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 …

Repeated upslope biome shifts in Saxifraga during late-Cenozoic climate cooling

T Carruthers, MS Moerland, J Ebersbach… - Nature …, 2024 - nature.com
Mountains are among the most biodiverse places on Earth, and plant lineages that inhabit
them have some of the highest speciation rates ever recorded. Plant diversity within the …

The meaning and measure of concordance factors in phylogenomics

R Lanfear, MW Hahn - Molecular Biology and Evolution, 2024 - academic.oup.com
As phylogenomic datasets have grown in size, researchers have developed new ways to
measure biological variation and to assess statistical support for specific branches. Larger …

A nuclear phylogenomic tree of grasses (Poaceae) recovers current classification despite gene tree incongruence

Grass Phylogeny Working Group III, W Arthan… - New …, 2025 - Wiley Online Library
Summary Grasses (Poaceae) comprise c. 11 800 species and are central to human
livelihoods and terrestrial ecosystems. Knowing their relationships and evolutionary history …

Robustness of divergence time estimation despite gene tree estimation error: a case study of fireflies (Coleoptera: Lampyridae)

S Höhna, SE Lower, P Duchen, A Catalán - Systematic Biology, 2024 - academic.oup.com
Genomic data have become ubiquitous in phylogenomic studies, including divergence time
estimation, but provide new challenges. These challenges include, among others, biological …

A Phylogenomic Backbone for Acoelomorpha Inferred From Transcriptomic Data

S Abalde, U Jondelius - Systematic Biology, 2024 - academic.oup.com
Xenacoelomorpha are mostly microscopic, morphologically simple worms, lacking many
structures typical of other bilaterians. Xenacoelomorphs—which include three main groups …

Estimation of divergence time and comparative plastid genomics of Orchis species (Orchidaceae)

J Calevo, J Viruel, M Adamo… - Botanical Journal of …, 2024 - academic.oup.com
Low-coverage sequencing in plants allows whole plastomes to be obtained that can be
used to investigate phylogenetic relationships among groups. The genus Orchis (c. 20 …

Genome-wide identification, evolutionary and mutational analysis of the buffalo sox gene family

M Abdullah, MS Rehman, MSN Rehman… - Animals, 2023 - mdpi.com
Simple Summary The Sox gene family is a set of specific transcriptional factor (TF) proteins,
with a very similar sequence compared to the sex-determining region Y (SRY), related high …

Chronospaces: An R package for the statistical exploration of divergence times promotes the assessment of methodological sensitivity

N Mongiardino Koch… - Methods in Ecology and …, 2024 - Wiley Online Library
Much of our understanding of the history of life hinges upon time calibration, the process of
assigning absolute times to cladogenetic events. Bayesian approaches to time‐scaling …

Explaining extreme differences in species richness among co-occurring palm clades in Madagascar

WL Eiserhardt, LESF Hansen… - … Journal of the …, 2024 - academic.oup.com
Imbalance in species richness among related clades is a pervasive, yet incompletely
understood feature of biodiversity. Comparison of species-poor and species-rich clades that …