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 …

Phylogenetic tree building in the genomic age

P Kapli, Z Yang, MJ Telford - Nature Reviews Genetics, 2020 - nature.com
Knowing phylogenetic relationships among species is fundamental for many studies in
biology. An accurate phylogenetic tree underpins our understanding of the major transitions …

Ancient gene linkages support ctenophores as sister to other animals

DT Schultz, SHD Haddock, JV Bredeson, RE Green… - Nature, 2023 - nature.com
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 …

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 …

[HTML][HTML] Metazoan micrornas

DP Bartel - Cell, 2018 - cell.com
MicroRNAs (miRNAs) are∼ 22 nt RNAs that direct posttranscriptional repression of mRNA
targets in diverse eukaryotic lineages. In humans and other mammals, these small RNAs …

The evolution of a tropical biodiversity hotspot

MG Harvey, GA Bravo, S Claramunt, AM Cuervo… - Science, 2020 - science.org
The tropics are the source of most biodiversity yet inadequate sampling obscures answers to
fundamental questions about how this diversity evolves. We leveraged samples assembled …

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 …

Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data

LC Hughes, G Ortí, Y Huang, Y Sun… - Proceedings of the …, 2018 - National Acad Sciences
Our understanding of phylogenetic relationships among bony fishes has been transformed
by analysis of a small number of genes, but uncertainty remains around critical nodes …

The origin of animal multicellularity and cell differentiation

T Brunet, N King - Developmental cell, 2017 - cell.com
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 …