Publications


My Career with Fisheries Research Institute, University of Washington

Robert L. Burgner, Professor Emeritus

Burgner_Memoirs

 Studies of Alaska Red Salmon

Ted S. Y. Koo

Koo1962

Flagship: A History of Fisheries at the University of Washington

Robert R. Stickney

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In Review:

Limborg, M. T., L. W. Seeb, and J. E. Seeb.  In review.  Telomeres gone missing – haploid mapping disentangles complexities of polyploid genomes masked by genotyping by sequencing.  Heredity.

 

Manuscripts in press:

Allendorf, F. W., S. Bassham, W. A. Cresko, M. T. Limborg, and J. E. Seeb. 2015. Effects of crossovers between homeologs on inheritance and population genomics in         polyploid-derived salmonid fishes. Journal of Heredity.

Everett, M.V., M.R. Miller, and J.E. Seeb. 2014 Meiotic maps of sockeye salmon derived from massively parallel DNA sequencing. In press: BMC Genomics.

Quinn, T. P., A. H. Dittman, H. Barrett, C. Cunningham, and M. H. Bond.  2014. Chemosensory responses juvenile coho salmon, Oncorhynchus kisutch, Dolly Varden, Salvelinus malma, and sculpins (Cottus spp.) to eggs and other tissues from adult Pacific salmon. In press: Environmental Biology of Fishes.

2015

Bentley, KT, DE Schindler, JB Armstrong, TJ Cline and GT Brooks. 2015. Inter-tributary movements by resident salmonids across a boreal landscape. PLoS ONE 10: e0136985

Bond, M. H., J. A. Miller, and T. P. Quinn. 2015. Beyond dichotomous life histories in partially migrating populations: Cessation of anadromy in a long-lived fish. Ecology 96: 1899-1910.

Candy JR, Campbell NR, Grinnell MH, Beacham TD, Larson WA, Narum SR. 2015. Population differentiation determined from putative neutral and divergent adaptive genetic markers in Eulachon (Thaleichthys pacificus, Osmeridae), an anadromous Pacific smelt. Molecular Ecology Resources.  Online early.

Clark, SC, TL Tanner, SA Sethi, KT Bentley, and DE Schindler. 2015. Migration timing of adult Chinook salmon into the Togiak River, Alaska, watershed: is there evidence for stock structure?. Transactions of the American Fisheries Society 144: 829-836

Hart, L. M., M. H. Bond, S. L. May-McNally, J. A. Miller, and T. P. Quinn. 2015. Use of otolith microchemistry and stable isotopes to investigate the ecology and anadromous migrations of Northern Dolly Varden from the Egegik River, Bristol Bay, Alaska. Environmental Biology of Fishes 98: 1633-1643.

Harmon, B. S., R. Hilborn, and T. P. Quinn. 2015. Infection by the cestode parasite Schistocephalus sp. and effects on diet, body condition, and survival of sculpins Cottus aleuticus and C. cognatus. Journal of Fish Biology 86: 1621-1629.

Hilborn, RW, EA Fulton, BS Green, et al.  2015.  When is a fishery sustainable?  Canadian Journal of Fisheries and Aquatic Sciences.  72(9):1433-1441.

Lisi, PJ and DE Schindler. 2015. Wind-driven upwelling in lakes destabilizes thermal regimes of downstream rivers. Limnology and Oceanography. 60(1): 169-180.

Lisi, PJ, DE Schindler, TJ Cline, MD Scheuerell, and PB Walsh. 2015. Watershed geomorphology and snowmelt control stream thermal sensitivity to air temperature. Geophysical Research Letters 42: 3380-3388.

May-McNally, S. L., T. P. Quinn, P. J. Woods, and E. B. Taylor. 2015. Evidence for genetic distinctions between sympatric ecotypes of Arctic char (Salvelinus alpinus) in southwestern Alaskan lakes. Ecology of Freshwater Fish 24: 562-574.

May-McNally, S. L., T. P. Quinn, and E. B. Taylor. 2015. Low levels of hybridization between sympatric Arctic char (Salvelinus alpinus) and Dolly Varden char (Salvelinus malma) highlights their genetic distinctiveness and ecological segregation. Ecology and Evolution 5: 3031-3045.

Schindler DE, and R Hilborn. 2015. Prediction, precaution, and policy under global change. Science 347: 953-954.

Schindler, DE, JB Armstrong, and TE Reed. 2015. The portfolio concept in ecology and evolution. Frontiers in Ecology and the Environment 13: 257-263.

Sergeant, CJ, Armstrong, JB, and EJ Ward. 2015. Predator-prey migration phenologies remain synchronized in a warming catchment. Freshwater Biology. 60(4): 724-732. DOI: 10.1111/fwb.12524

Smits, AP, DE Schindler, and MT Brett. 2015. Geomorphology controls the trophic base of stream food webs in a boreal watershed. Ecology 96: 1775-1782.

Sprehn, C. G., M. J. Blum, T. P. Quinn, and D. C. Heins. 2015. Landscape genetics of Schistocephalus solidus parasites in threespine stickleback (Gasterosteus aculeatus) from Alaska. PLoS One 10(4) e0122307.

Walsworth, TE, DE Schindler, JR Griffiths, and CE Zimmerman. 2015. Diverse juvenile life-history behaviours contribute to the spawning stock of an anadromous fish population. Ecology of Freshwater Fish 24: 204-213.

Waples, R. K., L. W. Seeb, and J. E. Seeb. 2015. Linkage mapping with paralogs exposes regions of residual tetrasomic inheritance in chum salmon (Oncorhynchus keta). Molecular Ecology Resources.  10.1111/1755-0998.12394

2014

Adkison, M. D., M. B. Ward, and T. P. Quinn. 2014. Nest site preference and intrasexual competition in female sockeye salmon, Oncorhynchus nerka. Environmental Biology of Fishes 97: 385-399.

Andrews, K. R., P. A. Hohenlohe, M. R. Miller, B. K. Hand, J. E. Seeb, and G. Luikart. 2014. Trade-offs and utility of alternative RADseq methods: Reply to Puritz et al. Molecular Ecology 23(24):5943-5946.  10.1111/mec.12964

Baker, M.R., D.E. Schindler, T.E. Essington and Ray Hilborn.  2014. Accounting for escapement mortality in fisheries: implications for stock productivity and optimal management. Ecological Applications.  24(1): 55-70.

Baker MR, Vynne CH (2014) Cortisol profiles in sockeye salmon: Sample bias and baseline values at migration, maturation, spawning, and senescence. Fisheries Research 154:38-43.

Bentley, K. T., D. E. Schindler, T. J. Cline, J. B. Armstrong, D. Macias, L. R. Ciepiela, and R. Hilborn. 2014. Predator avoidance during reproduction: diel movements by spawning sockeye salmon between stream and lake habitats. Journal of Animal Ecology 83:1478-1489

Bond, M. H., B. R. Beckman, L. Rohrbach, and T. P. Quinn. 2014. Differential growth in estuarine and freshwater habitats indicated by plasma IGF1 concentrations and otolith chemistry in Dolly Varden charr Salvelinus malma. Journal of Fish Biology 85: 1429-1445.

Bond, M. H., P. A. Crane, W. A. Larson, and T. P. Quinn. 2014. Is isolation by adaptation driving genetic divergence among proximate char populations? Ecology and Evolution 4: 2515-2532.

Brieuc, M. S., C. D. Waters, J. E. Seeb, and K. A. Naish. 2014. A dense linkage map for Chinook salmon (Oncorhynchus tshawytscha) reveals variable chromosomal divergence after an ancestral whole genome duplication event. G3 (Bethesda) 4(3):447-60.  10.1534/g3.113.009316

DeAlessi, M., J. M. Sullivan, and R. Hilborn. 2014. The legal, regulatory, and institutional evolution of fishing cooperatives in Alaska and the West Coast of the United States.  Marine Policy 43: 217-225

De Haan, P. W., C. Pascal, and J. E. Seeb. 2014. Novel SNP genotyping assays facilitate species identification of Salvelinus collected in a recreational fishery. Transactions of the American Fisheries Society. 143(1): 164-172.

Everett, M. V., and J. E. Seeb. 2014. Detection and mapping of QTL for temperature tolerance and body size in Chinook salmon (Oncorhynchus tshawytscha) using genotyping by sequencing. Evolutionary Applications: DOI: 10.1111/eva.12147.DOI 10.1111/eva.12147

Griffiths, J. R., D.E. Schindler, G.T. Ruggerone, and J.D. Bumgarner,. 2014. Climate variation is filtered differently among lakes to influence growth of juvenile sockeye salmon in an Alaskan watershed. Oikos. doi: 10.1111/j.1600-0706.2013.00801.x

Griffiths, J.R., D.E. Schindler, J.B. Armstrong, M.D. Scheuerell, D.C. Whited, R.A. Clarke, R. Hilborn, C.A.Holt, S.T. Lindley, J.A. Stanford, and E.C. Volk. Performance of salmon fishery portfolios across western North America. 2014. Journal of Applied Ecology. DOI: 10.1111/1365-2664.12341.

