East Asian origin of the widespread alpine snow‐bed herb, Primula cuneifolia (Primulaceae), in the northern Pacific region

Random PCR‐based genotyping by sequencing technology GRAS‐Di (genotyping by random amplicon sequencing, direct) reveals genetic structure of mangrove fishes

(2019) Sho Hosoya et al.   Molecular Ecology Resources

Post-glacial East Asian origin of the alpine shrub Phyllodoce aleutica (Ericaceae) in Beringia

(2018) Hajime Ikeda et al.   JOURNAL OF BIOGEOGRAPHY

Draft genome sequence ofCamellia sinensisvar.sinensisprovides insights into the evolution of the tea genome and tea quality

(2018) Chaoling Wei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Late Pleistocene origin of the entire circumarctic range of the arctic-alpine plant Kalmia procumbens

(2017) Hajime Ikeda et al.   MOLECULAR ECOLOGY

Phylogeographical insight into the Aleutian flora inferred from the historical range shifts of the alpine shrub Therorhodion camtschaticum (Pall.) Small (Ericaceae)

(2016) Daijiro Hata et al.   JOURNAL OF BIOGEOGRAPHY

Geographical origins, migration patterns and refugia ofSibbaldia procumbens, an arctic-alpine plant with a fragmented range

(2015) Geraldine A. Allen et al.   JOURNAL OF BIOGEOGRAPHY

Post-glacial recolonization of the North American Arctic by Arctic char (Salvelinus alpinus): genetic evidence of multiple northern refugia and hybridization between glacial lineages

(2015) Jean-Sébastien Moore et al.   JOURNAL OF BIOGEOGRAPHY

RASP (Reconstruct Ancestral State in Phylogenies): A tool for historical biogeography

(2015) Yan Yu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Arctic plant origins and early formation of circumarctic distributions: a case study of the mountain sorrel, Oxyria digyna

(2015) Qian Wang et al.   NEW PHYTOLOGIST

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

Phylogeographical study of the alpine plantCassiope lycopodioides(Ericaceae) suggests a range connection between the Japanese archipelago and Beringia during the Pleistocene

(2014) Hajime Ikeda et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Geographical origins of North AmericanRhodiola(Crassulaceae) and phylogeography of the western roseroot,Rhodiola integrifolia

(2014) Heidi J. Guest et al.   JOURNAL OF BIOGEOGRAPHY

PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses in R

(2014) Bastian Pfeifer et al.   MOLECULAR BIOLOGY AND EVOLUTION

High mountain origin, phylogenetics, evolution, and niche conservatism of arctic lineages in the hemiparasitic genus Pedicularis (Orobanchaceae)

(2014) Natalia Tkach et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Molecular phylogeny and biogeography of the arctic-alpine genus Lagotis (Plantaginaceae)

(2014) Guo-Dong Li et al.   TAXON

Making better Maxentmodels of species distributions: complexity, overfitting and evaluation

(2013) Aleksandar Radosavljevic et al.   JOURNAL OF BIOGEOGRAPHY

Genetic roadmap of the Arctic: plant dispersal highways, traffic barriers and capitals of diversity

(2013) Pernille Bronken Eidesen et al.   NEW PHYTOLOGIST

Robust Demographic Inference from Genomic and SNP Data

(2013) Laurent Excoffier et al.   PLoS Genetics

Phylogeographical patterns in the widespread arctic-alpine plantBistorta vivipara(Polygonaceae) with emphasis on western North America

(2012) Kendrick L. Marr et al.   JOURNAL OF BIOGEOGRAPHY

Tales of the unexpected: Phylogeography of the arctic-alpine model plantSaxifraga oppositifolia(Saxifragaceae) revisited

(2012) MANUELA WINKLER et al.   MOLECULAR ECOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

abc: an R package for approximate Bayesian computation (ABC)

(2012) Katalin Csilléry et al.   Methods in Ecology and Evolution

The impact of Pleistocene climate change on an ancient arctic-alpine plant: multiple lineages of disparate history inOxyria digyna

(2012) Geraldine A. Allen et al.   Ecology and Evolution

fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios

(2011) Laurent Excoffier et al.   BIOINFORMATICS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences

(2011) Julian M. Catchen et al.   G3-Genes Genomes Genetics

CD-HIT Suite: a web server for clustering and comparing biological sequences

(2010) Ying Huang et al.   BIOINFORMATICS

ABCtoolbox: a versatile toolkit for approximate Bayesian computations

(2010) Daniel Wegmann et al.   BMC BIOINFORMATICS

Glacial survival may matter after all: nunatak signatures in the rare European populations of two west-arctic species

(2010) KRISTINE B. WESTERGAARD et al.   MOLECULAR ECOLOGY

Cytoplasmic DNA variation and biogeography ofLarixMill. in Northeast Asia

(2010) MARIA A. POLEZHAEVA et al.   MOLECULAR ECOLOGY

Of glaciers and refugia: a decade of study sheds new light on the phylogeography of northwestern North America

(2010) AARON B. A. SHAFER et al.   MOLECULAR ECOLOGY

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

Statistical Phylogeography

(2009) L. Lacey Knowles   Annual Review of Ecology Evolution and Systematics

Application of the Isolation with Migration Model Demonstrates the Pleistocene Origin of Geographic Differentiation in Cardamine nipponica (Brassicaceae), an Endemic Japanese Alpine Plant

(2009) Hajime Ikeda et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogeography’s past, present, and future: 10 years after Avise, 2000

(2009) M.J. Hickerson et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Non-linear regression models for Approximate Bayesian Computation

(2009) Michael G. B. Blum et al.   STATISTICS AND COMPUTING

The effect of segregation of flowering time on fine-scale spatial genetic structure in an alpine-snowbed herb Primula cuneifolia

(2008) A S Hirao et al.   HEREDITY

Survival and genetic divergence of an arctic-alpine plant, Diapensia lapponica subsp. obovata (Fr. Schm.) Hultén (Diapensiaceae), in the high mountains of central Japan during climatic oscillations

(2008) H. Ikeda et al.   PLANT SYSTEMATICS AND EVOLUTION