Phylotranscriptomics reveals the complex evolutionary and biogeographic history of the genus Tsuga with an East Asian-North American disjunct distribution

The importance of the North Atlantic land bridges and eastern Asia in the post-Boreotropical biogeography of the Northern Hemisphere as revealed from the poison ivy genus (Toxicodendron, Anacardiaceae)

(2019) Ying Jiang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylotranscriptomics resolves interspecific relationships and indicates multiple historical out-of-North America dispersals through the Bering Land Bridge for the genus Picea (Pinaceae)

(2019) Cheng-Cheng Shao et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenomics disentangles the evolutionary history of spruces (Picea) in the Qinghai-Tibetan Plateau: Implications for the design of population genetic studies and species delimitation of conifers

(2019) Ting-Ting Shen et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenomics, co-evolution of ecological niche and morphology, and historical biogeography of buckeyes, horsechestnuts, and their relatives (Hippocastaneae, Sapindaceae) and the value of RAD-Seq for deep evolutionary inferences back to the Late Cretaceous

(2019) Zhi-Yuan Du et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Multi-locus phylogenetics, lineage sorting, and reticulation in Pinus subsection Australes

(2018) David S. Gernandt et al.   AMERICAN JOURNAL OF BOTANY

Adaptive introgression: a plant perspective

(2018) Adriana Suarez-Gonzalez et al.   Biology Letters

From America to Eurasia: a multigenomes history of the genus Abies

(2018) Svetlana A. Semerikova et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

An overview of extant conifer evolution from the perspective of the fossil record

(2018) Andrew B. Leslie et al.   AMERICAN JOURNAL OF BOTANY

Proteome of olive non-glandular trichomes reveals protective protein network against (a)biotic challenge

(2018) Loukia Roka et al.   JOURNAL OF PLANT PHYSIOLOGY

Phylogeny and evolutionary history of Pinaceae updated by transcriptomic analysis

(2018) Jin-Hua Ran et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Resolving interspecific relationships within evolutionarily young lineages using RNA-seq data: An example from Pedicularis section Cyathophora (Orobanchaceae)

(2017) Hong-Juan Wang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Rapid radiations of both kiwifruit hybrid lineages and their parents shed light on a two-layer mode of species diversification

(2017) Yifei Liu et al.   NEW PHYTOLOGIST

A New Species and Introgression in Eastern Asian Hemlocks (Pinaceae: Tsuga)

(2017) Garth Holman et al.   SYSTEMATIC BOTANY

Revisiting a classic case of introgression: hybridization and gene flow in Californian sunflowers

(2016) Gregory L. Owens et al.   MOLECULAR ECOLOGY

Determining the extent and direction of introgression between three spruce species based on molecular markers from three genomes with different rates of gene flow

(2016) Xi Wang et al.   PLANT SYSTEMATICS AND EVOLUTION

Intercontinental disjunctions between eastern Asia and western North America in vascular plants highlight the biogeographic importance of the Bering land bridge from late Cretaceous to Neogene

(2016) Jun Wen et al.   Journal of Systematics and Evolution

Mitochondrial introgression and complex biogeographic history of the genus Picea

(2015) Jin-Hua Ran et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogenetic relationships, possible ancient hybridization, and biogeographic history of Abies (Pinaceae) based on data from nuclear, plastid, and mitochondrial genomes

(2015) Qiao-Ping Xiang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Introgressive hybridization facilitates adaptive divergence in a recent radiation of monkeyflowers

(2015) Sean Stankowski et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

ASTRAL: genome-scale coalescent-based species tree estimation

(2014) S. Mirarab et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

FASconCAT-G: extensive functions for multiple sequence alignment preparations concerning phylogenetic studies

(2014) Patrick Kück et al.   Frontiers in Zoology

Phylogeography and evolution of three closely related species ofTsuga(hemlock) from subtropical eastern Asia: further insights into speciation of conifers

(2014) Yu-Zhi Cun et al.   JOURNAL OF BIOGEOGRAPHY

Evolution and biogeography of gymnosperms

(2014) Xiao-Quan Wang et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Mitochondrial DNA variation and reticulate evolution of the genus Abies

(2014) S. A. Semerikova et al.   RUSSIAN JOURNAL OF GENETICS

To move or to evolve: contrasting patterns of intercontinental connectivity and climatic niche evolution in “Terebinthaceae” (Anacardiaceae and Burseraceae)

(2014) Andrea Weeks et al.   Frontiers in Genetics

SuperQ: Computing Supernetworks from Quartets

(2013) Stefan Grunewald et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

A new Tsuga species from the upper Miocene of Yunnan, southwestern China and its palaeogeographic significance

(2013) Yao-Wu Xing et al.   Palaeoworld

Hemisphere-scale differences in conifer evolutionary dynamics

(2012) A. B. Leslie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Large-scale asymmetric introgression of cytoplasmic DNA reveals Holocene range displacement in a North American boreal pine complex

(2012) Julie Godbout et al.   Ecology and Evolution

Palaeogeographic reconstruction of the 1.55 Ma synchronous isolation of the Ryukyu Islands, Japan, and Taiwan and inflow of the Kuroshio warm current

(2011) Soichi Osozawa et al.   INTERNATIONAL GEOLOGY REVIEW

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Direction and extent of organelle DNA introgression between two spruce species in the Qinghai-Tibetan Plateau

(2011) Fang K. Du et al.   NEW PHYTOLOGIST

Testing the Impact of Calibration on Molecular Divergence Times Using a Fossil-Rich Group: The Case of Nothofagus (Fagales)

(2011) Hervé Sauquet et al.   SYSTEMATIC BIOLOGY

Plant recolonization in the Himalaya from the southeastern Qinghai-Tibetan Plateau: Geographical isolation contributed to high population differentiation

(2010) Yu-Zhi Cun et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Molecular phylogeny and biogeography of Pseudotsuga (Pinaceae): Insights into the floristic relationship between Taiwan and its adjacent areas

(2010) Xiao-Xin Wei et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Incongruence among mitochondrial, chloroplast and nuclear gene trees in Pinus subgenus Strobus (Pinaceae)

(2009) Kiyomi Tsutsui et al.   JOURNAL OF PLANT RESEARCH

More introgression with less gene flow: chloroplast vs. mitochondrial DNA in thePicea asperatacomplex in China, and comparison with other Conifers

(2009) FANG K. DU et al.   MOLECULAR ECOLOGY

Fast evolution of the retroprocessed mitochondrial rps3 gene in Conifer II and further evidence for the phylogeny of gymnosperms

(2009) Jin-Hua Ran et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Historical biogeography of the genus Chamaecyparis (Cupressaceae, Coniferales) based on its fossil record

(2009) (Christopher) Yu-Sheng Liu et al.   Palaeobiodiversity and Palaeoenvironments

Reticulate evolution in Thuja inferred from multiple gene sequences: Implications for the study of biogeographical disjunction between eastern Asia and North America

(2008) Dan Peng et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Relative rates of synonymous substitutions in the mitochondrial, chloroplast and nuclear genomes of seed plants

(2008) G DROUIN et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Using fossils and molecular data to reveal the origins of the Cape proteas (subfamily Proteoideae)

(2008) Hervé Sauquet et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Phylogeny and Biogeography of Tsuga (Pinaceae) Inferred from Nuclear Ribosomal ITS and Chloroplast DNA Sequence Data

(2008) Nathan P. Havill et al.   SYSTEMATIC BOTANY