In this review, we discuss the current status and future challenges for fully elucidating the
fungal tree of life. In the last 15 years, advances in genomic technologies have …

Over 600 million years ago, animals evolved from a unicellular or colonial organism whose
cell (s) captured bacteria with a collar complex, a flagellum surrounded by a microvillar …

A central question in evolutionary biology is whether sponges or ctenophores (comb jellies)
are the sister group to all other animals. These alternative phylogenetic hypotheses imply …

Artificial intelligence-based protein structure prediction methods such as AlphaFold have
revolutionized structural biology. The accuracies of these predictions vary, however, and …

Motivation Phylogenies are important for fundamental biological research, but also have
numerous applications in biotechnology, agriculture and medicine. Finding the optimal tree …

Phylogenomic studies using genome-scale amounts of data have greatly improved
understanding of the tree of life. Despite the diversity, ecological significance, and …

Highly divergent sites in multiple sequence alignments (MSAs), which can stem from
erroneous inference of homology and saturation of substitutions, are thought to negatively …

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 …

Resolving the early diversification of animal lineages has proven difficult, even using
genome-scale datasets. Several phylogenomic studies have supported the classical …

Phylogenomic studies have resolved countless branches of the tree of life, but remain
strongly contradictory on certain, contentious relationships. Here, we use a maximum …