Gomez-Uchida, D., L. W. Seeb, K. I. Warheit, G. J. McKinney, and J. E. Seeb. 2014. Deep sequencing of the transcriptome and mining of single nucleotide polymorphisms (SNPs) provide genomic resources for applied studies in Chinook salmon (Oncorhynchus tshawytscha). Conservation Genetics Resources 6(4):807-811.  DOI 10.1007/s12686-014-0235-3

Gruenthal, K.M., D.A.Witting, T. Ford, M.J. Neuman, J.P. Williams, D.J. Pondella II, A. Bird, N. Caruso, J.R. Hyde, L.W. Seeb,  and W.A. Larson. 2014. Development and application of genomic tools to the restoration of green abalone in southern California. Conservation Genetics 15:109-121.

Hilborn, R., D. J. Hively, O. P. Jensen, and T. A. Branch. 2014. The dynamics of fish populations at low abundance and prospects for rebuilding and recovery. ICES Journal of Marine Science, doi: 10.1093/icesjms/fsu035

Hilborn, R., and D. Ovando. 2014. Reflections on the success of traditional fisheries management. Ices Journal of Marine Science 71:1040-1046.

Jaecks, T., and T. P. Quinn. 2014. Ontogenetic shift to dependence on salmon-derived nutrients in Dolly Varden char from the Iliamna River, Alaska. Environmental Biology of Fishes 97: 1323-1333.

Jankowski, K.J., D.E. Schindler, and P.J. Lisi. 2014. Temperature sensitivity of community respiration rates in streams is associated with watershed geomorphic features. Ecology 95(10): 2707-2714

Kendall, N. W. U. Dieckmann, M. Heino, A. E. Punt, and T. P. Quinn. 2014. Evolution of age and length at maturation of Alaskan salmon under size-selective harvest. Evolutionary Applications 7: 313-322.

Khrustaleva, A. M., N. V. Klovach, O. F. Gritsenko, and J. E. Seeb. 2014. Intra- and interpopulation variability of southwestern Kamchatka sockeye salmon Oncorhynchus nerka inferred from the data on single nucleotide polymorphism. Russian Journal of Genetics 50(7):736-748.  10.1134/s1022795414070096

Larson WA, Seeb JE, Dann TH, Schindler DE, Seeb LW. 2014. Signals of heterogeneous selection at an MHC locus in geographically proximate ecotypes of sockeye salmon. Molecular Ecology. 23(22):5448-5461

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, [online early].

Larson, W.A., L.W. Seeb, M.V. Everett, et al. 2014. Genotyping by sequencing resolves shallow population structure to inform conservation of Chinook salmon (Oncorhynchus tshawytscha). Evolutionary Applications, 7(3):355-369.DOI 10.1111/eva.12128.

Limborg, M. T., R. K. Waples, J. E. Seeb, and L. W. Seeb. 2014. Temporally isolated lineages of pink salmon reveal unique signatures of selection on distinct pools of standing genetic variation. Journal of Heredity 105(6):741-751.  10.1093/jhered/esu063.

Lisi, P.J., K.T. Bentley, J.B. Armstrong, and D.E. Schindler. 2014. Episodic predation by fishes on mammals in boreal streams. Ecology of Freshwater Fish. 23(4): 622-630.

Peterson D.A., R. Hilborn, and L. Hauser. 2014. Local adaptation limits lifetime reproductive success of dispersers in a wild salmon metapopulation. Nature Communications. Vol. 5, Article 3696.

Petrou, E. L., J. E. Seeb, L. Hauser, M. J. Witteveen, W. D. Templin, and 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.DOI 10.1007/s10592-013-0534-3.

Pess, G. R., T. P. Quinn, D. E. Schindler, and M. C. Liermann. 2014. Freshwater habitat associations between pink (Oncorhynchus gorbuscha), chum (O. keta), and Chinook salmon (O. tshawytscha) in a watershed dominated by sockeye salmon (O. nerka) abundance. Ecology of Freshwater Fish 23: 360-372.

Quinn, T. P., C. J. Cunningham, J. Randall, and R. Hilborn. 2014. Can intense predation by bears exert a depensatory effect on recruitment in a Pacific salmon population?  Oecologia 176: 445-456.

Quinn, T. P., A. J. Wirsing, B. Smith, C. J. Cunningham, and J. Ching. 2014. Complementary use of motion-activated cameras and unbaited wire snares for DNA sampling reveals diel and seasonal activity patterns of brown bears foraging on adult sockeye salmon. Canadian Journal of Zoology 92: 893-903.

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.  10.1080/00028487.2014.901251

Schindler, DE. 2014.  Managing fish habitat. In Foundations in Fisheries Science, GG Sass and MS Allen (editors). American Fisheries Society.

Schmitz, OJ, PA Raymond, JA Estes, WA Kurz, GW Holtgrieve, ME Ritchie, DE Schindler, AC Spivak, RW Wilson, MA Bradford et al. 2014. Animating the carbon cycle. Ecosystems 17: 344-359.

Seeb, L. W., R. K. Waples, M. T. Limborg, K. I. Warheit, C. E. Pascal, and J. E. Seeb. 2014. Parallel signatures of selection in temporally isolated lineages of pink salmon. Mol Ecol 23(10):2473-2485.  10.1111/mec.12769

Taugbøl, A., C. Junge, T.P. Quinn, A. Herland, L.A. Vøllestad. 2014. Genetic and morphometric divergence in threespine stickleback in the Chignik catchment, Alaska. Ecology and Evolution 4: 144-156.

Willette, D. A., F. W. Allendorf, P. H. Barber, K. E. Carpenter, C. E. D., W. A. Cresko, I. Fernandez-Silva, M. V. Matz, E. Meyer, M. D. Santos, L. W. Seeb, and J. E. Seeb. 2014. So, you want to use next-generation sequencing in marine systems?  Insight from the Pan-Pacific Advanced Studies Institute. Bulletin of Marine Science 90(1):79-122

 

2013

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(2):483-498.DOI 10.1007/s10592-012-0401-7.

Armstrong, J.B. and M.H. Bond*. 2013.  Phenotype flexibility in wild fish: Dolly Varden upregulate digestive organs to capitalize on annual pulsed subsidies. In press: Journal of Animal Ecology, *equal authorship

Armstrong J.B. and D.E. Schindler. 2013. Going with the flow: spatial distributions of juvenile coho salmon track an annually shifting mosaic of water temperature. Ecosystems. 16: 1429-1441.

Armstrong, J.B, D.E. Schindler, C.P. Ruff, G.T. Brooks, K.E. Bentley, and C. Torgersen. 2013. Diel horizontal migration in streams: juvenile fish exploit spatial heterogeneity in thermal and trophic resources. Ecology 94: 2066–

Baker, M.R., P. Swanson, and G. Young. 2013.  Injuries from non-retention in gillnet
fisheries suppress reproductive maturation in escaped fish. PLoS One 8
e69615.

Bentley, K.T., and D.E. Schindler.  Body condition correlates with instantaneous growth in stream-dwelling rainbow trout and Arctic grayling. Transactions of American Fisheries Society.  142(2): 747-755.

Bond, M.H. and Quinn, T.P. 2013. Patterns and influences on Dolly Varden migratory timing in Chignik Lakes, Alaska, and comparison to populations throughout the Northeastern Pacific and Arctic oceans. Canadian Journal of Fisheries and Aquatic Sciences. 70(5): 655-665.

Cunningham, C.J., G.T. Ruggerone, and T.P. Quinn. 2013. Size-selectivity of predation by brown bears depends on the density of their sockeye salmon prey. American Naturalist. 181: 663-673.

Cunningham, C.J., M.G. Courage, and T.P. Quinn. 2013. Selecting for the phenotypic optimum: size-related tradeoffs between mortality risk and reproductive output in female sockeye salmon. Functional Ecology 27: 1233-1243.

Cummings, B.M. and D.E. Schindler. 2013. Depth variation in isotopic composition of benthic resources and assessment of sculpin feeding patterns in an oligotrophic Alaskan lake. Aquatic Ecology.  47(4): 403-414.

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(5):785-793.DOI 10.1139/cjfas-2012-0449

Deacon, R.T., D.P. Parker, and C. Costello.  2013. Reforming Fisheries: Lessons from a Self-Selected Cooperative. Journal of Law and Economics. 56(1): 83-125.

Griffiths, J.R., D.E. Schindler, and L.W. Seeb. 2013. How stock of origin affects performance of individuals across a meta-ecosystem: an example from sockeye salmon. PLoS ONE 8(3): e58584. doi:10.1371/journal.pone.0058584.

Johnson, S.P. and D.E. Schindler. 2013. Marine trophic diversity in an anadromous fish is linked to its life-history variation in fresh water. Biology Letters. 9(1). Article Number: 20120824.

Kendall, N.W. and T.P. Quinn. 2013. Size-selective fishing affects sex ratios and the opportunity for sexual selection in Alaskan sockeye salmon Oncorhynchus nerka. Oikos 122: 411-420.

Larson, W.A., F.M. Utter, K.W. Myers, W.D. Templin, J.E. Seeb, A.V. Bugaev, and L.W. Seeb.  2013.Single-nucleotide polymorphisms reveal distribution and migration patterns of Chinook salmon (Oncorhynchus tshawytscha) in the Bering Sea and North Pacific Ocean. Canadian Journal of Fisheries and Aquatic Science 70(1): 128-141.

