Genome-wide signatures of local adaptation among seven stoneflies species along a nationwide latitudinal gradient in Japan

The genomic footprint of climate adaptation in Chironomus riparius

(2018) Ann-Marie Waldvogel et al.   MOLECULAR ECOLOGY

Multiscale landscape genomic models to detect signatures of selection in the alpine plant Biscutella laevigata

(2018) Kevin Leempoel et al.   Ecology and Evolution

Species diversity of insects in Japan: Their origins and diversification processes

(2017) Koji Tojo et al.   ENTOMOLOGICAL SCIENCE

Advances and Limits of Using Population Genetics to Understand Local Adaptation

(2017) Peter Tiffin et al.   TRENDS IN ECOLOGY & EVOLUTION

Ecological speciation by temporal isolation in a population of the stoneflyLeuctra hippopus(Plecoptera, Leuctridae)

(2017) Louis Boumans et al.   Ecology and Evolution

Genomics of parallel adaptation at two timescales in Drosophila

(2017) Li Zhao et al.   PLoS Genetics

RAD sequencing resolves fine-scale population structure in a benthic invertebrate: implications for understanding phenotypic plasticity

(2017) David L. J. Vendrami et al.   Royal Society Open Science

Contrasting effects of environment and genetics generate a continuum of parallel evolution

(2017) Yoel E. Stuart et al.   Nature Ecology & Evolution

Capturing neutral and adaptive genetic diversity for conservation in a highly structured tree species

(2016) Isabel Rodríguez-Quilón et al.   ECOLOGICAL APPLICATIONS

Direct Determination of the Mutation Rate in the Bumblebee Reveals Evidence for Weak Recombination-Associated Mutation and an Approximate Rate Constancy in Insects

(2016) Haoxuan Liu et al.   MOLECULAR BIOLOGY AND EVOLUTION

The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales

(2015) H De Kort et al.   HEREDITY

Seascape genetics along environmental gradients in the Arabian Peninsula: insights from ddRAD sequencing of anemonefishes

(2015) Pablo Saenz-Agudelo et al.   MOLECULAR ECOLOGY

Neutral and adaptive genomic signatures of rapid poleward range expansion

(2015) J. Swaegers et al.   MOLECULAR ECOLOGY

Shared and nonshared genomic divergence in parallel ecotypes ofLittorina saxatilisat a local scale

(2015) Mark Ravinet et al.   MOLECULAR ECOLOGY

Landscape community genomics: understanding eco-evolutionary processes in complex environments

(2015) Brian K. Hand et al.   TRENDS IN ECOLOGY & EVOLUTION

LEA: AnRpackage for landscape and ecological association studies

(2015) Eric Frichot et al.   Methods in Ecology and Evolution

Genome-wide high-throughput SNP discovery and genotyping for understanding natural (functional) allelic diversity and domestication patterns in wild chickpea

(2015) Deepak Bajaj et al.   Scientific Reports

Second-generation PLINK: rising to the challenge of larger and richer datasets

(2015) Christopher C Chang et al.   GigaScience

Genome-environment associations in sorghum landraces predict adaptive traits

(2015) J. R. Lasky et al.   Science Advances

Toward better understanding of artifacts in variant calling from high-coverage samples

(2014) Heng Li   BIOINFORMATICS

Ecological genomics and process modeling of local adaptation to climate

(2014) Cynthia Weinig et al.   CURRENT OPINION IN PLANT BIOLOGY

How context dependent are species interactions?

(2014) Scott A. Chamberlain et al.   ECOLOGY LETTERS

fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets

(2014) Anil Raj et al.   GENETICS

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

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

Restriction site-associated DNA sequencing, genotyping error estimation andde novoassembly optimization for population genetic inference

(2014) A. Mastretta-Yanes et al.   Molecular Ecology Resources

Adaptive Genetic Divergence along Narrow Environmental Gradients in Four Stream Insects

(2014) Kozo Watanabe et al.   PLoS One

Stick Insect Genomes Reveal Natural Selection's Role in Parallel Speciation

(2014) V. Soria-Carrasco et al.   SCIENCE

Freshwater Biodiversity and Aquatic Insect Diversification

(2013) Klaas-Douwe B. Dijkstra et al.   Annual Review of Entomology

INTEGRATING LANDSCAPE GENOMICS AND SPATIALLY EXPLICIT APPROACHES TO DETECT LOCI UNDER SELECTION IN CLINAL POPULATIONS

(2013) Matthew R. Jones et al.   EVOLUTION

Testing for Associations between Loci and Environmental Gradients Using Latent Factor Mixed Models

(2013) Eric Frichot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Community genetics in the time of next-generation molecular technologies

(2013) Felix Gugerli et al.   MOLECULAR ECOLOGY

Shared selective pressure and local genomic landscape lead to repeatable patterns of genomic divergence in sunflowers

(2013) Sebastien Renaut et al.   MOLECULAR ECOLOGY

Population genomic footprints of selection and associations with climate in natural populations ofArabidopsis hallerifrom the Alps

(2013) Martin C. Fischer et al.   MOLECULAR ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Ten years of landscape genetics

(2013) Stéphanie Manel et al.   TRENDS IN ECOLOGY & EVOLUTION

Aquatic insects in a sea of desert: population genetic structure is shaped by limited dispersal in a naturally fragmented landscape

(2012) Ivan C. Phillipsen et al.   ECOGRAPHY

Algorithms for geodesics

(2012) Charles F. F. Karney   JOURNAL OF GEODESY

Local Adaptation in the Flowering-Time Gene Network of Balsam Poplar, Populus balsamifera L.

(2012) S. R. Keller et al.   MOLECULAR BIOLOGY AND EVOLUTION

Environmental selection on transcriptome-derived SNPs in a high gene flow marine fish, the Atlantic herring (Clupea harengus)

(2012) MORTEN T. LIMBORG et al.   MOLECULAR ECOLOGY

Recommendations for utilizing and reporting population genetic analyses: the reproducibility of genetic clustering using the programstructure

(2012) Kimberly J. Gilbert et al.   MOLECULAR ECOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Climate change and evolutionary adaptation

(2011) Ary A. Hoffmann et al.   NATURE

Linkage Mapping and Comparative Genomics Using Next-Generation RAD Sequencing of a Non-Model Organism

(2011) Simon W. Baxter et al.   PLoS One

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Perspectives on the use of landscape genetics to detect genetic adaptive variation in the field

(2010) STÉPHANIE MANEL et al.   MOLECULAR ECOLOGY

Gene–environment-wide association studies: emerging approaches

(2010) Duncan Thomas   NATURE REVIEWS GENETICS

Latitudinal gradients in stream invertebrate assemblages at a regional scale on Hokkaido Island, Japan

(2009) TERUTAKA MORI et al.   FRESHWATER BIOLOGY

Variation in the Ratio of Nucleotide Substitution and Indel Rates across Genomes in Mammals and Bacteria

(2009) J.-Q. Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

ECOLOGICAL GENETICS IN THE NORTH ATLANTIC: ENVIRONMENTAL GRADIENTS AND ADAPTATION AT SPECIFIC LOCI

(2008) Paul S. Schmidt et al.   ECOLOGY