Using neutral, selected, and hitchhiker loci to assess connectivity of marine populations in the genomic era

Soft Shoulders Ahead: Spurious Signatures of Soft and Partial Selective Sweeps Result from Linked Hard Sweeps

(2015) D. R. Schrider et al.   GENETICS

Local interspecies introgression is the main cause of extreme levels of intraspecific differentiation in mussels

(2015) Christelle Fraïsse et al.   MOLECULAR ECOLOGY

Widespread Signals of Convergent Adaptation to High Altitude in Asia and America

(2014) Matthieu Foll et al.   AMERICAN JOURNAL OF HUMAN GENETICS

New SNP markers reveal largely concordant clinal variation across the hybrid zone between Mytilus spp. in the Baltic Sea

(2014) M Zbawicka et al.   Aquatic Biology

Gene-Flow in a Mosaic Hybrid Zone: Is Local Introgression Adaptive?

(2014) C. Fraisse et al.   GENETICS

The Lengths of Admixture Tracts

(2014) M. Liang et al.   GENETICS

Testing for Hardy–Weinberg Proportions: Have We Lost the Plot?

(2014) Robin S. Waples   JOURNAL OF HEREDITY

Genome Scans for Detecting Footprints of Local Adaptation Using a Bayesian Factor Model

(2014) Nicolas Duforet-Frebourg et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rare Variation Facilitates Inferences of Fine-Scale Population Structure in Humans

(2014) Timothy D. O’Connor et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evidence for adaptation from standing genetic variation on an antimicrobial peptide gene in the musselMytilus edulis

(2014) Célia C. Gosset et al.   MOLECULAR ECOLOGY

The genomic signature of parallel adaptation from shared genetic variation

(2014) Marius Roesti et al.   MOLECULAR ECOLOGY

Evaluation of demographic history and neutral parameterization on the performance ofFSToutlier tests

(2014) Katie E. Lotterhos et al.   MOLECULAR ECOLOGY

Genome scan methods against more complex models: when and how much should we trust them?

(2014) Pierre de Villemereuil et al.   MOLECULAR ECOLOGY

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

(2014) Mbaye Tine et al.   Nature Communications

A Recent Global Selective Sweep on the age-1 Phosphatidylinositol 3-OH Kinase Regulator of the Insulin-Like Signaling Pathway Within Caenorhabditis remanei

(2014) Richard Jovelin et al.   G3-Genes Genomes Genetics

Inference of historical migration rates via haplotype sharing

(2013) P. F. Palamara et al.   BIOINFORMATICS

Interplay between isolation by distance and genetic clusters in the red coral Corallium rubrum: insights from simulated and empirical data

(2013) Didier Aurelle et al.   CONSERVATION GENETICS

Dispersal of Grouper Larvae Drives Local Resource Sharing in a Coral Reef Fishery

(2013) Glenn R. Almany et al.   CURRENT BIOLOGY

Effects of introgression on the genetic population structure of two ecologically and economically important conifer species: lodgepole pine (Pinus contorta var. latifolia) and jack pine (Pinus banksiana)

(2013) Catherine I. Cullingham et al.   GENOME

A genomic island linked to ecotype divergence in Atlantic cod

(2013) Jakob Hemmer-Hansen et al.   MOLECULAR ECOLOGY

Is local selection so widespread in river organisms? Fractal geometry of river networks leads to high bias in outlier detection

(2013) Yoan Fourcade et al.   MOLECULAR ECOLOGY

Analyses of genetic ancestry enable key insights for molecular ecology

(2013) Zachariah Gompert et al.   MOLECULAR ECOLOGY

Pervasive selection or is it…? why areFSToutliers sometimes so frequent?

