PEER-REVIEWED PUBLICATIONS

O’Malley KG, Vaux F, Black AN (Submitted) Characterizing neutral and adaptive genomic differentiation in a changing climate: the most northerly freshwater fish as a model.

Evans ML, Hard JJ, Black AN, Sard NM, O’Malley KG (Submitted) A quantitative genetic analysis of life-history traits in reintroduced Chinook salmon. 

Jackson TM, Roegner GC, O’Malley KG (2017) Evidence for inter-annual variation in genetic structure of Dungeness crab (Cancer magister) along the California Current System. Molecular Ecology, doi: 10.1111/mec.14443. Web

O’Malley KG, Corbett K, Beacham TD, Jacobson DP, Jackson TM, Roegner C (2017) Genetic connectivity of the Dungeness crab (Cancer magister) across oceanographic regimes. Journal of Shellfish Research, 36(2), 1-12. Web

Jackson TM and O’Malley KG (2017) Comparing genetic connectivity among Dungeness crab (Cancer magister) inhabiting Puget Sound and coastal Washington. Marine Biology, 164, 123. Web

Sard NM, Johnson MA, Jacobson DP, Hogansen MJ, O’Malley KG, Banks MA (2016) Genetic monitoring guides adaptive management of a migratory fish reintroduction program. Animal Conservation, 19, 570-577. Web

Evans ML, Johnson MA, Jacobson DP, Wang J, Hogansen M, O’Malley KG (2016) Evaluating a multi-generational reintroduction program for threatened spring Chinook salmon using genetic parentage analysis. Canadian Journal of Fisheries and Aquatic Sciences, 73, 844-852. Web

Evans ML, Shry S, Jacobson DP, Sard, N, O’Malley KG (2015) Functional gene diversity and migration timing in reintroduced Chinook salmon. Conservation Genetics, 16, 1455-1464. Web

Sard NM, O’Malley KG, Jacobson DP, Hogansen M, Schroeder K, Johnson MA, Banks MA (2015) Factors influencing spawner success in a spring Chinook salmon (Oncorhynchus tshawytscha) reintroduction program. Canadian Journal of Fisheries and Aquatic Sciences, 72, 1390-1397. Web

O’Malley KG, Perales B, Whitcomb AC (2015) Influence of immune-relevant genotype on the reproductive success of a salmonid alternative mating strategy. Journal of Fish Biology, 86, 871-881. Web

Whitcomb AC, Banks MA, O’Malley KG (2014) Influence of immune-relevant genes on mate choice and reproductive success in wild spawning hatchery-reared and wild coho salmon (Oncorhynchus kisutch). Canadian Journal of Fisheries and Aquatic Sciences, 71, 1000-1009. Web

Banks MA, Jacobson DP, Meusnier I, Greig C, Rashbrook V, Ardren W, Bernier-Latmani J, Van Sickle J, O’Malley KG (2014) Testing advances in molecular discrimination among Chinook salmon life histories: Evidence from a blind test. Animal Genetics, 45, 412-420. Web

O’Malley KG, Jacobson DP, Kurth R, Dill AJ, Banks MA (2013) Adaptive genetic markers discriminate migratory runs of Chinook salmon (Oncorhynchus tshawytscha) amid continued gene flow. Evolutionary Applications, 6, 1184-1194. Web

O’Malley KG, Cross TF, Bailie D, Carlsson J, Coughlan JP, Dillane E, Prodhol PA, McGinnity P (2013) Circadian clock gene (OtsClock1b) variation and time of ocean return in Atlantic salmon (Salmo salar). Fisheries Management and Ecology, 21, 82-87. Web

O’Malley KG, Markle D, Ardren W (2013) Timing of population fragmentation in a vulnerable minnow, the Umpqua chub, and the role of nonnative predators. Transactions of the American Fisheries Society, 142, 447-457. Web

O’Malley KG, Ford MJ, Hard JJ (2010) Clock polymorphism in Pacific salmon: Variable selection along a latitudinal gradient. Proceedings of the Royal Society B., 277, 3703-3714. Web

O’Malley KG, McClelland EK, Naish KA (2010) Clock genes localize to quantitative trait loci for stage-specific growth in juvenile coho salmon, Oncorhynchus kisutch. Journal of Heredity, 101, 628-632. Web

