A migration-associated supergene reveals loss of biocomplexity in Atlantic cod

Genomic tools for management and conservation of Atlantic cod in a coastal marine protected area

(2018) Marion Sinclair-Waters et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

A One-Penny Imputed Genome from Next-Generation Reference Panels

(2018) Brian L. Browning et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Trans-oceanic genomic divergence of Atlantic cod ecotypes is associated with large inversions

(2017) P R Berg et al.   HEREDITY

Growth and condition in relation to the lack of recovery of northern cod

(2017) M Joanne Morgan et al.   ICES JOURNAL OF MARINE SCIENCE

Ancient chromosomal rearrangement associated with local adaptation of a postglacially colonized population of Atlantic Cod in the northwest Atlantic

(2017) Marion Sinclair-Waters et al.   MOLECULAR ECOLOGY

The ecological importance of intraspecific variation

(2017) Simone Des Roches et al.   Nature Ecology & Evolution

Understanding and monitoring the consequences of human impacts on intraspecific variation

(2016) Makiko Mimura et al.   Evolutionary Applications

“Islands of Divergence” in the Atlantic Cod Genome Represent Polymorphic Chromosomal Rearrangements

(2016) Marte Sodeland et al.   Genome Biology and Evolution

A method for detecting recent changes in contemporary effective population size from linkage disequilibrium at linked and unlinked loci

(2016) C M Hollenbeck et al.   HEREDITY

Estimating contemporary effective population size in non-model species using linkage disequilibrium across thousands of loci

(2016) R K Waples et al.   HEREDITY

Two adjacent inversions maintain genomic differentiation between migratory and stationary ecotypes of Atlantic cod

(2016) Tina Graceline Kirubakaran et al.   MOLECULAR ECOLOGY

genepopedit: a simple and flexible tool for manipulating multilocus molecular data in R

(2016) Ryan R. E. Stanley et al.   Molecular Ecology Resources

pcadapt: anRpackage to perform genome scans for selection based on principal component analysis

(2016) Keurcien Luu et al.   Molecular Ecology Resources

Clumpak : a program for identifying clustering modes and packaging population structure inferences across K

(2015) Naama M. Kopelman et al.   Molecular Ecology Resources

LEA: AnRpackage for landscape and ecological association studies

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

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

(2015) Christopher C Chang et al.   GigaScience

Fast and Efficient Estimation of Individual Ancestry Coefficients

(2014) Eric Frichot et al.   GENETICS

selscan: An Efficient Multithreaded Program to Perform EHH-Based Scans for Positive Selection

(2014) Z. A. Szpiech et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolution of Camouflage Drives Rapid Ecological Change in an Insect Community

(2013) Timothy E. Farkas et al.   CURRENT BIOLOGY

Genomic islands of divergence and their consequences for the resolution of spatial structure in an exploited marine fish

(2013) Ian R. Bradbury et al.   Evolutionary Applications

SweeD: Likelihood-Based Detection of Selective Sweeps in Thousands of Genomes

(2013) Pavlos Pavlidis et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

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

Microevolution in time and space: SNP analysis of historical DNA reveals dynamic signatures of selection in Atlantic cod

(2013) Nina O. Therkildsen et al.   MOLECULAR ECOLOGY

ParallelStructure: A R Package to Distribute Parallel Runs of the Population Genetics Program STRUCTURE on Multi-Core Computers

(2013) Francois Besnier et al.   PLoS One

The Effect of Genomic Inversions on Estimation of Population Genetic Parameters from SNP Data

(2012) N.-K. Seich al Basatena et al.   GENETICS

Estimation of historical effective population size using linkage disequilibria with marker data

(2012) L.J. Corbin et al.   JOURNAL OF ANIMAL BREEDING AND GENETICS

Characterizing genomic variation ofArabidopsis thaliana: the roles of geography and climate

(2012) JESSE R. LASKY et al.   MOLECULAR ECOLOGY

Investigation of Inversion Polymorphisms in the Human Genome Using Principal Components Analysis

(2012) Jianzhong Ma et al.   PLoS One

PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs

(2011) H. E. L. Lischer et al.   BIOINFORMATICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Historical changes in genotypic frequencies at the Pantophysin locus in Atlantic cod (Gadus morhua) in Icelandic waters: evidence of fisheries-induced selection?

(2011) Klara B. Jakobsdóttir et al.   Evolutionary Applications

Chromosomal rearrangements maintain a polymorphic supergene controlling butterfly mimicry

(2011) Mathieu Joron et al.   NATURE

Population diversity and the portfolio effect in an exploited species

(2010) Daniel E. Schindler et al.   NATURE

Genomics and the future of conservation genetics

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

Revisiting the Impact of Inversions in Evolution: From Population Genetic Markers to Drivers of Adaptive Shifts and Speciation?

(2008) Ary A. Hoffmann et al.   Annual Review of Ecology Evolution and Systematics