Implications of Large-Effect Loci for Conservation: A Review and Case Study with Pacific Salmon

The genetic architecture of fitness drives population viability during rapid environmental change

(2021) Marty Kardos et al.   AMERICAN NATURALIST

Do We Need to Identify Adaptive Genetic Variation When Prioritizing Populations for Conservation?

(2021) Philippe Fernandez-Fournier et al.   CONSERVATION GENETICS

The Impacts of Dam Construction and Removal on the Genetics of Recovering Steelhead (Oncorhynchus mykiss) Populations across the Elwha River Watershed

(2021) Alexandra K. Fraik et al.   Genes

Heterogeneous genetic basis of age at maturity in salmonid fishes

(2021) Charles D. Waters et al.   MOLECULAR ECOLOGY

The inflated significance of neutral genetic diversity in conservation genetics

(2021) João C. Teixeira et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic region associated with run timing has similar haplotypes and phenotypic effects across three lineages of Chinook salmon

(2021) Stuart C. Willis et al.   Evolutionary Applications

Indigenous sex-selective salmon harvesting demonstrates pre-contact marine resource management in Burrard Inlet, British Columbia, Canada

(2021) Jesse Morin et al.   Scientific Reports

Glacier Retreat and Pacific Salmon

(2020) Kara J Pitman et al.   BIOSCIENCE

Incorporating putatively neutral and adaptive genomic data into marine conservation planning

(2020) Amanda Xuereb et al.   CONSERVATION BIOLOGY

Validation and association of candidate markers for adult migration timing and fitness in Chinook Salmon

(2020) Ilana J. Koch et al.   Evolutionary Applications

Y‐chromosome haplotypes are associated with variation in size and age at maturity in male Chinook salmon

(2020) Garrett J. McKinney et al.   Evolutionary Applications

Steelhead ( Oncorhynchus mykiss ) lineages and sexes show variable patterns of association of adult migration‐timing and age‐at‐maturity traits with two genomic regions

(2020) Stuart C. Willis et al.   Evolutionary Applications

Consequences of Single-Locus and Tightly Linked Genomic Architectures for Evolutionary Responses to Environmental Change

(2020) Rebekah A Oomen et al.   JOURNAL OF HEREDITY

Massive haplotypes underlie ecotypic differentiation in sunflowers

(2020) Marco Todesco et al.   NATURE

Distribution of genetic variation underlying adult migration timing in steelhead of the Columbia River basin

(2020) Erin E. Collins et al.   Ecology and Evolution

A mobile sex‐determining region, male‐specific haplotypes and rearing environment influence age at maturity in Chinook salmon

(2020) Garrett J. McKinney et al.   MOLECULAR ECOLOGY

Statistical power in genome-wide association studies and quantitative trait locus mapping

(2019) Meiyue Wang et al.   HEREDITY

Climate vulnerability assessment for Pacific salmon and steelhead in the California Current Large Marine Ecosystem

(2019) Lisa G. Crozier et al.   PLoS One

Thinking About the Evolution of Complex Traits in the Era of Genome-Wide Association Studies

(2019) Guy Sella et al.   Annual Review of Genomics and Human Genetics

Conservation and Management of Salmon in the Age of Genomics

(2019) Robin S. Waples et al.   Annual Review of Animal Biosciences

Sex-dependent dominance maintains migration supergene in rainbow trout

(2019) Devon E. Pearse et al.   Nature Ecology & Evolution

A different animal

(2018) Katie Langin   SCIENCE

Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares

(2018) Matthew R. Jones et al.   SCIENCE

Selection at a genomic region of major effect is responsible for evolution of complex life histories in anadromous steelhead

(2018) Steven J. Micheletti et al.   BMC EVOLUTIONARY BIOLOGY

Genomics and conservation units: The genetic basis of adult migration timing in Pacific salmonids

(2018) Robin S. Waples et al.   Evolutionary Applications

Keystone Genes

(2018) Lotte H. Skovmand et al.   TRENDS IN ECOLOGY & EVOLUTION

The Peril of Gene-Targeted Conservation

(2018) Marty Kardos et al.   TRENDS IN ECOLOGY & EVOLUTION

Anthropogenic habitat alteration leads to rapid loss of adaptive variation and restoration potential in wild salmon populations

