The tree of life is highly reticulate, with the history of population divergence emerging from
populations of gene phylogenies that reflect histories of introgression, lineage sorting and …

Abstract Motivation The Robinson–Foulds (RF) metric is widely used by biologists, linguists
and chemists to quantify similarity between pairs of phylogenetic trees. The measure tallies …

The division and cell wall (dcw) gene cluster in Bacteria comprises 17 genes encoding key
steps in peptidoglycan synthesis and cytokinesis. To understand the origin and evolution of …

Fossils provide our only direct window into evolutionary events in the distant past.
Incorporating them into phylogenetic hypotheses of living clades can help time-calibrate …

In phylogenetic studies across angiosperms, at various taxonomic levels, polytomies have
persisted despite efforts to resolve them by increasing sampling of taxa and loci. The large …

Despite the rapid growth in viral genome sequencing, statistical methods face challenges in
handling historical viral endemic diseases with large amounts of underutilized partial …

Phylogenetic analysis aims to establish the true relationships between taxa. Different
analytical methods, however, can reach different conclusions. In order to establish which …

The field of systematics is experiencing a new molecular revolution driven by the increased
availability of high-throughput sequencing technologies. As these techniques become more …

Phylogenetic analyses often produce large numbers of trees. Mapping trees' distribution in
“tree space” can illuminate the behavior and performance of search strategies, reveal …

Summarizing individual gene trees to species phylogenies using two-step coalescent
methods is now a standard strategy in the field of phylogenomics. However, practical …