Lisi, P.J., D.E. Schindler, K.T. Bentley and G.R. Pess. 2013. Association between geomorphic attributes of watersheds, water temperature, and salmon spawn timing in Alaskan streams.  Geomorphology. 185: 78-86.

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.DOI 10.1139/cjfas-2012-0135.

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). Mol Ecol 22(23):5848-60.DOI 10.1111/mec.12543.

Rogers, L.A., D.E. Schindler, P.J. Lisi, G.W. Holtgrieve, P.R. Leavitt, L. Bunting, B.P. Finney, D.T. Selbie, G. Chen, I. Gregory-Eaves, M.J. Lisac, and P.B. Walsh.  2013.  Centennial-scale fluctuations and regional complexity characterize Pacific salmon populations dynamics over the last five centuries.  Proceedings of the National Academy of Sciences. DOI: 10.1073/pnas.1212858110.

Schindler, D.E., J.B. Armstrong, K.T. Bentley, K.J. Jankowski, P.J. Lisi, and L.X. Payne. 2013. Riding the crimson tide: mobile terrestrial consumers track phenological variation in spawning of an anadromous fish. Biology Letters 9(3).

Simmons, R.K., T.P. Quinn, L.W. Seeb, D.E. Schindler, and R. Hilborn. 2013. Summer emigration and resource acquisition within a shared nursery lake by sockeye salmon (Oncorhynchus nerka) from historically discrete rearing environments. Canadian Journal of Fisheries and Aquatic Sciences 70: 57-63.

Simmons, R.K., T.P. Quinn, L.W. Seeb, D.E. Schindler, and R. Hilborn. 2013. Role of estuarine rearing for sockeye salmon in Alaska (USA). Marine Ecology Progress Series 481: 211–223.

Storer, C. C., T. P. Quinn, and S. B. Roberts. 2013. Quantitative PCR analysis used to characterize physiological changes in brain tissue of senescent sockeye salmon.  Biogerentology 14: 483-490.

Woods, P. J., D. Young, S. Skúlason, S. S. Snorrason, and T. P. Quinn. 2013. Resource polymorphism and diversity of Arctic charr Salvelinus alpinus in a series of isolated lakes in southwestern Alaska. Journal of Fish Biology 82: 569-587.

 

2012

Ackerman, M.W., W.D. Templin, J. E. Seeb, and L.W. Seeb. 2012. Landscape heterogeneity and local adaptation define the spatial genetic structure of Pacific salmon in a pristine environment. Conservation Genetics: Online early: 10.1007/s10592-012-0401-7.

Bentley, K. T., D. E. Schindler, J. B. Armstrong, R. Zhang, C. P. Ruff, and P. J. Lisi. 2012. Foraging and growth responses of stream-dwelling fishes to inter-annual variation in a pulsed resource subsidy. Ecosphere 3(12):113. http://dx.doi.org/10.1890/ES12-00231.1

Carter, J.L. and D.E. Schindler. 2012. Responses of zooplankton production to four decades of climate warming in lakes of southwestern Alaska. Ecosystems 15(6): 1010-1026.  DOI: 10.1007/s10021-012-9560-0

Cowan J.H Jr., J.C. Rice, C.J. Walters, R. Hilborn, T.E. Essington, J.W. Day, and K.M.  Boswell.  2012.  Challenges for Implementing an Ecosystem Approach to Fisheries Management.  Marine and Coastal Fisheries: Dynamics, Management, and Ecosystem Science 4(1): 496-510. http://dx.doi.org/10.1080/ 19425120.2012.690825

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(5): 916-929. doi:10.1139/F2012-029

Gowell, C. P., T. P. Quinn and E. B. Taylor. 2012. Coexistence and origin of trophic ecotypes of pygmy whitefish, Prosopium coulterii, in a southwestern Alaskan lake.  Journal of Evolutionary Biology 25:2432-2448. DOI: 10.1111/jeb.12011

Grafton, Q.R., T. Kompas, T.N. Che, L. Chu, and R. Hilborn. 2011. BMEY as a fisheries management target. Fish and Fisheries. DOI: 10.1111/j.1467-2979.2011.00444.x.

Griffiths, J.R. and D.E. Schindler. 2012. Consequences of changing climate and geomorphology for bioenergetics of juvenile sockeye salmon in a shallow Alaskan lake. Ecology of Freshwater Fish 21(3): 349-362. DOI: 10.1111/j.1600-0633.2012.00555.x

Gutiérrez N.L., S.R.Valencia, T.A. Branch, D.J. Agnew, J.K. Baum JK, and R. Hilborn R. 2012.  Eco-Label Conveys Reliable Information on Fish Stock Health to Seafood Consumers. PLoS ONE 7(8): e43765. doi:10.1371/journal.pone.0043765

Hilborn, R. 2012. The evolution of quantitative marine fisheries management 1985-2010. Natural Resource Modeling. 25: 122-144. DOI: 10.1111/j.1939-7445.2011.00100.x

Jensen, O.P., T.A. Branch, and R. Hilborn. 2012. Marine fisheries as ecological experiments. Theoretical Ecology 5: 3-22. DOI: 10.1007/s12080-011-0146-9.

Johnson S.P. and D.E. Schindler. 2012. Four decades of foraging history: Stock specific variation in the carbon and nitrogen stable isotope signatures of Alaskan sockeye salmon. Marine Ecology Progress Series 460: 155-167. DOI:10.3354/meps09772.

Johnson, S.P., and D.E. Schindler. 2012. Marine trophic diversity in an anadromous fish is linked to geomorphic variation in freshwater. Biology Letters 2013(9) DOI: 10.1098/rsbl.2012.0824

Kendall, N.W. and T.P. Quinn. 2012. Quantifying and comparing size-selectivity among Alaskan sockeye salmon fisheries. Ecological Applications 22: 804-816. http://dx.doi.org/10.1890/11-1189.1

Krkosek, M., B.M. Connors, A. Morton, M.A. Lewis, L.M. Dill, and R. Hilborn. Effects of parasites from salmon farms on productivity of wild salmon. Proceedings of the National Academy of Sciences of the United States of America. 108: 14700-14704. doi:10.1073/pnas.1101845108

Limborg, M.T., S.M. Blankenship, S.F. Young, F.M. Utter, L.W. Seeb, M.H.H. Hansen, and J.E. Seeb. 2012. Signatures of natural selection among lineages and habitats in Oncorhynchus mykiss. Ecology and Evolution 2(1): 1-18. DOI: 10.1002/(ISSN)2045-7758.

Lisi, P.J., D.E. Schindler, K.T. Bentley, and G.R. Pess.  2013. Association between geomorphic attributes of watersheds, water temperature, and salmon spawn timing in Alaskan streams. Geomorphology 185:78-86. http://dx.doi.org/10.1016/j.geomorph.2012.12.013.

Pess, G.R., R. Hilborn, K. Kloehn, and T.P. Quinn. 2012. The influence of population dynamics and environmental conditions on pink salmon (Oncorhynchus gorbuscha) recolonization after barrier removal in the Fraser River, British Columbia, Canada. Canadian Journal of Fisheries and Aquatic Sciences.: 970-982 doi:10.1139/F2012-030.

Quinn, T.P., H.B. Rich, Jr., D. Gosse, and N. Schtickzelle. 2012. Population dynamics and asynchrony at fine spatial scales: A case history of sockeye salmon population structure in Alaska. Canadian Journal of Fisheries and Aquatic Sciences. 69: 297-306. doi:10.1139/F2011-147.

Quinn, T.P., N.W. Kendall, H.B. Rich, Jr., and B.E. Chasco. 2012. Diel vertical movements, and effects of infection by the cestode Schistocephalus solidus on daytime proximity of three-spined sticklebacks (Gasterosteus aculeatus) to the surface of a large Alaskan lake. Oecologia 168: 43-51. DOI 10.1007/s00442-011-2071-4.

Sethi, S.A., M. Dalton, and R. Hilborn. 2012. Quantitative risk measures applied to Alaskan commercial fisheries. Canadian Journal of Fisheries and Aquatic Sciences 69: 487-498. doi:10.1139/F2011-170.

Sethi, S.A., M. Dalton, and R. Hilborn. 2012. Managing harvest risk with catch-pooling cooperatives. ICES Journal of Marine Science doi:10.1093/icesjms/fss064.

Storer, C.G., C.E. Pascal, S.B. Roberts, W.E. 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): Article Number: e49018.

 

2011

Ackerman, M.W., C. Habicht, and L.W. Seeb.  2011. Single-nucleotide polymorphisms (SNPs) under diversifying selection provide increased accuracy and precision in mixed-stock analyses of sockeye salmon from the Copper River, Alaska. Transactions of the American Fisheries Society 140(3):865-881. doi: 10.1080/00028487.2011.588137.

Armstrong, J.B., and D.E. Schindler. 2011. Excess digestive capacity in predators reflects a life of feast and famine. Nature 476:84-87. 10.1038/nature10240.

Baker, M.R., N.W. Kendall, T.A. Branch, D.E. Schindler, and T.P. Quinn. 2011. Selection due to nonretention mortality in gillnet fisheries for salmon. Evolutionary Applications 4:429-443. 10.1111/j.1752-4571.2010.00154.x.

