The placental mammal ancestor and the post–K-Pg radiation of placentals

MA O'Leary, JI Bloch, JJ Flynn, TJ Gaudin… - science, 2013 - science.org
To discover interordinal relationships of living and fossil placental mammals and the time of
origin of placentals relative to the Cretaceous-Paleogene (K-Pg) boundary, we scored 4541 …

Comparative genomics reveals insights into avian genome evolution and adaptation

G Zhang, C Li, Q Li, B Li, DM Larkin, C Lee, JF Storz… - Science, 2014 - science.org
Birds are the most species-rich class of tetrapod vertebrates and have wide relevance
across many research fields. We explored bird macroevolution using full genomes from 48 …

Convergent transcriptional specializations in the brains of humans and song-learning birds

AR Pfenning, E Hara, O Whitney, MV Rivas, R Wang… - Science, 2014 - science.org
INTRODUCTION Vocal learning, the ability to imitate sounds, is a trait that has undergone
convergent evolution in several lineages of birds and mammals, including song-learning …

[HTML][HTML] Phylogenomics and the rise of the angiosperms

AR Zuntini, T Carruthers, O Maurin, PC Bailey… - Nature, 2024 - nature.com
Angiosperms are the cornerstone of most terrestrial ecosystems and human livelihoods,. A
robust understanding of angiosperm evolution is required to explain their rise to ecological …

Regulatory evolution of innate immunity through co-option of endogenous retroviruses

EB Chuong, NC Elde, C Feschotte - Science, 2016 - science.org
Endogenous retroviruses (ERVs) are abundant in mammalian genomes and contain
sequences modulating transcription. The impact of ERV propagation on the evolution of …

STAG: species tree inference from all genes

DM Emms, S Kelly - BioRxiv, 2018 - biorxiv.org
Species tree inference is fundamental to our understanding of the evolution of life on earth.
However, species tree inference from molecular sequence data is complicated by gene …

Resolution of ray-finned fish phylogeny and timing of diversification

TJ Near, RI Eytan, A Dornburg… - Proceedings of the …, 2012 - National Acad Sciences
Ray-finned fishes make up half of all living vertebrate species. Nearly all ray-finned fishes
are teleosts, which include most commercially important fish species, several model …

[HTML][HTML] Mammalian transposable elements and their impacts on genome evolution

RN Platt, MW Vandewege, DA Ray - Chromosome Research, 2018 - Springer
Transposable elements (TEs) are genetic elements with the ability to mobilize and replicate
themselves in a genome. Mammalian genomes are dominated by TEs, which can reach …

Estimating divergence times in large molecular phylogenies

K Tamura, FU Battistuzzi… - Proceedings of the …, 2012 - National Acad Sciences
Molecular dating of species divergences has become an important means to add a temporal
dimension to the Tree of Life. Increasingly larger datasets encompassing greater taxonomic …

Phylotranscriptomic consolidation of the jawed vertebrate timetree

I Irisarri, D Baurain, H Brinkmann, F Delsuc… - Nature ecology & …, 2017 - nature.com
Phylogenomics is extremely powerful but introduces new challenges as no agreement exists
on 'standards' for data selection, curation and tree inference. We use jawed vertebrates …