Gene Conservation Laboratory

Publications

Updated June 2024

2024

Gruenthal, K. M., C. Habicht, and S. Gilk-Baumer. 2024. Genetic guidelines for mariculture of invertebrates in Alaska. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 5J24-06, Juneau.

2023

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Campbell, M. A., M. C. Hale, C. S. Jalbert, K. Dunker, A. J. Sepulveda, J. A. López, and P. A. Westley. 2023. Genomics reveal the origins and current structure of a genetically depauperate freshwater species in its introduced Alaskan range. Evolutionary Applications 16(6): 1119 -1134.

Dann, T. H., H. A. Hoyt, E. M. Lee, E. K. C. Fox, and M. B. Foster. 2023. Genetic stock composition of chum salmon harvested in commercial salmon fisheries of the South Alaska Peninsula, 2022. Alaska Department of Fish and Game, Special Publication No. 23-07, Anchorage.

Excel tables from 23-07. For data questions, contact Tyler Dann.

2022

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Barclay, A. W., S. Gilk-Baumer, K. Shedd, J. Botz, and C. Habicht. 2022. Genetic stock composition of the commercial harvest of Chinook salmon in Copper River District, 2018-2021. Alaska Department of Fish and Game, Fishery Data Series No. 22-35, Anchorage.

Bednarski, J. A., P. J. Richards, S. N. Warta, J. T. Williams, R. E. Brenner, S. E. Miller, C. S. Jalbert, and A. Foos. 2022. Tagging response, distribution, and Inriver abundance of Taku River sockeye salmon, 2022 and 2023. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan No. ROP.CF.1J.2022.05, Douglas.

Booz, M. D., K. M. Gruenthal, and C. Habicht. 2022. Operational plan: Population genetics and reproductive connectivity of Pacific razor clams in Cook Inlet, Alaska. Alaska Department of Fish and Game, Division of Sport Fish, Regional Operational Plan No. ROP.SF.2A.2022.01, Anchorage.

Courtney, K., J. A. Bednarski, P. Richards, S. Todd, S. E. Miller, B. Hsu, C. Jalbert, and J. Mackenzie-Grieve. 2022. Inriver abundance of Stikine River sockeye salmon, 2022–2024. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan No. ROP.CF.1J.2022.11, Douglas.

Dunmall, K. M., D. G. McNicholl, C. E. Zimmerman, S. E. Gilk-Baumer, S. Burril, and V. R. von Biela. 2022. First juvenile chum salmon confirms successful reproduction for Pacific salmon in the North American Arctic. Canadian Journal of Fisheries and Aquatic Sciences. E-First.

Eskelin, A., and A. W. Barclay. 2022. Eastside set gillnet Chinook salmon harvest composition in Upper Cook Inlet, Alaska, 2021. Alaska Department of Fish and Game, Fishery Data Series No. 22-06, Anchorage.

Eskelin, T., and A. W. Barclay. 2022. Russian River early-run sockeye salmon run timing into the Kenai River, 2018–2020. Alaska Department of Fish and Game, Fishery Data Series No. 22-33, Anchorage.

Flemming, S. M., N. L. Zeiser, S. C. Heinl, C. S. Jalbert, and S. E. Miller. 2022. Stock assessment study of Chilkoot Lake sockeye salmon, 2020–2021. Alaska Department of Fish and Game, Fishery Data Series No. 22-31, Anchorage.

Gruenthal, K. M., and C. Habicht. 2022. Literature review for implementation of the 50-50 rule for cultivation of seaweeds and other aquatic plants in Alaska. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 2A22-01, Anchorage.

Jalbert, C. S., S. C. Heinl, A. Reynolds Manney, and K. R. Shedd. 2022. Commercial harvest of Klawock Lake sockeye salmon in the District 103 and 104 purse seine fisheries, Southeast Alaska, 2018–2021. Alaska Department of Fish and Game, Fishery Data Series No. 22-34, Anchorage.

Richards, P. J., N. Frost, J. A. Bednarski, C. S. Jalbert, and A. Foos. 2022. Inriver abundance of Alsek River Chinook and sockeye salmon, 2022. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan No. ROP.CF.1J.2022.08, Douglas.

Shedd, K. R., D. L. Leonard, and J. V. Nichols. 2022. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll and sport fisheries, 2019. Alaska Department of Fish and Game, Fishery Data Series No. 22-20, Anchorage.

Shedd, K. R., E. A. Lescak, C. Habicht, E. E. Knudsen, T. H. Dann, H. A. Hoyt, D. J. Prince, and W. D. Templin. 2022. Reduced relative fitness in hatchery-origin Pink Salmon in two streams in Prince William Sound, Alaska. Evolutionary Applications 15(3): 429-446

Vinzant, R. A., J. A. Bednarski, C. S. Jalbert, and S. E. Miller. 2022. Migration, tagging response, and distribution of Taku River sockeye salmon, 2019. Alaska Department of Fish and Game, Fishery Data Series No. 22-07, Anchorage.

Vinzant, R. A., J. A. Bednarski, C. S. Jalbert, and S. E. Miller. 2022. Tagging response, distribution, and migration, of Taku River sockeye salmon, 2020. Alaska Department of Fish and Game, Fishery Data Series No. 22-25, Anchorage.

2021

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Moore, D. and J. Seeb. 2001. Annotated bibliography of the genetics of bivalve mollusks. (PDF 667 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries. Regional Information Report 5J01-09, Anchorage.

Barclay, A. W., and E. L. Chenoweth. 2021. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2020. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 5J21-04, Anchorage.

Barclay, A. W., W. Cheng., C. Habicht., T. H. Dann, S. Gilk-Baumer, and H. A. Hoyt. 2021. Researching potential options for an on-vessel portable genotyping laboratory for the Port Moller salmon test fishery. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 5J21- 03, Anchorage.

Barclay, A. W., H. A. Hoyt, and C. Habicht. 2021. Genetic population structure of Chinook salmon from Middle and Upper Susitna River: A report to Alaska Energy Authority, Susitna-Watana hydroelectric project (submitted July 25, 2017). Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 5J21-02, Anchorage.

Bednarski, J. A., P. Richards, K. Courtney, S. Todd, S. E. Miller, B. Hsu, and C. Jalbert. 2021. Operational Plan: Stikine River sockeye salmon stock assessment, 2021. Alaska. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan No. ROP.CF.1J.2021.04, Douglas.

Courtney, M. B., Evans, M., Shedd, K. R. and A. C. Seitz. 2021. Understanding the behavior and ecology of Chinook salmon (Oncorhynchus tshawytscha) on an important feeding ground in the Gulf of Alaska. Environmental Biology of Fishes. 104: 357–373. https://doi.org/10.1007/s10641-021-01083-x

Eskelin, A., and A. W. Barclay. 2021. Eastside set gillnet Chinook salmon harvest composition in Upper Cook Inlet, Alaska, 2020. Alaska Department of Fish and Game, Fishery Data Series No. 21-11, Anchorage.

Grant W. S. and E. Chenoweth. 2021. Phylogeography of sugar kelp: Northern ice-age refugia in the Gulf of Alaska. Ecology and Evolution. https://doi.org/10.1002/ece3.7368

Jalbert, C. S., J. A. Falke, J. A. López, K. J. Dunker, A. J. Sepulveda, and P. A. Westley. 2021. Vulnerability of Pacific salmon to invasion of northern pike (Esox lucius) in Southcentral Alaska. Plos one 16(7), e0254097.

Josephson, R., Wertheimer, A., Gaudet, D., Knudsen, E. E., Adams, B., Bernard, D. R., Heinl, S. C., Piston, A. W., and W. D. Templin. 2021. Proportions of hatchery fish in escapements of summer-run Chum Salmon in Southeast Alaska, 2013–2015. Accepted Article (online access). North American Journal of Fisheries Management. https://doi.org/10.1002/nafm.10580

Knudsen, E. E., Rand, P. S., Gorman, K. B., Bernard, D. R., and W. D. Templin. 2021. Hatchery-Origin Stray Rates and Total Run Characteristics for Pink Salmon and Chum Salmon Returning to Prince William Sound, Alaska, in 2013–2015. Marine and Coastal Fisheries: Dynamics, Management, and Ecosystem Science 13:41–68. https://doi.org/10.1002/mcf2.10134

Otis, E. O., G. J. Hollowell, A. W. Barclay, and X. Zhang. 2021. Recovery and analysis of thermal mark hatchery salmon otoliths in Lower Cook Inlet, 2021. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan ROP.CF.2A.2021.02, Homer.

Ransbury, S. R., N. L. Zeiser, J. A. Bednarski, S. C. Heinl, C. S. Jalbert, and S. E. Miller. 2021. Stock assessment study of Chilkat Lake and River sockeye salmon, 2017–2020. Alaska Department of Fish and Game, Fishery Manuscript No. 21-06, Anchorage.

Ransbury, S. R., N. L. Zeiser, S. C. Heinl, C. S. Jalbert, and S. E. Miller. 2021. Stock assessment study of Chilkoot Lake sockeye salmon, 2016–2019. Alaska Department of Fish and Game, Fishery Data Series No. 21-18, Anchorage.

Schuster, M., M. D. Booz, and A. W. Barclay. 2021. Chinook salmon sport harvest genetic stock and biological compositions in Cook Inlet salt waters, 2014–2018. Alaska Department of Fish and Game, Fishery Manuscript No. 21-04, Anchorage.

Shedd, K. R., D. F. Evenson, and J. V. Nichols. 2021. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll and sport fisheries, 2017.Alaska Department of Fish and Game, Fishery Data Series No. 21-02, Anchorage.

Shedd, K. R., D. L. Leonard, and J. V. Nichols. 2021. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll and sport fisheries, 2018. Alaska Department of Fish and Game, Fishery Data Series No. 21-23, Anchorage.

2020

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Barclay, A. W. 2020. Compilation (2005–2019) of genetic stock identification estimates of sockeye salmon harvest from sampled Upper Cook Inlet commercial fisheries; Susitna River components reported both separately and combined. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J20-02, Anchorage.

Barclay, A. W. 2020. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2019. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J20-01, Anchorage.

Eskelin, A., and A. W. Barclay. 2020. Eastside set gillnet Chinook salmon harvest composition in Upper Cook Inlet, Alaska, 2019. Alaska Department of Fish and Game, Fishery Data Series No. 20-06, Anchorage.

Howard, K. G., S. Garcia, J. Murphy, and T. H. Dann. 2020. Northeastern Bering Sea juvenile Chinook salmon survey, 2017 and Yukon River adult run forecasts, 2018-2020. Alaska Department of Fish and Game, Fishery Data Series No. 20-08, Anchorage.

Larson, S., T. H. Dann, and P. Drobny. 2020. Yukon River subsistence harvest ASL and genetic stock identification, 2018. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 3A20-03, Anchorage.

St. Saviour, A., A. W. Barclay, and N. Logelin. 2020. Draft Report for the 2020 Upper Cook Inlet Board of Fish Meeting: Northern Cook Inlet Chinook salmon marine harvest stock composition, 2016–2017. Alaska Department of Fish and Game, Regional Information Report 2A20-03, Anchorage.

St. Saviour, A., A. W. Barclay, and N. Logelin. 2020. Northern Cook Inlet Chinook salmon marine harvest stock composition, 2016–2017. Alaska Department of Fish and Game, Fishery Data Series No. 20-27, Anchorage.

Zeiser, N. L., S. C. Heinl, S. E. Miller, and C. S. Jalbert. 2020. Operational Plan: Stock assessment studies of Chilkoot Lake sockeye salmon, 2020–2022. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Operational Plan ROP.CF.1J.2020.01, Douglas.

Grant, W. Stewart and T. T. Bringloe. Pleistocene Ice Ages Created New Evolutionary Lineages, but Limited Speciation in Northeast Pacific Winged Kelp (PDF 2,030 kB). 2020. Journal of Heredity, esaa053. doi: 10.1093/jhered/esaa053.

Grant, W.S., Lydon, A. and T. T. Bringloe. Phylogeography of split kelp Hedophyllum nigripes: northern ice-age refugia and trans-Arctic dispersal (PDF 1,332 kB). 2020. Polar Biology 43: 1829-1841. doi: 10.1007/s00300-020-02748-6.

McKinney, Garret J., C. E. Pascal, W. D. Templin, S. E. Gilk-Baumer, T. H. Dann, L. W. Seeb, and J. E. Seeb. Dense SNP panels resolve closely related Chinook salmon populations. Canadian Journal of Fisheries and Aquatic Sciences, 77(3):451-461. doi: 10.1139/cjfas-2019-0067

2019

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Barclay, A. W. 2019. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2015–2018. Alaska Department of Fish and Game, Regional Information Report 5J19-02, Anchorage.

Barclay, A. W., and C. Habicht. 2019. Genetic baseline for Cook Inlet coho salmon and evaluations for mixed stock analysis. Alaska Department of Fish and Game, Fishery Manuscript Series No. 19-19, Anchorage.

Barclay, A. W., D. F. Evenson, and C. Habicht. 2019. New genetic baseline for Upper Cook Inlet Chinook salmon allows for the identification of more stocks in mixed stock fisheries: 413 loci and 67 populations. Alaska Department of Fish and Game, Fishery Manuscript Series No. 19-06, Anchorage.

Barclay, A. W., E. Chenoweth, and C. Habicht. 2019. Reanalysis of Upper Cook Inlet coho salmon harvest from 2013 to 2016 using an updated genetic baseline.Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J19-06, Anchorage.

Barclay, A. W., M. Schuster, C. M. Kerkvliet, M. D. Booz, B. J. Failor, and C. Habicht. 2019. Coded wire tag augmented genetic mixed stock analysis of Chinook salmon harvested in Cook Inlet marine sport fishery, 2014–2017. Alaska Department of Fish and Game, Fishery Manuscript No. 19-04, Anchorage.

Eskelin, A., and A. W. Barclay. 2019. Eastside set gillnet Chinook salmon harvest composition in Upper Cook Inlet, Alaska, 2018, with large fish composition estimates for 2010-2014. Alaska Department of Fish and Game, Fishery Data Series No. 19-26, Anchorage.

Habicht, C., C. T. Smith, A. Barclay, H. Hoyt, K. Turnquist, and W. A. Larson. 2019. Discriminating among Pacific salmon, Rainbow Trout, and Atlantic Salmon species using commonly available genetic screening methods. Journal of Fish and Wildlife Management. Online. doi: 10.3996/052018-JFWM-038

Grant., W. Stewart. Phylogeography of the kelps Saccharina latissima, Hedophyllum nigripes, and Alaria spp. in Alaska and implications for resource management (PDF 21,664 kB). Final report for Study 1618, North Pacific Research Board. August 2019.