Bentley, K.T., and R.L. Burgner.  2011.  An assessment of climate change effects on parasite infestation rates of sockeye salmon in southwest Alaska.  Environmental Biology of Fishes. 92(2):267-273. 10.1007/s10641-011-9830-2

Creelman, E.K., L. Hauser, R.K. Simmons, W.D. Templin, and L.W. 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(3):749-762. doi: 10.1080/00028487.2011.584494.

Carlson, S.M., T.P. Quinn, and A.P. Hendry. 2011. Eco-evolutionary dynamics in Pacific salmon. Heredity 106: 438-447. DOI: 10.1038/hdy.2010.163.

Chen, G.J., D.T. Selbie, B.P. Finney, D.E. Schindler, L. Bunting, P.R. Leavitt, and I. Gregory-Eaves. 2011b. Long-term zooplankton responses to nutrient and consumer subsidies arising from migratory sockeye salmon Oncorhynchus nerka. Oikos 120:1317-1326. DOI: 10.1111/j.1600-0706.2011.19042.x

Chen, G.J., E. Saulnier-Talbot, D.T. Selbie, E. Brown, D.E. Schindler, L. Bunting, P.R. Leavitt, B.P. Finney, and I. Gregory-Eaves. 2011. Salmon-derived nutrients drive diatom beta-diversity patterns. Freshwater Biology 56:292-301. doi:10.1111/j.1365-2427.2010.02496.x

Everett, M.V., E.D. Grau, and J.E. Seeb. 2011. Short reads and non-model species:  Exploring the complexities of next generation sequence assembly and SNP discovery in the absence of a reference genome. Molecular Ecology Resources 11(Suppl. 1), 93-108. doi:10.1111/j.1755-0998.2010.02969.x.

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 Alaskan sockeye salmon populations. BMC Evolutionary Biology 11:48 http://www.biomedcentral.com/1471-2148/11/48.

Griffiths, J.R., D.E. Schindler, L.S.Balistrieri, and G.T. Ruggerone. 2011. Effects of simultaneous climate change and geomorphic evolution on thermal
characteristics of a shallow Alaskan lake. Limnology and Oceanography. 56(1): 193-205. doi:10.4319/lo.2011.56.1.0193

Gutierrez, N.L., R. Hilborn, and O. Defeo. 2011. Leadership, social capital and incentives promote successful fisheries. Nature. 470: 386-389. www.nature.com/doifinder/10.1038/nature09689

Hansen, M. H. H., S. Young, H. Jorgensen, C. E. Pascal, M. Henryon, and J. E. Seeb. 2011. Assembling a dual purpose TaqMan based panel of single nucleotide polymorphism markers in rainbow trout and steelhead (Oncorhynchus mykiss) for association mapping and population genetics analysis. Molecular Ecology Resources 11(Suppl. 1), 67-70.  doi:10.1111/j.1755-0998.2010.02978.x.

Hauser, L., M. Baird, R. Hilborn, L.W. Seeb, and J.E. Seeb. 2011. An empirical comparison of SNPs and microsatellites for parentage and kinship assignment in a wild sockeye salmon (Oncorhynchus nerka) population. Molecular Ecology Resources 11(Suppl. 1), 150-161. doi:10.1111/j.1755-0998.2010.02961.x.

Hilborn, R. 2011. Future directions in ecosystem based fisheries management: A personal perspective. Fisheries Research 108: 235-239. doi:10.1016/j.fishres.2010.12.030

Holtgrieve, G.W., and D.E. Schindler. 2011. Marine-derived nutrients, bioturbation, and ecosystem metabolism: reconsidering the role of salmon in streams. Ecology. 92:373-385. DOI: 10.1890/09-1694.1

Holtgrieve, G.W., D.E. Schindler, W.O. Hobbs, P.R. Leavitt, E.J. Ward, L. Bunting, G.J. Chen, B.P. Finney, I. Gregory-Eaves, S. Holmgren, M.J. Lisac, P.J. Lisi, K. Nydick, L.A. Rogers, J.E. Saros, D.T. Selbie, M.D. Shapley, P.B. Walsh, and A.P. Wolfe. 2011. A coherent signature of anthropogenic nitrogen deposition to remote watersheds of the Northern Hemisphere. Science 334: 1545-1548. DOI: 10.1126/science.1212267

Kendall, N.W. and T.P. Quinn. 2011. Length and age trends of Chinook salmon in the Nushagak River, Alaska related to commercial and recreational fishery selection and exploitation. Transactions of the American Fisheries Society. 140:611-622. 10.1080/00028487.2011.585575

Krkosek, M., B.M. Conners, H. Ford, S. Peacock, P. Mages, J.S. Ford, A. Morton, J.P. Volpe, R. Hilborn., L.M. Dill, and M.A. Lewis. 2011. Fish farms, parasites, and predators: implications for salmon population dynamics.  Ecological Applications. 21: 897-914.http://dx.doi.org/10.1890/09-1861.1

Krkošek, M., R. Hilborn, R., R.M. Peterman, and T.P Quinn. 2011. Cycles, stochasticity, and density dependence in pink salmon population dynamics. Proceeding of the Royal Society of London B 278: 2060-2068. 10.1098/rspb.2010.2335

Krkošek, M., and R. Hilborn. 2011. Sea lice (Lepeophtheirus salmonis) infestations and the productivity of pink salmon (Oncorhynchus gorbuscha) in the Broughton Archipelago, British Columbia, Canada. Canadian Journal of Fisheries and Aquatic Sciences. 68: 17-29. 10.1139/F10-137.

Limborg, M.T., S.M. Blankenship, S.F. Young, F.M. Utter, L.W. Seeb, M.H.H. Hansen, and J.E. Seeb. 2011. Signatures of natural selection among lineages and habitats in Oncorhynchus mykiss. Ecology and Evolution: DOI: 10.1002/ece3.59

Lin, J.E., R. Hilborn, T.P. Quinn, and L. Hauser. 2011.  Self-sustaining populations, population sinks or aggregates of strays: chum (Oncorhynchus keta) and Chinook salmon (Oncorhynchus tshawytscha) in the Wood River system, Alaska. Molecular Ecology. doi: 10.1111/j.1365-294X.2011.05334.x.

Lisi, P.J., and D.E. Schindler. 2011. Spatial variation in timing of marine subsidies influences riparian phenology through plant-pollinator mutualism. Ecosphere 2:1. doi: 10.1890/ES11-00173.1

McGlauflin, M.T., D. Schindler, C. Habicht, L.W. Seeb, J.E. Seeb and C.T. Smith. 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(3):763-782. doi:10.1080/00028487.2011.584495.

Reed, T.E., D.E. Schindler, M.J. Hague, D.A. Patterson, E. Meir, R.S. Waples, and S.G. Hinch. 2011. Time to Evolve? Potential Evolutionary Responses of Fraser River Sockeye Salmon to Climate Change and Effects on Persistence. PloS One 6. DOI: 10.1371/journal.pone.0020380

Reed, T.E., D.E. Schindler, and R.S. Waples. 2011. Interacting Effects of Phenotypic Plasticity and Evolution on Population Persistence in a Changing Climate. Conservation Biology 25:56-63. 10.1111/j.1523-1739.2010.01552.x

Rogers, L. A., and D. E. Schindler. 2011. Scale and the detection of climatic influences on the productivity of salmon populations. Global Change Biology 17:2546-2558. 10.1111/j.1365-2486.2011.02415.x

Ruff, C.P., D. E. Schindler, J.B. Armstrong, K.T. Bentley, G.T. Brooks, G.W. Holtgrieve, M.T. McGlauflin, C.E. Torgensen, and J.E. Seeb. 2011. Temperature-associated population diversity in salmon confers benefits to mobile consumers. Ecology 92: 2073-2084. http://dx.doi.org/10.1890/10-1762.1

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 SNP discovery in duplicated salmonids. Molecular Ecology Resources 11(2):335-348. doi:10.1111/j.1755-0998.2010.02936.x.

Seeb, J.E., G. Carvalho, L. Hauser, K. Naish, S. Roberts, and L.W. Seeb. 2011. SNP discovery and applications of SNP genotyping in non-model organisms. Molecular Ecology Resources 11(Suppl. 1), 1-8. doi:10.1111/j.1755-0998.2010.02979.x.

Seeb, L.W., W.D. Templin, S. Sato, S. Abe, K. . Warheit, and J.E. Seeb. 2011. Single nucleotide polymorphisms across a species’ range:  implications for conservation studies of Pacific salmon. Molecular Ecology Resources 11(Suppl. 1), 184-206. doi:10.1111/j.1755-0998.2010.02966.x.

Seeb, L.W., J.E. Seeb, C. Habicht, E.V. Farley and F. M. Utter. 2011. SNP genotypes reveal patterns of early juvenile migration of sockeye salmon in the eastern Bering Sea. Transactions of the American Fisheries Society 140(3):734-748. doi: 10.1080/00028487.2011.584493.

Smith, M. J., C. E. Pascal, Z. Grauvogel, C. Habicht, J. E. Seeb, and L. W. Seeb. 2011. Multiplex preamplification PCR allows accurate single nucleotide polymorphism (SNP) genotyping of historical fish scales. Molecular Ecology Resources 11(Suppl. 1), 257-266. doi:10.1111/j.1755-0998.2010.02965.x.

