As more complete genomes are sequenced, phylogenetic analysis is entering a new era—
that of phylogenomics. One branch of this expanding field aims to reconstruct the …

Concerns about the deleterious effects of missing data may often determine which
characters and taxa are included in phylogenetic analyses. For example, researchers may …

Premise of the Study Large phylogenies can help shed light on macroevolutionary patterns
that inform our understanding of fundamental processes that shape the tree of life. These …

Background The extant squamates (> 9400 known species of lizards and snakes) are one of
the most diverse and conspicuous radiations of terrestrial vertebrates, but no studies have …

Background With over 3,500 species encompassing a diverse range of morphologies and
ecologies, snakes make up 36% of squamate diversity. Despite several attempts at …

The extant amphibians are one of the most diverse radiations of terrestrial vertebrates (>
6800 species). Despite much recent focus on their conservation, diversification, and …

Abstract Background The Solanaceae is a plant family of great economic importance.
Despite a wealth of phylogenetic work on individual clades and a deep knowledge of …

Premise of the Study Phylogenetic support has been difficult to evaluate within the green
plant tree of life partly due to a lack of specificity between conflicted versus poorly informed …

Background Several phylogenetic approaches have been developed to estimate species
trees from collections of gene trees. However, maximum likelihood approaches for …

The advent and maturation of algorithms for estimating species trees—phylogenetic trees
that allow gene tree heterogeneity and whose tips represent lineages, populations and …