Transmission of SARS-CoV-2 in free-ranging white-tailed deer in the United States

A Feng, S Bevins, J Chandler, TJ DeLiberto… - Nature …, 2023 - nature.com
SARS-CoV-2 is a zoonotic virus with documented bi-directional transmission between
people and animals. Transmission of SARS-CoV-2 from humans to free-ranging white-tailed …

Common methods for phylogenetic Tree Construction and their implementation in R

Y Zou, Z Zhang, Y Zeng, H Hu, Y Hao, S Huang, B Li - Bioengineering, 2024 - mdpi.com
A phylogenetic tree can reflect the evolutionary relationships between species or gene
families, and they play a critical role in modern biological research. In this review, we …

Phylogeography and transmission of Mycobacterium tuberculosis spanning prisons and surrounding communities in Paraguay

GE Sanabria, G Sequera, S Aguirre, J Méndez… - Nature …, 2023 - nature.com
Recent rises in incident tuberculosis (TB) cases in Paraguay and the increasing
concentration of TB within prisons highlight the urgency of targeting strategies to interrupt …

Illusion of flight? Absence, evidence and the age of winged insects

SR Schachat, PZ Goldstein, R Desalle… - Biological Journal of …, 2023 - academic.oup.com
The earliest fossils of winged insects (Pterygota) are mid-Carboniferous (latest
Mississippian, 328–324 Mya), but estimates of their age based on fossil-calibrated …

Properties of Markov chain Monte Carlo performance across many empirical alignments

SM Harrington, V Wishingrad… - Molecular biology and …, 2021 - academic.oup.com
Nearly all current Bayesian phylogenetic applications rely on Markov chain Monte Carlo
(MCMC) methods to approximate the posterior distribution for trees and other parameters of …

Towards reliable detection of introgression in the presence of among-species rate variation

T Koppetsch, M Malinsky, M Matschiner - Systematic biology, 2024 - academic.oup.com
The role of interspecific hybridization has recently seen increasing attention, especially in
the context of diversification dynamics. Genomic research has now made it abundantly clear …

Genome-wide ultraconserved elements resolve phylogenetic relationships and biogeographic history among Neotropical leaf-nosed bats in the genus Anoura …

CA Calderón-Acevedo, JC Bagley… - Molecular Phylogenetics …, 2022 - Elsevier
Abstract Anoura Gray, 1838 are Neotropical nectarivorous bats and the most speciose
genus within the phyllostomid subfamily Glossophaginae. However, Anoura species limits …

[PDF][PDF] Phylotranscriptomics Reveals Discordance in the Phylogeny of Hawaiian Drosophila and Scaptomyza (Diptera: Drosophilidae)

SH Church, CG Extavour - Molecular Biology and Evolution, 2022 - academic.oup.com
Island radiations present natural laboratories for studying the evolutionary process. The
Hawaiian Drosophilidae are one such radiation, with nearly 600 described species and …

Assessment of phylogenetic approaches to study the timing of recombination cessation on sex chromosomes

H Zhang, H Sigeman, B Hansson - Journal of evolutionary …, 2022 - academic.oup.com
The evolution of sex chromosomes is hypothesized to be punctuated by consecutive
recombination cessation events, forming “evolutionary strata” that ceased to recombine at …

Estimating the mean in the space of ranked phylogenetic trees

L Berling, L Collienne, A Gavryushkin - Bioinformatics, 2024 - academic.oup.com
Motivation Reconstructing evolutionary histories of biological entities, such as genes, cells,
organisms, populations, and species, from phenotypic and molecular sequencing data is …