Environmental Drivers

Batten, S.D., Moffitt, S., Pegau, W.S., and Campbell, R. 2016. Plankton indices explain interannual variability in Prince William Sound herring first year growth. Fisheries Oceanography 25(4): 420-432.
Coyle, K. O., G. A. Gibson, K. Hedstrom, A. J. Hermann, and R. R. Hopcroft. 2013. Zooplankton biomass, advection and production on the northern Gulf of Alaska shelf from simulations and field observations. Journal of Marine Systems 128:185-207.
Coyle, K. O., W. Cheng, S. Hinckley, E. J. Lessard, T. Whitledge, A. J. Hermann, and K. Hedstrom. 2012. Model and field observations of effects of circulation on the timing and magnitude of nitrate utilization and production on the northern Gulf of Alaska shelf. Progress in Oceanography 103:16-41.
Coyle, K.O., A.J. Hermann, and R.R. Hopcroft. 2019. Modeled spatial-temporal distribution of productivity, chlorophyll, iron and nitrate on the northern Gulf of Alaska shelf relative to field observations. Deep Sea Research Part II: Topical Studies in Oceanography.
Crusius, J., A.W. Schroth, J.A. Resing, J. Cullen, and R.W. Campbell. 2017. Seasonal and spatial variabilities in the northern Gulf of Alaska surface water iron concentrations driven by shelf sediment resuspension, glacial meltwater, a Yakutat eddy, and dust. Global Biogeochemical Cycles.
Doubleday, A. J. and R. R. Hopcroft. 2015. Seasonal and interannual patterns of larvaceans and pteropods in the coastal Gulf of Alaska, and their relationship to pink salmon survival. Journal of Plankton Research 37:134-150.
Doyle, M.J., S.L. Strom, K.O. Coyle, A.J. Hermann, C. Ladd, A.C. Matarese, S.K. Shotwell, and R.R.Hopcroft. 2019. Early life history phenology among Gulf of Alaska fish species: Strategies, synchronies, and sensitivities. Deep Sea Research Part II: Topical Studies in Oceanography.
Ershova, E. A., J. M. Questel, K. N. Kosobokova, and R. R. Hopcroft. 2017. Population structure and production of four sibling species of Pseudocalanus spp. in the Chukchi Sea. Journal of Plankton Research 39:48-64.
Helser, T., C. Kastelle, A. Crowell, T. Ushikubo, I.J. Orland, R. Kozdon, and J.W. Valley. 2017. A 200-year archaeozoological record of Pacific cod (Gadus macrocephalus) life history as revealed through ion microprobe oxygen isotope ratios in otoliths. Journal of Archaeological Science: Reports.
Howes, E. L., N. Bednaršek, J. Büdenbender, S. Comeau, A. Doubleday, S. M. Gallager, R. R. Hopcroft, S. Lischka, A. E. Maas, J. Bijma, and J.-P. Gattuso. 2014. Sink and swim, a status review of thecosome pteropod culture techniques. Journal of Plankton Research 36:299-315.
Kayal, E., B. Bentlage, P. Cartwright, A. A. Yanagihara, D. J. Lindsay, R. R. Hopcroft, and A. G. Collins. 2015. Phylogenetic analysis of higher-level relationships within Hydroidolina (Cnidaria: Hydrozoa) using mitochondrial genome data and insight into their mitochondrial transcription. PeerJ 3:e1403.
Li, K. Z., A. J. Doubleday, M. D. Galbraith, and R. R. Hopcroft. 2016. High abundance of salps in the coastal Gulf of Alaska during 2011: a first record of bloom occurrence for the northern Gulf. Deep Sea Research Part II 132:136-145.
Nigro, L. M., M. V. Angel, K. Blachowiak-Samolyk, R. R. Hopcroft, and A. Bucklin. 2016. Identification, discrimination, and discovery of species of marine planktonic ostracods using DNA barcodes. PLoS-One 11:e0146327.
Olson, A.P., C.E. Siddon, and G.L. Eckert. 2018. Spatial variability in size at maturity of golden king crab (Lithodes aequispinus) and implications for fisheries management. Royal Society Open Science. 5.
Questel, J. M., R. R. Hopcroft, L. Blanco-Bercial, and A. Bucklin. 2016. Phylogeography and connectivity of the Pseudocalanus (Copepoda: Calanoida) species complex in the eastern North Pacific and the Pacific Arctic Region. Journal of Plankton Research 38:610-623.
