Phylogenomics reveals extreme gene tree discordance in a lineage of dominant trees: hybridization, introgression, and incomplete lineage sorting blur deep …

TGB McLay, RM Fowler, PS Fahey, DJ Murphy… - Molecular Phylogenetics …, 2023 - Elsevier
Eucalypts are a large and ecologically important group of plants on the Australian continent,
and understanding their evolution is important in understanding evolution of the unique …

Key innovations and niche variation promoted rapid diversification of the widespread Juniperus (Cupressaceae)

K Liu, E Li, X Cui, Y Wang, C Xu, Z Suo… - Communications …, 2024 - nature.com
The processes of forming lineages undergoing widespread radiations remain a knowledge
gap that is fundamental to our understanding of the geographic distributions of species …

Biology and ecology of Juniperus drupacea Labill

A Boratynski, AA Donmez, M Bou Dagher-Kharrat… - …, 2023 - agro.icm.edu.pl
This literature review focuses on the biology and ecology of Juniperus drupacea. Within the
context of the series 'Our Forest Trees' by the Institute of Dendrology PAS at Kórnik, the …

Incomplete lineage sorting and local extinction shaped the complex evolutionary history of the Paleogene relict conifer genus, Chamaecyparis (Cupressaceae)

Y Wang, M Ruhsam, R Milne, SW Graham, J Li… - Molecular phylogenetics …, 2022 - Elsevier
Inferring accurate biogeographic history of plant taxa with an East Asia (EA)-North America
(NA) is usually hindered by conflicting phylogenies and a poor fossil record. The current …

Incipient speciation, high genetic diversity, and ecological divergence in the alligator bark juniper suggest complex demographic changes during the Pleistocene

RM de León, G Castellanos-Morales… - PeerJ, 2022 - peerj.com
The most recent glacial cycles of the Pleistocene affected the distribution, population sizes,
and levels of genetic structure of temperate-forest species in the main Mexican mountain …

The RadOrgMiner pipeline: Automated genotyping of organellar loci from RADseq data

L Laczkó, S Jordán, G Sramkó - Methods in Ecology and …, 2022 - Wiley Online Library
Different versions of Restriction‐site‐Associated DNA sequencing (RADseq) have become
powerful and popular tools in molecular ecology. Although RADseq datasets are generally …

[PDF][PDF] The complete chloroplast genome sequence of Quercus ningangensis and its phylogenetic implication

TR Wang, ZW Wang, YG Song, G Kozlowski - Plant Fungal Syst, 2021 - pfsyst.botany.pl
Quercus ningangensis is an economically and ecologically important tree species belonging
to the family Fagaceae. In this study, the complete chloroplast (cp) genome of Q …

distAngsd: Fast and Accurate Inference of Genetic Distances for Next-Generation Sequencing Data

L Zhao, R Nielsen… - Molecular biology and …, 2022 - academic.oup.com
Commonly used methods for inferring phylogenies were designed before the emergence of
high-throughput sequencing and can generally not accommodate the challenges associated …

Phylogenetic and molecular dating analyses of Chinese endemic genus Dipelta (Caprifoliaceae) based on nuclear RAD‐Seq and chloroplast genome data

YN Cao, MH Wang, H Ran, B Tian… - … of Systematics and …, 2024 - Wiley Online Library
Abstract Dipelta Maxim.(Caprifoliaceae) is a Tertiary relic genus endemic to China, which
includes three extant species, Dipelta floribunda, Dipelta yunnanensis, and Dipelta elegans …

Analysis of chloroplast genome characteristics and codon usage bias in 14 species of Annonaceae

X Hu, Y Li, F Meng, Y Duan, M Sun, S Yang… - Functional & Integrative …, 2024 - Springer
For the study of species evolution, chloroplast gene expression, and transformation, the
chloroplast genome is an invaluable resource. Codon usage bias (CUB) analysis is a tool …