Genome-scale data and the development of novel statistical phylogenetic approaches have
greatly aided the reconstruction of a broad sketch of the tree of life and resolved many of its …

Knowing phylogenetic relationships among species is fundamental for many studies in
biology. An accurate phylogenetic tree underpins our understanding of the major transitions …

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

With the continual progress of sequencing techniques, genome-scale data are increasingly
used in phylogenetic studies. With more data from throughout the genome, the relationship …

New genome assemblies have been arriving at a rapidly increasing pace, thanks to
decreases in sequencing costs and improvements in third-generation sequencing …

INTRODUCTION The ruminants are one of the most successful mammalian lineages,
exhibiting extensive morphological and ecological diversity and containing several key …

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 …

Although reconstruction of the phylogeny of living birds has progressed tremendously in the
last decade, the evolutionary history of Neoaves—a clade that encompasses nearly all living …

Species tree reconstruction is complicated by effects of incomplete lineage sorting,
commonly modeled by the multi-species coalescent model (MSC). While there has been …

Phylogenomic analyses routinely estimate species trees using methods that account for
gene tree discordance. However, the most scalable species tree inference methods, which …