Templin, W.D., J.E. Seeb, J.J. 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(Suppl. 1), 215-235. doi:10.1111/j.1755-0998.2010.02968.x

 

2010

Armstrong, J.B. 2010. comment: Egg consumption in mature Pacific salmon (Oncorhynchus spp.) Canadian Journal Fisheries and Aquatic Sciences. 67(12): 2052-2054. 10.1139/F10-127

Armstrong, J.B., Schindler, D.E., Omori, K.L., Ruff, C.P., and Quinn, T.P. 2010. Thermal heterogeneity mediates the effects of pulsed subsidies across a landscape. Ecology. 91(5):1445-1454 DOI:10.1890/09-0790.1

Baker, M. R., N. W. Kendall, T. A. Branch, D. E. Schindler, and T. P. Quinn. 2010. Selection due to non-retention mortality in gillnet fisheries for salmon. Evolutionary Applications DOI: 10.1111/j.1752-4571.2010.00154.x

Branch, T. A. 2010. Reply to the comment by Francis on “Differences in predicted catch composition between two widely used catch equation formulations”. Canadian Journal of Fisheries and Aquatic Sciences 67:766-768. DOI:10.1139/F10-024

Branch, T.A. & Hilborn, R. 2010. A general model for reconstructing salmon runs. Canadian Journal of Fisheries and Aquatic Sciences 67: 886-904. DOI: 10.1139/F10-032

Denton, K. P., H. B. Rich, Jr., J. W. Moore, and T. P. Quinn. 2010. The utilization of a Pacific salmon Oncorhynchus nerka subsidy by three populations of charr Salvelinus spp. Journal of Fish Biology 77: 1006-1023. doi:10.1111/j.1095-8649.2010.02746.x

Doctor, K. K., R. Hilborn, M.Rowse and T. P. Quinn. 2010. Spatial and temporal patterns of upriver migration by sockeye salmon, Oncorhynchus nerka, populations in the Wood River system, Bristol Bay, Alaska. Transactions of the American Fisheries Society 139: 80-91. DOI: 10.1577/T08-227.1

Greene, C. M., J. E. Hall, K. R. Guilbault, and T. P. Quinn. 2010. Improved viability of populations with diverse life history portfolios. Biology Letters 6: 382-386. doi: 10.1098/rsbl.2009.0780

Habicht, C., L. W. Seeb, K. W. Myers, E. V. Farley, and J. E. Seeb. 2010. Summer-fall distribution of stocks of immature sockeye salmon in the Bering Sea as revealed by single-nucleotide polymorphisms (SNPs). Transactions of the American Fisheries Society 139:1171-1191. doi: 10.1577/T09-149.1

Hilborn, R. 2010. Pretty Good Yield and exploited fishes. Marine Policy. 34:193-196

DOI: 10.1016/j.marpol.2009.04.013

Hilborn, R., and Stokes, K. 2010. Defining overfished stocks:  have we lost the plot? Fisheries. 35: 113-120. doi: 10.1577/1548-8446-35.3.113

Holtgrieve, G.W., D.E. Schindler, C.P. Gowell, C.P. Ruff, and P.J. Lisi. 2010. Stream geomorphology regulates the ecosystem engineering and nutrient enrichment effects of Pacific salmon on benthic biota. Freshwater Biology 55 (12): 2598-2611. DOI: 10.1111/j.1365-2427.2010.02489.x

Holtgrieve, G.W., D.E. Schindler, T.A. Branch, and Z.T. A’mar. 2010. Simultaneous quantification of aquatic ecosystem metabolism and re-aeration using a Bayesian statistical model of oxygen dynamics. Limnology & Oceanography 55: 1047-1063 DOI: 10.4319/lo.2010.55.3.1047

Kendall, N. W., A. H. Dittman, and T. P. Quinn. 2010. Comparative maturation schedules of two Columbia River sockeye salmon, Oncorhynchus nerka, populations. Endangered Species Research 13: 51-61. DOI: 10.3354/esr00318

Kendall, N. W., H. B. Rich, Jr., L. R. Jensen, and T. P. Quinn. 2010.  Climate effects on inter-annual variation in growth of the freshwater mussel, Anodonta beringiana, in Iliamna Lake, Alaska. Freshwater Biology 55: 2339-2346. doi:10.1111/j.1365-2427.2010.02447.x

Mantua, N.J., N.G. Taylor, G.T. Ruggerone, K.W. Myers, D. Preikshot, X. Augerot, N.D. Davis, B. Dorner, R. Hilborn, R.M. Peterman, P. Rand, D. Schindler, J. Stanford, R.V. Walker, and C.J. Walters. 2009. The salmon MALBEC Project: A North Pacific-scale study to support salmon conservation panning. N. Pac. Anadr. Fish Comm. Bull. 5: 333-354.

McGlauflin, M. T., M. J. Smith, J. T. Wang, S. F. Young, N. Chen, Y. C. Lee, C. Pascal, L. W. Seeb, J. Stevens, and J. E. Seeb. 2010. High-resolution melting analysis for the discovery of novel single-nucleotide polymorphisms in rainbow and cutthroat trout for species identification. Transactions of the American Fisheries Society 139(3):676-684. doi:10.1577/T09-103.1.

Moore, J.W., and D.E. Schindler. 2010. Convergent phenologies of spawning salmon and emerging aquatic insects.  Proc. Roy. Soc. London B 277: 1695-1703. doi: 10.1098/rspb.2009.2342

Moore, J.W., M. McClure, L.A. Rogers, and D.E. Schindler. 2010. Synchronization and portfolio performance in a threatened salmon stock. Conservation Letters 3 (5): 340-348. DOI: 10.1111/j.1755-263X.2010.00119.x

Olsen, J. B., T. D. Beacham, M. Wetklo, L. W. Seeb, C. T. Smith, B. G. Flannery, and J. K. Wenburg. 2010. The influence of hydrology and waterway distance on population structure of Chinook salmon Oncorhynchus tshawytscha (Walbaum) in a large river. Journal of Fish Biology 76:1128-1148. DOI: 10.1111/j.1095-8649.2010.02554.x

Reed, T.E., R.S. Waples, D.E. Schindler, J.J. Hard, and M.T. Kinnison. 2010. Phenotypic plasticity and population viability: the importance of environmental predictability. Proceedings of the Royal Society B-Biological Sciences 277:3391-3400. DOI: 10.1098/rspb.2010.0771

Reed, T.E., D.E. Schindler, and R.S. Waples. 2010. Interacting effects of phenotypic plasticity and evolution on population persistence in a changing climate. Conservation Biology. Online Early: DOI: 10.1111/j.1523-1739.2010.01552.x

Reed, T.E., Martinek, G., and Quinn, T.P. 2010. Lake-specific variation in growth, migration timing, and survival of juvenile sockeye salmon, Oncorhynchus nerka: separating environmental from genetic influences. Journal of Fish Biology 77: 692-705. DOI: 10.1111/j.1095-8649.2010.02711.x

Schindler, D. E., R. Hilborn, B. Chasco, C. P. Boatright, T. P. Quinn, L. A. Rogers, and M. S. Webster. 2010. Population diversity and the portfolio effect in an exploited species. Nature 465: 609-613. doi:10.1038/nature09060

Sethi, S.A.  2010. Risk management for fisheries. Fish and Fisheries 11 (4): 341-365. DOI: 10.1111/j.1467-2979.2010.00363.x

Utter, F. M., and J. E. Seeb. 2010. A perspective on positive relationships between genetic diversity and abundance in fishes.  Molecular Ecology 19:4831-4833. doi:10.1111/j.1365-294X.2010.04823.x.

Westley, P.A.H., D.E. Schindler, T.P. Quinn, G. T. Ruggerone, and R. Hilborn. 2010. Natural habitat change, commercial fishing, climate, and dispersal interact to restructure an Alaskan fish metacommunity. Oecologia 163: 471-484. DOI 10.1007/s00442-009-1534-3

Woody CA, Hughes RM, Wagner EJ, Quinn TP, Roulson LH, Martin LM, and K Griswold. 2010. The Mining Law of 1872: Change is overdue. 2010. Fisheries 35 (7): 321-331. doi: 10.1577/1548-8446-35.7.321

 

2009

Baker, M.R. and Schindler, D.E. 2009. Unaccounted mortality in salmon fisheries: non-retention in gillnets and effects on estimates of spawners. Journal of Applied Ecology, 46, 752-761. doi: 10.1111/j.1365-2664.2009.01673.x

Baker, M.R., Schindler, D.E., Holtgrieve, G.W. and St. Louis, V.L. 2009. Bioaccumulation and transport of contaminants: migrating sockeye salmon as vectors of mercury. Environmental Science and Technology 43, 8840–8846.
doi:10.1021/es901798f CCC

Branch, T.A. 2009. Differences in predicted catch composition between two widely used catch equation formulations. Canadian Journal of Fisheries and Aquatic Sciences. 66: 126-132. DOI:10.1139/F10-024

Carlson, S. M., H. B. Rich, Jr., and T. P. Quinn. 2009. Does variation in selection imposed by bears drive divergence among populations in the size and shape of sockeye salmon?  Evolution 63:1244-1261. doi:10.1111/j.1558-5646.2009.00643.x

Costello C, McGough B, and Plantinga A. 2009. Optimally managing a stochastic renewable resource under general economic conditions. BE Journal of Economic Analysis and Policy.

