4.5 Article

Extensive sharing of chloroplast haplotypes among East Asian Cerris oaks: The imprints of shared ancestral polymorphism and introgression

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Plant Sciences

Influence of Pliocene and Pleistocene climates on hybridization patterns between two closely related oak species in China

Yao Li et al.

Summary: This study examines the relationship between present admixture patterns of two East Asian Cerris oaks and past climatic niche suitability, finding that paleoclimate change shapes present admixture patterns by influencing historical range overlap. Specifically, the mid-Pliocene warm climate promoted ancient contact and widespread hybridization, while the Pleistocene cool climate limited interspecific gene flow except in areas with high ecological stability.

ANNALS OF BOTANY (2022)

Article Plant Sciences

Linked selection shapes the landscape of genomic variation in three oak species

Yi-Ye Liang et al.

Summary: Natural selection plays a key role in shaping genetic diversity within and between species, with selective sweeps and background selection influencing genomic variation. Results from studying oak species genomes show the impact of different types of selection models and the importance of linked selection in shaping genetic diversity.

NEW PHYTOLOGIST (2022)

Article Plant Sciences

Stepped Geomorphology Shaped the Phylogeographic Structure of a Widespread Tree Species (Toxicodendron vernicifluum, Anacardiaceae) in East Asia

Lu Wang et al.

Summary: The study explores the role of stepped geomorphology in shaping the phylogeographic structure of Toxicodendron vernicifluum. A clear east-west phylogeographic break was identified based on the stepped landforms of mainland China. The two major clades diverged during the Early Pleistocene, possibly due to retreat to glacial refugia and long-term geographic isolation. The study also identifies dispersal corridors in western and eastern distributions of T. vernicifluum.

FRONTIERS IN PLANT SCIENCE (2022)

Article Biochemistry & Molecular Biology

Dispersal as a result of asymmetrical hybridization between two closely related oak species in China

Jun Chen et al.

Summary: This study investigated the historical divergence and hybridization in two closely related Chinese oak species, revealing that the Northeastern China Liaodong Oak originated from the Mongolian Oak, not from the Northwest-Northern China Liaodong Oak. It also found that asymmetrical hybridization and introgression, likely facilitated by pollen flow, promoted the dispersal of the Northeastern China Liaodong Oak to the Northeastern region.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2021)

Article Biochemistry & Molecular Biology

Plastid phylogenomic analyses of Fagales reveal signatures of conflict and ancient chloroplast capture

Ying-Ying Yang et al.

Summary: Plastid phylogenomic analyses have shed light on challenging relationships within the angiosperm Tree of Life, revealing contentious relationships and conflicting phylogenetic signals across the plastome. The study highlights the sensitivity of plastid phylogenomics to genic composition and suggests extensive introgression and chloroplast capture in the early diversification of Quercus and Quercoideae. The research provides a critical plastome perspective on Fagales phylogeny, paving the way for future studies utilizing more extensive nuclear genome data.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2021)

Article Forestry

Genetic Differentiation and Demographic History of Three Cerris Oak Species in China Based on Nuclear Microsatellite Makers

Xiao-Dan Chen et al.

Summary: Genetic analysis and simulation in this study revealed that the three Cerris oak species in China underwent interspecific divergence and population expansions/contractions in response to geological events during the Miocene-Pliocene and climatic oscillations in the Quaternary period.

FORESTS (2021)

Article Genetics & Heredity

The complete chloroplast genome sequence of Quercus schottkyana, and comparative analysis with related species

Tian-Tian Li et al.

Summary: This study sequenced the complete chloroplast genome of Quercus schottkyana and found that it has a closer relationship with Quercus sichourensis and Quercus acuta.

MITOCHONDRIAL DNA PART B-RESOURCES (2021)

Article Plant Sciences

Genomic landscape of the global oak phylogeny

Andrew L. Hipp et al.

NEW PHYTOLOGIST (2020)

Review Plant Sciences

Oaks: an evolutionary success story

Antoine Kremer et al.

NEW PHYTOLOGIST (2020)

Article Biochemistry & Molecular Biology

A high level of chloroplast genome sequence variability in the Sawtooth Oak Quercus acutissima

Ru-Song Zhang et al.

INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES (2020)

Article Biochemistry & Molecular Biology

Species Identification of Oaks (Quercus L., Fagaceae) from Gene to Genome

Xinbo Pang et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2019)

Article Evolutionary Biology

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

Andrew Rambaut et al.

SYSTEMATIC BIOLOGY (2018)

Article Biochemistry & Molecular Biology

Complete Chloroplast Genome Sequence and Phylogenetic Analysis of Quercus acutissima

Xuan Li et al.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2018)

Article Genetics & Heredity

The complete chloroplast genome of Quercus baronii (Quercus L.)

Yan-ci Yang et al.

MITOCHONDRIAL DNA PART A (2017)

Article Biochemical Research Methods

ModelFinder: fast model selection for accurate phylogenetic estimates

Subha Kalyaanamoorthy et al.

NATURE METHODS (2017)

Article Plant Sciences

Comparative Analysis of the Complete Chloroplast Genomes of Five Quercus Species

Yanci Yang et al.

FRONTIERS IN PLANT SCIENCE (2016)

Article Multidisciplinary Sciences

Plastome data reveal multiple geographic origins of Quercus Group Ilex

Marco Cosimo Simeone et al.

Article Biochemistry & Molecular Biology

Phylogeography of the temperate tree species Quercus acutissima in China: Inferences from chloroplast DNA variations

Xingwang Zhang et al.

BIOCHEMICAL SYSTEMATICS AND ECOLOGY (2015)

Article Biochemistry & Molecular Biology

Phylogeny and biogeography of the American live oaks (Quercus subsection Virentes): a genomic and population genetics approach

Jeannine Cavender-Bares et al.

MOLECULAR ECOLOGY (2015)

Article Plant Sciences

SEED-MEDIATED CONNECTIVITY AMONG FRAGMENTED POPULATIONS OF QUERCUS CASTANEA (FAGACEAE) IN A MEXICAN LANDSCAPE

M. Luisa Herrera-Arroyo et al.

AMERICAN JOURNAL OF BOTANY (2013)

Article Biochemistry & Molecular Biology

Evidence of chloroplast capture in South American Nothofagus (subgenus Nothofagus, Nothofagaceae)

M. Cristina Acosta et al.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2010)

Article Biochemical Research Methods

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

P. Librado et al.

BIOINFORMATICS (2009)

Review Ecology

Gene flow and species delimitation

Remy J. Petit et al.

TRENDS IN ECOLOGY & EVOLUTION (2009)

Article Multidisciplinary Sciences

Evolution and genetic differentiation among relatives of Arabidopsis thaliana

Marcus A. Koch et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2007)

Article Biochemistry & Molecular Biology

Bayesian coalescent inference of past population dynamics from molecular sequences

AJ Drummond et al.

MOLECULAR BIOLOGY AND EVOLUTION (2005)