In this review, we discuss the current status and future challenges for fully elucidating the
fungal tree of life. In the last 15 years, advances in genomic technologies have …

Bayesian methods have become very popular in molecular phylogenetics due to the
availability of user-friendly software for running sophisticated models of evolution. However …

Background Evolutionary histories can be discordant across the genome, and such
discordances need to be considered in reconstructing the species phylogeny. ASTRAL is …

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

The multispecies coalescent provides a natural framework for accommodating ancestral
genetic polymorphism and coalescent processes that can cause different genomic regions …

The hundreds of cichlid fish species in Lake Malawi constitute the most extensive recent
vertebrate adaptive radiation. Here we characterize its genomic diversity by sequencing 134 …

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 …

Comprising over 15 000 living species, decapods (crabs, shrimp and lobsters) are the most
instantly recognizable crustaceans, representing a considerable global food source …

Discordances between species trees and gene trees can complicate phylogenetics
reconstruction. ASTRAL is a leading method for inferring species trees given gene trees …

Despite tremendous efforts in the past decades, relationships among main avian lineages
remain heavily debated without a clear resolution. Discrepancies have been attributed to …