(2013) Nicolas Bierne et al.   MOLECULAR ECOLOGY

Detecting selection along environmental gradients: analysis of eight methods and their effectiveness for outbreeding and selfing populations

(2013) Stéphane De Mita et al.   MOLECULAR ECOLOGY

Genomic divergence between the migratory and stationary ecotypes of Atlantic cod

(2013) Bård O. Karlsen et al.   MOLECULAR ECOLOGY

hzar: hybrid zone analysis using an R software package

(2013) Elizabeth P. Derryberry et al.   Molecular Ecology Resources

Population Genetics Models of Local Ancestry

(2012) S. Gravel   GENETICS

Genomic Variation in Natural Populations of Drosophila melanogaster

(2012) C. H. Langley et al.   GENETICS

Differential introgression from a sister species explains highFSToutlier loci within a mussel species

(2012) C. C. Gosset et al.   JOURNAL OF EVOLUTIONARY BIOLOGY

Fine-scale genetic population structure in a mobile marine mammal: inshore bottlenose dolphins in Moreton Bay, Australia

(2012) Ina C. Ansmann et al.   MOLECULAR ECOLOGY

The trouble with isolation by distance

(2012) PATRICK G. MEIRMANS   MOLECULAR ECOLOGY

On the spatial scale of dispersal in coral reef fishes

(2012) O. Puebla et al.   MOLECULAR ECOLOGY

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

Genome-wide patterns of latitudinal differentiation among populations ofDrosophila melanogasterfrom North America

(2012) Daniel K. Fabian et al.   MOLECULAR ECOLOGY

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

(2012) MARIUS ROESTI et al.   MOLECULAR ECOLOGY

The genetic differentiation at quantitative trait loci under local adaptation

(2012) VALÉRIE LE CORRE et al.   MOLECULAR ECOLOGY

A simulation-based evaluation of methods for inferring linear barriers to gene flow

(2012) CHRISTOPHER BLAIR et al.   Molecular Ecology Resources

Genetic Connectivity among and Self-Replenishment within Island Populations of a Restricted Range Subtropical Reef Fish

(2012) Martin H. van der Meer et al.   PLoS One

Population-scale sequencing reveals genetic differentiation due to local adaptation in Atlantic herring

(2012) S. Lamichhaney et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Harnessing genomics for delineating conservation units

(2012) W. Chris Funk et al.   TRENDS IN ECOLOGY & EVOLUTION

Gene-associated markers provide tools for tackling illegal fishing and false eco-certification

(2012) Einar E. Nielsen et al.   Nature Communications

Sea snakes rarely venture far from home

(2012) Vimoksalehi Lukoschek et al.   Ecology and Evolution

WITHIN-POPULATION STRUCTURE HIGHLIGHTED BY DIFFERENTIAL INTROGRESSION ACROSS SEMIPERMEABLE BARRIERS TO GENE FLOW IN ANGUILLA MARMORATA

(2011) Pierre-Alexandre Gagnaire et al.   EVOLUTION

The Genetic Consequences of Spatially Varying Selection in the Panmictic American Eel ( Anguilla rostrata )

(2011) Pierre-Alexandre Gagnaire et al.   GENETICS

Marine connectivity: a new look at pelagic larval duration and genetic metrics of dispersal

(2011) KA Selkoe et al.   MARINE ECOLOGY PROGRESS SERIES

Historical introgression and the role of selective vs. neutral processes in structuring nuclear genetic variation (AFLP) in a circumpolar marine fish, the capelin (Mallotus villosus)

(2011) GABRIEL J. COLBECK et al.   MOLECULAR ECOLOGY

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

From global to local genetic structuring in the red gorgonian Paramuricea clavata: the interplay between oceanographic conditions and limited larval dispersal

(2011) K. MOKHTAR-JAMAÏ et al.   MOLECULAR ECOLOGY

Comparison ofFSToutlier tests for SNP loci under selection

(2011) SHAWN R. NARUM et al.   Molecular Ecology Resources

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

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

Connectivity dominates larval replenishment in a coastal reef fish metapopulation

(2011) P. Saenz-Agudelo et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The complex analytical landscape of gene flow inference

(2011) Peter B. Marko et al.   TRENDS IN ECOLOGY & EVOLUTION

USING ISOLATION BY DISTANCE AND EFFECTIVE DENSITY TO ESTIMATE DISPERSAL SCALES IN ANEMONEFISH

(2010) Malin L. Pinsky et al.   EVOLUTION

THE DISTINCTIVE FOOTPRINTS OF LOCAL HITCHHIKING IN A VARIED ENVIRONMENT AND GLOBAL HITCHHIKING IN A SUBDIVIDED POPULATION

(2010) Nicolas Bierne   EVOLUTION

Detecting Selection in Population Trees: The Lewontin and Krakauer Test Extended

(2010) Maxime Bonhomme et al.   GENETICS

Parallel Adaptation: One or Many Waves of Advance of an Advantageous Allele?