Howard, K. G., C. Habicht, E. Russ, A. Olson, J. Nichols, and M. Schuster. 2019. Operational Plan: Genetic sampling of yelloweye and black rockfish from inside and outside waters of Prince William Sound, North Gulf of Alaska, and Southeast Alaska. Alaska Department of Fish and Game, Regional Operational Plan ROP.SF.4A.2019.01, Anchorage.

Howard, K. G., S. Garcia, J. Murphy, and T. H. Dann. 2019. Juvenile Chinook salmon abundance index and survey feasibility assessment in the Northern Bering Sea, 2014–2016. (PDF 3,488 kB) Alaska Department of Fish and Game, Fishery Data Series No. 19-04, Anchorage.

Larson, W. A., T. H. Dann, M. T. Limborg, G. J. McKinney, J. E. Seeb, L. W. Seeb. 2019. Parallel signatures of selection at genomic islands of divergence and the major histocompatibility complex in ecotypes of sockeye salmon across Alaska. Molecular Ecology, 28: 2254- 2271. doi:10.1111/mec.15082

St. Saviour, A., A. W. Barclay, and N. Logelin. 2019. Northern Cook Inlet Chinook salmon marine harvest stock composition, 2014–2015. Alaska Department of Fish and Game, Fishery Data Series No. 19-03, Anchorage.

Thompson, T. Q., M. R. Bellinger, S. M. O-Rourke, D. J. Prince, A. E. Stevenson, A. T. Rodrigues and M. R. Miller. 2019. Anthropogenic habitat alteration leads to rapid loss of adaptive variation and restoration potential in wild salmon populations. Proceedings of the National Academy of Sciences, 116(1):177 LP-186. doi:10.1073/pnas.1811559115

West, F. and D. Prince. 2019. Genetic Stock Identification of Pilot Station Chinook Salmon, 2018 (PDF 743 kB). Alaska Department of Fish and Game, Divisions of Sport Fish and Commercial Fisheries, Regional Information Report 3A19-09, Anchorage.

West, F. and T. Dann. 2019. Genetic Stock Identification of Pilot Station Chinook Salmon, 2017 (PDF 858 kB). Alaska Department of Fish and Game, Divisions of Sport Fish and Commercial Fisheries, Regional Information Report 3A19-08, Anchorage.

2018

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Campbell, J., N. A. Decovich, and A. W. Barclay. 2018. Operational Plan: Susitna River Chinook salmon inriver abundance. Alaska Department of Fish and Game, Regional Operational Plan ROP.SF.2A.2018.08, Anchorage.

Dann, T. H., C. Habicht, W. D. Templin, L. W. Seeb, G. McKinney, and J. E. Seeb. 2018. Identification of genetic markers useful for mixed stock analysis of Chinook salmon in Cook Inlet, Alaska. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J18-04, Anchorage.

Eskelin, A., and A. W. Barclay. 2018. Eastside set gillnet Chinook salmon harvest composition in Upper Cook Inlet, Alaska, 2017. Alaska Department of Fish and Game, Fishery Data Series No. 18-30, Anchorage.

Eskelin, T., and A. W. Barclay. 2018. Operational plan: Russian River early run sockeye salmon run timing study. Alaska Department of Fish and Game, Regional Operational Plan ROP.SF.2A.2018.10, Anchorage.

Eskelin, T., and A. W. Barclay. 2018. Operational Plan: Upper Cook Inlet commercial eastside set gillnet Chinook salmon harvest composition study. Alaska Department of Fish and Game, Regional Operational Plan ROP.SF.2A.2018.14, Anchorage.

Evenson, D. F., C. Habicht, M. Stopha, A. R. Munro, T. R. Meyers, and W. D. Templin. 2018. Salmon hatcheries in Alaska — A review of the implementation of plans, permits, and policies designed to provide protection for wild stocks. Alaska Department of Fish and Game, Special Publication No. 18-12, Anchorage.

Gilk-Baumer, S., D. F. Evenson, K. Shedd, and E. L. Jones. 2017. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll and sport fisheries, 2016. Alaska Department of Fish and Game, Fishery Data Series No. 18-01, Anchorage.

Grant., W. Stewart and C. Siddon. Stock Structure of Aleutian Island Golden King Crab, Final report for Study 1526 (PDF 464 kB), North Pacific Research Board. April 2018.

Jalbert, C. S. 2018. Impacts of a top predator (Esox lucius) on salmonids in southcentral Alaska: Genetics, connectivity, and vulnerability. University of Alaska Fairbanks.

Limborg, M. T., W. A. Larson, K. Shedd, L. W. Seeb, and J. E. Seeb. 2018. Novel RAD sequence data reveal a lack of genomic divergence between dietary ecotypes in a landlocked salmonid population. Conservation Genetics Resources, 10(2):169-171. doi:10.1007/s12686-017-0791-4

Rogers Olive, S.D., E. K. C. Fox, and S. E. Gilk-Baumer. 2018. Genetic baseline for mixed stock analyses of sockeye salmon harvested in Southeast Alaska for Pacific Salmon Treaty applications, 2018. Alaska Department of Fish and Game, Fishery Manuscript No. 18-03, Anchorage.

Witteveen, M. J., D. Evans, and K. R. Shedd. 2018. Stock assessment of sockeye salmon in the Buskin River, 2014–2017. Alaska Department of Fish and Game, Fishery Data Series No. 18-19, Anchorage.

2017

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Barclay, A. W. 2017. Annual Genetic Stock Composition Estimates for the Upper Cook Inlet Sockeye Salmon Commercial Fishery, 2005–2016. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J17-05, Anchorage.

Barclay, A. W., C. Habicht, W. Gist, E. L. Chenoweth, and T. M. Willette. 2017. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2012-2013 Alaska Department of Fish and Game, Division of Commercial Fisheries, Fishery Data Series No. 17-30, Anchorage.

Barclay, A. W., P. A. Crane, D. B. Young, H. A. Hoyt, and C. Habicht. 2017. Current status of genetic studies of coho salmon from Southcentral Alaska and evaluations for mixed-stock analysis in Cook Inlet. Alaska Department of Fish and Game, Fishery Manuscript Series No. 17-01, Anchorage.

Barclay, A. W., C. Habicht, W. Gist, and T. M. Willette. 2017. Genetic stock identification of Upper Cook Inlet coho salmon harvest, 2013-2015. Alaska Department of Fish and Game, Regional Information Report 5J17-03, Anchorage.

Cunningham, C. J., T. A. Branch, T. H. Dann, M. Smith, J. E. Seeb, L. W. Seeb, and R. Hilborn. 2017. A General Model for Salmon Run Reconstruction That Accounts for Interception and Differences in Availability to Harvest. Canadian Journal of Fisheries and Aquatic Sciences. Online. doi: 10.1139/cjfas-2016-0360.

Eskelin, A., and A. W. Barclay. Eastside set gillnet chinook salmon harvest composition study in Upper Cook Inlet, Alaska, 2016, including large fish harvest for 2015 and 2016. Alaska Department of Fish and Game, Fishery Data Series No. 17-50, Anchorage.

Eskelin, A., and A. W. Barclay. 2017. Mixed stock analysis and age, sex, and length composition of Chinook salmon in the Eastside Set Gillnet Fishery in Upper Cook Inlet, Alaska, 2016, including an examination of large fish (=75 cm) harvest for 2015 and 2016. Alaska Department of Fish and Game, Regional Information Report 2A17-03, Anchorage.

Gilk-Baumer, S., D. F. Evenson, K. Shedd, and W. D. Templin. 2017. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll fisheries, 2015. Alaska Department of Fish and Game, Fishery Data Series No. 17-41, Anchorage.

Gilk-Baumer, S., D. F. Evenson, and W. D. Templin. 2017. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll fisheries, 2010-2014. Alaska Department of Fish and Game, Fishery Data Series No. 17-37, Anchorage.

Gilk-Baumer, S., K. Shedd, H. A. Hoyt, C. Habicht, W. D. Templin, S. Haught, and D. F. Evenson. 2017. Genetic stock composition of the commercial harvest of Chinook salmon in Copper River District, 2013-2017. Alaska Department of Fish and Game, Fishery Manuscript Series No. 17-09, Anchorage.

Gilk-Baumer, S., W. D. Templin, D.F. Evenson, and E. L. Jones. 2017. Mixed stock analysis of Chinook salmon harvested in the Southeast Alaska sport fishery, 2004-2015. Alaska Department of Fish and Game, Fishery Data Series No. 17-43, Anchorage.

Grant, W., J. Jasper, D. Bekkevold, and M. Adkison. 2017. Responsible genetic approach to stock restoration, sea ranching and stock enhancement of marine fishes and invertebrates. Reviews in Fish Biology and Fisheries 27(3): 615-649. doi:10.1007/s11160-017-9489-7.

Grant., W. Stewart and William D. Templin. Phylogeography of Geoduck Clams Panopea generosa in Southeastern Alaska (PDF 930 kB). Final Report and Supplemental Material of research funded by the NOAA Fisheries AK Region under award (Grant Number NA15NMF4270273) to Alaska Department of Fish & Game. 2017.

Grant., W. Stewart and William D. Templin. Phylogeography of Giant Red Sea Cucumbers Apostichopus californicus in the Northeastern Pacific (PDF 492 kB). Final Report of research funded by the NOAA Fisheries AK Region under award (Grant Number NA15NMF4270273) to Alaska Department of Fish & Game. 2017.

Habicht, C. 2017. Memorandum. Alaska Department of Fish and Game, Division of Commercial Fisheries, Gene Conservation Laboratory, Guidelines for MSA reanalysis under new objectives (PDF 175 kB), Anchorage.

Larson, S., and T. Dann. 2017. Yukon River subsistence harvest genetic stock identification, 2017 Alaska Department of Fish and Game, Regional Information Report 3A18-03, Anchorage.

Limborg, M. T., W. A. Larson, K. Shedd, L.W. Seeb, and J. E. Seeb. 2017. Novel RAD sequence data reveal a lack of genomic divergence between dietary ecotypes in a landlocked salmonid population. Conservation Genetics Resources. Online. doi: 10.1007/s12686-017-0791-4.

Murphy, J. M., K. G. Howard, J. C. Gann, K.C. Cieciel, W. D. Templin, and C. M. Guthrie, C. M. 2017. Juvenile Chinook Salmon abundance in the northern Bering Sea: Implications for future returns and fisheries in the Yukon River. Deep-Sea Research Part II: Topical Studies in Oceanography, 135: 156-167. doi:10.1016/j.dsr2.2016.06.002

Shedd, K. R., M. B. Foster, and C. Habicht. 2017. YAddendum to FMS 16-10: Redefinition of reporting groups to separate Cook Inlet into four groups for the genetic stock composition of the commercial harvest of sockeye salmon in Kodiak Management Area, 2014–2016. Alaska Department of Fish and Game, Fishery Manuscript No. 17-07, Anchorage.

Tarpey, C. M., J. E. Seeb, G. J. McKinney, W. D. Templin, A. V. Bugaev, S. Sato, and L. W. Seeb. 2017. SNP data describe contemporary population structure and diversity in allochronic lineages of pink salmon (Oncorhynchus gorbuscha). Canadian Journal of Fisheries and Aquatic Sciences Online 15 August 2017. doi:10.1139/cjfas-2017-0023.

2016

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Barclay, A. W., B. J. Failor, and C. Habicht. 2016. Report to the Alaska Board of Fisheries: Progress report on genetic and coded wire tag mixed stock analysis of Chinook salmon harvested in Cook Inlet marine sport fishery, 2014–2016. Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J16-09, Anchorage.

Barclay, A. W., C. Habicht, T. M. Willette, W. Gist, and W. D. Templin. 2016. Report to the Alaska State Legislature on status of Cook Inlet coho and sockeye salmon genetic projects, 2015. (PDF 935 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J16-02, Anchorage.

Barclay, A. W., C. Habicht, W. Gist, E. L. Chenoweth, and T. M. Willette. In press. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2012–2013. Alaska Department of Fish and Game, Fishery Data Series, Anchorage.

Bowen B. W., M. R. Gaither, J. D. DiBattista , M. Iacchei, K. R. Andrews, W. S. Grant, R. J. Toonen, and J. C. Briggs. 2016. Comparative phylogeography of the ocean planet. Proceedings of the National Academy of Sciences of the United States of America 113(29):7962-7969.

Dupuis, A. W., T. M. Willette, and A. Barclay. 2016. Migratory timing and abundance estimates of sockeye salmon into Upper Cook Inlet, Alaska, 2014. Alaska Department of Fish and Game, Fishery Data Series No. 16-43, Anchorage.

Eskelin, A., and A. W. Barclay. 2016. Mixed stock analysis and age, sex, and length composition of Chinook salmon in Upper Cook Inlet, Alaska, 2015. (PDF 1,174 kB) Alaska Department of Fish and Game, Fishery Data Series No. 16-16, Anchorage.

Garvin, M. R., W. D. Templin, A. J. Gharrett, N. DeCovich, C. M. Kondzela, J. R. Guyon, M. V. McPhee. 2016. Potentially adaptive mitochondrial haplotypes as a tool to identify divergent nuclear loci. Methods in Ecology and Evolution 8(7):821-834. doi: 10.1111/2041-210X.12698.

Grant W. S. 2016. Paradigm shifts in the phylogeographic analysis of seaweeds. Pages 23-62. [In] Zi-Min Hu and Ceridwen Fraser, editors. Seaweed Phylogeography: Adaptation and evolution of seaweeds under climate and environment changes. Springer, Netherlands, Dordrecht.

Grant W.S., E. -rnason, and B. Eldon. 2016. New DNA coalescence models and old population genetics software. ICES Journal of Marine Science 73(9):2178-2180.

Grant, W. S. 2016. Paying attention to assumptions: coalescing genes and reproductive skew in marine species. Genetics Section Newsletter, American Fisheries Society 29(1):3-5.

Shedd, K. R., M. B. Foster, T. H. Dann, H. A. Hoyt, M. L. Wattum, and C. Habicht. 2016. Genetic stock composition of the commercial harvest of sockeye salmon in Kodiak management area, 2014-2016. (PDF 9,573 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 16-10, Anchorage.

