Genotyping by sequencing resolves shallow population structure to inform conservation of Chinook salmon (Oncorhynchus tshawytscha)

Detection and mapping of QTL for temperature tolerance and body size in Chinook salmon (Oncorhynchus tshawytscha) using genotyping by sequencing

(2014) Meredith V. Everett et al.   Evolutionary Applications

Exploiting genetic diversity to balance conservation and harvest of migratory salmon

(2013) Tyler H. Dann et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Development and application of genomic tools to the restoration of green abalone in southern California

(2013) K. M. Gruenthal et al.   CONSERVATION GENETICS

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

Genomic patterns of introgression in rainbow and westslope cutthroat trout illuminated by overlapping paired-end RAD sequencing

(2013) Paul A. Hohenlohe et al.   MOLECULAR ECOLOGY

A genomic island linked to ecotype divergence in Atlantic cod

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

The impact of transposable elements in environmental adaptation

(2013) Elena Casacuberta et al.   MOLECULAR ECOLOGY

Genotyping-by-sequencing in ecological and conservation genomics

(2013) Shawn R. Narum et al.   MOLECULAR ECOLOGY

NeEstimatorv2: re-implementation of software for the estimation of contemporary effective population size (Ne) from genetic data

(2013) C. Do et al.   Molecular Ecology Resources

Estimating Effective Population Size from Linkage Disequilibrium between Unlinked Loci: Theory and Application to Fruit Fly Outbreak Populations

(2013) John A Sved et al.   PLoS One

Recent physical connections may explain weak genetic structure in western Alaskan chum salmon (Oncorhynchus keta) populations

(2013) Michael R. Garvin et al.   Ecology and Evolution

GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update

(2012) R. Peakall et al.   BIOINFORMATICS

Uninformative polymorphisms bias genome scans for signatures of selection

(2012) Marius Roesti et al.   BMC EVOLUTIONARY BIOLOGY

Meiotic maps of sockeye salmon derived from massively parallel DNA sequencing

(2012) Meredith V Everett et al.   BMC GENOMICS

Single-nucleotide polymorphisms reveal distribution and migration of Chinook salmon (Oncorhynchus tshawytscha) in the Bering Sea and North Pacific Ocean

(2012) Wesley A. Larson et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Mapping phenotypic, expression and transmission ratio distortion QTL using RAD markers in the Lake Whitefish(Coregonus clupeaformis)

(2012) Pierre-Alexandre Gagnaire et al.   MOLECULAR ECOLOGY

Genome-wide association reveals genetic basis for the propensity to migrate in wild populations of rainbow and steelhead trout

(2012) Benjamin C. Hecht et al.   MOLECULAR ECOLOGY

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

Population genomics of Pacific lamprey: adaptive variation in a highly dispersive species

(2012) Jon E. Hess et al.   MOLECULAR ECOLOGY

Accounting for missing data in the estimation of contemporary genetic effective population size (Ne)

(2012) D. Peel et al.   Molecular Ecology Resources

Harnessing genomics for delineating conservation units

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

Understanding and Estimating Effective Population Size for Practical Application in Marine Species Management

(2011) MATTHEW P. HARE et al.   CONSERVATION BIOLOGY

Genomic toolboxes for conservation biologists

(2011) Francesco Angeloni et al.   Evolutionary Applications

Detection of outlier loci and their utility for fisheries management

(2011) Michael A. Russello et al.   Evolutionary Applications

Effective population size of current human population

(2011) LEEYOUNG PARK   Genetics Research

Demographic and genetic factors shaping contemporary metapopulation effective size and its empirical estimation in salmonid fish

(2011) F P Palstra et al.   HEREDITY

A conserved haplotype controls parallel adaptation in geographically distant salmonid populations

(2011) MICHAEL R. MILLER et al.   MOLECULAR ECOLOGY

Genetic differentiation of Alaska Chinook salmon: the missing link for migratory studies

(2011) WILLIAM D. TEMPLIN et al.   Molecular Ecology Resources

Short reads and nonmodel species: exploring the complexities of next-generation sequence assembly and SNP discovery in the absence of a reference genome

(2011) M. V. EVERETT et al.   Molecular Ecology Resources

Genome-wide patterns of divergence during speciation: the lake whitefish case study

(2011) S. Renaut et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

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

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

Local De Novo Assembly of RAD Paired-End Contigs Using Short Sequencing Reads

(2011) Paul D. Etter et al.   PLoS One

Single-Nucleotide Polymorphisms (SNPs) under Diversifying Selection Provide Increased Accuracy and Precision in Mixed-Stock Analyses of Sockeye Salmon from the Copper River, Alaska

(2011) Michael W. Ackerman et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems

(2011) André E Minoche et al.   GENOME BIOLOGY

Genotype calling and mapping of multisite variants using an Atlantic salmon iSelect SNP array

(2010) Lars Gidskehaug et al.   BIOINFORMATICS

A second generation genetic linkage map of Japanese flounder (Paralichthys olivaceus)

(2010) Cecilia Castano-Sanchez et al.   BMC GENOMICS

Development of a SNP resource and a genetic linkage map for Atlantic cod (Gadus morhua)

(2010) Sophie Hubert et al.   BMC GENOMICS

Comparative landscape genetic analysis of three Pacific salmon species from subarctic North America

(2010) Jeffrey B. Olsen et al.   CONSERVATION GENETICS

The influence of hydrology and waterway distance on population structure of Chinook salmonOncorhynchus tshawytschain a large river

(2010) J. B. Olsen et al.   JOURNAL OF FISH BIOLOGY

Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids

(2010) J. E. SEEB et al.   Molecular Ecology Resources

Assessing the power of informative subsets of loci for population assignment: standard methods are upwardly biased

(2010) E. C. ANDERSON   Molecular Ecology Resources

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

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

Population Genomics of Parallel Adaptation in Threespine Stickleback using Sequenced RAD Tags

(2010) Paul A. Hohenlohe et al.   PLoS Genetics

A gene-based SNP linkage map for pacific white shrimp, Litopenaeus vannamei

(2009) Z.-Q. Du et al.   ANIMAL GENETICS

Perspective: conservation genetics enters the genomics era

(2009) John C. Avise   CONSERVATION GENETICS

Linkage disequilibrium estimates of contemporaryNeusing highly variable genetic markers: a largely untapped resource for applied conservation and evolution

(2009) Robin S. Waples et al.   Evolutionary Applications

Detecting loci under selection in a hierarchically structured population

(2009) L Excoffier et al.   HEREDITY

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

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

Divergent selection and heterogeneous genomic divergence

(2009) PATRIK NOSIL et al.   MOLECULAR ECOLOGY

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Genetic estimates of contemporary effective population size: what can they tell us about the importance of genetic stochasticity for wild population persistence?

(2008) FRISO P. PALSTRA et al.   MOLECULAR ECOLOGY

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One

genepop’007: a complete re-implementation of the genepop software for Windows and Linux

(2007) FRANÇOIS ROUSSET   Molecular Ecology Resources