Roncalli, V., M. C. Cieslak, S. A. Sommer, R. R. Hopcroft, and P. H. Lenz. 2018. De novo transcriptome assembly of the calanoid copepod Neocalanus flemingeri: A new resource for emergence from diapause. Mar. Gen. 37: 114-119.
Roncalli, V., S. A. Sommer, M. C. Cieslak, C. Clarke, R. R. Hopcroft, and P. H. Lenz. 2018. Physiological characterization of the emergence from diapause: A transcriptomics approach. Nature Sci. Rep. 8:12577
Schroth, A.W., J. Crusius, S. Gassó, C.M. Moy, N.J. Buck, J.A. Resing, and R.W. Campbell. 2017. Atmospheric deposition of glacial iron in the Gulf of Alaska impacted by the position of the Aleutian Low. Geophys. Res. Lett. 44.
Sousa, L., K. O. Coyle, R. P. Barry, T. J. Weingartner, and R. R. Hopcroft. 2016. Climate-related variability in abundance of mesozooplankton in the northern Gulf of Alaska 1998-2009. Deep Sea Research Part II 132:122-135.
Stabeno, P. J., S. Bell, W. Cheng, S. Danielson, N. B. Kachel, and C. W. Mordy. 2016. Long-term observations of Alaska Coastal Current in the northern Gulf of Alaska. Deep Sea Research Part II 132:24-40.
Strom, S. L., K. A. Fredrickson, and K. J. Bright. 2016. Spring phytoplankton in the eastern coastal Gulf of Alaska: Photosynthesis and production during high and low bloom years. Deep-Sea Research II 132:107-121.
Vandersea, M. W., S. R. Kibler, P. A. Tester, K. Holderied, D. E. Hondolero, K. Powell, S. Baird, A. Doroff, D. Dugan, and R. W. Litaker. 2018. Environmental factors influencing the distribution and abundance of Alexandrium catenella in Kachemak Bay and lower Cook Inlet, Alaska. Harmful Algae, 77:81-92.
Walsh, J. R., R. Thoman, U. S. Bhatt, P. A. Bieniek, B. Brettschneider, M. Brubaker, S. Danielson, R. Lader, F. Fetterer, K. Holderied, K. Iken, A. Mahoney, M. McCammon, and J. Partain. 2018. The high latitude marine heat wave of 2016 and its impacts on Alaska [in “Explaining Extreme Events of 2016 from a Climate Perspective”]. Bull. Amer. Meteor. Soc. 99 (1). S39-43.

Historic Data Synthesis

Anderson, S. C., E. J. Ward, A. O. Shelton, M. D. Adkison, A. H. Beaudreau, R. E. Brenner, A. C. Haynie, J. C. Shriver, J. T. Watson, and B. C. Williams. 2017. Benefits and risks of diversification for individual fishers. Proceedings of the National Academy of Sciences of the United States of America. 114:10797-10802.
Beaudreau, A.H., E.J. Ward, R.E. Brenner, A.O. Shelton, J.T. Watson, J.C. Womack, S.C. Anderson, A.C. Haynie, K.N. marshall, and B.C. Williams. 2019. Thirty years of change and the future of Alaskan fisheries: Shifts in fishing participation and diversification in response to environmental regulatory and economic pressures. Fish and Fisheries.
Blake, R. et al. in review. Environmental heterogeneity and conserved community architecture drive spatial patterns of diversity across the Gulf of Alaska large marine ecosystem. Marine Ecology Progress Series, in review
Himes-Cornell, A., C. Ormond, K. Hoelting, N. C. Ban, J. Z. Koehn, E. Allison, E. C. Larson, D. H. Monson, H. P. Huntington, T. Okey. 2019. Factors affecting disaster preparedness, response and recovery in the context of the Community Capitals Framework. Coastal Management 46 (5):335-358.
Marshall, K.N., J.T. Duffy-Anderson, E.J. Ward, S.C. Anderson, M.E. Hunsicker, and B.C. Williams. 2019. Long-term trends in ichthyoplankton assemblage structure, biodiversity, and synchrony in the Gulf of Alaska and their relationships to climate. Progress in Oceanography 170:134-145.
