The demographic history of Atlantic salmon (Salmo salar ) across its distribution range reconstructed from approximate Bayesian computations*

Modeling the Multiple Facets of Speciation-with-Gene-Flow toward Inferring the Divergence History of Lake Whitefish Species Pairs (Coregonus clupeaformis)

(2017) Clément Rougeux et al.   Genome Biology and Evolution

Linked selection, demography and the evolution of correlated genomic landscapes in birds and beyond

(2017) Reto Burri   MOLECULAR ECOLOGY

Extensive recent secondary contacts between four European white oak species

(2017) Thibault Leroy et al.   NEW PHYTOLOGIST

Range-wide parallel climate-associated genomic clines in Atlantic salmon

(2017) Nicholas W. Jeffery et al.   Royal Society Open Science

Effects of Linked Selective Sweeps on Demographic Inference and Model Selection

(2016) D. R. Schrider et al.   GENETICS

Making sense of the relationships between Ne, Nb and Nc towards defining conservation thresholds in Atlantic salmon (Salmo salar)

(2016) A-L Ferchaud et al.   HEREDITY

Genomic Evidence for Adaptive Inversion Clines inDrosophila melanogaster

(2016) Martin Kapun et al.   MOLECULAR BIOLOGY AND EVOLUTION

Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation inDrosophila melanogaster

(2016) Alan O. Bergland et al.   MOLECULAR ECOLOGY

Parallel genetic divergence among coastal-marine ecotype pairs of European anchovy explained by differential introgression after secondary contact

(2016) A. Le Moan et al.   MOLECULAR ECOLOGY

Inferring the demographic history underlying parallel genomic divergence among pairs of parasitic and nonparasitic lamprey ecotypes

(2016) Quentin Rougemont et al.   MOLECULAR ECOLOGY

Genomics of clinal variation inDrosophila: disentangling the interactions of selection and demography

(2016) Thomas Flatt   MOLECULAR ECOLOGY

Heterogeneous genome divergence, differential introgression, and the origin and structure of hybrid zones

(2016) Richard G. Harrison et al.   MOLECULAR ECOLOGY

Selection against recombinant hybrids maintains reproductive isolation in hybridizingPopulusspecies despite F1fertility and recurrent gene flow

(2016) Camille Christe et al.   MOLECULAR ECOLOGY

The Atlantic salmon genome provides insights into rediploidization

(2016) Sigbjørn Lien et al.   NATURE

Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex

(2016) Nagarjun Vijay et al.   Nature Communications

Shedding Light on the Grey Zone of Speciation along a Continuum of Genomic Divergence

(2016) Camille Roux et al.   PLOS BIOLOGY

A Spatial Framework for Understanding Population Structure and Admixture

(2016) Gideon S. Bradburd et al.   PLoS Genetics

Reconstructing the demographic history of divergence between European river and brook lampreys using approximate Bayesian computations

(2016) Quentin Rougemont et al.   PeerJ

The geography of introgression in a patchy environment and the thorn in the side of ecological speciation

(2016) Nicolas Bierne et al.   Current Zoology

Population genomic evidence for adaptive differentiation in Baltic Sea three-spined sticklebacks

(2015) Baocheng Guo et al.   BMC BIOLOGY

Adaptation to Low Salinity Promotes Genomic Divergence in Atlantic Cod ( Gadus morhua L.)

(2015) Paul R. Berg et al.   Genome Biology and Evolution

Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum ofFicedulaflycatchers

(2015) Reto Burri et al.   GENOME RESEARCH

The consequences of not accounting for background selection in demographic inference

(2015) Gregory B. Ewing et al.   MOLECULAR ECOLOGY

Transatlantic secondary contact in Atlantic Salmon, comparing microsatellites, a single nucleotide polymorphism array and restriction-site associated DNA sequencing for the resolution of complex spatial structure

(2015) Ian R. Bradbury et al.   MOLECULAR ECOLOGY

TESS3: fast inference of spatial population structure and genome scans for selection

(2015) Kevin Caye et al.   Molecular Ecology Resources

LEA: AnRpackage for landscape and ecological association studies

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

Conservation genomics of anadromous Atlantic salmon across its North American range: outlier loci identify the same patterns of population structure as neutral loci

(2014) Jean-Sébastien Moore et al.   MOLECULAR ECOLOGY

Reanalysis suggests that genomic islands of speciation are due to reduced diversity, not reduced gene flow

(2014) Tami E. Cruickshank et al.   MOLECULAR ECOLOGY

Genomics and the origin of species

(2014) Ole Seehausen et al.   NATURE REVIEWS GENETICS

European sea bass genome and its variation provide insights into adaptation to euryhalinity and speciation

