Phylogenomics has revealed the remarkable frequency with which introgression occurs
across the tree of life. These discoveries have been enabled by the rapid growth of methods …

Multispecies coalescent (MSC) is the extension of the single-population coalescent model to
multiple species. It integrates the phylogenetic process of species divergences and the …

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 …

Hybridization, incomplete lineage sorting, and phylogenetic error produce similar
incongruence patterns, representing a great challenge for phylogenetic reconstruction …

Genomic data have had a profound impact on nearly every biological discipline. In
systematics and phylogenetics, the thousands of loci that are now being sequenced can be …

Most new cryptic species are described using conventional tree‐and distance‐based
species delimitation methods (SDMs), which rely on phylogenetic arrangements and …

Simultaneously modeling hybridization and the multispecies coalescent is becoming
increasingly common, and inference of species networks in this context is now implemented …

Systematics and taxonomy are the backbone of all components of biology and ecology, yet
cryptic species present a major challenge for accurate species identification. This is …

Understanding the factors that cause heterogeneity among gene trees can increase the
accuracy of species trees. Discordant signals across the genome are commonly produced …

Many recent phylogenetic methods have focused on accurately inferring species trees when
there is gene tree discordance due to incomplete lineage sorting (ILS). For almost all of …