Shelton, A. O., M. E. Hunsicker, E. J. Ward, B. Feist, C. L. Ward, B. Williams, J. T. Anderson, A. B. Hollowed, and A. C. Haynie, In press. Spatial and temporal patterns in demersal fish communities following Exxon Valdez. ICES Journal of Marine Science 75:287-297.
Ward, E. J., M. Adkison, J. Couture, M. Dressel, M. Litzow, S. Moffitt, T. Hoem Neher, J. Trochta, and R. Brenner. 2017. Evaluating signals of climate, oil spill impacts, and interspecific interactions in Pacific salmon and Pacific herring populations in Prince William Sound and Copper River, Alaska. PLoS ONE 12(3): e0172898.
Ward, E. J., S. C. Anderson, A. O. Shelton, R. Brenner, J. Watson, J. C. Shriver, A. H. Beaudreau, A. C. Haynie, M. Adkison, B. Williams. In press. Effects of increased specialization on revenue of Alaskan salmon fishers over four decades. Journal of Applied Ecology. DOI: 10.1111/1365-2664.13058
Ward, E.J., H. Delgado-Nordmann, R.E. Brenner, A.H. Beaudreau, S.D. Moffitt, A.O. Shelton. 2019. Assessing long-term changes in sex rations of Pacific herring in Prince William Sound, Alaska. Fisheries Research 211:300-308.
Zador, S. G. S. K. Gaichas, S. Kasperski, C. L. Ward, R. E. Blake, N. C. Ban, A. Himes-Cornell, and Z. Koehn. 2017. Linking ecosystem processes to communities of practice through commercially fished species in the Gulf of Alaska. ICES Journal of Marine Science.

Lingering Oil

Carls MG, Holland L, Irvine GV, Mann DH, Lindeberg M. 2016. Biomarkers as tracers of Exxon Valdez oil. Environmental Toxicology and Chemistry 35(11):2683-2690
Carls MG, Holland L, Pihl E, Zaleski MA, Moran J, Rice SD. 2016. Polynuclear aromatic hydrocarbons in Port Valdez shrimp and sediment. Arch Environ Contam Toxicol 71:48-59.
Carls MG, Larsen ML, Holland LG. 2015. Spilled oils: static mixtures or dynamic weathering and bioavailability? PLOS ONE.
Carls MG, Vanderhoof L, Shaufler L. Submitted. Carbonate cycling in a north temperate fjord.


Sethi, SA and Hollmen, TE. 2015. Conceptual Models for Marine and Freshwater Systems in Alaska: Flexible Tools for Research Planning, Prioritization and Communication + Supplementary Appendices (See Article Tools). Arctic 68(4): 422–434.


Ballachey, B. E., J.L. Bodkin, and D.H. Monson. 2013. Quantifying long-term risks to sea otters from the 1989 Exxon Valdez oil spill: Reply to Harwell & Gentile (2013). Marine Ecology Progress Series 488:297-301.
Ballachey, B.E. and J.L. Bodkin. 2015. Challenges to sea otter recovery and conservation. Chapter 4 in Larson SE, Bodkin JL, VanBlaricom GR., Eds. Sea Otter Conservation. Academic Press, Boston. Pp 63-96
Ballachey, B.E., J.L. Bodkin, D. Esler and S.D. Rice. 2014. Lessons from the 1989 Exxon Valdez oil spill: a biological perspective. In: J.B. Alford, M.S. Peterson and C.C. Green, Eds. Impacts of Oil Spill Disasters on Marine Habitats and Fisheries in North America. CRC Marine Biology Series. Pp. 181-198.
Bodkin, J.L. 2015. Historic and Contemporary Status of Sea Otters in the North Pacific. Chapter 3 in Larson SE, Bodkin JL, VanBlaricom GR, Eds. Sea Otter Conservation. Academic Press, Boston. Pp 43-61
Bodkin, J.L., D. Esler, S.D. Rice, C.O. Matkin, and B.E. Ballachey. 2014. The effects of spilled oil on coastal ecosystems: lessons from the Exxon Valdez spill. In: B. Maslo and J.L. Lockwood, Eds. Coastal Conservation. Cambridge University Press. Pp. 311-346.
Bowen, L., A. K. Miles, B. Ballachey, S. Waters and J. Bodkin. 2016. Gene transcript profiling in sea otters post-Exxon Valdez oil spill: A tool for marine ecosystem health assessment. J. Mar. Sci. Eng. 4, 39.