Shedd, K. R., M. B. Foster, M. Wattum, T. Polum, M. Witteveen, M. Stratton, T. H. Dann, H. A. Hoyt, and C. Habicht. 2016. Genetic stock composition of the commercial and sport harvest of Chinook salmon in Westward Region, 2014 - 2016. (PDF 5,351 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 16-11, Anchorage.

Shedd, K. R., T. H. Dann, M. B. Foster, and C. Habicht. 2016. Addendum to FMS 16-03: Redefinition of reporting groups by combining Ayakulik and Frazer into one group for the genetic baseline of North American sockeye salmon for mixed stock analyses of Kodiak Management Area commercial fisheries, 2014-2016. (PDF 2,409 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 16-05, Anchorage.

Shedd, K. R., T. H. Dann, H. A. Hoyt, M. B. Foster, and C. Habicht. 2016. Genetic baseline of North American sockeye salmon for mixed stock analyses of Kodiak Management Area commercial fisheries, 2014-2016. (PDF 3,361 kB) . Alaska Department of Fish and Game, Fishery Manuscript Series No. 16-03, Anchorage.

Willette, T. M., R. D. DeCino, A. W. Barclay, and X. Zhang. 2016. An evaluation of the selectivity of fish wheels used to apportion sonar counts to species on the Yentna River, Alaska. Alaska Department of Fish and Game, Fishery Manuscript No. 16-02, Anchorage.

Witteveen, M. J., and K. Shedd. 2016. Chinook salmon genetic sampling along the Alaska Peninsula and adjacent areas results, 2012–2014. Alaska Department of Fish and Game, Fishery Data Series No. 16-25, Anchorage.

2015

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Barclay, A. W., and C. Habicht. 2015. Genetic baseline for Upper Cook Inlet Chinook salmon: 42 SNPs and 7,917 fish. Alaska Department of Fish and Game, Fishery Manuscript Series No. 15-01, Anchorage.

Dupuis, A., M. Willette, and A. Barclay. 2015. Migratory timing and abundance estimates of sockeye salmon into Upper Cook Inlet, Alaska, 2013. Alaska Department of Fish and Game, Fishery Data Series No. 15-32, Anchorage.

Eskelin, T., and A. W. Barclay. 2015. Mixed stock analysis and age, sex, and length composition of Chinook salmon in Upper Cook Inlet, Alaska, 2014. Alaska Department of Fish and Game, Fishery Data Series No. 15-19, Anchorage.

Gilk-Baumer, S. E., S. D. Rogers Olive, D. K. Harris, S. C. Heinl, E. K. C. Fox, and W. D. Templin. 2015. Genetic mixed stock analysis of sockeye salmon harvests in selected northern Chatham Strait commercial fisheries, Southeast Alaska, 2012–2014. (PDF 2,302 kB) Alaska Department of Fish and Game, Fishery Data Series No. 15-03, Anchorage.

Grant, W. S. 2015. Problems and cautions with sequence mismatch analysis and Bayesian skyline plots to infer historical demography. Journal of Heredity 106 (4): 333-346 doi:10.1093/jhered/esv02014.

Grant, W. S., H. Liller, and W. Templin. 2015. Phylogeography and management of golden king crab populations in Alaska. (PDF 689 kB) Alaska Department of Fish and Game Commercial Fisheries Division, Regional Operational Plan ROP.CF.5J.2015.01, Anchorage.

Hu Z.-M, J.-J. Li, Z.-M. Sun, J.-H. Oak, J. Zhang, P. Fresia, W. S. Grant, and D. L. Duan. 2015. Phylogeographic structure and deep lineage diversification of the red alga Chondrus ocellatus Holmes in the Northwest Pacific. Molecular Ecology 24 (19): 5020-5033.

Lewis B., W. S. Grant, R. E. Brenner, and T. Hamazaki. 2015. Changes in size and age of Chinook salmon Oncorhynchus tshawytscha returning to alaska. PLoS ONE 10(6): e0130184. 17 pp. doi:10.1371/journal.pone.0130184.

St. Saviour, A., C. Jalbert, B. Jones, and A. W. Barclay. 2015. Operational plan: Northern Cook Inlet Chinook salmon marine harvest composition study, 2015. Alaska Department of Fish and Game, Regional Operational Plan ROP.SF.2A.2015.01, Anchorage.

Small, M. P., S. D. Rogers Olive, L. W. Seeb, J. E. Seeb, C. E. Pascal, K. I. Warheit, and W. D. Templin.-2015. Chum salmon genetic diversity in the north-eastern Pacific Ocean assessed with single nucleotide polymorphisms (SNPs): applications to fishery management. North American Journal of Fisheries Management 35(5): 974-987. doi: 10.1080/02755947.2015.1055014

2014

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Barclay, A. W., N. A. DeCovich, C. Habicht, T. M. Willette, W. Gist, E. C. Volk and W. D. Templin. 2014. Report to the Alaska State Legislature on status of Cook Inlet coho and sockeye salmon genetic projects, 2014. (PDF 1,279 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J14-05, Anchorage.

Barclay, A. W., C. Habicht, T. Tobias, E. L. Chenoweth, and T. M. Willette. 2014. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2011. (PDF 3,021 kB) Alaska Department of Fish and Game, Fishery Data Series No. 14-43, Anchorage

Bernard, D. R., S. Gilk-Baumer, D. Evenson, W. D. Templin, R. L. Peterson and R. Briscoe. 2014. Feasibility of estimating the 2011 terminal run sizes for Chinook salmon driver stocks harvested in Southeast Alaska troll and sport fisheries. (PDF 1,156 kB) Alaska Department of Fish and Game, Fishery Manuscript No. 14-09, Anchorage.

Grant, W. S., D. A. Zelinina, and N. S. Mugue. 2014. Phylogeography of red king crab: implications for management and stock enhancement. Pages 47-72 [In] B.G. Stevens, editor. King Crabs of the World: Biology and Fisheries Management. CRC Press, Taylor & Francis Group, New York.

Habicht, C., T. M. Tobias, G. Fandrei, N. Webber, B. Lewis & W. Stewart Grant. 2014. Homing of sockeye salmon within Hidden Lake, Alaska, can be used to achieve hatchery management goals. North American Journal of Fisheries Management 33(4): 777-782.

Hamazaki, T. and N. DeCovich. Application of the genetic mark-recapture technique for run size estimation of Yukon River Chinook salmon. 2014. North American Journal of Fisheries Management 34: 276-286.

Larson, W. A., J. E. Seeb, C. E. Pascal, W. D. Templin, and L. W. Seeb. 2014. Single-nucleotide polymorphisms (SNPs) identified through genotyping-by-sequencing improve genetic stock identification of Chinook salmon (Oncorhynchus tshawytscha) from western Alaska. Canadian Journal of Fisheries and Aquatic Sciences 71(5):698-708.

Larson, W. A., J. E. Seeb, T. H. Dann, D. E. Schindler, and L. W. Seeb. 2014.Signals of heterogeneous selection at an MHC locus in geographically proximate ecotypes of sockeye salmon. Molecular Ecology 23: 5448-5461.

Larson W. A., L. W. Seeb, M. V. Everett, R. K. Waples, W. D. Templin, and J. E. Seeb. 2014. Genotyping by sequencing resolves shallow population structure to inform conservation of Chinook salmon (Oncorhynchus tshawytscha). Evolutionary Applications 7(3): 355-369.

Petrou, E. L., J. E. Seeb, L. Hauser, M. J. Witteveen, W. D. Templin, L. W. Seeb. 2014. Fine-scale sampling reveals distinct isolation by distance patterns in chum salmon (Oncorhynchus keta) populations occupying a glacially dynamic environment. Conservation Genetics 15(1): 229-243.

Polum, T. B., D. Evans, and T. H. Dann. 2014. Stock assessment of sockeye salmon in the Buskin River, 2010–2013. (PDF 1,423 kB) Alaska Department of Fish and Game, Fishery Data Series No. 14-26, Anchorage.

Murphy, James, K. Howard, A. Andrews, Lisa Eisner, J. Gann, W. Templin, C. Guthrie, J. Moss, D. Honeyfield, K. Cos, and E. Farley. 2014. Yukon River juvenile Chinook Salmon survey. 2013 Arctic-Yukon-Kuskokwim Sustainable Salmon Initiative Project Final Product.

Sato, S., W. D. Templin, L. W. Seeb, J. E. Seeb, and S. Urawa. 2014. Genetic. structure and diversity of Japanese chum salmon populations inferred from single-nucleotide polymorphism markers. Transactions of the American Fisheries Society 143(5):1231-1246.

Templin W. D., C. Habicht, L. W. Seeb, J. E. Seeb, and E. C. Volk. 2014. Improvements to the range-wide genetic baseline for chum salmon through the Western Alaska Salmon Stock Identification Program (WASSIP) and PacSNP collaboration. NPAFC Doc. 1533. 8 pp. Alaska Department of Fish and Game.

2013

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Ackerman, M. W., W. D. Templin, J. E. Seeb, and L. W. Seeb. 2013. Landscape heterogeneity and local adaptation define the spatial genetic structure of Pacific salmon in a pristine environment. Conservation Genetics 14: 483-498.

Albaina, A., M. Iriondo, I. Velado, U. Laconcha, I. Zarraonaindia, H. Arrizabalaga, M.A. Pardo, M. Lutcavage, W. S. Grant, and A. Estonba. 2013. Single nucleotide polymorphism discovery in albacore and Atlantic bluefin tuna provides insights into worldwide population structure. Animal Genetics 44(6): 678-92.

Barclay, A. W., C. Habicht, T. Tobias, and T. M. Willette. 2013. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2010. Alaska Department of Fish and Game, Fishery Data Series No. 13-56, Anchorage.

Castilho, R., W. S Grant, and V. M. Alamada. 2013. Biogeography and phylogeography of the Atlantic. Frontiers of Biogeography 5(1): 6-7.

Dann, T. H., C. Habicht, T. T. Baker, and J. E. Seeb. 2013. Exploiting genetic diversity to balance conservation and harvest of migratory salmon. Canadian Journal of Fisheries and Aquatic Sciences. 70: 785-793.

DeCovich, N., A. Barclay, C. Habicht, M. Willette, L. Fair. E. Volk and W. Templin. 2013. Report to the Alaska State Legislature on status of Cook Inlet coho and sockeye salmon genetic projects, 2013. (PDF 1,397 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J13-12, Anchorage.

Eskelin, T., A. W. Barclay and A. Antonovich. 2013. Mixed stock analysis and age, sex, and length composition of Chinook salmon in the Eastside set gillnet fishery in Upper Cook Inlet, Alaska, 2010-2013. Alaska Department of Fish and Game, Fishery Data Series No. 13-63, Anchorage.

Eskelin, A., A. Antonovich, and A. W. Barclay. 2013. Upper Russian River late-run sockeye salmon run reconstructions, 2006–2008. Alaska Department of Fish and Game, Fishery Data Series No. 13-22, Anchorage.

Garvin, M. R., C. M. Kondzela, P. C. Martin, B. Finney, J. Guyon, W. D. Templin, N. DeCovich, S. Gilk-Baumer, and A. J. Gharrett. 2013. Recent physical connections may explain weak genetic structure in western Alaskan chum salmon (Oncorhynchus keta) populations. Ecology and Evolution 3(7): 2362-2377.

Gilk-Baumer, S., S. M. Turner, C. Habicht, and S. C. Heinl. 2013. Genetic stock identification of McDonald Lake sockeye salmon in selected Southeast Alaska fisheries, 2007–2009. (PDF 1,435 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 13-04, Anchorage.

Gilk-Baumer, S., W. D. Templin, and L. W. Seeb. 2013. Mixed stock analysis of Chinook salmon harvested in Southeast Alaska commercial troll fisheries, 2004-2009. (PDF 7,981 kB) Alaska Department of Fish and Game, Fishery Data Series No. 13-26, Anchorage.

Hyun, S., R. Sharma, W. D. Templin, and S. Gilk-Baumer. 2013. Incorporation of Genetic Stock Identification into Ocean Fishery Real-Time Forecasts. A Report to the NOAA NMFS Pacific Salmon Treaty — Chinook LOA Funding, Award No. NA11NMF4380152.

Jasper J. R., C. Habicht, S. Moffitt, R. Brenner, J. Marsh, B. Lewis, E. Creelman Fox, Z. Grauvogel, S.D. Rogers Olive, and W. S. Grant. 2013. Source-sink estimates of genetic introgression show influence of hatchery strays on wild chum salmon populations in Prince William Sound, Alaska. PLoS ONE 8(12):e81916.

Larson, W. A., F. M. Utter, K. W. Myers, W. D. Templin, J. E. Seeb, C. M. Guthrie III, A. V. Bugaev, and L. W. Seeb. 2013. Single-nucleotide polymorphisms reveal distribution and migration of Chinook salmon (Oncorhynchus tshawytscha) in the Bering Sea and North Pacific Ocean. Canadian Journal of Fisheries and Aquatic Sciences 70: 128-141.

McKinley, T. R., A. W. Barclay and J. Jasper. 2013. Seasonal stock contributions of the inriver run and sport harvest for tributary and mainstem spawning Chinook salmon in the Kenai River, Alaska. Alaska Department of Fish and Game, Fishery Data Series No. 13-64, Anchorage.

Moran, P., D. J. Teel, M. A. Banks, T. D. Beacham, M. R.. Bellinger, S. M. Blankenship, J. R. Candy, J. C. Garza, J. E. Hess, S. R. Narum, L. W. Seeb, W. D. Templin, C. G. Wallace, and C. T. Smith. 2013. Divergent life-history races do not represent Chinook salmon coast wide: the importance of scale in Quaternary biogeography. Canadian Journal of Fisheries and Aquatic Sciences 70(3): 415-435.

Petrou, E. L., L. Hauser, R. S. Waples, J. E. Seeb, W. D. Templin, D. Gomez-Uchida and L. W. Seeb. 2013. Secondary contact and changes in coastal habitat availability influence the nonequilibrium population structure of a salmonid (Oncorhynchus keta). Molecular Ecology 22(23): 5848-5860.

Rogers, Olive, S. D., A. W. Barclay, T. R. McKinley, and W. D. Templin. 2013. Genetic baseline of Kenai River Chinook salmon for mixed stock analyses, 2013. (PDF 736 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 13-12, Anchorage.

