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NOAA Fisheries Northwest Science Center Scientific Publications

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In pressJournal ArticleConservation BiologyBrainard, R. E., C. Birkeland, C. M. Eakin, P. McElhany, M. Patterson, G. A. Piniak, M. Dunlap, M. Weijerman. In press. Incorporating Climate and Ocean Change into Extinction Risk Assessments for 82 Coral Species. Conservation Biology.
In pressJournal ArticleFish EcologyThallman, H. L., E. A. Daly, R. D. Brodeur. In press. Two anomalously warm years in the northern California Current: impacts on early marine steelhead diet composition, morphology, and potential survival. Transactions of the American Fisheries Society.
In pressJournal Article

Arkoosh, M. R., J. Dietrich, M. B. Rew, W. Olson, G. Young, and F. W. Goetz. 2018. Exploring the efficacy of vaccine techniques in juvenile sablefish, Anoplopoma fimbria. Aquaculture Research, 49:205-216

In pressJournal ArticleConservation BiologyHess, J. E., R. D. Vetter, P. Moran. In press. A steep genetic cline in yellowtail rockfish, Sebastes flavidus, suggests regional isolation across the Cape Mendocino faunal break. Canadian Journal of Fisheries and Aquatic Sciences.
In pressJournal ArticleConservation BiologyWilliamson, K. S., B. P. May. In press. Mitochondrial DNA haplotype diversity in apparent XY-female Fall- and Spring-Run Chinook Salmon in California's Central Valley. Transactions of the American Fisheries Society.
In pressJournal ArticleConservation BiologyCharnley, S., R. McLain, M. R. Poe. In press. Natural Resource Access Rights and Wrongs: Nontimber Forest Products Gathering in Urban Environments. Society & Natural Resources.
In pressJournal ArticleFish EcologySwieca, K., S. Sponaugle, C. Briseño-Avena, M. Schmid, R. D. Brodeur, R. Cowen. In press. Changing with the tides: fine-scale larval fish prey availability and predation pressure near a tidally-modulated river plume. Marine Ecology Progress Series.
In pressChapter or SectionSchultz, I. R., J. L. Bolton, R. Stimmelmayr, G. M. Ylitalo. In press. Chapter 37: Contaminants. In George, J., J. Thewissen. (Eds.) The Bowhead Whale. Balaena mysticetus: Biology and Human Interactions. Academic Press (Elsevier).
In pressJournal Article

Ecotoxicol Environ Saf. 2017 Aug;142:157-163. doi: 10.1016/j.ecoenv.2017.03.044. Epub 2017 Apr 11