Bowen, L., K. Counihan, B. Ballachey, H. Coletti, T. Hollmen, and B. Pister. In Prep. Physiological and gene expression in razor clams (Siliqua patula). ICES Journal of Marine Science, in prep
Coletti, H.A., J.L. Bodkin, D.H. Monson, B.E. Ballachey, and T.A. Dean. 2016. Detecting and inferring cause of change in an Alaska nearshore marine ecosystem. Ecosphere 7(10):e01489.
Counihan, K., L. Bowen, B. Ballachey, H. Coletti, T. Hollmen, and B. Pister. In Prep. Physiological and gene transcription assays in combinations: a new paradigm for marine intertidal assessment. ICES Journal of Marine Science, in prep
Davis, R., J.L. Bodkin, H.A. Coletti, D.H. Monson, S.E. Larson, L.P. Carswell, and L.M. Nichol. 2019. Future direction in sea otter research and management. Frontiers in Marine Science 5:510.
Esler, D., B.E. Ballachey, L. Bowen, A.K. Miles, R.D. Dickson, and J.D. Henderson. 2016. Cessation of oil exposure in harlequin ducks after the Exxon Valdez oil spill: cytochrome P4501A biomarker evidence. Environmental Toxicology and Chemistry.
Konar, B., K. Iken, H. Coletti, D. Monson, and B. Weitzman. 2016. Influence of static habitat attributes on local and regional rocky intertidal community structure. Estuaries and Coasts.
Monson, D.H. and L. Bowen. 2015. Evaluating the Status of Individuals and Populations: Advantages of Multiple Approaches and Time Scales. Chapter 6 in Larson SE, Bodkin JL, VanBlaricom GR, Eds. Sea Otter Conservation. Academic Press, Boston. Pp 121-158.
Newsome, S.D, M.T. Tinker, V.A. Gill, Z.N. Hoyt, A. Doroff, L.Nichol and J.L. Bodkin. 2015. The interaction of intraspecific competition and habitat on individual diet specialization: a near range-wide examination of sea otters. Oecologia 178:45-59.
Robinson, B. H., H. A. Coletti, L. M. Phillips, and A. N. Powell. 2018. Are prey remains accurate indicators of chick diet? A comparison of diet quantification techniques for Black Oystercatchers. Wader Study 125(1): 00–00.
Traiger S, Konar B, Doroff A, McCaslin L. 2016. Sea otters versus sea stars as major clam predators: evidence from foraging pits and shell litter. Marine Ecology Progress Series 560:73-86.
von Biela, V. R., C. E. Zimmerman, G. H. Kruse, F. J. Mueter, B. A. Black, D. C. Douglas, and J. L. Bodkin. 2016. Influence of basin- and local-scale environmental conditions on nearshore production in the Northeast Pacific Ocean. Marine and Coastal Fisheries 8:502-521.
von Biela, V. R., S. D. Newsome, and C. E. Zimmerman. 2015. Examining the utility of bulk otolith δ13C to describe diet in wild-caught black rockfish Sebastes melanops. Aquatic Biology 23:201-208.
von Biela, V.R., G.H. Kruse, F.J. Mueter, B.A. Black, D.C. Douglas, T.E. Helser, and C.E. Zimmerman. 2015. Evidence of bottom-up limitations in nearshore marine systems based on otolith proxies of fish growth. Marine Biology.
von Biela, V.R., S.D. Newsome, J.L. Bodkin, G.H. Kruse, and C.E. Zimmerman. 2016. Widespread kelp-derived carbon in pelagic and benthic nearshore fishes suggested by stable isotope analysis. Estuarine, Coastal and Shelf Science 181: 364-374


Allyn, A. J., A. McKnight, K. McGarigal, C. R. Griffin, K. J. Kuletz, D. A. Cushing, and D. B. Irons. 2015. Assessing a paired logistic regression model of presence-only data to map important habitat areas of the rare Kittlitz’s murrelet Brachyramphus brevirostris. Marine Ornithology 43:65-76.
Bishop, M.A., J. Watson, K. Kuletz, and T. Morgan. 2015. Pacific herring consumption by marine birds during winter in Prince William Sound, Alaska. Fisheries Oceanography 24(1):1–13.
