analysis of Phylogenetics and Evolution (APE) is a package written in the R language for use in molecular evolution and phylogenetics. APE provides both utility functions for reading and writing data and manipulating phylogenetic trees, as well as several advanced methods for phylogenetic and evolutionary analysis (e.g. comparative and population genetic methods). APE takes advantage...

The aim of this study was to evaluate the utility of COI, of the mitochondrial DNA, for the taxonomic determination of soft-bottom benthic polychaetes in the Chiloé Inner Sea as a particularly important zone for polychaete fauna of the southeast Pacific. The results show high genetic differentiation between morphological species of polychaetes (posterior probabilities upper 0.9), and Onuphis ps...

Molecular phylogenetics has revolutionized our knowledge of the eukaryotic tree of life. With the advent of genomics, a new discipline of phylogenetics has emerged: phylogenomics. This method uses large alignments of tens to hundreds of genes to reconstruct evolutionary histories. This approach has led to the resolution of ancient and contentious relationships, notably between the building bloc...