In pressJournal ArticleArkoosh, M. R., A. L. Van Gaest, S. A. Strickland, G. P. Hutchinson, A. B. Krupkin, J. P. Dietrich. In press. Disruption of thyroid hormone concentrations in juvenile Chinook salmon (Oncorhynchus tshawytscha) exposed to polybrominated diphenyl ethers, BDE-47 and BDE-99. Chemosphere , 171 : 1-8. doi:DOI: 10.1016/j.chemosphere.2016.12.035
In pressReportFish EcologyTorgersen, C. E., A. H. Fullerton, Z. Johnson, F. H. Mejia. In press. Stream temperature handbook: a primer on data and models. Northwest Climate Adaptation Science Center. Seattle (https://cig.uw.edu/our-work/decision-support/stream-temperature-handbook/)
In pressJournal ArticleConservation BiologyWiedenmann, J., J. Wilen, P. S. Levin, M. Plummer, M. Mangel. In press. A framework for exploring the bioeconomic causes and consequences of ecosystem fishing patterns. Coastal Management.
In pressJournal ArticleArkoosh, M. R., A. L. Van Gaest, S. A. Strickland, G. P. Hutchinson, A. B. Krupkin, M. Rew, J. P. Dietrich. In press. Dietary exposure to a binary mixture of polybrominated diphenyl ethers alters innate immunity and disease susceptibility in juvenile Chinook salmon (Oncorhynchus tshawytscha). Ecotoxicology and Environmental Safety.
In pressJournal ArticleFish EcologyCrozier, L. G., B. J. Burke, B. Chasco, D. L. Widener, R. W. Zabel. In press. Climate change threatens Chinook salmon throughout their life cycle. Communications Biology.
In pressJournal ArticleFishery Resource Analysis and MonitoringLangseth, B. J., S. Glover. In press. Distinguishing species-specific targeting practices within the main Hawaiian islands Deep 7 bottomfish fishery. Fisheries Research.
In pressJournal ArticleConservation BiologyFaber-Hammond, J., R. B. Phillips, L. K. Park. In press. The Sockeye Salmon Neo-Y Chromosome is a Fusion between the Coho Y Chromosome and the Long Arm of Rainbow Trout Omy2. Cytogenetic and genome research , 136 (1) : 69-74.
In pressJournal ArticleLeising, A., I. D. Schroeder, S. J. Bograd, E. P. Bjorkstedt, J. Field, K. Sakuma, J. Abell, R. R. Robertson, J. Tyburczy, W. T. Peterson, R. D. Brodeur, C. Barcelo, T. D. Auth, E. A. Daly, G. Campbell, J. Hildebrand, R. M. Suryan, A. J. Gladics, C. A. Horton, M. Kahru, M. Manzano-Sarabia, S. McClatchie, E. D. Weber, W. Watson, J. A. Santora, W. J. Sydeman, S. R. Melin, R. DeLong, J. L. Largier, S. Kim, F. P. Chavez, R. Golightly, S. R. Schneider, P. Warzybok, R. W. Bradley, J. Jahncke, J. L. Fisher, J. O. Peterson. In press. State of the California Current 2013-14: El Niño looming. California Cooperative Oceanic Fisheries Investigations Reports , 54 : 51-87.
In pressJournal ArticleLema, S. C., M. I. Chow, E. J. Reiner, A. A. Westman, A. H. Dittman, D. May, K. M. Hardy. In press. Endocrine and metabolic impacts of warming aquatic habitats: differential responses between recently-isolated populations of a eurythermal desert pupfish. Conservation Physiology.
In pressJournal ArticleFish EcologyAngert, A. L., L. G. Crozier, L. J. Rissler, S. E. Gilman, J. J. Tewksbury, A. J. Chunco. In press. Do species traits predict recent shifts at expanding range edges? Ecology Letters , (14) 677-689.
In pressJournal ArticleDai, X., B. D. Bill, N. G. Adams, U. Tillmann, C. A. Sloan, D. Lu, V. L. Trainer. In press. The effect of temperature and salinity on growth rate and azaspiracid concentration in two strains of Azadinium poporum (Dinophyceae) from Puget Sound, Washington State. Harmful Algae.
In pressReportFish EcologyKatz, S. L., H. Beecher, M. Brady, J. Cook, K. K. Gates, J. Padowski, G. R. Pess, M. D. Scheuerell, J. Yoder. In press. Technical Supplement to Department of Ecology for Determining Net Ecological Benefit. Washington Department of Ecology, Olympia, Washington
In pressJournal ArticleFish EcologyChamberlin, J. W., J. Hall, T. Zackey, F. E. Leonetti, M. Rustay, C. A. Rice. In press. Spatial and Temporal Variability in Chinook Salmon Abundance Reflects Opportunity to Support Life History Diversity in an Estuarine Landscape. Estuaries and Coasts.
In pressJournal ArticleConservation BiologyNaish, K. A., R. B. Phillips, M. S. Brieuc, L. Newton, A. Elz, L. K. Park. In press. Comparative genome mapping between Chinook salmon (Oncorhynchus tshawytscha) and rainbow trout (O. mykiss) based on homologous microsatellite loci. Genes, Genomes, Genetics , 3 (12) : 2281-2288. doi:10.1534/g3.113.008003
In pressJournal ArticleKeogh, M. J., B. Taras, K. B. Beckmen, K. A. Burek-Huntington, G. M. Ylitalo, B. S. Fadely, L. Rea, K. W. Pitcher. In press. Organochlorine contaminant concentrations in blubber of young Steller sea lion (Eumetopias jubatus) are influenced by region, age, sex, and lipid stores. Science of the Total Environment.
In pressJournal ArticleEbel, J. D., D. A. Larsen, K. R. Conley, M. A. Middleton. In press. A fish out-of-basin: Increased stress physiology and reduced performance of Salmon River hatchery Chinook Salmon. North American Journal of Fisheries Management.
In pressJournal ArticleConservation Biology

Berger, H.M., Siedlecki, S.A., Matassa, C.M., Alin, S.R., Kaplan, I.C., Hodgson, E.E., Pilcher, D.J., Norton, E.L. and Newton, J.A., 2021. Seasonality and life history complexity determine vulnerability of Dungeness crab to multiple climate stressors. AGU Advances, 2(4), p.e2021AV000456.

