Incongruence in the phylogenomics era
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 …
greatly aided the reconstruction of a broad sketch of the tree of life and resolved many of its …
The evolution of insect biodiversity
Insects comprise over half of all described animal species. Together with the Protura
(coneheads), Collembola (springtails) and Diplura (two-pronged bristletails), insects form …
(coneheads), Collembola (springtails) and Diplura (two-pronged bristletails), insects form …
AlphaFold predictions are valuable hypotheses and accelerate but do not replace experimental structure determination
Artificial intelligence-based protein structure prediction methods such as AlphaFold have
revolutionized structural biology. The accuracies of these predictions vary, however, and …
revolutionized structural biology. The accuracies of these predictions vary, however, and …
Revisiting metazoan phylogeny with genomic sampling of all phyla
Proper biological interpretation of a phylogeny can sometimes hinge on the placement of
key taxa—or fail when such key taxa are not sampled. In this light, we here present the first …
key taxa—or fail when such key taxa are not sampled. In this light, we here present the first …
A large and consistent phylogenomic dataset supports sponges as the sister group to all other animals
Resolving the early diversification of animal lineages has proven difficult, even using
genome-scale datasets. Several phylogenomic studies have supported the classical …
genome-scale datasets. Several phylogenomic studies have supported the classical …
Modeling site heterogeneity with posterior mean site frequency profiles accelerates accurate phylogenomic estimation
Proteins have distinct structural and functional constraints at different sites that lead to site-
specific preferences for particular amino acid residues as the sequences evolve …
specific preferences for particular amino acid residues as the sequences evolve …
Improved modeling of compositional heterogeneity supports sponges as sister to all other animals
The relationships at the root of the animal tree have proven difficult to resolve, with the
current debate focusing on whether sponges (phylum Porifera) or comb jellies (phylum …
current debate focusing on whether sponges (phylum Porifera) or comb jellies (phylum …
Topology-dependent asymmetry in systematic errors affects phylogenetic placement of Ctenophora and Xenacoelomorpha
The evolutionary relationships of two animal phyla, Ctenophora and Xenacoelomorpha,
have proved highly contentious. Ctenophora have been proposed as the most distant …
have proved highly contentious. Ctenophora have been proposed as the most distant …
Evidence for sponges as sister to all other animals from partitioned phylogenomics with mixture models and recoding
Resolving the relationships between the major lineages in the animal tree of life is
necessary to understand the origin and evolution of key animal traits. Sponges …
necessary to understand the origin and evolution of key animal traits. Sponges …
Ctenophore relationships and their placement as the sister group to all other animals
Ctenophora, comprising approximately 200 described species, is an important lineage for
understanding metazoan evolution and is of great ecological and economic importance …
understanding metazoan evolution and is of great ecological and economic importance …