Western Alaska Salmon Stock Identification Program (WASSIP): Understanding Harvest Patterns of Sockeye and Chum Salmon Stocks from a Large Scale Genetics Project, With Focus on Alaska Peninsula (PDF 10,400 kB)

Western Alaska Salmon Stock Identification Program (WASSIP): Understanding Harvest Patterns of Sockeye and Chum Salmon Stocks from a Large Scale Genetics Project, With Focus on Arctic-Yukon-Kuskokwim
(See WASSIP Reports)

Witteveen, M., and T. H. Dann. 2013. Chinook Salmon Genetics Sampling Along the Alaska Peninsula and Adjacent Areas Operational Plan, 2013. Alaska Department of Fish and Game, Regional Information Report 4K13-06, Kodiak.

2012

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Barclay, A. W. and C. Habicht. 2012. Genetic baseline for Upper Cook Inlet sockeye salmon: 96 SNPs and 10,000 fish. (PDF 611 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 12-06, Anchorage.

Barclay, A. W., C. Habicht, R. A. Merizon, and R. J. Yanusz. 2012. Genetic Baseline for Upper Cook Inlet Chinook Salmon: 46 SNPs and 5,279 fish (PDF 1,132 kB). Alaska Department of Fish and Game, Fishery Manuscript Series No. 12-02, Anchorage.

Brenner, R. E., S. D. Moffitt, and W. S. Grant. 2012. Straying of hatchery salmon in Prince William Sound, Alaska. Environmental Biology of Fishes 94(1): 170-195.

Dann, T. H., A. Barclay and C. Habicht. 2012. Western Alaska Salmon Stock Identification Program Technical Document 5: Status of the SNP baseline for sockeye salmon. (PDF 1,469 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-10, Anchorage.

Dann, T. H., C. Habicht, and W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 12: Tests of Togiak and Goodnews reporting groups for sockeye salmon. (PDF 597 kB) Alaska Department of Fish and Game, Regional Information Report 5J12-17, Anchorage.

Dann, T. H., C. Habicht, J. R. Jasper, E. K. C. Fox, H. A. Hoyt, H. L. Liller, E. S. Lardizabal, P. A. Kuriscak, Z. D. Grauvogel, and W. D. Templin. 2012. Sockeye salmon baseline for the Western Alaska Salmon Stock Identification Project. (PDF 9,421 kB) Alaska Department of Fish and Game, Special Publication No. 12-12, Anchorage.

Dann, T. H., C. Habicht, S. D. Rogers Olive, H. L. Liller, E .K .C. Fox, J. R. Jasper, A. R. Munro, M. J. Witteveen, T. T. Baker, K. G. Howard, E. C. Volk, and W. D. Templin. 2012. Stock Composition of Sockeye Salmon Harvests in Fisheries of the Western Alaska Salmon Stock Identification Program (WASSIP), 2006–2008. (Large PDF 10,624 kB) Alaska Department of Fish and Game, Special Publication No. 12-22, Anchorage.

Dann, T. H., J. R. Jasper, H. A. Hoyt, H. Hildebrand, and C. Habicht. 2012. Western Alaska Salmon Stock Identification Program Technical Document 6: Selection of the 96 SNP marker set for sockeye salmon. (PDF 3,539 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-11, Anchorage.

Dann, T. H., M. J. Witteveen, S. D. Rogers Olive, C. Habicht, M. B. Foster, H. L. Liller, and W. D. Templin. 2012. Genetic stock composition of the commercial harvest of sockeye salmon in Southeastern District Mainland, Alaska Peninsula Management Area, 2010–2012. (PDF 2,331 kB) Alaska Department of Fish and Game, Special Publication No. 12-31, Anchorage.

Dann, T. H., M. J. Witteveen, S. D. Rogers Olive, C. Habicht, M. B. Foster, H. L. Liller, and W. D. Templin. 2012. Genetic stock composition of the commercial harvest of sockeye salmon in Southeastern District Mainland, Alaska Peninsula Management Area, 2010–2012. (PDF 2,380 kB) Alaska Department of Fish and Game, Special Publication No. 12-31, Anchorage.

DeCovich, N. A., T. H. Dann, S. D. Rogers Olive, H. L. Liller, E. K. C. Fox, J. R. Jasper, E. L. Chenoweth, C. Habicht, and W. D. Templin. 2012. Chum salmon baseline for the Western Alaska Salmon Stock Identification Program. (PDF 5,400 kB) Alaska Department of Fish and Game, Special Publication No. 12-26, Anchorage.

Eggers, D. M., A. R. Munro, and E .C. Volk. 2012. Estimating escapement of Western Alaskan sockeye salmon for Western Alaska Salmon Stock Identification Program reporting groups, 2006 to 2008. (PDF 571 kB) Alaska Department of Fish and Game, Special Publication No. 12-15, Anchorage.

Eggers, D. M., A. R. Munro, and E. C. Volk. 2012. Estimating escapement of Western Alaskan chum salmon for Western Alaska Salmon Stock Identification Program reporting groups, 2007 to 2009. (PDF 1,152 kB) Alaska Department of Fish and Game, Special Publication No. 12-21, Anchorage.

Flannery, B. G., P. A. Cran, J. H. Eiler, D. Beacham, N. A. DeCovich, W. D. Templin, O. L. Schlei and J. K. Wenburg. 2012. Comparison of Radiotelemetry and Microsatellites for Determining the Origin of Yukon River Chinook Salmon. North American Journal of Fisheries Management 32(4): 720-730.

Gomez-Uchida, D., J. E. Seeb, C. Habicht, and L. W. Seeb. 2012. Allele frequency stability in large, wild exploited populations over multiple generations: insights from Alaska sockeye salmon (Oncorhynchus nerka). Canadian Journal of Fisheries and Aquatic Sciences 69:916-929.

Grant, W. S. M. Lius, T. Gao, T. Yanagimoto. 2012. Limits of Bayesian skyline plot analysis of mtDNA sequences to infer historical demographies in Pacific herring (and other species). Molecular Phylogenetics and Evolution 65: 203-212.

Grant, W. S. 2012. Understanding the adaptive consequences of hatchery-wild interactions in Alaska Salmon. Environmental Biology of Fishes 94(1): 325-342.

Grant, W. S. and W. Cheng. 2012. Incorporating deep and shallow components of genetic structure into the management of Alaskan red king crab. Evolutionary Applications 5(8): 820-837. doi: 10.111/j.1752-4571.2012.00260.x

Habicht, C., A. R. Munro, T. H. Dann, D. M. Eggers, W. D. Templin, M. J. Witteveen, T. T. Baker, K. G. Howard, S. D. Rogers Olive, H. L. Liller, E. L. Chenoweth, and E. C. Volk. 2012. Harvest and Harvest Rates of Sockeye Salmon Stocks in Fisheries of the Western Alaska Salmon Stock Identification Program (WASSIP), 2006–2008. (Very Large PDF 55,083 kB) Alaska Department of Fish and Game, Special Publication No. 12-24, Anchorage.

Habicht, C., J. R. Jasper, T. H. Dann, N. Decovich, and W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 11: Defining reporting groups. (PDF 2,499 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-16, Anchorage.

Jasper, J. R., C. Habicht, A. R. Munro, and W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 7: Regional allocation model. (PDF 624 kB) Alaska Department of Fish and Game, Regional Information Report 5J12-12, Anchorage.

Jasper, J. R., C. Habicht, and W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 2: Investigation of temporal variation in sockeye and chum salmon baselines. (PDF 1,146 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-07, Anchorage.

Jasper, J. R., C. Habicht, W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 3: Estimating small proportions. (PDF 486 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report, 5J12-08, Anchorage.

Jasper, J. R., N. DeCovich, W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 4: Status of the SNP baseline for chum salmon. (PDF 1,013 kB) Alaska Department of Fish and Game, Regional Information Report 5J12-09, Anchorage.

Jasper, J. R., S. M. Turner, and C. Habicht. 2012. Western Alaska Salmon Stock Identification Program Technical Document 13: Selection of a prior for mixed stock analysis. (PDF 1,426 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-20, Anchorage.

Jasper, J. R., W. D. Templin. 2012. Western Alaska Salmon Stock Identification Program Technical Document 10: Optimal rate of correct assignment with backward elimination locus selection. (PDF 408 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-19, Anchorage.

Karl, S. A., R. J. Toonen, W. S. Grant, and B. W. Bowen 2012. Common misconceptions in molecular ecology: echoes of the modern synthesis. Molecular Ecology 21: 4171-4189.

Lui, M., L. Lin, T. -X. Gao, T. Yanagimoto, Y. Sakurai, and W. S. Grant. 2012. What maintains the central North Pacific genetic discontinuity in Pacific herring? PLoS One 7(12): e50340. 12pp.

Munro, A. R., C. Habicht, T. H. Dann, D. M. Eggers, W. D. Templin, M. J. Witteveen, T. T. Baker, K. G. Howard, J. R. Jasper, S. D. Rogers Olive, H. L. Liller, E. L. Chenoweth, and E. C. Volk. 2012. Harvest and harvest rates of chum salmon stocks in fisheries of the Western Alaska Salmon Stock Identification Program (WASSIP), 2007–2009. (Very Large PDF 57,581 kB) Alaska Department of Fish and Game, Special Publication No. 12-25, Anchorage.

Storer C. G., C. E. Pascal, S. B. Roberts, W. D. Templin, L. W. Seeb, and J. E. Seeb. 2012. Rank and Order: Evaluating the Performance of SNPs for Individual Assignment in a Non-Model Organism. PLoS ONE 7(11): e49018. doi:10.1371/journal.pone.0049018

Templin, W. D., N. A. DeCovich, S. D. Rogers Olive, H. L. Liller, E. K. C. Fox, J. R. Jasper, T. T. Baker, K. G. Howard, A. R. Munro, E. C. Volk, and C. Habicht. 2012. Stock composition of chum salmon harvests in fisheries of the Western Alaska Salmon Stock Identification Program (WASSIP), 2007–2009. (Large PDF 13,547 kB) Alaska Department of Fish and Game, Special Publication No. 12-23, Anchorage.

Templin, W. D., S. Gilk-Baumer, J. Berger, and L. W. Seeb. 2012. Mixed stock analysis of sublegal Chinook salmon encountered in the Southeast Alaska troll fishery, 2004-2007. (PDF 3,412 kB) Alaska Department of Fish and Game, Fishery Data Series No. 12-34, Anchorage.

Templin, W., L. Seeb, J. Berger, R. Bloomquist, S. McPherson, and J. Carlile. 2012. Mixed stock analysis of sublegal Chinook salmon encountered in the Southeast Alaska troll fishery, 1998–2003. (PDF 402 kB) Alaska Department of Fish and Game, Fishery Data Series No. 12-32, Anchorage.

Weir, B. S., R. S. Waples and T. P. Quinn. 2012. Western Alaska Salmon Stock Identification Program Technical Document 1: Technical committee comments and review of the original proposal. (PDF 454 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 5J12-06, Anchorage.

Western Alaska Salmon Stock Identification Program (WASSIP): Understanding Harvest Patterns of Sockeye and Chum Salmon Stocks from a Large Scale Genetics Project, With Focus on Bristol Bay
(See WASSIP Reports)

Zarraonainda, I. M. Iriondo, A. Albaina, M. A. Pardo, C. Manzano, W. S. Grant, X. Irigoien, and A. Estonba. 2012. Multiple SNP Markers reveal fine-scale population and deep phylogeographic structure in European anchovy (Engraulis encrasicolus L.). PLoS ONE 7 (7): e42201. 10pp.

2011

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Ackerman, M. W., C. Habicht, and L. W. Seeb. 2011. SNPs under diversifying selection provide increased accuracy and precision in mixed stock analyses of sockeye salmon from Copper River, Alaska. (PDF) Transactions of the American Fisheries Society 140: 865-881.

Azuma, N., W. S. Grant, Y. Kunihiro, E. Mihara, T. Yangimoto, W. D. Templin, and S. Abe. 2011. Molecular phylogeny of red-snow-crab species complex using mitochondrial and nuclear DNA markers/ Zoological Science 28(4): 286-292.

Barclay, A. W., C. Habicht, T. Tobias, and T. M. Willette. 2011. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2009. (PDF 1,297 kB) Alaska Department of Fish and Game, Fishery Data Series No. 10-93 Anchorage.

Creelman, E., L. Hauser, R. Simmons, W. Templin, and L. Seeb. 2011. Temporal and geographic genetic divergence: Characterizing sockeye salmon populations in the Chignik watershed, Alaska, using single nucleotide polymorphisms. Transactions of the American Fisheries Society 140: 749-762.

Dann, T. H., C. Habicht, H. A. Hoyt, T. T. Baker, and F. W. West. 2011. Genetic stock composition of the commercial harvest of sockeye salmon in Bristol Bay, Alaska, 2009. (PDF 1,535 kB) Alaska Department of Fish and Game, Fishery Data Series No. 11-21, Anchorage.

Eggers, D. M., M. J. Witteveen, T. T. Baker, D. F. Evenson, J. M. Berger, H. A. Hoyt, H. L. Hildebrand, W. D. Templin, C. Habicht, and E. C. Volk. 2011. Results from sampling the 2006-2009 commercial and subsistence fisheries in the Western Alaska Salmon Stock Identification Project. (PDF 11,719 kB) Alaska Department of Fish and Game, Special Publication No. 11-10, Anchorage.

Genetic Stock Identification of Copper River Chinook Salmon Harvest, 2005–2008 (PDF 1,232 kB)

Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2009 (PDF 1,296 kB)

Gilk, S.E., D. B. Molyneaux, and Z. W. Liller. 2011. Kuskokwim River sockeye salmon investigations, 2006 and 2007. (PDF 5,658 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 11-04, Anchorage.

Gomez-Uchida, D., J. E. Seeb, M. J. Smith, C. Habicht, T. P. Quinn, and L. W. Seeb. 2011. Single nucleotide polymorphisms unravel hierarchical divergence and signatures of selection among sockeye salmon (Oncorhynchus nerka) populations. BioMedCentral Evolutionary Biology 11:1-56.

Grant, W. S., S. E. Merkouris, G. H. Kruse, and L. W. Seeb. 2011. Low allozyme variability in North Pacific and Bering Sea populations of red king crab (Paralithodes camtschaticus): adaptive specialization, population bottleneck or metapopulation structure? International Council for the Exploration of the Sea Journal of Marine Science 68: 499-506.

Lo Brutto, S., M. Arculeo, and W.S. Grant. 2011. Climate change and population genetic structure of marine species. Chemistry and Ecology 27(2): 107-119.

McGlauflin, M. T., D. E. Schindler, L. W. Seeb, C. T. Smith, C. Habicht, and J. E. Seeb. 2011. Spawning habitat and geography influence population structure and juvenile migration timing of sockeye salmon in the Wood River lakes, Alaska. Transactions of the American Fisheries Society 140: 763-782.

