Incongruence in the phylogenomics era

JL Steenwyk, Y Li, X Zhou, XX Shen… - Nature Reviews Genetics, 2023 - nature.com
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 …

[HTML][HTML] The evolutionary emergence of land plants

PCJ Donoghue, CJ Harrison, J Paps, H Schneider - Current Biology, 2021 - cell.com
There can be no doubt that early land plant evolution transformed the planet but, until
recently, how and when this was achieved was unclear. Coincidence in the first appearance …

AlphaFold predictions are valuable hypotheses and accelerate but do not replace experimental structure determination

TC Terwilliger, D Liebschner, TI Croll, CJ Williams… - Nature …, 2024 - nature.com
Artificial intelligence-based protein structure prediction methods such as AlphaFold have
revolutionized structural biology. The accuracies of these predictions vary, however, and …

Integrated phylogenomics and fossil data illuminate the evolution of beetles

C Cai, E Tihelka, M Giacomelli… - Royal Society …, 2022 - royalsocietypublishing.org
Beetles constitute the most biodiverse animal order with over 380 000 described species
and possibly several million more yet unnamed. Recent phylogenomic studies have arrived …

Possible poriferan body fossils in early Neoproterozoic microbial reefs

EC Turner - Nature, 2021 - nature.com
Molecular phylogeny indicates that metazoans (animals) emerged early in the
Neoproterozoic era, but physical evidence is lacking. The search for animal fossils from the …

Revisiting metazoan phylogeny with genomic sampling of all phyla

CE Laumer, R Fernández, S Lemer… - … of the royal …, 2019 - royalsocietypublishing.org
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 …

[HTML][HTML] A new spiralian phylogeny places the enigmatic arrow worms among gnathiferans

F Marlétaz, KTCA Peijnenburg, T Goto, N Satoh… - Current Biology, 2019 - cell.com
Chaetognaths (arrow worms) are an enigmatic group of marine animals whose phylogenetic
position remains elusive, in part because they display a mix of developmental and …

Evidence for sponges as sister to all other animals from partitioned phylogenomics with mixture models and recoding

AK Redmond, A McLysaght - Nature communications, 2021 - nature.com
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 …

A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans

JM Wolfe, JW Breinholt, KA Crandall… - … of the Royal …, 2019 - royalsocietypublishing.org
Comprising over 15 000 living species, decapods (crabs, shrimp and lobsters) are the most
instantly recognizable crustaceans, representing a considerable global food source …

Rooting the animal tree of life

Y Li, XX Shen, B Evans, CW Dunn… - Molecular Biology and …, 2021 - academic.oup.com
Identifying our most distant animal relatives has emerged as one of the most challenging
problems in phylogenetics. This debate has major implications for our understanding of the …