Stable persistence of relict populations involved evolutionary shifts of reproductive characters in the genus Tanakaea (Saxifragaceae)

Inferring historical survivals of climate relicts: the effects of climate changes, geography, and population-specific factors on herbaceous hydrangeas

(2021) Shota Sakaguchi et al.   HEREDITY

Geographic and subsequent biotic isolations led to a diversity anomaly of section Heterotropa (genus Asarum : Aristolochiaceae) in insular versus continental regions of the Sino‐Japanese Floristic Region

(2021) Daiki Takahashi et al.   JOURNAL OF BIOGEOGRAPHY

Evidence for Middle Miocene origin and morphological evolutionary stasis in a Barbacenia Inselberg clade (Velloziaceae)

(2021) Andressa Cabral et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Complementary combination of multiplex high‐throughput DNA sequencing for molecular phylogeny

(2021) Yoshihisa Suyama et al.   ECOLOGICAL RESEARCH

Genomic insights on the contribution of balancing selection and local adaptation to the long‐term survival of a widespread living fossil tree, Cercidiphyllum japonicum

(2020) Shanshan Zhu et al.   NEW PHYTOLOGIST

Dioecy is associated with high genetic diversity and adaptation rates in the plant genus Silene

(2020) Aline Muyle et al.   MOLECULAR BIOLOGY AND EVOLUTION

raxmlGUI 2.0: a graphical interface and toolkit for phylogenetic analyses using RAxML

(2020) Daniel Edler et al.   Methods in Ecology and Evolution

Phylogeographic Analysis and Genetic Structure of an Endemic Sino-Japanese Disjunctive Genus Diabelia (Caprifoliaceae)

(2019) Kun-Kun Zhao et al.   Frontiers in Plant Science

ipyrad: Interactive assembly and analysis of RADseq datasets

(2019) Deren A R Eaton et al.   BIOINFORMATICS

Pre-quaternary diversification and glacial demographic expansions of Cardiocrinum (Liliaceae) in temperate forest biomes of Sino-Japanese Floristic Region

(2019) Rui-Sen Lu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Strong population bottleneck and repeated demographic expansions of Populus adenopoda (Salicaceae) in subtropical China

(2018) Liqiang Fan et al.   ANNALS OF BOTANY

Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis

(2018) Ning Tang et al.   Nature Communications

The disappearance of Metasequoia (Cupressaceae) after the middle Miocene in Yunnan, Southwest China: Evidences for evolutionary stasis and intensification of Asian monsoon

(2018) Li Wang et al.   REVIEW OF PALAEOBOTANY AND PALYNOLOGY

DnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets

(2017) Julio Rozas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetic structure of the clonal herb Tanakaea radicans (Saxifragaceae) at multiple spatial scales, revealed by nuclear and mitochondrial microsatellite markers

(2017) Shota Sakaguchi et al.   PLANT SPECIES BIOLOGY

Global climatic drivers of leaf size

(2017) Ian J. Wright et al.   SCIENCE

Characterization of the complete chloroplast genome sequence of Bergenia scopulosa (Saxifragales: Saxifragaceae)

(2017) Guoqing Bai et al.   Conservation Genetics Resources

Application of a Simplified Method of Chloroplast Enrichment to Small Amounts of Tissue for Chloroplast Genome Sequencing

(2017) Shota Sakaguchi et al.   Applications in Plant Sciences

Anticipating extinctions of glacial relict populations in mountain refugia

(2016) Borja Jiménez-Alfaro et al.   BIOLOGICAL CONSERVATION

Evolution of East Asia’s Arcto-Tertiary relict Euptelea (Eupteleaceae) shaped by Late Neogene vicariance and Quaternary climate change

(2016) Ya-Nan Cao et al.   BMC EVOLUTIONARY BIOLOGY

In and out of the Qinghai-Tibet Plateau: divergence time estimation and historical biogeography of the large arctic-alpine genus Saxifraga L.

(2016) J. Ebersbach et al.   JOURNAL OF BIOGEOGRAPHY

Fitting Linear Mixed-Effects Models Usinglme4

(2015) Douglas Bates et al.   Journal of Statistical Software

MIG-seq: an effective PCR-based method for genome-wide single-nucleotide polymorphism genotyping using the next-generation sequencing platform

(2015) Yoshihisa Suyama et al.   Scientific Reports

A Protocol for Targeted Enrichment of Intron-Containing Sequence Markers for Recent Radiations: A Phylogenomic Example from Heuchera (Saxifragaceae)

(2015) Ryan A. Folk et al.   Applications in Plant Sciences

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

Polyploidy and microsatellite variation in the relict treePrunus lusitanicaL.: how effective are refugia in preserving genotypic diversity of clonal taxa?

(2013) C. García-Verdugo et al.   MOLECULAR ECOLOGY

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

Surviving in Mountain Climate Refugia: New Insights from the Genetic Diversity and Structure of the Relict Shrub Myrtus nivellei (Myrtaceae) in the Sahara Desert

(2013) Jérémy Migliore et al.   PLoS One

Leaf morphological and genetic divergence in populations of Drimys (Winteraceae) in Chile

(2012) P. Jara-Arancio et al.   GENETICS AND MOLECULAR RESEARCH

Molecular data and ecological niche modelling reveal a highly dynamic evolutionary history of the East Asian Tertiary relict Cercidiphyllum (Cercidiphyllaceae)

(2012) Xin-Shuai Qi et al.   NEW PHYTOLOGIST

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

The evolution and functional significance of leaf shape in the angiosperms

(2011) Adrienne B. Nicotra et al.   FUNCTIONAL PLANT BIOLOGY

Plant molecular phylogeography in China and adjacent regions: Tracing the genetic imprints of Quaternary climate and environmental change in the world’s most diverse temperate flora

(2011) Ying-Xiong Qiu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Eastern Asian endemic seed plant genera and their paleogeographic history throughout the Northern Hemisphere

(2009) Steven R. MANCHESTER et al.   Journal of Systematics and Evolution

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

jModelTest: Phylogenetic Model Averaging

(2008) D. Posada   MOLECULAR BIOLOGY AND EVOLUTION