Seeb, J. E., C. E. Pascal, E. D. Grau, L. W. Seeb, W. D. Templin, T. Harkins, and S. B. Roberts. 2011. Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids. Molecular Ecology Resources 11(2): 335-348.

Seeb, L. W., C. Habicht, E. V. Farley, Jr., J. E. Seeb, and F. M. Utter. 2011. Single-Nucleotide polymorphic genotypes reveal patterns of early juvenile migration of sockeye salmon in the eastern Bering Sea. Transactions of the American Fisheries Society 140: 734-748.

Seeb, L. W., W. D. Templin, S. Sato, S. Abe, K. Warheit, J. Y. Park, and J. E. Seeb. 2011. Single nucleotide polymorphisms across a species- range: implications for conservation studies of Pacific salmon. Molecular Ecology Resources 11: 195-217.

Smith, M. J., C. E. Pascal, Z. D. Grauvogel, C. Habicht, J. E. Seeb, and L. W. Seeb. 2011. Multiplex preamplification PCR and microsatellite validation enables accurate single nucleotide polymorphism genotyping of historical fish scales. Molecular Ecology Resources 11: 268-77.

Templin, W. D., A. W. Barclay, J. M. Berger, L. W. Seeb, and S. D. Moffitt. 2011. Genetic stock identification of Copper River Chinook salmon harvest, 2005-2008. (PDF 1,233 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 11-08, Anchorage.

Templin, W. D., J. E. Seeb, J. R. Jasper, A. W. Barclay, and L. W. Seeb. 2011. Genetic differentiation of Alaska Chinook salmon: the missing link for migratory studies. Molecular Ecology Resources 11: 226-246.

Templin, W. D., J. M. Berger, and L. W. Seeb. 2011. Genetic stock identification of Chinook salmon harvested in the Southeast Alaska troll fishery, 1999–2003. (PDF 2,294 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 11-03, Anchorage.

Templin, W. D., N. A. DeCovich, J. R. Guyon, S. E. Gilk-Baumer, D. B. Molyneaux, and L. W. Seeb. Genetic Stock Identification for Kuskokwim Area Chinook Salmon, Final report for Study 05-305. U.S. Fish and Wildlife Service Office of Subsistence Management Fisheries Resource Monitoring Program. (PDF 1,185 kB) May 2011.

2010

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Barclay, A. W., C. Habicht, W. D. Templin, H. A. Hoyt, T. Tobias and T. M. Willette. 2010. Genetic stock identification of Upper Cook Inlet sockeye salmon harvest, 2005–2008. (PDF 4,673 kB) Alaska Department of Fish and Game, Fishery Manuscript No. 10-01, Anchorage.

Begich, R. N., W. D. Templin, A. W. Barclay, and L. W. Seeb. 2010. Development of microsatellite genetic markers for Kenai River Chinook salmon. (PDF 459 kB) Alaska Department of Fish and Game, Fishery Data Series No. 10-38, Anchorage.

Canino, M. F., I. B. Spies, S. A. Lowe, and W. S. Grant. 2010. Highly discordant nuclear and mitochondrial DNA diversities in Atka mackerel. Marine and Coastal Fisheries 2: 375-387.

Canino, M. F. S. B. Spies, K. M. Cunningham, L. Hauser, and W. S. Grant. 2010. Multiple ice-age refugia in Pacific cod, Gadus macrocephalus. Molecular Ecology 19: 4339-4351.

Dann, T. H., W. W. Smoker, J. J. Hard, and A. J. Gharrett. 2010. Outbreeding depression after two generations of hybridizing Southeast Alaska coho salmon populations? Transactions of the American Fisheries Society 139(5): 1292-1305.

DeCovich, N., and D. Evenson, 2010. Inseason genetic stock identification of Chinook salmon caught in the Lower Yukon River Test Fishery, 2009. (External PDF) Alaska Department of Fish and Game, Anchorage, Alaska.

DeCovich, N. A., W. D. Templin, and D. F. Evenson. 2010. Genetic stock identification of Chinook salmon harvest on the Yukon River 2008. (PDF 1,199 kB) Alaska Department of Fish and Game. Fishery Data Series No. 10-20, Anchorage.

Gaffney, P. M., C. M. Pascal, J. Barnhart, W. S. Grant, and J. E. Seeb. 2010. Genetic homogeneity of disjunct weathervane scallops (Patinopecten caurinus) in the northeastern Pacific. Canadian Journal of Fisheries and Aquatic Sciences 67 (11): 1827-1839.

Grant, W. S., I. Spies, M. F. Canino. 2010. Shifting-balance stock structure in North Pacific walleye Pollock (Gadus chalcogrammus). International Council for the Exploration of the Sea Journal of Marine Science 67: 1687-1696

Grant, W. S. F. Lecomte, B. W. Bowen. 2010 Biogeographical contingency and the evolution of tropical anchovies (genus Cetengraulis) from temperate anchovies (genus Engraulis). Journal of Biogeography 37:1352-1362.

Habicht, C., L. W. Seeb, K. W. Myers, E. V. Farley Jr., and J. E. Seeb. 2010. Summer-Fall distribution of stocks of immature sockeye salmon in the Bering Sea as revealed by single-nucleotide polymorphisms. Transactions of the American Fisheries Society 139(4): 1171-1191.

Molecular Ecology Resources Primer Development Consortium. An, J., A. Bechet, A. Berggren, S. K. Brown, M. W. Bruford, Q. Cai, A. Cassel-Lundhagen, F. Cezilly, S. L. Chen, W. Cheng, S. K. Choi, X. Y. Ding, Y. Fan, K. A. Feldheim, Z. Y. Feng, V. L. Friesen, M. Gaillard, J. A. Galaraza, L. Gallo, K. N. Ganeshaiah, J. Geraci, J. G. Gibbons, W. S. Grant, Z. Grauvogel, S. Gustafsson, J. R. Guyon, L. Han, D. D. Heath, S. Hemmilä, J. D. Hogan, B. W. Hou, J. Jakse, B. Javornik, P. Kaňuch, K. K. Kim, K. S. Kim, S. G. Kim, S. I. Kim, W. J. Kim, Y. K. Kim, M. A. Klich, B. R. Kreiser, Y. S. Kwan, A. W. Lam, K. Lasater, M. Lascoux, H. Lee, Y.S. Lee, D. L. Li, S. J. Li, W. Y. Li, X. Liao, Z. Liber, L. Lin, S. Liu, X. H. Luo, Y. H. Ma, Y. Ma, P. Marchelli, M. S. Min, M. D. Moccia, K. P. Mohana, M. Moore, J. A. Morris-Pocock, H. C. Park, M. Pfunder, R. Ivan, G. Ravikanth, G. K. Roderick, A. Rokas, B. N. Sacks, C. A. Saski, Z. Satovic, S. D. Schoville, F. Sebastiani, Z. X. Sha, E. H. Shin, C. Soliani, N. Sreejayan, Z. Sun, Y. Tao, S. A. Taylor, W. D. Templin, R. U. Shaanker, R. Vasudeva, G. G. Vendramin, R. P. Walter, G. Z. Wang, K. J. Wang, Y. Q. Wang, R. A. Wattier, F. Wei, A. Widmer, S. Woltmann, Y. J. Won, J. Wu, M. L. Xie, G. Xu, X. J. Xu, H. H. Ye, X. Zhan, F. Zhang, and J. Zhong. 2010. Permanent genetic resources added to Molecular Ecology Resources Database 1 October 2009-30 November 2009. Molecular Ecolology Resources 10: 404-408.

Olsen, J. B., P. A. Crane, B. G. Flannery, K. Dunmall, W. D. Templin, and J. K. Wenburg. 2010. Comparative landscape genetic analysis of three Pacific salmon species from subarctic North America. Conservation Genetics 12: 223-241.

Olsen, J. B., T. D. Beacham, M. Wetklo, L. W. Seeb, C. T. Smith, B. G. Flannery, J. K. Wenburg. 2010. The influence of hydrology and waterway distance on population structure of Chinook salmon Oncorhynchus tshawytscha in a large river. Journal of Fish Biology 76: 1128-1148.

Seeb, J. E., C. E. Pascal, E. D. Grau, L. W. Seeb, W. D. Templin, T. Harkins, and S. B. Roberts. 2010. Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids. Molecular Ecology Resources 11:335-348.

Smith, M. J., C. E. Pascal, Z. A. C. Grauvogel, C. Habicht, J. E. Seeb, and L. W. Seeb. 2010. Multiplex preamplification PCR and microsatellite validation enables accurate single nucleotide polymorphism genotyping of historical fish scales. Molecular Ecology Resources 11:268-277.

2009

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Canino, M. F., I. B. Spies, K. M. Cunningham, L. Hauser, and W. S. Grant. 2009. Multiple ice-age refugia in Pacific cod, Gadus macrocephalus. Molecular Ecology 19(19): 4339-4351.

Dann, T. H., C. Habicht, J. R. Jasper, H. A. Hoyt, A. W. Barclay, W. D. Templin, T. T. Baker, F. W. West, and L. F. Fair. 2009. Genetic stock composition of the commercial harvest of sockeye salmon in Bristol Bay, Alaska, 2006–2008. (PDF 5,850 kB) Alaska Department of Fish and Game, Fishery Manuscript Series No. 09-06, Anchorage.

DeCovich, N. A., and W. D. Templin. 2009. Genetic stock identification of Chinook salmon harvest on the Yukon River 2007. (PDF 1,634 kB) Alaska Department of Fish and Game, Fishery Data Series No. 09-39, Anchorage.

Genetic Stock Composition of the Commercial Harvest of Sockeye Salmon in Bristol Bay, Alaska, 2006–2008. (PDF 1,780 kB)

Gilk, S.E., D.B. Molyneaux, T. Hamazaki, J.A. Pawluk and W.D. Templin. 2009. Biological and genetic characteristics of fall and summer chum salmon in the Kuskokwim River, Alaska. Pages 161-179 in Krueger, C.C. and C.E. Zimmerman, editors. Pacific Salmon: ecology and management of western Alaska's populations. American Fisheries Society Symposium 70, Bethesda, MD.

McPhee, M. V., M. S. Zimmerman, T. D. Beacham, B. R. Beckman, J. B. Olsen, L. W. Seeb, and W. D. Templin. 2009. A hierarchical framework to identify influences on Pacific salmon population abundance and structure in the Arctic-Yukon-Kuskokwim Region. Pages 1177-1197 in C. C. Krueger, and C. E. Zimmerman, editors. Pacific salmon:ecology and management of western Alaska's populations. American Fisheries Society, Symposium 70, Bethesda, Maryland.

Murphy, J.M., W.D. Templin, E.V. Farley, Jr., and J.E. Seeb. 2009. Stock-structured distribution of western Alaska and Yukon juvenile Chinook salmon (Oncorhynchus tshawytscha) from United States BASIS surveys, 2002-2007. (External PDF) NPAFC Bulletin 5: 51-59.

Seeb, L. W., N. A. DeCovich, A. W. Barclay, C. T. Smith, and W. D. Templin. 2009. Timing and origin of Chinook salmon stocks in the Copper River and adjacent ocean fisheries using DNA markers. (PDF 916 kB) Alaska Department of Fish and Game, Fishery Data Series No. 09-58, Anchorage.

Stichert, M. A., T. J. Anderson, and T. H. Dann. 2009. Chignik Management Area salmon and herring annual management report, 2007. Alaska Department of Fish and Game, Fishery Management Report No. 09-09.

2008

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DeCovich, N. A., H. A. Hoyt, Z. Grauvogel, and D. F. Evenson. 2008. Genetic Analysis of 13 Yukon River Chinook Salmon Baseline Collections. Final Report to the Yukon River Panel Project URE 11-07, Anchorage.

Beacham, T. D., M. Wetklo, C. Wallace, J. B. Olsen, B. G. Flannery, J. K. Wenburg, W. D. Templin, A. Antonovich, and L. W. Seeb. 2008. The application of microsatellites for stock identification of Yukon River Chinook salmon. North American Journal of Fisheries Management 28(1): 283-295.

Narum, S. R., M. Banks, T. D. Beacham, R. Bellinger, M. Campbell, J. DeKoning, A. Elz, C. M. Guthrie, C. Kozfkay, K. Miller, P. Moran, R. Phillips, L. W. Seeb, C. T. Smith, K. Warheit, S. Young, and J. C. Garza. 2008. Differentiating salmon populations at broad and fine geographic scales with microsatellites and single nucleotide polymorphisms. Molecular Ecology 17: 3464-3477.

Smith, C. T. and L. W. Seeb. 2008. Number of alleles as a predictor of the relative assignment accuracy of STR and SNP baselines for chum salmon. Transactions of the American Fisheries Society 137(3): 751-762.

Templin, W. D., N. DeCovich, A. Barclay, C. T. Smith, L. W. Seeb. 2008. Timing and Origin of Chinook Salmon Stocks in the Copper River using DNA Markers Report to Alaska Board of Fisheries. (PDF 533 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Special Publication 08-14, Anchorage.

Templin, W. D., N. A. DeCovich, and L. W. Seeb. 2008. Genetic stock identification of Chinook salmon harvest on the Yukon River, 2006. (PDF 401 kB) Alaska Department of Fish and Game, Fishery Data Series No. 08-15, Anchorage.

Timing and Origin of Chinook Salmon Stocks in the Copper River using DNA Markers. Report to the Alaska Board of Fisheries. (PDF 533 kB)

2007

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Elfstrom, C. M., C. T. Smith, and L. W. Seeb. 2007. Thirty-eight single nucleotide polymorphism markers for high-throughput genotyping of chum salmon. Molecular Ecology Notes 7: 1211-1215.

Grant, W. S. 2007. Status and trends in genetic resources of capture fisheries. Pages 29-80 [In] D. M. Bartley, B. J. Harvey, and R. S. V. Pullin, editors. Workshop on Status and Trends in Aquatic Genetic Resources: A basis for international policy, 8-10 May 2006, Victoria, British Columbia, Canada.(PDF) Food and Agriculture Organization (FAO) of the United Nations Fisheries Proceedings No. 5: 29-80.

Habicht, C., W. D. Templin, T. M. Willette, L. F. Fair, S. W. Raborn, and L. W. Seeb. 2007. Post-season stock composition analysis of Upper Cook Inlet sockeye salmon harvest, 2005-2007. (PDF 1,291 kB) Alaska Department of Fish and Game, Fishery Manuscript No. 07-07, Anchorage.