(2014) Mbaye Tine et al.   Nature Communications

THE GENETIC ARCHITECTURE OF REPRODUCTIVE ISOLATION DURING SPECIATION-WITH-GENE-FLOW IN LAKE WHITEFISH SPECIES PAIRS ASSESSED BY RAD SEQUENCING

(2013) Pierre-Alexandre Gagnaire et al.   EVOLUTION

GENETIC HITCHHIKING AND THE DYNAMIC BUILDUP OF GENOMIC DIVERGENCE DURING SPECIATION WITH GENE FLOW

(2013) Samuel M. Flaxman et al.   EVOLUTION

Identifying Loci Under Selection Against Gene Flow in Isolation-with-Migration Models

(2013) Vitor C. Sousa et al.   GENETICS

Use of multiple markers demonstrates a cryptic western refugium and postglacial colonisation routes of Atlantic salmon (Salmo salar L.) in northwest Europe

(2013) A K Finnegan et al.   HEREDITY

Crossing the Species Barrier: Genomic Hotspots of Introgression between Two Highly Divergent Ciona intestinalis Species

(2013) Camille Roux et al.   MOLECULAR BIOLOGY AND EVOLUTION

Asymmetrical viability in backcrosses between highly divergent populations of Atlantic salmon (Salmo salar): implications for conservation

(2012) Eef Cauwelier et al.   CONSERVATION GENETICS

SNP-array reveals genome-wide patterns of geographical and potential adaptive divergence across the natural range of Atlantic salmon (Salmo salar)

(2012) Vincent Bourret et al.   MOLECULAR ECOLOGY

The genomics of speciation-with-gene-flow

(2012) Jeffrey L. Feder et al.   TRENDS IN GENETICS

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

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

Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

(2012) Joseph K. Pickrell et al.   PLoS Genetics

Genetics of local adaptation in salmonid fishes

(2011) C R Primmer   HEREDITY

Determinants of hierarchical genetic structure in Atlantic salmon populations: environmental factors vs. anthropogenic influences

(2011) CHARLES PERRIER et al.   MOLECULAR ECOLOGY

The coupling hypothesis: why genome scans may fail to map local adaptation genes

(2011) NICOLAS BIERNE et al.   MOLECULAR ECOLOGY

Does Speciation between Arabidopsis halleri and Arabidopsis lyrata Coincide with Major Changes in a Molecular Target of Adaptation?

(2011) Camille Roux et al.   PLoS One

Formal ratification of the Quaternary System/Period and the Pleistocene Series/Epoch with a base at 2.58 Ma

(2010) Philip L. Gibbard et al.   JOURNAL OF QUATERNARY SCIENCE

Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows

(2010) LAURENT EXCOFFIER et al.   Molecular Ecology Resources

Reversed flow of Atlantic deep water during the Last Glacial Maximum

(2010) César Negre et al.   NATURE

Correcting for ascertainment bias in the inference of population structure

(2009) Gilles Guillot et al.   BIOINFORMATICS

DISENTANGLING THE EFFECTS OF EVOLUTIONARY, DEMOGRAPHIC, AND ENVIRONMENTAL FACTORS INFLUENCING GENETIC STRUCTURE OF NATURAL POPULATIONS: ATLANTIC HERRING AS A CASE STUDY

(2009) Oscar E. Gaggiotti et al.   EVOLUTION

Historical Divergence and Gene Flow in the Genus Zea

(2009) J. Ross-Ibarra et al.   GENETICS

Age Structure, Changing Demography and Effective Population Size in Atlantic Salmon ( Salmo salar )

(2009) Friso P. Palstra et al.   GENETICS

Islands of speciation or mirages in the desert? Examining the role of restricted recombination in maintaining species

(2009) M A F Noor et al.   HEREDITY

Reconstructing Indian population history

(2009) David Reich et al.   NATURE

The Last Glacial Maximum

(2009) P. U. Clark et al.   SCIENCE

The genetic mosaic suggests a new role for hitchhiking in ecological speciation

(2008) SARA VIA et al.   MOLECULAR ECOLOGY

A broad transition zone between an inner Baltic hybrid swarm and a pure North Sea subspecies of Macoma balthica (Mollusca, Bivalvia)

(2008) RAISA NIKULA et al.   MOLECULAR ECOLOGY

Landscape genetics and hierarchical genetic structure in Atlantic salmon: the interaction of gene flow and local adaptation

(2008) MÉLANIE DIONNE et al.   MOLECULAR ECOLOGY

Patterns of Polymorphism and Demographic History in Natural Populations of Arabidopsis lyrata

(2008) Jeffrey Ross-Ibarra et al.   PLoS One