Source: http://www.adfg.alaska.gov/index.cfm?adfg=fishinggeneconservationlab.publications_scientificjournals
Timestamp: 2019-04-25 05:02:03+00:00

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For additional information see the following assistive references: glossary of terms for salmon management and a glossary of terms for genetics analysis.
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.
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.
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.
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.
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.
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. Árnason, 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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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.
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., 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.
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.
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. 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.
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.
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.
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.
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., 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.
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.
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.
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.
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.
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.
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.
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) NPAFC 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) NPAFC 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) NPAFC 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.
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., 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.
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.
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.
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) NPAFC 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.
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., 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.
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.
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.
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.
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.
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.
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., 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.
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.
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.
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.
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.
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.
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.
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.
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. NPAFC Document 84.
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.
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.
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.
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.
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, 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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