Habicht C., L. W. Seeb, and J. E. Seeb. 2007. Genetic and ecological divergence defines population structure of sockeye salmon populations returning to Bristol Bay, Alaska, and provides a tool for admixture analysis. Transactions of the American Fisheries Society 136: 82-94.

Jorstad, K. E., C. T. Smith, Z. D. Grauvogel, and L. W. Seeb. 2007. The genetic variability of the red king crab, Paralithodes camtschatica (Tilesius, 1815) (Anomura, Lithodidae) introduced into the Barents Sea compared with samples from the Bering Sea and Kamchatka region using eleven microsatellite loci. Hydrobiologia 590(1): 115-121.

Pacific Salmon Commission Transboundary Technical Committee Report. Summary of the Transboundary Genetic Stock ID Workshop: January 18-19, 2007. Canadian Participants — S. Johnston, T. D. Beacham, J. Candy, I. Boyce, S. Cox-Rogers, P. Etherton, B. Waugh, and R. Erhardt. U.S. Participants — S. Kelly, L. W. Seeb, W. D. Templin, R. Wilmot, G. Oliver, K. Monagle, T. Thynes, K. Jensen, and E. Volk. 2007. Pacific Salmon Commission Transboundary Technical Committee Report TCTR (07)-02.

Post-Season Stock Composition Analysis of
Upper Cook Inlet Sockeye Salmon Harvest, 2005-2007 (PDF 1,289 kB)

Ramstad, K. M., C. A. Woody, C. Habicht, G. K. Sage, J. E. Seeb, and F. W. Allendorf. 2007. Concordance of nuclear and mitochondrial DNA markers in detecting a founder event in Lake Clark, sockeye salmon. (PDF) American Fisheries Society Symposium 54: 31-50.

Seeb, L. W., A. Antonovich, M. Banks, T. D. Beacham, R. Bellinger, S. Blankenship, M. Campbell, N. A. DeCovich, J. C. Garza, C. M. Guthrie III, T. Lundrigan, P. Moran, S. Narum, J. Stephenson, J. Supernault, D. Teel, W. D. Templin, J. K. Wenburg, S. Young, and C. T. Smith. 2007. Development of a standardized DNA database for Chinook salmon. Fisheries 32(11): 540-552.

Smith, C. T., A. Antonovich, W. D. Templin, C. M. Elfstrom, S. R. Narum, and L. W. Seeb. 2007. Impacts of marker class bias relative to locus-specific variability on population inferences in Chinook salmon; a comparison of SNPs to STRs and allozymes. Transactions of the American Fisheries Society 136: 1674-1687.

2006

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Elfstrom, C. M., C. T. Smith, and J. E. Seeb. 2006. Thirty-two single nucleotide polymorphism markers for high-throughput genotyping of sockeye salmon. Molecular Ecology Notes 6: 1255-1259.

Flannery, B. G., T. D. Beacham, M. Wetklo, C. T. Smith, W. D. Templin, A. Antonovich, L. W. Seeb, S. Miller, O. Schlei, and J. K. Wenburg. 2006. Run timing, migratory patterns, and harvest information of Chinook salmon stocks within the Yukon River. Alaska Fisheries Technical Report Number 92. October 2006. U. S. Fish and Wildlife Service.

Flannery, B., T. D. Beacham, M. Wetklo, C. T. Smith, W. D. Templin, A. Antonovich, L.W. Seeb, S. Miller, O. Schlei, and J. K. Wenburg. 2006. Run Timing, Migratory Patterns, and Harvest Information of Chinook Salmon Stocks within the Yukon River. Alaska Fisheries Technical Report Number 92. October 2006 U. S. Fish and Wildlife Service.

Gharrett, A. J., C. W. Mecklenburg, L. W. Seeb, Z. Li,k A. P. Matala, and A. K. Gray, and J. Heifetz. 2006. Do genetically distinct Rougheye Rockfish sibling species differ phenotypically? Transactions of the American Fisheries Society 135: 792-800.

Grant, W. S., I. B. Spies, and M. F. Canino. 2006. Biogeographic evidence for selection on mitochondrial DNA in North Pacific walleye pollock, Theragra calchogramma. Journal of Heredity 97(6): 571-580.

Habicht, C., L. W. Seeb, and J. E. Seeb. 2006. Genetic and ecological divergence defines population structure of sockeye salmon populations returning to Bristol Bay, Alaska, and provides a tool for admixture analysis. Transactions of the American Fisheries Society 136: 82-94.

Jorstad, K.E., C. T. Smith, Z. A. Grauvogel, and L. W. Seeb. 2006. The genetic variability of the red king crab (Paralithodes camtschatica) introduced into the Barents Sea with samples from the Bering Sea and Kamchatka region, using eleven microsatellite loci. Hydrobiologia 590: 115-121.

Seeb, L. W., D. Moore, C. T. Smith, and W. D. Templin. 2006. Progress in development of a DNA baseline for genetic identification of Chinook salmon stocks of the Copper River Basin, Alaska. (PDF 189 kB) Department of Fish and Game, Fishery Data Series No. 06-20, Anchorage.

Seeb, L.W and J.E. Seeb. 2006. Report of the Second Annual SNP Workshop, Anchorage, Alaska, USA, Sept. 21-22, 2006. (NPAFC Doc. 996). 11 p. Alaska Department of Fish and Game, 333 Raspberry Road, Anchorage, AK 99518, USA.

Smith C. T., L. Park, L. W. Seeb, and J. E. Seeb. 2006. Characterization of 19 single nucleotide polymorphism markers for coho salmon. Molecular Ecology Notes 6(3): 715-720.

Sockeye Salmon Genetics: Applications for Bristol Bay (PDF 4,046 kB)

Templin, W. D, N. A. DeCovich, and L. W. Seeb. 2006. Yukon River Chinook salmon genetic baseline: Survey of Pacific Salmon Commission loci for U.S. populations. (PDF 171 kB) Alaska Department of Fish and Game, Fishery Data Series No. 06-46, Anchorage.

Templin, W. D., J. M. Berger, N. A. DeCovich, and L. W. Seeb. 2006. Genetic stock identification of Chinook salmon harvest on the Yukon River in 2004. (PDF 956 kB) Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report No. 3A06-06, Anchorage.

Urawa, S., J. Seki, M. Kawana, T. Saito, P. A. Crane, L. W. Seeb, M-a. Fukuwaka and E. Akinicheva. 2006. Origins of juvenile chum salmon caught in the Southwestern Okhotsk Sea during the fall of 2000. (PDF) Bulletin of the National Salmon Resources Center 8: 9-16.

2005

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Costello, D. J., S. E. Gilk, and D. B. Molyneaux. 2005. Takotna River salmon studies, 2004. Alaska Department of Fish and Game, Fishery Data Series No. 05-71, Anchorage.

Elfstrom C. M., P. M. Gaffney, C. T. Smith, and J. E. Seeb. 2005. Characterization of 12 single nucleotide polymorphisms in weathervane scallop. Molecular Ecology Notes 5: 406-409.

Elfstrom C. M., C. T. Smith, K. C. Jones, and J. E. Seeb. 2005. Characterization of 16 polymorphic microsatellite loci in weathervane scallop Patinopecten caurinus. Molecular Ecology Notes 5: 514-516.

Gilk, S. E., W. D. Templin, D. B. Molyneaux, T. Hamazaki, and J. A. Pawluk. 2005. Characteristics of fall chum salmon Oncorhynchus keta in the Kuskokwim River drainage. (PDF 1,066 kB) Alaska Department of Fish and Game, Fishery Data Series No. 05-56, Anchorage.

Habicht, C., C. Smith, and M. Link. 2005. Estimating run timing of Lake Clark sockeye salmon relative to other Kvichak River drainage populations. (External PDF) USFWS Office of Subsistence Management, Fisheries Resource Monitoring Program, Annual Report for study 04-411, Anchorage, Alaska.

Habicht, C., N. V. Varnavskaya, T. Azumaya, S. Urawa, R. L. Wilmot, C. M. Guthrie. III, and J. E. Seeb. 2005. Migration patterns of sockeye salmon in the Bering Sea discerned from stock composition estimates of fish captured during BASIS studies. (External PDF) North Pacific Anadromous Fish Commission Technical Report No. 6: 41-43.

Helle, J. H., K. W. Myers, and J. E. Seeb. 2005. National overview of BASIS research for the United States. (External PDF) North Pacific Anadromous Fish Commission Technical Report No. 6: 13-15.

Mobrand, L. E., J. Barr, L. Blankenship, D. E. Campton, T. T. P. Evelyn, T. A. Flagg, C. V. W. Mahnken, L. W. Seeb, P. R. Seidel, and W. W. Smoker. 2005. Hatchery reform in Washington State: Principles and emerging issues. Fisheries 30(6): 11-23.

Seeb, J.E., R. L. Wilmot, S. Urawa, S. Abe, L. W. Seeb, and C. T. Smith. 2005. Single nucleotide polymorphisms (SNPs) provide standard DNA data for Bering/Aleutian Salmon International Survey (BASIS) Studies. (External PDF) North Pacific Anadromous Fish Commission Technical Report No. 6.

Seeb, L.W., W. D. Templin, C. T. Smith, C. M. Elfstrom, S. Urawa, R. L. Wilmot, S. Abe, and J. E. Seeb. 2005. SNPs provide an easily-standardized baseline for NPAFC studies of chum salmon. (External PDF) North Pacific Anadromous Fish Commission Document 907.

Smith C. T., W. D. Templin, J. E. Seeb, and L. W. Seeb. 2005. Single nucleotide polymorphisms (SNPs) provide rapid and accurate estimates of the proportions of U.S. and Canadian Chinook salmon caught in Yukon River fisheries. North American Journal of Fisheries Management 25: 944-953.

Smith C. T., J. E. Seeb, P. Schwenke, and L. W. Seeb. 2005. Use of the 5'-nuclease reaction for SNP genotyping in Chinook salmon. Transactions of the American Fisheries Society 134: 207-217.

Smith C. T., J. Baker, L. Park, L. W. Seeb, C. M. Elfstrom, S. Abe, and J. E. Seeb. 2005. Characterization of 13 single nucleotide polymorphism markers for chum salmon. Molecular Ecology Notes 5: 259-262.

Smith C. T., W. S. Grant, and L. W. Seeb. 2005. A rapid high-throughput technique for detecting Tanner crabs illegally taken in Alaska's snow crab fishery. Transactions of the American Fisheries Society 134: 620-623.

Smith C. T., C. M. Elfstrom J. E. Seeb, and L. W. Seeb. 2005. Use of sequence data from rainbow trout and Atlantic salmon for SNP detection in Pacific salmon. Molecular Ecology 14:4193-4203.

Templin, W. D., C. T. Smith, J. E. Seeb, and L. W. Seeb. 2005. SNPs provide high-throughput resolution for migratory studies of Chinook salmon. (External PDF) NPAFC Document 908.

Templin, W. D., R. L. Wilmot, C. M. Guthrie III, and L. W. Seeb. 2005. United States and Canadian salmon populations in the Yukon River can be segregated based on genetic characteristics. (PDF 447 kB) Alaska Fisheries Research Bulletin, Vol. 11(1): 44-60.

Zelenina, D., A. Khrustaleva, A. Volkov, C. Habicht, C. T. Smith, and J. E. Seeb, 2006. A case study of two genetic markers for inter-laboratory collaboration: SNPs provide transportability without standardization. (External PDF) NPAFC Document 913.

2004

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Genetic Analysis of Chum Salmon Harvested in the South Peninsula Fisheries
PDF Version (PDF 748 kB) Flash Version (Flash file 1,196 kB)

Gharrett, A.J., S. Keller, R. G. Gustafson, P. Johnson, J. L. Nielsen, J. E. Seeb, L. W. Seeb, W. W. Smoker, G. H. Thorgaard, and R. L. Wilmot. 2004. Introduction to genetics of subpolar fish and invertebrates. Environmental Biology of Fishes 69: 1-5.

Gilk, S. E., D. B. Molyneaux, et al. (2004). Takotna River salmon studies and upper Kuskokwim River aerial surveys, 2003. Anchorage, Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Arctic-Yukon-Kuskokwim Region, Regional Information Report, No. 3A04-25, Anchorage.

Gilk, S. E., I. A. Want, C. L. Hoover, W. W. Smoker, S. G. Taylor, A. K. Gray, and A. J. Gharrett. 2004. Outbreeding depression in hybrids between spatially separated pink salmon, Oncorhynchus gorbuschaI, populations: marine survival, homing ability, and variability in family size. Environmental Biology of Fishes 69: 287-297.

Habicht, C., J. Olsen, L. Fair, and J. Seeb. 2004. Smaller effective population sizes evidenced by loss of microsatellite alleles in tributary-spawning populations of sockeye salmon from the Kvichak River, Alaska drainage. Environmental Biology of Fishes 69: 51-62.

Habicht, C., C. M. Guthrie, R. L. Wilmot, and J. E. Seeb. 2004. Microsatellites, allozymes, and SNPs describe the population structure and identify spatial distribution of mixture components of sockeye salmon in the Bering Sea. (External PDF) North Pacific Anadromous Fish Commission Technical Report 5: 62-64.

Lecomte, F., W.S. Grant, J.J. Dodson, R. Rodriguez-Sanchez and B.W. Bowen. 2004. Living with uncertainty: genetic imprints of climate shifts in East Pacific anchovy (Engraulis mordax) and sardine (Sardinops sagax). Molecular Ecology 13: 2169-2182.

Olsen, J. B., C. Habicht, and J. E. Seeb. 2004. Moderately and highly polymorphic microsatellites provide discordant estimates of population divergence in sockeye salmon, Oncorhynchus nerka. Environmental Biology of Fishes 69: 261-274.

Ramstad, K.M., C. A. Woody, G. K. Sage, F. W. Allendorf. 2004 Founding events influence genetic population structure of sockeye salmon (Oncorhynchus nerka) in Lake Clark, Alaska. Molecular Ecology 13: 277-290.

Reynolds, J. H., and W. D. Templin. 2004. Comparing mixture estimates by parametric bootstrapping likelihood ratios. Journal of Agricultural, Biological, and Environmental Statistics 9(1): 57-74.

Reynolds, J. H., and W. D. Templin. 2004. Detecting specific populations in mixtures. Environmental Biology of Fishes 69: 233-244.

