Publications

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.
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.
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.
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.
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.
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.
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. DOI:10.1002/2016GB005493
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 DOI:10.1038/s41598-018-30873-0
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. DOI:10.1002/2017GL073565
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. DOI: 10.1016/j.hal.2018.06.008
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. DOI:10.1175/BAMS-D-17-0105.1

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. In press. Benefits and risks of diversification for individual fishers. Proceedings of the National Academy of Sciences of the United States of America. DOI: 10.1073/pnas.1702506114
Anderson, S. C., E. J. Ward, A. O. Shelton, M. Adkison, A. H. Beaudreau, R. Brenner, A. C. Haynie, J. C. Shriver, J. Watson, B. Williams. 2017. Benefits and risks of diversification for individual fishers.Proceedings of the National Academy of Science. 14:10797-10802
Himes-Cornell, A., C. Ormond, K. Hoelting, N. C. Ban, J. Z. Koehn, E. Allison, Eric C. Larson, D. H. Monson, H. Huntington, T. Okey. In press. Factors affecting disaster preparedness, response and recovery in the context of the Community Capitals Framework. Annals of the Association of American Geographers.
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.
Ward, E. J., M. Adkinson, 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. DOI:10.1371/journal.pone.0172898
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
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. DOI: 10.1093/icesjms/fsx054

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. DOI 10.1007/s00244-016-0279-3
Carls MG, Larsen ML, Holland LG. 2015. Spilled oils: static mixtures or dynamic weathering and bioavailability? Plos One. DOI:10.1371/journal.pone.0134448
Carls MG, Vanderhoof L, Shaufler L. Submitted. Carbonate cycling in a north temperate fjord.

Modeling

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.

Nearshore

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 recoveryand conservation. Chapter 4 in Larson SE, Bodkin JL, VanBlaricom GR., Eds.
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.
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.
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. DOI:10.3390/jmse4020039
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. DOI: 10.1002/ecs2.1849
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. DOI:10.1002/etc.3659
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. DOI: 10.1007/s12237-016-0114-0
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.
Traiger S, Konar B, Doroff A, McCaslin L. Sea otters versus sea stars as major clam predators: evidence from foraging pits and shell litter. Marine Ecology Progress Series. DOI:10.3354/meps11871
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. DOI:10.1080/19425120.2016.1194919
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. DOI:10.3354/ab00621
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. DOI 10.1007/s00227-015-2645-5
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
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.
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.
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. DOI:10.18194/ws.00105

Pelagic

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. DOI:10.1139/cjfas-2015-0192
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
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. DOI: 10.1578/AM.41.3.2015.341
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. DOI: 10.1007/s10651-014-0301-8
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.
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.
von Biela, V., M. Arimitsu, J. Piatt, B. Heflin, S. Schoen, J. Trowbridge, C. Clawson. In review. Declining condition of a key forage fish in the Gulf of Alaska during the North Pacific marine heatwave.