(2018) Tasha Q. Thompson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of multiple genetically distinct populations of Chinook salmon (Oncorhynchus tshawytscha) in a small coastal watershed

(2017) Chante D. Davis et al.   ENVIRONMENTAL BIOLOGY OF FISHES

Re-awakening dormant life history variation: stable isotopes indicate anadromy in bull trout following dam removal on the Elwha River, Washington

(2017) Thomas P. Quinn et al.   ENVIRONMENTAL BIOLOGY OF FISHES

A comparison of individual-based genetic distance metrics for landscape genetics

(2017) A. J. Shirk et al.   Molecular Ecology Resources

The infinitesimal model: Definition, derivation, and implications

(2017) N.H. Barton et al.   THEORETICAL POPULATION BIOLOGY

The evolutionary basis of premature migration in Pacific salmon highlights the utility of genomics for informing conservation

(2017) Daniel J. Prince et al.   Science Advances

Fish ladder installation across a historical barrier asymmetrically increased conspecific introgressive hybridization between wild winter and summer run steelhead salmon in the Siletz River, Oregon

(2017) William Hemstrom et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

The paradox of “premature migration” by adult anadromous salmonid fishes: patterns and hypotheses

(2016) Thomas P. Quinn et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Species Complex: Classification and Conservation in American Environmental History

(2016) Peter S. Alagona   ISIS

Saving the spandrels? Adaptive genomic variation in conservation and fisheries management

(2016) D. E. Pearse   JOURNAL OF FISH BIOLOGY

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

(2016) Tina Graceline Kirubakaran et al.   MOLECULAR ECOLOGY

A beak size locus in Darwins finches facilitated character displacement during a drought

(2016) S. Lamichhaney et al.   SCIENCE

Rapid evolutionary response to a transmissible cancer in Tasmanian devils

(2016) Brendan Epstein et al.   Nature Communications

Evolutionary History, Habitat Disturbance Regimes, and Anthropogenic Changes: What Do These Mean for Resilience of Pacific Salmon Populations?

(2016) Robin S. Waples et al.   ECOLOGY AND SOCIETY

Archaeological Evidence for Resilience of Pacific Northwest Salmon Populations and the Socioecological System over the last ~7,500 years

(2016) Sarah K. Campbell et al.   ECOLOGY AND SOCIETY

Parallel evolution of the summer steelhead ecotype in multiple populations from Oregon and Northern California

(2015) Martha Arciniega et al.   CONSERVATION GENETICS

Environmental adaptation in Chinook salmon (Oncorhynchus tshawytscha) throughout their North American range

(2015) Benjamin C. Hecht et al.   MOLECULAR ECOLOGY

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

Sex-dependent dominance at a single locus maintains variation in age at maturity in salmon

(2015) Nicola J. Barson et al.   NATURE

Structural genomic changes underlie alternative reproductive strategies in the ruff (Philomachus pugnax)

(2015) Sangeet Lamichhaney et al.   NATURE GENETICS

Challenges and prospects in genome-wide quantitative trait loci mapping of standing genetic variation in natural populations

(2014) Holger Schielzeth et al.   Annals of the New York Academy of Sciences

Diversity in sympatric chinook salmon runs: timing, relative fat content and maturation

(2014) James W. Hearsey et al.   ENVIRONMENTAL BIOLOGY OF FISHES

Evaluation of a single nucleotide polymorphism baseline for genetic stock identification of Chinook Salmon (Oncorhynchus tshawytscha) in the California Current large marine ecosystem

(2014) Anthony J. Clemento et al.   FISHERY BULLETIN

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

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

The genetics of monarch butterfly migration and warning colouration

(2014) Shuai Zhan et al.   NATURE

Defining the role of common variation in the genomic and biological architecture of adult human height

(2014) Andrew R Wood et al.   NATURE GENETICS

Re-colonization of Atlantic and Pacific rivers by anadromous fishes: linkages between life history and the benefits of barrier removal

(2014) G. R. Pess et al.   REVIEWS IN FISH BIOLOGY AND FISHERIES

Large-scale parentage analysis reveals reproductive patterns and heritability of spawn timing in a hatchery population of steelhead (Oncorhynchus mykiss)

