Effectiveness of managed gene flow in reducing genetic divergence associated with captive breeding

Integration of Random Forest with population-based outlier analyses provides insight on the genomic basis and evolution of run timing in Chinook salmon (Oncorhynchus tshawytscha)

(2015) Marine S. O. Brieuc et al.   MOLECULAR ECOLOGY

A Synthesis of Findings from an Integrated Hatchery Program after Three Generations of Spawning in the Natural Environment

(2015) David E. Fast et al.   NORTH AMERICAN JOURNAL OF AQUACULTURE

Analyzing large-scale conservation interventions with Bayesian hierarchical models: a case study of supplementing threatened Pacific salmon

(2015) Mark D. Scheuerell et al.   Ecology and Evolution

Population genomic analyses of early-phase Atlantic Salmon (Salmo salar) domestication/captive breeding

(2014) Hannu Mäkinen et al.   Evolutionary Applications

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

(2014) Wesley A. Larson et al.   Evolutionary Applications

On the reproductive success of early-generation hatchery fish in the wild

(2014) Mark R. Christie et al.   Evolutionary Applications

Effects of Overlapping Generations on Linkage Disequilibrium Estimates of Effective Population Size

(2014) Robin S. Waples et al.   GENETICS

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

Variation in Minijack Rate among Hatchery Populations of Columbia River Basin Chinook Salmon

(2014) Deborah L. Harstad et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates

(2014) Camille Berthelot et al.   Nature Communications

Relationship between effective population size, inbreeding and adult fitness-related traits in a steelhead (Oncorhynchus mykiss) population released in the wild

(2013) K. A. Naish et al.   MOLECULAR ECOLOGY

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

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

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen 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

Extinction Rates in North American Freshwater Fishes, 1900–2010

(2012) Noel M. Burkhead   BIOSCIENCE

Evaluating Alternative Strategies for Minimizing Unintended Fitness Consequences of Cultured Individuals on Wild Populations

(2012) MARISSA L. BASKETT et al.   CONSERVATION BIOLOGY

Reproductive success of captively bred and naturally spawned Chinook salmon colonizing newly accessible habitat

(2012) Joseph H. Anderson et al.   Evolutionary Applications

Reduced fitness of Atlantic salmon released in the wild after one generation of captive breeding

(2012) Emmanuel Milot et al.   Evolutionary Applications

Effective size of a wild salmonid population is greatly reduced by hatchery supplementation

(2012) M R Christie et al.   HEREDITY

Supportive breeding boosts natural population abundance with minimal negative impacts on fitness of a wild population of Chinook salmon

(2012) Maureen A. Hess et al.   MOLECULAR ECOLOGY

Conservation and enhancement of wild fish populations: preserving genetic quality versus genetic diversity 1This paper is derived from the J.C. Stevenson Memorial Lecture delivered by Bryan Neff at the Canadian Conference for Fisheries Research in Winnipeg, Manitoba, January 2010.

(2011) Bryan D. Neff et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Hatcheries, Conservation, and Sustainable Fisheries—Achieving Multiple Goals: Results of the Hatchery Scientific Review Group's Columbia River Basin Review

(2011) P. J. Paquet et al.   FISHERIES

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

(2010) Thibaut Jombart et al.   BMC GENETICS

Behavior and Breeding Success of Wild and First-Generation Hatchery Male Spring Chinook Salmon Spawning in an Artificial Stream

(2010) Steven L. Schroder et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Homing and Spawning Site Selection by Supplemented Hatchery- and Natural-Origin Yakima River Spring Chinook Salmon

(2010) Andrew H. Dittman et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Examining the Conflict between Smolting and Precocious Male Maturation in Spring (Stream-Type) Chinook Salmon

(2010) Donald A. Larsen et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Compromising genetic diversity in the wild: unmonitored large-scale release of plants and animals

(2010) Linda Laikre et al.   TRENDS IN ECOLOGY & EVOLUTION

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

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

Differential gene expression after total replacement of dietary fish meal and fish oil by plant products in rainbow trout (Oncorhynchus mykiss) liver

(2009) S. Panserat et al.   AQUACULTURE

Minimizing genetic adaptation in captive breeding programs: A review

(2009) Sara E. Williams et al.   BIOLOGICAL CONSERVATION

Carry-over effect of captive breeding reduces reproductive fitness of wild-born descendants in the wild

(2009) H. Araki et al.   Biology Letters

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

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

(2008) Thibaut Jombart   BIOINFORMATICS

The effects of captive experience on reintroduction survival in carnivores: A review and analysis

(2008) Kristen R. Jule et al.   BIOLOGICAL CONSERVATION

A Genome-Scan Method to Identify Selected Loci Appropriate for Both Dominant and Codominant Markers: A Bayesian Perspective

(2008) M. Foll et al.   GENETICS

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

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

Breeding Success of Wild and First-Generation Hatchery Female Spring Chinook Salmon Spawning in an Artificial Stream

(2008) Steven L. Schroder et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Comparison of Female Reproductive Traits and Progeny of First-Generation Hatchery and Wild Upper Yakima River Spring Chinook Salmon

(2008) Curtis M. Knudsen et al.   TRANSACTIONS OF THE AMERICAN FISHERIES SOCIETY

Genetic adaptation to captivity in species conservation programs

(2007) RICHARD FRANKHAM   MOLECULAR ECOLOGY