(2010) P. Ralph et al.   GENETICS

The impact of Pleistocene glaciation across the range of a widespread European coastal species

(2010) ANTHONY B. WILSON et al.   MOLECULAR ECOLOGY

Taking the chaos out of genetic patchiness: seascape genetics reveals ecological and oceanographic drivers of genetic patterns in three temperate reef species

(2010) KIMBERLY A. SELKOE et al.   MOLECULAR ECOLOGY

What can genetics tell us about population connectivity?

(2010) WINSOR H. LOWE et al.   MOLECULAR ECOLOGY

Positive relationships between genetic diversity and abundance in fishes

(2010) MEGAN R. MCCUSKER et al.   MOLECULAR ECOLOGY

Fine-scale genetic structure and inferences on population biology in the threatened Mediterranean red coral, Corallium rubrum

(2010) J.-B. LEDOUX et al.   MOLECULAR ECOLOGY

Spatially explicit Bayesian clustering models in population genetics

(2010) OLIVIER FRANÇOIS et al.   Molecular Ecology Resources

Assessing population structure: FST and related measures

(2010) PATRICK G. MEIRMANS et al.   Molecular Ecology Resources

Adaptation – not by sweeps alone

(2010) Jonathan K. Pritchard et al.   NATURE REVIEWS GENETICS

Genomics and the future of conservation genetics

(2010) Fred W. Allendorf et al.   NATURE REVIEWS GENETICS

Larval Connectivity in an Effective Network of Marine Protected Areas

(2010) Mark R. Christie et al.   PLoS One

Parallel adaptive evolution of Atlantic cod on both sides of the Atlantic Ocean in response to temperature

(2010) I. R. Bradbury et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Adaptation genomics: the next generation

(2010) Jessica Stapley et al.   TRENDS IN ECOLOGY & EVOLUTION

Molecular Estimation of Dispersal for Ecology and Population Genetics

(2009) Thomas Broquet et al.   Annual Review of Ecology Evolution and Systematics

Gene Flow and Isolation among Populations of Marine Animals

(2009) Michael E. Hellberg   Annual Review of Ecology Evolution and Systematics

Estimating dispersal from genetic isolation by distance in a coral reef fish (Hypoplectrus puella)

(2009) Oscar Puebla et al.   ECOLOGY

Detecting loci under selection in a hierarchically structured population

(2009) L Excoffier et al.   HEREDITY

Spatial Inference of Admixture Proportions and Secondary Contact Zones

(2009) E. Durand et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inferring recent migration rates from individual genotypes

(2009) THOMAS BROQUET et al.   MOLECULAR ECOLOGY

Population genomics of marine fishes: identifying adaptive variation in space and time

(2009) EINAR E. NIELSEN et al.   MOLECULAR ECOLOGY

Larval dispersal connects fish populations in a network of marine protected areas

(2009) S. Planes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A First-Generation Haplotype Map of Maize

(2009) M. A. Gore et al.   SCIENCE

Genetic hitchhiking in a subdivided population of Mytilus edulis

(2008) Matthieu F Faure et al.   BMC EVOLUTIONARY BIOLOGY

Why sampling scheme matters: the effect of sampling scheme on landscape genetic results

(2008) Michael K. Schwartz et al.   CONSERVATION GENETICS

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

(2008) Paul S. Schmidt et al.   ECOLOGY

Integrating genetic data into management of marine resources: how can we do it better?

(2008) Robin S Waples et al.   FISH AND FISHERIES

Inference of Historical Changes in Migration Rate From the Lengths of Migrant Tracts

(2008) J. E. Pool et al.   GENETICS

Range-wide genetic homogeneity in the California sea mussel (Mytilus californianus): a comparison of allozymes, nuclear DNA markers, and mitochondrial DNA sequences

(2008) JASON A. ADDISON et al.   MOLECULAR ECOLOGY

GSTand its relatives do not measure differentiation

(2008) LOU JOST   MOLECULAR ECOLOGY

Genes mirror geography within Europe

(2008) John Novembre et al.   NATURE

Heritability in the genomics era — concepts and misconceptions

(2008) Peter M. Visscher et al.   NATURE REVIEWS GENETICS