In pressJournal ArticleConservation BiologyLeong, K., S. Wongbusarakum, R. J. Ingram, A. Mawyer, M. R. Poe. In press. Improving Representation of Human Well-Being and Cultural Importance in the West Hawai¿i Integrated Ecosystem Assessment. Frontiers in Ecology and the Environment.
In pressJournal ArticleConservation BiologyFraik, A. K., J. R. McMillan, M. Liermann, T. R. Bennett, M. L. McHenry, G. J. McKinney, G. A. Winans, A. H. Wells, J. L. Kelley, G. R. Pess, K. M. Nichols. In press. The impacts of dam construction and removal on the genetics of recovering steelhead (Oncorhynchus mykiss) populations across the Elwha River watershed. Gene.
In pressJournal ArticleFishery Resource Analysis and MonitoringGao, J., J. T. Thorson, C. Szuwalski, H. Wang. In press. Historical dynamics of the demersal fish community in the East and South China Seas. PLoS ONE.
In pressJournal ArticleConservation BiologyMurdoch, A. R., C. J. Herring, C. H. Frady, K. E. See, C. E. Jordan. In press. Estimating observer error and steelhead redd abundance using a modified Gaussian area-under-the-curve framework. Canadian Special Publication of Fisheries and Aquatic Sciences.
2024Journal ArticleEcosystem Analysis ProgramGomes, D.G.E., Ruzicka, J.J., Crozier, L.G., Huff, D. D., Brodeur, R. D. and Stewart, J. D. 2024. Marine heatwaves disrupt ecosystem structure and function via altered food webs and energy flux. Nat Commun 15, 1988. https://doi.org/10.1038/s41467-024-46263-2 (https://doi.org/10.1038/s41467-024-46263-2)
2024Journal ArticleIntegrated Fisheries Stock AssessmentCope, J.M., 2024. The good practices of practicable alchemy in the stock assessment continuum: Fundamentals and principles of analytical methods to support science-based fisheries management under data and resource limitations. Fisheries Research 270, 106859. https://doi.org/10.1016/j.fishres.2023.106859 (https://www.sciencedirect.com/science/article/pii/S0165783623002527?via%3Dihub)
2024Journal ArticleFish Ecology DivisionVeggerby KB, Scheuerell MD, Sanderson BL and Kiffney PM (2024) Stable isotopes reveal intertidal fish and crabs use bivalve farms as foraging habitat in Puget Sound, Washington. Front. Mar. Sci. 10:1282225. doi: 10.3389/fmars.2023.1282225 (doi: 10.3389/fmars.2023.1282225)
2024Journal ArticleEcosystem Analysis ProgramGomes, D. G. E., et al. (2024). "An updated end-to-end ecosystem model of the Northern California Current reflecting ecosystem changes due to recent marine heatwaves." PLOS ONE 19(1): e0280366. (10.1371/journal.pone.0280366)
2024Journal ArticleMolecular GeneticsKim Parsons,Charles Nye,C. Scott Baker 2024. Stock origin of an entangled killer whale identified using remnant mtDNA. , 50 : 45-50. (https://www.aquaticmammalsjournal.org/wp-content/uploads/2024/01/50.1_Nye.pdf)
2024Contract ReportFish Ecology DivisionFrick, K. E., and A. N. Kagley. 2024. Naval Station Everett East Waterway Fish Presence and Shoreline Use, 2020-22. U.S. Department of Commerce, NOAA Contract Report NMFS-NWFSC-CR-2024-02. (https://doi.org/10.25923/g2ac-xm81)
2024ReportFishery Resource Analysis and Monitoring DivisionRicherson, K. E., K. A. Somers, V. J. Tuttle, N. B. Riley, and J. T. McVeigh. 2024. Observed and Estimated Bycatch of Salmon in U.S. West Coast Fisheries, 2002¿22. U.S. Department of Commerce, NOAA Data Report NMFS-NWFSC-DR-2024-01. (https://doi.org/10.25923/s867-fr13)
2024Journal ArticleMathematical Biology and Systems Monitoring ProgramSara Gilk-Baumer,Caroline Graham,Kathrine Howard,Eric Rondeau,Mark Saunders,Aidan Schubert,Don Vandoornik,Bernard Yang,Andrew Barclay,Richard Beamish,Jacquelynne King,Laurie Weitkamp,Ed Farley,Cameron Freshwater,James Murphy,Chrys Neville,Evgeny Pakhomov,Vladimir Radchenko,Brian Riddell 2024. Highlights of the 2022 IYS Pan-Pacific Winter Expedition..
2024Journal ArticleFisheries Enhancement and Conservation ProgramMalick, M.J., Hunsicker, M., Haltuch, M.A., Parker-Stetter, S.L., Marshall, K.N., Pohl, J., Berger, A.M., Siedlecki, S., Gauthier, S., and Hermann, A. 2024. Spatially-varying effects of the California Undercurrent on Pacific hake distribution. Canadian Journal of Fisheries and Aquatic Sciences 81(2): 154¿165. doi:10.1139/cjfas-2023-0202. (10.1139/cjfas-2023-0202)