Denton, K. P., H. B. Rich, Jr., and T. P. Quinn. 2009. Diet, movement, and growth of non-anadromous Dolly Varden Salvelinus malma in response to sockeye salmon Oncorhynchus nerka subsidies. Transactions of the American Fisheries Society 138: 1207-1219. DOI: 10.1577/T09-006.1

Doctor, K. K. and T. P. Quinn. 2009. The potential for adaptation-by-time in sockeye salmon (Oncorhynchus nerka):  The interactions of body size and in-stream reproductive lifespan with date of arrival and breeding location.  Canadian Journal of Zoology 87: 708-717. DOI: 10.1577/T09-006.1

Hilborn, R. 2009. Life History Models for Salmon Management: The Challenges. In Pacific salmon environmental and life history models: advancing science for sustainable salmon in the future. Edited by E. E. Knudsen and J. H. J. Michael. American Fisheries Society, Bethesda, Maryland. 71. pp. 23-32.

Holtgrieve, GW, DE Schindler, PK Jewett. 2009. Large predators and biogeochemical hotspots: brown bear (Ursus arctos) predation on salmon alters nitrogen cycling in riparian soils. Ecol. Res. 24: 1125-1135. DOI 10.1007/s11284-009-0591-8.

Honea, J.M., Jorgensen, J.C., McClure, M.M., Cooney, T.D., Engie, K., Holzer, D., and Hilborn, R. 2009. Evaluating habitat effects on population status: influence of habitat restoration on spring-run Chinook salmon. Freshwater Biology, 54: 1576-1592. DOI: 10.1111/j.1365-2427.2009.02208.x

Johnson, S.P, and D.E Schindler. 2009. Trophic ecology of Pacific salmon (Oncorhynchus spp.) in the ocean: a synthesis of stable isotope research. Ecological Research 24: 855-863. DOI 10.1007/s11284-008-0559-0

Kendall, N. W., and T. P. Quinn. 2009. Effects of population-specific variation in age and length on fishery selection and exploitation rates of sockeye salmon (Oncorhynchus nerka). Canadian Journal of Fisheries and Aquatic Sciences 66:896-908. doi:10.1139/F09-047

Kendall, N. W., J. J. Hard, and T. P. Quinn. 2009. Quantifying six decades of fishery selection for size and age at maturity in sockeye salmon. Evolutionary Applications (2) 523-536. doi:10.1111/j.1752-4571.2009.00086.x

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.

Post E, Forchhammer MC, Bret-Harte MS, Callaghan TV , Christensen TR, Elberling B , Fox AD, Gilg O , Hik DS, Hoye TT, Ims RA, Jeppesen E, Klein DR, Madsen J, McGuire AD, Rysgaard S, Schindler, DE, Stirling I, Tamstorf MP, Tyler NJC, van der Wal R, Welker J, Wookey PA, Schmidt NM, Aastrup P. 2009. Ecological dynamics across the Arctic associated with recent climate change. Science 325: 1355-1358. DOI: 10.1126/science.1173113

Quinn, T. P. 2009. Changing themes in the study of diadromous fishes. Pages 823-828 in A Haro, KL Smith, RA Rulifson, CM Moffitt, RJ Klauda, MJ Dadswell, RA Cunjak, JE Cooper, KL Beal, TS Avery (eds), Challenges for Diadromous Fishes in a Dynamic Global Environment. Am. Fish. Soc. Symp. 69:23-42.

Quinn, T. P. 2009. Pacific salmon population structure and dynamics: A perspective from Bristol Bay on life history variation across spatial and temporal scales.  American Fisheries Society Symposium 70: 857-871.

Quinn, T. P., S. M. Carlson, S. M. Gende and H. B. Rich, Jr. 2009. Transportation of Pacific salmon carcasses to riparian forests by bears. Canadian Journal of Zoology 87: 195-203. DOI: 10.1126/science.1173113

Quinn, T. P., K. Doctor, N. Kendall and H. B. Rich, Jr. 2009. Diadromy and the life history of sockeye salmon: nature, nurture, and the hand of man. Pages 23-42 in A Haro, KL Smith, RA Rulifson, CM Moffitt, RJ Klauda, MJ Dadswell, RA Cunjak, JE Cooper, KL Beal, TS Avery (eds), Challenges for Diadromous Fishes in a Dynamic Global Environment. Am. Fish. Soc. Symp. 69:23-42.

Rich, H. B., Jr., T. P. Quinn, M. D. Scheuerell, and D. E. Schindler. 2009.  Climate and intra-specific competition control the growth and life history of juvenile sockeye salmon (Oncorhynchus nerka) in Iliamna Lake, Alaska.  Canadian Journal of Fisheries and Aquatic Sciences 66: 238-246. doi:10.1139/F08-210

Scheuerell, M., and Hilborn, R. 2009. Estimating the freshwater component of essential fish habitat for Pacific salmon (Oncorhynchus spp.) with the Shiraz model. In Pacific salmon environmental and life history models: advancing science for sustainable salmon in the future. Edited by E. E. Knudsen and J. H. J. Michael. American Fisheries Society, Bethesda, Maryland. 71. pp. 187-202.

Schindler, D.E., and L.A. Rogers. 2009. Responses of Pacific salmon populations to climate variation in freshwater ecosystems. Sustainability of the Arctic-Yukon-Kuskokwim Salmon Fisheries. C.E. Zimmerman and C.C. Krueger, Editors. American Fisheries Society. Pages 1127-1142.

Seeb, J. E., C. E. Pascal, R. Ramakrishnan, and L. W. Seeb. 2009. SNP genotyping by the 5′-nuclease reaction: advances in high throughput genotyping with non-model organisms.  Pages 277-292 in A. Komar, editor. Methods in Molecular Biology, Single Nucleotide Polymorphisms, 2d Edition. Humana Press.

Selbie, D., I., B.P. Finney, D. Barto, L. Bunting, G. Chen, P.R. Leavitt, E.A. MacIsaac, D.E. Schindler, M.D. Shapley, and I. Gregory-Eaves. 2009. Ecological, landscape and climatic controls on sediment geochemistry in North American sockeye salmon nursery lakes: Insights for paleoecological salmon investigations. Limnology & Oceanography 54: 1733-1745.  DOI: 10.4319/lo.2009.54.5.1733

 

2008

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. doi: 10.1577/M06-253.1

Bue, B. G., Hilborn, R., and Link, M. R. 2008. Optimal harvesting considering biological and economic objectives.  Canadian Journal of Fisheries and Aquatic Sciences. 65: 691-700. doi:10.1139/F08-009

Bugaev, A. V., I.I. Glevov, E. V. Golub, K. W. Myers, J. E. Seeb, and M. Foster  2008.

Origin and distribution of sockeye salmon Oncorhynchus nerka local stocks in the western Bering Sea in August-October 2006. Izv. TINRO 153:88-108. DOI

10.1134/S1063074008070018

Costello C, Deacon RT, Parker DP. 2008. Improving efficiency by assigning harvest rights to fishery cooperatives:evidence from the Chignik Salmon Co-op. Arizona Law Review. 50(2): 479-509.

Crozier, L. G., A. P. Hendry, P. W. Lawson, T. P. Quinn, N. J. Mantua, J. Battin, R. G. Shaw and R. B. Huey.  2008. Potential responses to climate change in organisms with complex life histories: evolution and plasticity in Pacific salmon.  Evolutionary Applications 1: 252-270. DOI: 10.1111/j.1752-4571.2008.00033.x

Hard, J. J., Gross, M. R., Heino, M., Hilborn, R., Kope, R. G., Law, R., and Reynolds, J. D. 2008. Evolutionary consequences of fishing and  their implications for salmon. Evolutionary Applications 1: 388-408. doi:10.1111/j.1752-4571.2008.00020.x

Hauser, DDW, CS Allen, HB Rich, Jr, TP Quinn. 2008. Resident harbor seals (Phoca vitulina) in Iliamna Lake, Alaska: Summer diet and partial consumption of adult sockeye salmon (Oncorhynchus nerka). Aquat. Mamm. 34(3):303-309. DOI 10.1578/AM.34.3.2008.303. DOI 10.1578/AM.34.3.2008.303

Hauser, L, and Seeb JE. 2008. Advances in molecular technology and their impact on fisheries genetics. Fish and Fish. 9:473-486. DOI: 10.1111/j.1467-2979.2008.00306.x

Hauser L, and Carvalho GR. 2008. Paradigm shifts in marine fisheries genetics: ugly hypotheses slain by beautiful facts. Fish and Fisheries 9, 333-362. DOI: 10.1111/j.1467-2979.2008.00299.x

Lessard RB, R Hilborn, BE Chasco. 2008. Escapement goal analysis and stock reconstruction of sockeye salmon populations (Oncorhynchus nerka) using life-history models. Can. J. Fish. Aquat. Sci. 65(10):2269–2278. doi:10.1139/F08-130

Lin, J, TP Quinn, R Hilborn, L Hauser. 2008. Fine-scale differentiation between sockeye salmon ecotypes and the effect of phenotype on straying. Heredity 101:341-350. doi:10.1038/hdy.2008.59

Lin, J, E Ziegler, TP Quinn, L Hauser. 2008. Contrasting patterns of morphological and neutral genetic divergence among geographically proximate populations of sockeye salmon Oncorhynchus nerka in Lake Aleknagik, Alaska. J. Fish Biol. 73:1993-2004. doi:10.1111/j.1095-8649.2008.02014.x

Martell, S. J. D., Walters, C. J., and Hilborn, R. 2008. Retrospective analysis of harvest management performance for Bristol Bay and Fraser River sockeye salmon (Oncorhynchus nerka). Canadian Journal of Fisheries and Aquatic Sciences. 65: 409-424. doi:10.1139/F07-170

Moore, JW, DE Schindler. 2008. Biotic disturbance and benthic community dynamics in salmon-bearing streams. J. Anim. Ecol. Online DOI:10.1111/j.1365-2656.2007.01336.