Sato, S., H. Kojima, J. Ando, H. Ando, R. L. Wilmot, L. W. Seeb, V. Efremov, L. Leclair, W. Buchholz, D. H. Jin, S. Urawa, M. Kaeriyama, A. Urano, and S. Abe. 2004. Genetic population structure of chum salmon in the Pacific Rim inferred from mitochondrial DNA sequence variation. Environmental Biology of Fishes 69: 37-50.

Seeb, L. W., P. A. Crane, C. M. Kondzela, R. L. Wilmot, S. Urawa, N. V. Varnavskaya, and J. E. Seeb. 2004. Migration of Pacific Rim chum salmon on the high seas: insights from genetic data. Environmental Biology of Fishes 69: 21-36.

Sheldon, C. A., S. E. Gilk, et al. (2004). Kogrukluk River weir salmon studies, 2003. Anchorage., Alaska Department of Fish and Game, Division of Commercial Fisheries, Regional Information Report 3A04-22.

Smith, C. T., J. E. Seeb, and L. W. Seeb. 2004. Development of 5'-nuclease reactions for high-throughput SNP genotyping in salmon. (External PDF) NPAFC Technical Report No. 5: 45-46.

Templin, W.D., C.T. Smith, D. Molyneaux, and L.W. Seeb. 2004. Genetic Diversity of Chinook Salmon from the Kuskokwim River. (External PDF) USFWS Office of Subsistence Management, Fisheries Resource Monitoring Program, Final Report No. 01-070, Anchorage, Alaska. pdf

2003

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Antonovich, A. and W.D. Templin. 2003. Application of Bayesian mixed stock analysis for detection of small contributions in fish mixtures. (PDF 764 kB) Report to the Gene Conservation Laboratory, Alaska Department of Fish and Game June 2003.

Kvichak Stock of Concern - Genetics Provides a New Tool
PDF Version (PDF 1,581 kB) Flash Version (Flash file 2,855 kB)

Reynolds, J. H., and W. D. Templin. 2003. Testing component contributions in finite discrete mixtures: detecting specific populations in mixed stock fisheries. Proceedings of the 2002 Annual Joint Statistical Meetings of the American Statistical Association. August, New York, USA. pp. 2873-2878.

Smith, C.T., L. W. Seeb, and J. E. Seeb. 2003. Single nucleotide polymorphism (SNP) genotyping using the 5'-nuclease reaction provides high-throughput/high-resolution stock identification of Chinook, sockeye, and chum salmon. (External PDF) NPAFC Document 733.

Teel, D.J., D.M. van Doornik, D.R. Kuligowski and W.S. Grant. 2003. Genetic analysis of juvenile Coho salmon (Oncorhynchus kisutch) off Oregon and Washington reveals few Columbia River wild fish. Fishery Bulletin 101: 640-652.

2002

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Abe, S., S. Sato, H. Kojima, J. Ando, H. Ando, R. L. Wilmot, L. W. Seeb, V. Efremov, L. Leclair, W. Buchholz, D. Jin, S. Urawa, M. Kaeriyama, and A. Urano. 2002. Genetic differentiation among Pacific Rim populations of chum salmon inferred from mitochondrial DNA sequence variation. (External PDF) (North Pacific Anadromous Fish Commission Document 616) 27 pages. Laboratory of Animal Cytogenetics, Center for Advanced Science and Technology, Hokkaido University, North 10, West 8, Kita-ku,Sapporo 060-0810, Japan.

Kondzela, C.M., P. A. Crane, S. Urawa, J. B. Burger, N. V. Varnavskaya, V. V. Efremov, X. Luan, W. D. Templin, K. Hayashizaki, R. L. Wilmot, and L. W. Seeb. 2002. Development of a comprehensive allozyme baseline for Pacific Rim chum salmon. (External PDF) North Pacific Anadromous Fish Commission Document 629.

LaHood, E. S., P. Moran, J. B. Olsen, W. S. Grant, and L. K. Park. 2002. Microsatellite allele ladders in two species of Pacific salmon: preparation and field-test results. Molecular Ecology Notes 2: 187-190.

Olsen, J. B., C. J. Lewis, E. J. Kretschmer, S. L. Wilson, and J. E. Seeb. 2002. Characterization of 14 tetranucleotide microsatellite loci derived from Pacific herring. Molecular Ecology Notes 2: 101-103.

Olsen, J., S. E. Merkouris, J. E. Seeb. 2002. An examination of spatial and temporal genetic variation in walleye Pollock (Theragra chalcogramma) using allozyme, mitochondrial DNA, and microsatellite data. (External PDF) Fishery Bulletin 100:752-764.

Seeb, L. W., E. J. Kretschmer, J. B. Olsen, W. D. Templin, K. C. Jones, and W. S. Grant. 2002. Development of microsatellite loci in red king crab (Paralithodes camtschaticus). Molecular Ecology Notes 2: 137-138.

2001

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Bentzen, P., J. B. Olsen, J. E. McLean, T. R. Seamons, and T. P. Quinn. 2001, Kinship analysis of Pacific salmon: Insights into mating, homing, and timing of reproduction. Journal of Heredity 92: 127-136.

Crane, P.A., W. J. Spearman, and L. W. Seeb 2001. Yukon River chum salmon: Report for genetic stock identification studies, 1992–1997. (PDF 240 kB) Alaska Department of Fish and Game Regional Information Report No. 5J01-08. Alaska Department of Fish and Game, Anchorage, Alaska..

Crane, P.A., C. M. Kondzela, and L. W. Seeb. 2001. History and use of allozyme baselines for Pacific Rim chum salmon. (External PDF) NPAFC Document 561.

Grant, W.S., and R.W. Leslie. 2001. Inter-ocean dispersal is an important mechanism in the zoogeography of hakes (Pisces: Merluccius spp.). Journal of Biogeography 28: 699-721.

Habicht, C, W. D Templin, C. M Guthrie III, R. L. Wilmot, G. A. Winans, E. Iwamoto, J. E. Seeb, and L. W. Seeb. 2001. Status report for genetic stock identification studies of Pacific Rim sockeye salmon. (External PDF) NPAFC Document 562.

Moore, D. and J. E. Seeb. 2001. Annotated Bibliography of the Genetics of Bivalve Mollusks. (PDF 424 kB) Alaska Department of Fish and Game, Anchorage, Alaska. Regional Information Report No. 5J01-09.

Olsen, J.B., S.E. Merkouris, and J.E. Seeb, 2001. An examination of spatial and temporal genetic variation in walleye pollock (Theragra chalcogramma) using allozyme, mitochondrial DNA, and microsatellite data. (External PDF) Fishery Bulletin 100: 752-764.

Olsen, J. B., C. Busack, J. Britt, and P. Bentzen. 2001. The aunt and uncle effect: an empirical evaluation of the confounding influence of full sibs of parents on pedigree reconstruction. (External PDF) The Journal of Heredity 92 (3): 243-247.

Reynolds, J. H. 2001. SPAM Version 3.5: User's Guide Addendum. Addendum to Special Publication No. 15, Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Gene Conservation Laboratory, 333 Raspberry Road, Anchorage, AK 99518.

Smith, C.T., R. J. Nelson, C. C. Wood, and B. F. Koop. 2001. Glacial biogeography of North American Coho salmon (Oncorhynchus kisutch). Molecular Ecology 10: 2775-2785.

Smith, C.T., R. J. Nelson, S. Pollard, E. Rubidge, S. J. Mckay, J. Rodzen, B. May, and B. F. Koop. 2001. Population genetic analysis of white sturgeon (Acipenser transmontanus) in the Fraser River. Journal of Applied Ichthyology 18: 307-312.

Templin, W. D. 2001. The history of propagation and transportation of Chinook salmon Oncorhynchus tshawytscha stocks in Southeast Alaska hatcheries, 1972–1998. (PDF 322 kB) Alaska Department of Fish and Game, Anchorage, Alaska. Regional Information Report No. 5J01-05.

2000

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Alaska Department of Fish and Game. 2000. SPAM 3.2 User's Guide. Special Publication No. 15, Division of Commercial Fisheries Gene Conservation Laboratory, 333 Raspberry Road, Anchorage, AK 99518.

Allendorf, F. W., and L. W. Seeb. 2000. Concordance of genetic divergence among sockeye salmon populations at allozyme, nuclear DNA, and mtDNA markers. Evolution 54: 640-651.

Crane, P. A. and L. W. Seeb. 2000. Genetic analysis of chum salmon harvested in the South Peninsula post June fishery, 1996–1997. (PDF 161 kB) Alaska Department of Fish and Game, Anchorage, Alaska, Regional Information Report 5J00-05. Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Anchorage, AK 99518.

Crane, P. A., W. D. Templin, D. M. Eggers, and L. W. Seeb. 2000. Genetic stock identification of Southeast Alaska Chinook salmon fishery catches. Final Report of the Alaska Department of Fish and Game to US Chinook Technical Committee. (PDF 2,292 kB) Alaska Department of Fish and Game, Anchorage, Alaska. Regional Information Report No. 5J00-01. Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Anchorage, AK 99518.

Debevec, E. M., R. B. Gates, M. Masuda, J. Pella, J. Reynolds, and L. W. Seeb. 2000. SPAM (Version 3.2): Statistics program for analyzing mixtures. Journal of Heredity 91: 509-511.

Genetic Analysis of Chum Salmon Harvested in the South Peninsula Post June Fishery, 1996–1997 (PDF 161 kB)

Habicht, C., E. M. Simpson, and J. E. Seeb. 2000. Broodstock acquisition and release sites for hatcheries producing pink salmon in Prince William Sound. (PDF 374 kB) Alaska Department of Fish and Game, Regional Information Report No. 5J00-07. Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Anchorage, AK 99518.

Lindner, K. R., J. E. Seeb, C. Habicht, K. L. Knudsen, E. Kretschmer, D. J. Reedy, P. Spruell, and F. W. Allendorf. 2000. Gene centromere mapping of 312 loci in pink salmon by half-tetrad analysis. Genome 43: 1-43.

Olsen, J.B., P. Bentzen, M. A. Banks, J. B. Shaklee, and S. Young. 2000. Microsatellites reveal population identity of individual pink salmon to allow supportive breeding of a population at risk of extinction. Transactions of the American Fisheries Society 129: 232-242.

Olsen, J. B., S. L. Wilson, E. J. Kretschmer, K. C. Jones, and J. E. Seeb. 2000. Characterization of 14 tetranucleotide microsatellite loci derived from sockeye salmon. Molecular Ecology 9: 2185-2187.

Seeb, L. W., C. Habicht, W. D. Templin, K. E. Tarbox, R. Z. Davis, L. K. Brannian, and J. E. Seeb. 2000. Genetic diversity of sockeye salmon (Oncorhynchus nerka) of Cook Inlet, Alaska, and its application to restoration of populations affected by the Exxon Valdez oil spill. Transactions of the American Fisheries Society 129: 1223-1249.

Woody, C. A., J. Olsen, J. Reynolds, and P. Bentzen. 2000. Temporal variation in genotypic and phenotypic traits of two sockeye salmon populations. Transactions of the American Fisheries Society 129: 1031-1043.

1999

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Roy, N. K., J. Stabile, J. E. Seeb, C. Habicht, and I. Wirgin. 1999. High frequency of k-ras mutations in pink salmon embryos experimentally exposed to Exxon Valdez oil. Environmental Toxicology and Chemistry 18(7): 1521-1528.

Seeb, J. E. and C. Habicht. 1999. Laboratory Examination of Oil-Related Embryo Mortalities that Persist in Pink Salmon Populations in Prince William Sound, Restoration Project 97191A-2 Final Report. (External PDF) Exxon Valdez Oil Spill Trustee Council.

Seeb, J. E., C. Habicht, W. D. Templin, J. B. Shaklee, L. W. Seeb, and F. M. Utter. 1999. Allozyme and mtDNA variation describe ecologically important genetic structure of even-year pink salmon inhabiting Prince William Sound, Alaska. Ecology of Freshwater Fish 8: 122-140.

Seeb, L. W., and P. A. Crane. 1999. Allozymes and mitochondrial DNA discriminate Asian and North American populations of chum salmon in mixed-stock fisheries along the south coast of the Alaska Peninsula. Transactions American Fisheries Society 128: 88-103.

Seeb, L. W., and P. A. Crane. 1999. High genetic heterogeneity in chum salmon in Western Alaska, the contact zone between Northern and Southern lineages. Transactions American Fisheries Society 128: 58-87.

Seeb, J. E., S. E. Merkouris, L. W. Seeb, J. B. Olsen, P. Bentzen, and J. M. Wright. 1999. Genetic discrimination of Prince William Sound herring populations. Exxon Valdez Oil Spill Restoration Project Final Report 97165.

Shaklee, J.B., T. D. Beacham, L. W. Seeb, and B. A. White. 1999. Managing fisheries using genetic data: case studies from four species of Pacific salmon. Fishery Research 49: 45-78.

Sheehan, R. J., S. P. Shasteen, A. V. Suresh, A. R. Kapuscinski, and J. E. Seeb. 1999. Better growth in all-female diploid and triploid rainbow trout. Transactions of the American Fisheries Society 128: 491-498.

Spruell, P., K. L. Pilgrim, B. A. Greene, C. Habicht, K. L. Knudsen, K .R. Lindner, J. B. Olsen, G. K. Sage, J. E. Seeb, and F. W. Allendorf. 1999. Inheritance of nuclear DNA markers in gynogenetic haploid pink salmon. Journal of Heredity 90: 289-296.

Teel, D. J., P. A. Crane, C. M. I. Guthrie, A. R. Marshall, D. M. Van Doornik, W. D. Templin, N. V. Varnavskaya, and L. W. Seeb. 1999. Comprehensive allozyme database discriminates Chinook salmon around the Pacific Rim. (External PDF) NPAFC Document 440.

Templin, W.D., L. W. Seeb, P. A. Crane, and J. E. Seeb. 1999. Genetic analysis of sockeye populations from the Chignik Watershed, Final Report to Chignik Regional Aquaculture Association pursuant to Cooperative Agreement No. 98-024. (PDF 1,384 kB) Alaska Department of Fish and Game Regional Information Report No. 5J99-08. Alaska Dept. of Fish and Game, Division of Commercial Fisheries, Anchorage, AK 99518.

1998

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Allozymes and Mitochondrial DNA Discriminate Asian and North American Populations of Chum Salmon in Mixed-Stock Fisheries along the South Coast of the Alaska Peninsula

Bue B. G., S. Sharr, and J. E. Seeb. 1998. Evidence of damage to pink salmon populations inhabiting Prince William Sound, Alaska, two generations after the Exxon Valdez oil spill. Transactions of the American Fisheries Society 127(1): 35-43.