2024Journal ArticleEcosystem Analysis ProgramSorel, M., Jorgensen, J.C., Zabel, R.W., Scheuerell, M.D., Murdoch, A.R., Kamphaus, C. and Converse, S.J., 2024. Incorporating life history diversity in an integrated population model to inform viability analysis. Canadian Journal of Fisheries and Aquatic Sciences. e-First http://dx.doi.org/10.1139/cjfas-2023-0118 (http://dx.doi.org/10.1139/cjfas-2023-0118)
2024Journal ArticleEnvironmental and Fisheries Sciences DivisionSpromberg, J.A., Allan, S.E., and Scholz, N.L. (2024). Modeling potential population-level impacts of future oil spills on Pacific herring stocks in Puget Sound. Human and Ecological Risk Assessment, doi.org/10.1080/10807039.2023.2301529. (https://doi.org/10.1080/10807039.2023.2301529)
2024Journal ArticleConservation Biology DivisionGolden, A.S., Baskett, M.L., Holland, D., Levine, A., Mills, K. and Essington, T., 2024. Climate adaptation depends on rebalancing flexibility and rigidity in US fisheries management. ICES Journal of Marine Science, 81(2), pp.252-259. (https://doi.org/10.1093/icesjms/fsad189)
2024Journal ArticleFish Ecology DivisionVeggerby, K., MD Scheuerell, BL Sanderson, P Kiffney and B Ferriss. 2024. Shellfish aquaculture farms as foraging habitat for nearshore fishes and crabs. Marine and Coastal Fisheries, 16:e10282. https://doi.org/10.1002/mcf2.10282 (https://doi.org/10.1002/mcf2.10282)
2024Journal ArticleConservation Biology DivisionFairfax, E., Whipple, A., Wheaton, J.M., Osorio, B., Miller, J., Kirksey, K., Perez, N., Gilbert, J.T., and Jordan, C.E., 2024, Impacts of beaver dams on riverscape burn severity during megafires in the Rocky Mountain region, western United States, in Florsheim, J.L., O¿Dowd, A.P., and Chin, A., eds., Biogeomorphic Responses to Wildfire in Fluvial Ecosystems: Geological Society of America Special Paper 562, p. 131¿151, https://doi.org/10.1130/2024.2562(07). (https://doi.org/10.1130/2024.2562(07))
2024Contract ReportEcosystem Analysis ProgramLamb, J. J., B. P. Sandford, G. A. Axel, S. G. Smith, and M. G. Nesbit. 2024. Monitoring the Migrations of Wild Snake River Spring/Summer Chinook Salmon Juveniles: Survival and Timing, 2023. U.S. Department of Commerce, NOAA Contract Report NMFS-NWFSC-CR-2024-01. (https://doi.org/10.25923/0034-k407)
2024Journal ArticleEnvironmental Physiology ProgramBersin, T.V., Cordova, K.L., Saenger, E.K., Journey, M.L., Beckman, B.R., and Lema, S.C. 2023. Nutritional status affects Igf1 regulation of skeletal muscle myogenesis, myostatin, and myofibrillar protein degradation pathways in gopher rockfish (Sebastes carnatus). Mol. Cell. Endocrinol. 573: 111951 (https://doi.org/10.1016/j.mce.2023.111951)
2024Journal ArticleEnvironmental Physiology ProgramBersin, T.V., Cordova, K.L., Journey, M.L., Beckman, B.R., and Lema, S.C. 2023. Food deprivation reduces sensitivity of liver Igf1 synthesis pathways to GH stimulation in juvenile gopher rockfish (Sebastes carnatus). Gen Comp. Endocrinol. 346:114404 (https://doi.org/10.1016/j.ygcen.2023.114404 Get rights and content)
2024Book or book chapterEnvironmental and Fisheries Sciences DivisionYamamoto, Y. and J.A. Luckenbach (in press). Sex determination and gonadal sex differentiation. In: Alderman, S.L. and Gillis, T. (Eds.), Encyclopedia of Fish Physiology, Second Edition. Chapter 3. Elsevier. https://doi.org/10.1016/B978-0-323-90801-6.00052-5.
2024Technical MemorandumConservation Biology DivisionOC and SONCC Status Review Team. 2023. Biological Status of Oregon Coast and Southern Oregon/Northern California Coastal Chinook Salmon: Report of the Status Review Team. U.S. Department of Commerce, NOAA Technical Memorandum NMFS-NWFSC-189. (https://doi.org/10.25923/0htj-5q59)
2023Journal ArticleOffice of the Science Director DivisionWaples, R. S., and T. E. Reed. 2023. Null Models for the Opportunity for Selection. American Naturalist 201:779-793 (https://doi.org/10.1086/723889)