Moore, JW, DE Schindler, CP Ruff.  2008. Habitat saturation drives thresholds in stream subsidies.  Ecology 89(2):306-312. doi:10.1890/07-1269.1

Moore, JW, BX Semmens. 2008. Incorporating uncertainty and prior information into stable isotope mixing models.  Ecol. Lett. 11. DOI: 10.1111/j.1461-0248.2008.01163.x

Narum, S. R., M. Banks, T. D. Beacham, M. R. Belllinger, M. R. Campbell, J. DeKoning, A. Elz, C. M. Guthrie, C. Kozfkay, K. M. Miller, P. Moran, R. Phillips, L. W. Seeb, C. T. Smith, K. Warheit, S. F. Young, J. C. Garza. 2008. Differentiating salmon populations at broad and fine geographical scales with microsatellites and single nucleotide polymorphisms. Molecular Ecology 17:3464-3477. DOI: 10.1111/j.1365-294X.2008.03851.x

Rogers, LA, DE Schindler. 2008. Asynchrony in population dynamics of sockeye salmon in southwest Alaska. Oikos 117:1578-1586. doi: 10.1111/j.2008.0030-1299.16758.x

Schindler, D.E, X. Augerot, E. Fleishman, N.J. Mantua, B. Riddell, M. Ruckelshaus, J. Seeb and M. Webster. 2008. Climate change, ecosystem impacts, and management for Pacific salmon. Fisheries 33: 502-506. doi: 10.1577/1548-8446-33.10.502

Smith, C. T., and L. W. Seeb. 2008. Number of alleles as a predictor of the relative assignment accuracy of short tandem repeat (STR) and single-nucleotide-polymorphism (SNP) baselines for chum salmon. Transactions of the American Fisheries Society 137:751-762. doi: 10.1577/T07-104.1

Taylor, E. B., Lowery, E., Lilliestråle, A., Elz, A., and T. P. Quinn. 2008. Genetic analysis of sympatric char populations in Western Alaska: Arctic char (Salvelinus alpinus) and Dolly Varden (S. malma) are not two sides of the same coin. Journal of Evolutionary Biology 21: 1609-1625. doi:10.1111/j.1420-9101.2008.01603.x

Westley, PAH, SM Carlson, TP Quinn. 2008. Among-population variation in adipose fin size parallels the expression of other secondary sexual characteristics in sockeye salmon (Oncorhynchus nerka). Environ. Biol. Fish.  81: 439-446. DOI 10.1007/s10641-007-9236-3

Westley, PAH, R Hilborn, TP Quinn, GT Ruggerone, DE Schindler. 2008. Long-term changes in rearing habitat and downstream movement by juvenile sockeye salmon (Oncorhynchus nerka) in an interconnected Alaska lake system. Ecol. Freshwat. Fish. 17:443–454. doi: 10.1111/j.1600-0633.2008.00296.x

Yoon, M., S. Sato, J. E. Seeb, V. Brykov, L. W. Seeb, V. Varnavskaya, R. L. Wilmot, D. H. Jin, S. Urawa, A. Urano, and S. Abe. 2008. Mitochondrial DNA variation and genetic population structure of chum salmon Oncorhynchus keta  around the Pacific Rim. Journal of Fish Biology 73(5):1256-1266. DOI: 10.1111/j.1095-8649.2008.01995.x

 

2007

Allen, CS, HB Rich, Jr., TP Quinn. 2007. Condition-dependent reproductive tactics by large and small anadromous male sockeye salmon Oncorhynchus nerka.  J. Fish Biol. 70:1302-1307. doi:10.1111/j.1095-8649.2007.01391.x

Brock, CS, PR Leavitt, DE Schindler, PD Quay. 2007. Variable effects of marine-derived nutrients on algal production in salmon nursery lakes of Alaska during the past 300 years. Limnol. Oceanogr. 52:1588-1598. DOI: 10.4319/lo.2007.52.4.1588

Carlson, SM, TP Quinn. 2007. Ten years of varying lake level and selection on size-at-maturity in sockeye salmon. Ecology 88:2620-2629. doi:10.1890/06-1171.1

Carlson, SM, R Hilborn, AP Hendry, TP Quinn. 2007. Predation by bears drives senescence in natural populations of salmon. PLoSOne 2(12):e1286 doi:10.371/journal.pone001286

Chasco, B., R. Hilborn, and A.E. Punt. 2007. Run reconstruction of mixed-stock salmon fisheries using age-composition data. Can. J. Fish. Aquat. Sci. 64:1479-1490. doi:10.1139/F07-105

Costello C and Deacon RT. 2007. Efficiency gains from fully delineating rights in an ITQ fishery. Marine Resource Economics. 22: 347-361. (pdf only)

Hilborn, R. 2007. Managing fisheries is managing people:  what has been learned? Fish and Fisheries. 6: 285-296. DOI: 10.1111/j.1467-2979.2007.00263_1.x

Moore, JW, DE Schindler, JL Carter, JM Fox, J Griffiths, GW Holtgrieve. 2007. Biotic control of stream ecosystem fluxes: spawning salmon drive nutrient and matter export. Ecology 88(5):1278-1291. doi:10.1890/06-0782

Quinn, TP, DM Eggers, JH Clark, HB Rich, Jr. 2007. Density, climate, and the processes of prespawning mortality and egg retention in Pacific salmon (Oncorhynchus spp.).  Can. J. Fish. Aquat. Sci 64:574-582. doi:10.1139/F07-035

Quinn, TP, S Hodgson, L Flynn, R Hilborn, DE Rogers.  2007.  Directional selection by commercial fisheries and the timing of sockeye salmon (Oncorhynchus nerka) migrations.  Ecol. Applic. 17:731-739. doi:10.1890/06-0771

Scheuerell, MD, JW Moore, DE Schindler, CJ Harvey. 2007. Varying effects of anadromous sockeye salmon on the trophic ecology of two species of resident salmonids in southwest Alaska. Freshwat. Biol. 52:1944-1956. doi:10.1111/j.1365-2427.2007.01823.x

Schtickzelle, N, TP Quinn.  2007. A metapopulation perspective for salmon and other anadromous fish.  Fish and Fisheries 8: 297-314. DOI: 10.1111/j.1467-2979.2007.00256.x

 

2006

Branch, TA, R Hilborn, AC Haynie, G Fay, L Flynn, J Griffiths, KN Marshall, JK Randall, JM Scheuerell, EJ Ward, M Young.  2006. Fleet dynamics and fishermen behavior: lessons for fisheries managers.  Can. J. Fish. Aquat. Sci. 63:1647-1668. doi:10.1139/F06-072

Brock, CS, PR Leavitt, DE Schindler, SP Johnson, JW Moore, PD Quay. 2006. Spatial variability of stable isotopes and fossil pigments in surface sediments of Alaskan coastal lakes: constraints on quantitative estimates of past salmon abundance. Limnol. Oceanogr. 51:1637-1647.

Flynn, L, AE Punt, R Hilborn. 2006. A hierarchical model for salmon run reconstruction and application to the Bristol Bay sockeye (Oncorhynchus nerka) fishery. Can. J. Fish. Aquat. Sci. Sciences 63:1564-1577. doi:10.1139/F06-045

Francis, TB, DE Schindler and JW Moore. 2006. Aquatic insects play a minor role in dispersing salmon-derived nutrients into riparian forests in southwestern Alaska. Can. J. Fish. Aquat. Sci. 63:2543-2552. doi:10.1139/F06-144

Grafton, RQ, R Arnason, T Bjrndal, D Campbell, HF Campbell, CW Clark, R Connor, DP Dupont, R Hannesson, R Hilborn, JE Kirkley, T Kompas, DE Lane, GR Munro, S Pascoe, D Squires, SI Steinshamn, BR Turris, Q Weninger.  2006. Incentive-based approaches to sustainable fisheries. Can. J. Fish. Aquat. Sci. 63:699-710. doi:10.1139/F05-247

Hilborn, R. 2006. Defining success in fisheries and conflicts in objectives. Mar. Pol. Online doi:10.1016/ j.marpol.2006.05.014/

Hilborn, R. 2006. Salmon-farming impacts on wild salmon. Proc. Nat. Acad. Sci. 103:15277. doi/10.1073/pnas.0607419103

Hilborn, R. 2006. Fisheries success and failure: the case of the Bristol Bay salmon fishery. Bull. Mar. Sci. 78:487-498.