Genetic Analysis of Chum Salmon Harvested in the South Unimak and Shumagin Islands June Fisheries, 1993-1996 (PDF 344 kB)

Supplementary Appendices: Genetic Analysis of Chum Salmon Harvested in the South Unimak and Shumagin Islands June Fisheries, 1993-1996 (PDF 1,960 kB)

Habicht, C. S. Sharr, D. Evans, and J. E. Seeb. 1998. Coded Wire Tag Placement affects homing ability of pink salmon. Transaction of the American Fisheries Society 127:652-657.

Wilbur, R., J. Seeb, J. Seeb, and H. Geiger. 1998. Is it a deme, a stock, or a subspecies? These and other definitions. (PDF 1,506 kB) Alaska Department of Fish and Game, Commercial Fisheries Management and Development Division. Regional Information Report 5J98-09, Anchorage.

Merkouris S. E., L. W. Seeb, and M. C. Murphy. 1998. Low levels of genetic diversity in highly exploited populations of Alaskan Tanner crabs, Chionoecetes bairdi, and Alaskan and Atlantic snow crabs, C. opilio. Fishery Bulletin 96: 525-537.

O'Connell, M., M. C. Dillon, J. M. Wright, P. Bentzen, S. E. Merkouris, and J. E. Seeb. 1998. Genetic structuring among Alaskan Pacific herring populations identified using microsatellite variation. Journal of Fish Biology 53: 150-163.

Olsen, J. B., P. Bentzen, and J. E. Seeb. 1998. Characterization of seven microsatellite loci derived from pink salmon. Molecular Ecology 7: 1087-1089.

Olsen, J. B., L. W. Seeb, P. Bentzen, and J. E. Seeb. 1998. Genetic interpretation of broad-scale microsatellite polymorphism in odd-year pink salmon. Transactions of the American Fisheries Society 127: 535-550.

Scribner K. T., P. A. Crane, W. J. Spearman, and L. W. Seeb. 1998. DNA and allozyme markers provide concordant estimates of population differentiation: analyses of US and Canadian populations of Yukon River fall-run chum salmon (Oncorhynchus keta). Canadian Journal of Fisheries & Aquatic Sciences 55:1748-1758.

Seeb, J. E., C. Habicht, J. B. Olsen, P. Bentzen, J. B. Shaklee, and L. W. Seeb. 1998. Allozyme, mtDNA, and microsatellite variants describe structure of populations of pink and sockeye salmon in Alaska. (PDF 115 kB) NPAFC Bulletin 1:300-318.

Seeb, L. W. 1998. Gene flow and introgression within and among three species of rockfishes, Sebastes auriculatus, S. caurinus, and S. maliger. Journal of Heredity 89 (5): 393-403.

Seeb L .W., P. A. Crane, and E. M. Debevec. 1998. Genetic analysis of chum salmon harvested in the South Unimak and Shumagin Islands June fisheries, 1993–1996. (PDF 344 kB) Alaska Department of Fish and Game Regional Information Report No. 5J97-17. Supplemental Appendices Regional Information Report No. 5J97-18. (PDF 1,961 kB)

1997

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Fetzner, J. W., R. J. Sheehan, and L. W. Seeb. 1997. Genetic implications of brood stock selection for crayfish aquaculture in the Midwestern United States. Aquaculture 154:39-55.

Greene, B. A., and J. E. Seeb. 1997. SINE and transposon sequences generate high-resolution DNA fingerprints, "SINE prints," that exhibit faithful Mendelian inheritance in pink salmon (Oncorhynchus gorbuscha). Molecular Marine Biology & Biotechnology 6(4): 328-338.

Seeb, L. W., P. A. Crane, E. M. Debevec. Genetic Analysis of Chum Salmon Harvested in the South Unimak and Shumagin Islands June Fisheries, 1993–1996. (PDF 344 kB) Regional Information Report No. 5J97-17. Alaska Department of Fish and Game, Division of Commercial Fisheries, Anchorage, Alaska.

Seeb, L. W., P. A. Crane, and E. M. Debevec. 1997. Supplementary appendices: genetic analysis of chum salmon harvested in the South Unimak and Shumagin Islands June Fisheries, 1993–1996. (PDF 1,997 kB) Regional Information Report No. 5J97-18. Alaska Department of Fish and Game, Anchorage, AK.

Seeb, L.W., W. D. Templin, K. E. Tarbox, R. Z. Davis, and J. E. Seeb. 1997. Kenai River sockeye salmon restoration, Restoration Project 96255-2 Final Report. (External PDF) Exxon Valdez Oil Spill Trustee Council.

1996

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Crane, P. A., W. D. Templin, and L. W. Seeb. 1996. Genetic stock identification of Alaska Chinook salmon. Final report of the Alaska Department of Fish and Game pursuant to National Oceanic and Atmospheric Administration Awards No. NA46FD0356. Regional Information Report No. 5J96-17. Alaska Department of Fish and Game, Division of Commercial Fisheries, Anchorage, AK

Seeb, J. E., C. Habicht, W. D. Templin, and L. W. Seeb. 1997. Genetics of populations of pink salmon inhabiting Prince William Sound. Annual Report, Restoration Project 94320D and 95320D. Exxon Valdez Oil Spill Trustee Council, Anchorage, AK.

Seeb, J. E., S. E. Merkouris, L. W. Seeb, P. Bentzen, J. M. Wright. 1996. Genetic Discrimination of Prince William Sound Herring Populations. Annual Report Restoration Project 95165. Exxon Valdez Oil Spill Trustee Council, Anchorage, AK.

Templin, W. D., J. S. Collie, and T. J. Quinn II. 1996. Run reconstruction of the wild pink salmon fishery in Prince William Sound, 1990-1991. In Proceedings of the Exxon Valdez oil spill symposium. (Rice, S.D., Spies, R.B., Wolfe, D.A., Wright, B.A., Eds). American Fisheries Society Symposium 18: 499-508.

1995

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Sarafin, D. R. Chum Salmon Genetic Stock Identification; 1994 South Alaska Peninsula Fishery Sample Collection. (PDF 547 kB) Regional Information Report No. 5J95-10. Alaska Department of Fish and Game, Division of Commercial Fisheries, Anchorage, AK

Sarafin, D. R., P. A. Crane, and L. W. Seeb. 1995. Chum salmon genetic stock identification: baseline and fishery sample collection, 1991-1993. (PDF 1,023 kB) Regional Information Report No. 5J95-08. Alaska Department of Fish and Game, Anchorage, Alaska.

Sarafin, D.R. 1995. Toklat River chum salmon stock identification; sample collection and genetic analyses, 1985-1994. (PDF 1,577 kB) Regional Information Report No. 5J95-23, Alaska Department of Fish and Game, Anchorage, Alaska.

Seeb, L. W. and P. A. Crane. 1995. Mixed stock analysis of Pacific Rim chum salmon in the 1993 and 1994 South Alaska Peninsula June fisheries using allozyme and mitochondrial DNA data (North Pacific Anadromous Fish Commission Document 165). (External PDF) Alaska Department of Fish and Game, 333 Raspberry Road, Anchorage, Alaska, 39pp.

Seeb, L. W., C. Habicht, W. D. Templin, J. W. Fetzner, Jr., R. B. Gates, J. E. Seeb. Genetic Diversity of Sockeye Salmon (Oncorhynchus nerka) of Cook Inlet, Alaska, and its Application to Restoration of Injured Populations of the Kenai River. (External PDF) Restoration Projects 93012 and 94255-2 Final Report. Exxon Valdez Oil Spill Trustee Council.

Seeb, L. W., P. A. Crane, and R. B. Gates. 1995. Progress report of genetic studies of Pacific Rim chum salmon and preliminary analysis of the 1993 and 1994 South Unimak June Fisheries. (PDF 4,010 kB) Regional Information Report No. 5J95-07. Alaska Department of Fish and Game, Anchorage, AK

Seeb, L.W., P. A. Crane, and W. D. Templin. 1995. Genetic stock identification of Alaska Chinook salmon: a report of the Alaska Department of Fish and Game pursuant to National Oceanic and Atmospheric Administration Award No. NA26FD0157-01. (PDF 1,858 kB) Regional Information Report No. 5J95-18, Alaska Department of Fish and Game, Anchorage, AK, 48 pp.

1994

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Crane, P. A., L. W. Seeb, and J. E. Seeb. 1994. Genetic relationships among Salvelinus species inferred from allozyme data. Canadian Journal of Fisheries Aquatic Sciences 51: 182-197.

Crane, P. A., L. W. Seeb, and R. B. Gates. 1994. Yukon River Chum Salmon: progress report for genetic stock identification studies July 1, 1992 – June 30, 1994. Alaska Department of Fish and Game, Anchorage, AK. Regional Information Report No. 5J94-19.

Habicht, C., J. E. Seeb, R. B. Gates, I. R. Brock, and C. A. Olito. 1994. Triploid coho salmon outperform diploid and triploid hybrids between coho salmon and Chinook salmon during their first year. Canadian Journal of Fisheries Aquatic Sciences 51: 31-37.

Miller, G.D., J.E. Seeb, B.C. Bue, and S. Sharr. 1994. Saltwater exposure at fertilization induces ploidy alterations, including mosaicism, in salmonids. Canadian Journal of Fisheries and Aquatic Sciences 51(Suppl. I ) : 42-49.

Seeb, L.W. 1994. Status report for genetic stock identification studies of Pacific Rim chum salmon. North Pacific Anadromous Fish Commission Document 84.

Sharr, S., J. E. Seeb, B. G. Bue, A. Craig, and G. D. Miller. 1994. Injury to salmon eggs and preemergent fry in Prince William Sound. Exxon Valdez Oil Spill Restoration Project Final Report, Restoration Project 93003, Alaska Department of Fish and Game, Commercial Fisheries Management and Development Division, Cordova, Alaska.

Sharr, S., J. E. Seeb, B. G. Bue, S. D. Moffitt, A. Craig, and G. D. Miller. Injury to salmon eggs and preemergent fry in Prince William Sound-Restoration Study Number R60C. (PDF 4,193 kB) Alaska Department of Fish and Game, Alaska Department of Fish and Game, Division of Commercial Fisheries Management and Development. Regional Information Report 2A94-50, Anchorage.

1993

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Howard, J.H., L. W. Seeb, and R. Wallace. 1993. Genetic variation and population divergence in the Plethodon vandykei species group (Caudata, Plethodontidae). Herpetologica 49: 238-247.

Seeb, J. E., G. H. Thorgaard, and T. Tynan. 1993. Triploid hybrids between chum salmon female x Chinook salmon have early sea-water tolerance. Aquaculture 117: 37-45.

Seeb, L. W., J. E. Seeb, R. B. Gates, and C. Habicht. 1993. Assessment of genetic stock structure of salmonids. Exxon Valdez Oil Spill State/Federal Natural Resource Damage Assessment Annual Report, Restoration Study Number 59. Alaska Department of Fish and Game, Commercial Fisheries Management and Development Division, Anchorage, Alaska.

Seeb, J. E., C. Habicht, and G. D. Miller. 1993. Use of triploids for gene conservation of salmonids. [In]: M. R. Collie and J.P. McVey, editors. Interactions Between Cultured Species and Naturally Occurring Species in the Environment. Proceedings of the twenty-second U.S.-Japan Aquaculture Panel Symposium. Alaska Sea Grant Report AK-SG-95-03.

Utter, F. M., J. E. Seeb, and L. W. Seeb. 1993. Complementary uses of ecological and biochemical genetic data in identifying and conserving salmon populations. Fisheries Research 18: 59-76.

Seeb, J.E. 1993. Wild stocks: Why do we want to save them? Alaska's Wildlife 25(2): 5-7.

1992

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Glaholt, R.D., and J. E. Seeb. 1992. Preliminary investigation into the origin of the spiny lobster, Panulirus argus (Latreille, 1804), population of Belize, Central-America (Decapoda, Palinuridea). Crustaceana. 62:159-165.

Sarafin, D.R. 1992. Genetic stock identification, baseline data collection; Westward Region, field summary. Alaska Department of Fish and Game, Anchorage, AK. Regional Information Report No. 4K92-35.

Seeb, L.W. 1992. Stock identification: Who's who in our cast of fisheries. Alaska's Wildlife 24: 8-11.

1991

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Seeb, L. W., and A. W. Kendall. 1991. Allozyme polymorphisms permit the identification of larval and juvenile rockfishes of the genus Sebastes. Environmental Biology of Fishes 30: 191-201.

1990

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Gharrett, A. J., and J. E. Seeb. 1990. Practical and theoretical guidelines for genetically marking fish populations. American Fisheries Society Symposium 7: 407-417.

Levanduski, M. J., J. C. Beck, and J. E. Seeb. 1990. Optimal thermal shocks for induced diploid gynogenesis in Chinook salmon (Oncorhynchus tshawytscha). Aquaculture 90: 239-250.

Seeb, J. E., and G. D. Miller. 1990. The integration of allozyme analyses and genomic manipulations for fish culture and management. Pp. 265-271 in Whitmore, D. H., eds. Electrophoretic and isoelectric focusing techniques in fisheries management. CRC Press, Boca Raton, FL.

Seeb, L. W., J. E. Seeb, R. L. Allen, and W. K. Hershberger. 1990. Evaluation of adult returns of genetically marked chum salmon, with suggested future applications. American Fisheries Society Symposium 7: 418-425.

Seeb, L. W., J. E. Seeb, and A. J. Gharrett. 1990. Genetic marking of fish populations. Pp. 223-239 in Whitmore, D. H., eds. Electrophoretic and isoelectric focusing techniques in fisheries management. CRC Press, Boca Raton, FL.

Seeb, L. W., and J. E. Seeb. 1990. Genetic marking of fishes: overview focusing on protein variation. American Fisheries Society Symposium 7: 426-438.

Seeb, L. W., J. E. Seeb, and G. H. Kruse. 1990. Genetic Studies Track the Red King Crab in Alaskan Waters. (PDF 2,151 kB) Alaska's Wildlife 22(6): 11-13.

1989

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Seeb, J. E., G. H. Kruse, L. W. Seeb, and R. G. Weck. 1989. Genetic structure of red king crab populations in Alaska facilitates enforcement of fishing regulations. Pp. 491-502. Proceedings of the International Symposium on King and Tanner Crabs, Anchorage, Alaska, USA, November 28-30, 1989. Alaska Sea Grant College Program, Fairbanks.

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