Partitioning the effects of isolation by distance, environment, and physical barriers on genomic divergence between parapatric threespine stickleback

Fitness differences between parapatric lake and stream stickleback revealed by a field transplant

(2016) D. Moser et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

When maladaptive gene flow does not increase selection

(2015) Gregor Rolshausen et al.   EVOLUTION

Differences in rheotactic responses contribute to divergent habitat use between parapatric lake and stream threespine stickleback

(2015) Yuexin Jiang et al.   EVOLUTION

Testing for parallel allochronic isolation in lake-stream stickleback

(2015) D. Hanson et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Does plasticity enhance or dampen phenotypic parallelism? A test with three lake-stream stickleback pairs

(2015) K. B. Oke et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

The impact of selection, gene flow and demographic history on heterogeneous genomic divergence: three-spine sticklebacks in divergent environments

(2015) Anne-Laure Ferchaud et al.   MOLECULAR ECOLOGY

The genomics of ecological vicariance in threespine stickleback fish

(2015) Marius Roesti et al.   Nature Communications

Genomics of Divergence along a Continuum of Parapatric Population Differentiation

(2015) Philine G. D. Feulner et al.   PLoS Genetics

ngsTools: methods for population genetics analyses from next-generation sequencing data

(2014) Matteo Fumagalli et al.   BIOINFORMATICS

ANGSD: Analysis of Next Generation Sequencing Data

(2014) Thorfinn Sand Korneliussen et al.   BMC BIOINFORMATICS

DISENTANGLING THE ROLE OF PHENOTYPIC PLASTICITY AND GENETIC DIVERGENCE IN CONTEMPORARY ECOTYPE FORMATION DURING A BIOLOGICAL INVASION

(2014) Kay Lucek et al.   EVOLUTION

The Effect of Linkage on Establishment and Survival of Locally Beneficial Mutations

(2014) Simon Aeschbacher et al.   GENETICS

Isolation by environment

(2014) Ian J. Wang et al.   MOLECULAR ECOLOGY

Microgeographic adaptation and the spatial scale of evolution

(2014) Jonathan L. Richardson et al.   TRENDS IN ECOLOGY & EVOLUTION

Extensive Copy-Number Variation of Young Genes across Stickleback Populations

(2014) Frédéric J. J. Chain et al.   PLoS Genetics

EVOLUTIONARY INFERENCES FROM THE ANALYSIS OF EXCHANGEABILITY

(2013) Andrew P. Hendry et al.   EVOLUTION

DISENTANGLING THE EFFECTS OF GEOGRAPHIC AND ECOLOGICAL ISOLATION ON GENETIC DIFFERENTIATION

(2013) Gideon S. Bradburd et al.   EVOLUTION

GENETIC ISOLATION BY ENVIRONMENT OR DISTANCE: WHICH PATTERN OF GENE FLOW IS MOST COMMON?

(2013) Jason P. Sexton et al.   EVOLUTION

Quantifying Population Genetic Differentiation from Next-Generation Sequencing Data

(2013) Matteo Fumagalli et al.   GENETICS

Repeated and predictable patterns of ecotypic differentiation during a biological invasion: lake-stream divergence in parapatric Swiss stickleback

(2013) K. Lucek et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Dismantling the Mantel tests

(2013) Gilles Guillot et al.   Methods in Ecology and Evolution

Genetic and morphometric divergence in threespine stickleback in the Chignik catchment, Alaska

(2013) Annette Taugbøl et al.   Ecology and Evolution

The magnitude of local adaptation under genotype-dependent dispersal

(2013) Daniel I. Bolnick et al.   Ecology and Evolution

Quantifying the roles of ecology and geography in spatial genetic divergence

(2012) Ian J. Wang et al.   ECOLOGY LETTERS

Parallel and nonparallel ecological, morphological and genetic divergence in lake-stream stickleback from a single catchment

(2012) M. Ravinet et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Genome divergence during evolutionary diversification as revealed in replicate lake-stream stickleback population pairs

(2012) MARIUS ROESTI et al.   MOLECULAR ECOLOGY

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

Repeated Lake-Stream Divergence in Stickleback Life History within a Central European Lake Basin

(2012) Dario Moser et al.   PLoS One

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

PARALLEL AND NONPARALLEL ASPECTS OF ECOLOGICAL, PHENOTYPIC, AND GENETIC DIVERGENCE ACROSS REPLICATE POPULATION PAIRS OF LAKE AND STREAM STICKLEBACK

(2011) Renaud Kaeuffer et al.   EVOLUTION

Quantitative genetic inheritance of morphological divergence in a lake-stream stickleback ecotype pair: implications for reproductive isolation

(2011) D. BERNER et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Population genomics of parallel phenotypic evolution in stickleback across stream-lake ecological transitions

(2011) B. E. Deagle et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Testing for mating isolation between ecotypes: laboratory experiments with lake, stream and hybrid stickleback

(2010) J. A. M. RAEYMAEKERS et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

PHENOTYPE-DEPENDENT NATIVE HABITAT PREFERENCE FACILITATES DIVERGENCE BETWEEN PARAPATRIC LAKE AND STREAM STICKLEBACK

(2009) Daniel I. Bolnick et al.   EVOLUTION

VARIABLE PROGRESS TOWARD ECOLOGICAL SPECIATION IN PARAPATRY: STICKLEBACK ACROSS EIGHT LAKE-STREAM TRANSITIONS

(2009) Daniel Berner et al.   EVOLUTION

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

Genetic structure is correlated with phenotypic divergence rather than geographic isolation in the highly polymorphic strawberry poison-dart frog

(2009) IAN J. WANG et al.   MOLECULAR ECOLOGY

Can gene flow have negative demographic consequences? Mixed evidence from stream threespine stickleback

(2009) J.-S. Moore et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Structure of Clines with Fitness‐Dependent Dispersal

(2008) Paul R. Armsworth et al.   AMERICAN NATURALIST

Disentangling interactions between adaptive divergence and gene flow when ecology drives diversification

(2008) Katja Räsänen et al.   ECOLOGY LETTERS