(2013) Alicia Abadía-Cardoso et al.   MOLECULAR ECOLOGY

Genotyping-by-sequencing in ecological and conservation genomics

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

Life history trade-offs at a single locus maintain sexually selected genetic variation

(2013) Susan E. Johnston et al.   NATURE

Ecological genomics of local adaptation

(2013) Outi Savolainen et al.   NATURE REVIEWS GENETICS

Adaptive Evolution of Multiple Traits Through Multiple Mutations at a Single Gene

(2013) C. R. Linnen et al.   SCIENCE

Five Years of GWAS Discovery

(2012) Peter M. Visscher et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Divergent life-history races do not represent Chinook salmon coast-wide: the importance of scale in Quaternary biogeography

(2012) Paul Moran et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

The genetic differentiation at quantitative trait loci under local adaptation

(2012) VALÉRIE LE CORRE et al.   MOLECULAR ECOLOGY

Harnessing genomics for delineating conservation units

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

Introgressive hybridization among major Columbia River Chinook salmon (Oncorhynchus tshawytscha) lineages within the Klickitat River due to hatchery practices

(2011) Jon E. Hess et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Strategies for reducing the ecological risks of hatchery programs: Case studies from the Pacific Northwest

(2011) Kathryn Kostow   ENVIRONMENTAL BIOLOGY OF FISHES

QTL LINKAGE MAPPING OF ZEBRA FINCH BEAK COLOR SHOWS AN OLIGOGENIC CONTROL OF A SEXUALLY SELECTED TRAIT

(2011) Holger Schielzeth et al.   EVOLUTION

Pacific salmon abundance trends and climate change

(2011) J. R. Irvine et al.   ICES JOURNAL OF MARINE SCIENCE

Genome-wide association mapping identifies the genetic basis of discrete and quantitative variation in sexual weaponry in a wild sheep population

(2011) SUSAN E. JOHNSTON et al.   MOLECULAR ECOLOGY

The Genetics of Human Adaptation: Hard Sweeps, Soft Sweeps, and Polygenic Adaptation

(2010) Jonathan K. Pritchard et al.   CURRENT BIOLOGY

Genomics and the future of conservation genetics

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

From Conservation Genetics to Conservation Genomics

(2009) Craig R. Primmer   Annals of the New York Academy of Sciences

Potential for adaptation-by-time in sockeye salmon (Oncorhynchus nerka): the interactions of body size and in-stream reproductive life span with date of arrival and breeding location

(2009) K. K. Doctor et al.   CANADIAN JOURNAL OF ZOOLOGY

Phylogenetic analysis of the Pacific cutthroat trout (Oncorhynchus clarki ssp.: Salmonidae) based on partial mtDNA ND4 sequences: A closer look at the highly fragmented inland species

(2009) Wade D. Wilson et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The genetics of quantitative traits: challenges and prospects

(2009) Trudy F. C. Mackay et al.   NATURE REVIEWS GENETICS

The influence of hydrographic structure and seasonal run timing on genetic diversity and isolation-by-distance in chum salmon (Oncorhynchus keta)

(2008) Jeffrey B. Olsen et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

ORIGINAL ARTICLE: Evolutionary consequences of habitat loss for Pacific anadromous salmonids

(2008) Michelle M. McClure et al.   Evolutionary Applications

SYNTHESIS: A review of quantitative genetic components of fitness in salmonids: implications for adaptation to future change

(2008) Stephanie M. Carlson et al.   Evolutionary Applications

SYNTHESIS: Evolutionary history of Pacific salmon in dynamic environments

(2008) Robin S. Waples et al.   Evolutionary Applications

Hybridization between Spring- and Fall-Run Chinook Salmon Returning to the Trinity River, California

(2008) Andrew P. Kinziger et al.   NORTH AMERICAN JOURNAL OF FISHERIES MANAGEMENT

A latitudinal cline in the Chinook salmon (Oncorhynchus tshawytscha) Clock gene: evidence for selection on PolyQ length variants

(2008) K. G O'Malley et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Factors that contribute to the ecological risks of salmon and steelhead hatchery programs and some mitigating strategies

(2008) Kathryn Kostow   REVIEWS IN FISH BIOLOGY AND FISHERIES