Genome structure-based Juglandaceae phylogenies contradict alignment-based phylogenies and substitution rates vary with DNA repair genes
In lineages of allopolyploid origin, sets of homoeologous chromosomes may coexist that
differ in gene content and syntenic structure. Presence or absence of genes and …
differ in gene content and syntenic structure. Presence or absence of genes and …
Phylogenomic and macroevolutionary evidence for an explosive radiation of a plant genus in the Miocene
H Kong, FL Condamine, L Yang, AJ Harris… - Systematic …, 2022 - academic.oup.com
Mountain systems harbor a substantial fraction of global biodiversity and, thus, provide
excellent opportunities to study rapid diversification and to understand the historical …
excellent opportunities to study rapid diversification and to understand the historical …
The genetic basis of a recent transition to live-bearing in marine snails
Key innovations are fundamental to biological diversification, but their genetic basis is poorly
understood. A recent transition from egg-laying to live-bearing in marine snails (Littorina …
understood. A recent transition from egg-laying to live-bearing in marine snails (Littorina …
Phylogenomic conflict analyses of the plastid and mitochondrial genomes via deep genome skimming highlight their independent evolutionary histories: A case study …
TT Xue, SB Janssens, BB Liu, SX Yu - Molecular Phylogenetics and …, 2024 - Elsevier
Phylogenomic conflicts are widespread among genomic data, with most previous studies
primarily focusing on nuclear datasets instead of organellar genomes. In this study, we …
primarily focusing on nuclear datasets instead of organellar genomes. In this study, we …
Range-wide whole-genome resequencing of the brown bear reveals drivers of intraspecies divergence
Population-genomic studies can shed new light on the effect of past demographic processes
on contemporary population structure. We reassessed phylogeographical patterns of a …
on contemporary population structure. We reassessed phylogeographical patterns of a …
Plastid phylogenomics of tribe Perseeae (Lauraceae) yields insights into the evolution of East Asian subtropical evergreen broad-leaved forests
TW Xiao, HF Yan, XJ Ge - BMC Plant Biology, 2022 - Springer
Abstract Background The East Asian subtropical evergreen broad-leaved forests (EBLFs)
harbor remarkable biodiversity. However, their historical assembly remains unclear. To gain …
harbor remarkable biodiversity. However, their historical assembly remains unclear. To gain …
Phylogenomics reveals widespread hybridization and polyploidization in Henckelia (Gesneriaceae)
LH Yang, XZ Shi, F Wen, M Kang - Annals of Botany, 2023 - academic.oup.com
Abstract Background and Aims Hybridization has long been recognized as an important
process for plant evolution and is often accompanied by polyploidization, another prominent …
process for plant evolution and is often accompanied by polyploidization, another prominent …
Detectability of varied hybridization scenarios using genome-scale hybrid detection methods
Hybridization events complicate the accurate reconstruction of phylogenies, as they lead to
patterns of genetic heritability that are unexpected under traditional, bifurcating models of …
patterns of genetic heritability that are unexpected under traditional, bifurcating models of …
On the need for new measures of phylogenomic support
RC Thomson, JM Brown - Systematic Biology, 2022 - academic.oup.com
The scale of data sets used to infer phylogenies has grown dramatically in the last decades,
providing researchers with an enormous amount of information with which to draw …
providing researchers with an enormous amount of information with which to draw …
MSCquartets 1.0: quartet methods for species trees and networks under the multispecies coalescent model in R
MSCquartets is an R package for species tree hypothesis testing, inference of species trees
and inference of species networks under the Multispecies Coalescent model of incomplete …
and inference of species networks under the Multispecies Coalescent model of incomplete …