O’Malley KG, Banks MA (2008) A latitudinal cline in the Chinook salmon (Oncorhynchus tshawytscha) Clock gene: Evidence for selection on PolyQ length variants. Proceedings of the Royal Society B (Featured article), 275, 2813-2821. Web

O’Malley KG, Banks MA (2008) Duplicated Clock genes with unique polyglutamine domains provide evidence for nonhomologous recombination in Chinook salmon (Oncorhynchus tshawytscha). Genetica, 132, 87-94. Web

O’Malley KG, Camara MD, Banks MA (2007) Candidate loci reveal genetic differentiation between temporally divergent migratory runs of Chinook salmon (Oncorhynchus tshawytscha). Molecular Ecology, 16, 4930-4941. Web

Ross K, Wang X, O’Malley KG, Gatlin III DM, Gold JR (2004) Microsatellite DNA markers for parental assignment in hybrid stripe bass (Morone saxatilis x Morone chrysops). Molecular Ecology Notes, 4, 156-159. Web

Saillant E, Cizdziel K, O’Malley KG, Turner TF, Pruett CL, Gold JR (2004) Microsatellite markers for red drum, Sciaenops ocellatus. Gulf of Mexico Science, 1, 101-107. PDF 

O’Malley KG, Abbey CA, Ross K, Gold JR (2003) Microsatellite DNA markers for kinship analysis and genetic mapping in red drum, Sciaenops ocellatus (Sciaenidae, Teleostei). Molecular Ecology Notes, 3, 155-158. Web

O’Malley KG, Sakamoto T, Danzmann RG, Ferguson MM (2003) Quantitative Trait Loci for spawning date and body weight in rainbow trout: Testing for conserved effects across ancestrally duplicated chromosomes. Journal of Heredity, 94, 273-284. Web

TECHNICAL REPORTS 

O’Malley KG, Bohn S (2017) Genetic pedigree analysis of Fall Creek spring Chinook salmon: An evaluation of return timing and functional gene diversity.  U.S. Army Corps of Engineers. PDF

O’Malley KG, Black AN, Johnson MA, Jacobson DP (2017) Evaluating spring Chinook salmon reintroductions above Detroit Dam, on the North Santiam River, using genetic parentage analysis. U.S. Army Corps of Engineers. PDF

O’Malley KG, Black AN, Johnson MA, Jacobson DP (2017) Population productivity of spring Chinook salmon reintroduced above Foster Dam on the South Santiam River. U.S. Army Corps of Engineers. PDF

Banks MA, Sard NM, O’Malley KG, Jacobson DP, Hogansen M, Johnson MA (2016) A genetics-based evaluation of the spring Chinook salmon reintroduction program above Cougar Dam, South Fork McKenzie River,  2013-2015. U.S. Army Corps of Engineers. PDF

O’Malley KG, Evans ML, Johnson MA, Jacobson DP, Hogansen M (2015) An evaluation of spring Chinook salmon reintroductions above Detroit Dam, North Santiam River, using genetic pedigree analysis.  U.S. Army Corps of Engineers. PDF

O’Malley KG, Evans ML, Johnson MA, Banks MA, Jacobson DP, Hogansen M (2015) Genetic parentage evaluation of spring Chinook salmon reintroductions on the South Santiam River. U.S. Army Corps of Engineers. PDF

O’Malley KG, Roegner C (2014) Evaluating the population genetic structure of Dungeness crab (Cancer magister) off the Oregon coast.  Oregon Wave Energy Trust. PDF

O’Malley KG, Evans ML, Johnson MA, Banks MA, Jacobson DP, Hogansen M (2014) Genetic parentage analysis of spring Chinook salmon on the South Santiam River: insights into population productivity and reintroduction strategies. U.S. Army Corps of Engineers. PDF

Banks MA, Sard NM, O’Malley KG, Jacobson DP, Hogansen M, Johnson MA (2014) A genetics-based evaluation of the spring Chinook salmon reintroduction program above Cougar Dam, South Fork McKenzie River, 2007-2013. U.S. Army Corps of Engineers. PDF

Banks MA, O’Malley KG, Sard N, Jacobson DP, Hogansen M, Schroeder K, Johnson MA (2013) Genetic pedigree analysis of spring Chinook salmon outplanted above Cougar Dam, South Fork McKenzie River. U.S. Army Corps of Engineers. PDF

Markle DF, O’Malley KG, Terwilliger M, Baki P, Truemper H, Simon D (2011) Umpqua chub population estimate. Final Report USFWS Grant # E-2-54. PDF