Boswell K., G. Rieucau, J. J. Vollenweider, J. J. Moran, R. A. Heintz, J. K. Blackburn, and D. J. Csepp. 2016. Are spatial and temporal patterns in Lynn Canal overwintering Pacific herring related to top predator activity? Canadian Journal of Fisheries and Aquatic Sciences 73:1307-1318.
Chenoweth, E.M., and K.R. Criddle. 2019. The economic impacts of humpback whale depredation on hatchery‐released juvenile Pacific salmon in southeast Alaska. Marine and Coastal Fisheries 11:62-75.
Danishevskaya, A.Y., O.A. Filatova, F.I.P. Samarra, P.J.O. Miller, J.K.B. Ford, H. Yurk, C.O., Matkin, and E. Hoyt. 2018. Crowd intellegence can discern between repertoires of killer whale ecotypes. Bioacoustics.
Dawson, N., M.A. Bishop, K. Kuletz and A. Zuur. 2015. Using ships of opportunity to assess winter habitat associations of seabirds in subarctic coastal Alaska. Northwest Science 89:111–128.
Fearnback, H., J.W. Durban, D.K. Ellifrit, J.M. Waite, C.O. Matkin, et al. 2014 Spatial and social connectivity of fish-eating resident killer whales (Orcinus orca) in the North Pacific. Marine Biology 161(2) 459-472.
Filatova, O.A., Patrick J.O. Miller, Harald Yurk, Filipa I.P. Samarra, Erich Hoyt, John K.B. Ford, Craig O. Matkin, and Lance G. Barrett-Lennard. 2015. Killer whale call frequency is similar across the oceans, but varies across sympatric ecotypes. J. Acoust. Soc. Am. 138:251-257.
Filatova,O.A., F.I.P. Samarra, L.G. Barrett-:Lennard, P. O. Miller, J.K.B. Ford, H. Yurk, C.O. Matkin,E. Hoyt. 2016 Physical constraints of cultural evolution of dialects in killer whales. L. Acoust. Soc. Am 140:3755-3764.
Matkin, C.O., G.W. Testa, G.M. Ellis, and E.L. Saulitis. 2014. Life history and population dynamics of southern Alaska resident killer whales (Orcinus orca). Marine Mammal Science 30(2):460-479
Piatt, J. F., M. Arimitsu, W. Sydeman, S. A. Thompson, H. Renner, S. Zador, D. Douglas, S. Hatch, A. Kettle, J. Williams. 2018. Biogeography of Pelagic Food Webs: Forage Fish Distribution and Habitat Use in the North Pacific Revealed by Puffins. Fisheries Oceanography. 27:366-380.
Saulitis,E, L.A Holmes, Craig Matkin, Kate Wynn, David Ellifrit, and Cy St. Amand. 2015. Bigg’s killer whale (Orcinus Orca) predation on subadult humpback whales (Megaptera novaeangliae) in Lower Cook Inlet and Kodiak, Alaska. 2015. Aquatic Mammals 41(3), 341-344.
Stephensen, S., D. Irons, W. Ostrand, and K. Kuletz. 2016. Habitat selection by Kittlitz’s Brachyramphus brevirostris and marbled murrelets B. marmoratus in Harriman Fjord, Prince William Sound, Alaska. Marine Ornithology 44:31-42.
Teerlink, S. F., O. von Ziegesar, J. M. Straley, T. J. Quinn II, C. O. Matkin and E. L. Saulitis. 2015. First time series of estimated humpback whale (Megaptera novaeangliae) abundance in Prince William Sound. Environmental and Ecological Statistics 22:345-368.
von Biela, V., M. Arimitsu, J. Piatt, B. Heflin, S. Schoen, J. Trowbridge, C. Clawson. 2019. Extreme reduction in nutritional value of key forage fish during the Pacific marine heatwave of 2014-2016. Mar Ecol Prog Ser 613:171-182.
Zuur, A.F., N. Dawson, M.A. Bishop, K. Kuletz, A.A Saveliev and E.N. Ieno. 2012. Two-stage GAMM applied on zero inflated Common Murre density data. Pages 155-188 in A.F. Zuur, A.A.Saveliev, E.N. Ieno (eds). Zero Inflated and Generalized Linear Mixed Models with R. Highland Statistics Ltd, Newburgh, United Kingdom.