Hodgson, S, TP Quinn, R Hilborn, RC Francis, DE Rogers. 2006. Marine and freshwater climatic factors affecting interannual variation in the timing of return migration to fresh water of sockeye salmon (Oncorhynchus nerka). Fish. Oceanogr. 14:1-24. doi:10.1111/j.1365-2419.2005.00354.x

Johnson, SP, SM Carlson, TP Quinn. 2006. Tooth size and skin thickness in mature sockeye salmon: evidence for habitat constraints and variable investment between the sexes. Ecol. Freshwat. Fish 15: 331-338. doi: 10.1111/j.1600-0633.2006.00175.x

Moore, JW. 2006. Animal ecosystem engineers in streams. Bioscience 56:237-246. doi: 10.1641/0006-3568(2006)056[0237:AEEIS]2.0.CO;2

Parma, AM, R Hilborn, JM Orensanz. 2006. The good, the bad and the ugly: learning from experience to achieve sustainable fisheries. Bull. Mar. Sci. 78:411-428.

Payne, LX, JW Moore. 2006. Mobile scavengers create hotspots of biological productivity in freshwater ecosystems. Oikos 115:69-80. DOI: 10.1111/j.2006.0030-1299.14899.x

Quinn, TP, IJ, Stewart, CP Boatright. 2006. Experimental evidence of homing to site of incubation by mature sockeye salmon (Oncorhynchus nerka).  Anim. Behav. 72:941-949. doi:10.1016/j.anbehav.2006.03.003

Rich, HB, Jr, SM Carlson, BE Chasco, KC Briggs, TP Quinn.  2006. Movements of male sockeye salmon, Oncorhynchus nerka, on spawning grounds: effects of in-stream residency, density, and body size. Anim. Behav. 71:971-981. doi:10.1016/j.anbehav.2005.10.004

Scheuerell, MD, R Hilborn, MH Ruckelshaus, KK Bartz, KM Langueux, AD Haas, K Rawson. 2006. The Shiraz model: a tool for incorporating anthropogenic effects and fish-habitat relationships in conservation planning. Can. J. Fish. Aquat. Sci. 63:1596-1607. doi:10.1139/F06-056

Schindler, DE, PR Leavitt, SP Johnson, CS Brock.  2006. A 500-year context fro the recent surge in sockeye salmon (Oncorhynchus nerka) abundance in the Alagnak River, Alaska. Can. J. Fish. Aquat. Sci. 63:1439-1444. doi:10.1139/F06-069

 

2005

Allen, RB, R Hilborn, AA Rosenberg. 2005. Fisheries management. Issues Sci. Tech. 21:10-12. (pdf only, no doi)

Hilborn, R, JM Orensanz, AM Parma. 2005. Institutions, incentives and the future of fisheries.  Phil. Trans. R. Soc. B 360:47-57 doi: 10.1098/rstb.2004.1569

Hilborn, R, JK Parrish, K Litle.  2005. Fishing Rights or Fishing Wrongs?  Rev. Fish Biol. Fish. 15:191-198. DOI 10.1007/s11160-005-5138-7

Hyun, S-Y, R Hilborn, J Anderson, B Ernst. 2005. A statistical model for in-season forecasts of sockeye salmon (Oncorhynchus nerka) returns to the Bristol Bay districts of Alaska. Can. J. Aquat. Fish. Sci. 62:1665-1680. doi: 10.1139/F05-071

Meehan, EP, EE Seminet-Reneau, TP Quinn. 2005. Bear predation on Pacific salmon facilitates colonization of carcasses by fly maggots. Am. Midl. Nat. 153:142-151. doi: 10.1674/0003-0031(2005)153[0142:BPOPSF]2.0.CO;2

Payne, L.X., D.E. Schindler, J.K. Parrish, and S.A. Temple. 2005. Quantifying spatial patterns with heterogeneity indices. Ecological Applications15: 507-520. doi:10.1890/03-5029

Quinn, TP. 2005. The Behavior and Ecology of Pacific Salmon and Trout. Univ. Washington Press, Seattle. 378 p.

Robins, JB, CA Abrey, TP Quinn, DE Rogers. 2005.  Lacustrine growth of juvenile pink salmon and a comparison with sympatric sockeye salmon. J. Fish Biol. 66:1671-1680. doi:10.1111/j.1095-8649.2005.00713.x

Schindler, DE, PR Leavitt, CS Brock, SP Johnson, PD Quay. 2005. Marine-derived nutrients, commercial fisheries, and production of salmon and lake algae in Alaska. Ecology 86:3225-3231. doi:10.1890/04-1730

Schindler, DE, DE Rogers, MD Scheuerell, CA Abrey. 2005. Effects of changing climate on zooplankton and growth of juvenile sockeye salmon in southwestern Alaska. Ecology 86:198-209. doi:10.1890/03-0408

Sethi G., Costello C, Fisher A, Haneman M, and Karp, L. 2005. Fishery management under multiple uncertainty. Journal of Environmental Economics & Management. 50(2):300-318. doi:10.1016/j.jeem.2004.11.005

Sharma, R, AB Cooper, R Hilborn. 2005. A quantitative framework for the analysis of habitat and hatchery practices on Pacific salmon. Ecol. Model. 183:231-250. doi:10.1016/j.ecolmodel.2004.07.029

de Valpine, P, R Hilborn. 2005. State-space likelihoods for nonlinear fisheries time-series. Can. J. Fish. Aquat. Sci. 62:1937-1952. doi: 10.1139/F05-116

Walters, CJ, R Hilborn. 2005. Exploratory assessment of historical recruitment patterns using relative abundance and catch data.  Can. J. Fish. Aquat. Sci. 62:1985-1990. doi: 10.1139/F05-105

Winder M, Schindler DE, Moore JW, SP Johnson, WJ Palen. 2005. Do bears facilitate transfer of salmon resources to aquatic macroinvertebrates? Can. J. Fish. Aquat. Sci. 62:2285-2293. doi: 10.1139/F05-136

 

2004

Boatright, C, T Quinn, R Hilborn. 2004. Timing of adult migration and stock structure for sockeye salmon in Bear Lake, Alaska.  Trans. Am. Fish. Soc. 133:911-921. doi: 10.1577/T03-142.1

Browman, HI, PM Cury, R Hilborn, S Jennings, HK Lotze, PM Mace, S Murawski, D Pauly, M Sissenwine, KI Stergiou, D Zeller. 2004. Perspectives on ecosystem-based approaches to the management of marine resources.  Mar. Ecol. Prog. Ser. 274:269-303. DOI: 10.3354/meps274269

Carlson, SM, HB Rich, Jr, TP Quinn. 2004. Reproductive life-span and sources of mortality for alternative male life-history strategies in sockeye salmon, Oncorhynchus nerka. Can. J. Zool. 82:1878–1885. doi: 10.1139/Z04-189

Flynn, L, R Hilborn. 2004. Test fishery indices for sockeye salmon (Oncorhynchus nerka) as affected by age composition and environmental variables. Can. J. Fish. Aquat. Sci. 61:80-92. doi: 10.1139/F03-142

Gende, SM, TP Quinn, R Hilborn, AP Hendry, B Dickerson. 2004. Brown bears selectively kill salmon with higher energy content but only in habitats that facilitate choice. Oikos 104:518-528. DOI: 10.1111/j.0030-1299.2004.12762.x

Gende, SM, TP Quinn. 2004. The relative importance of prey density and social dominance in determining energy intake by bears feeding on Pacific salmon.  Can. J. Zool. 82: 75-85. doi: 10.1139/Z03-226

Gende, SM, TP Quinn, MF Willson, R Heintz, TM Scott.  2004. Magnitude and fate of salmon-derived nutrients and energy in a coastal stream ecosystem. J. Freshwat. Ecol. 19:149-160. DOI: 10.1080/02705060.2004.9664522

Moore, JW, DE Schindler. 2004. Nutrient export from freshwater ecosystems by anadromous sockeye salmon (Oncorhynchus nerka). Can. J. Aquat. Fish. Sci. 61:1582-1589. doi: 10.1139/F04-103

Moore, JW, DE Schindler, and MD Scheuerell.  2004.  Disturbance of freshwater habitats by anadromous salmon in Alaska. Oecologia 139:298-308. DOI 10.1007/s00442-004- 1509-3

Schindler, DE, S Lubetkin. 2004. The use of stable isotopes to quantify nutrient and material transport by organisms. Pages 25-42 in GA Polis, ME Power, G Huxel (eds), Food webs at the landscape level.  Oxford Univ. Press.

Stewart, IJ, SM Carlson, CP Boatright, GB Buck, TP Quinn. 2004. Site fidelity of spawning sockeye salmon (Oncorhynchus nerka W.) in the presence and absence of olfactory cues. Ecol. Freshwat. Fish 13:104–110. DOI: 10.1111/j.1600-0633.2004.00044.x

Vanni, MJ, DL DeAngelis, DE Schindler, GA Huxel. 2004. Fluxes of nutrients and detritus across habitats. Pages 3-11 in GA Polis, ME Power, G Huxel (eds), Food webs at the landscape level. Oxford Univ. Press.