Journal Article

In press

Brenkman, S. J., G. R. Pess, C. E. Torgersen, K. K. Kloehn, J. J. Duda, and S. C. Corbett. 2008. Predicting recolonization patterns and interactions between potamodromous and anadromous salmonids in response to dam removal in the Elwha River, Washington State, USA. Northwest Science 82 (Special Issue):91-106.

Coe, H., P. Kiffney, G. R. Pess, K. Kloehn, M. McHenry. In press. Periphyton and Invertebrate Response to Wood Placement in Large Pacific Coastal Rivers. River research and applications.

Erdner, D. L., J. Dyble, L. E. Brand, M. S. Parker, R. C. Stevens, S. K. Moore, K. A. Lefebvre, P. Bienfang, D. M. Anderson, R. R. Bidigare, P. Moeller, M. L. Wrabel, K. A. Hubbard. In press. Centers for Oceans and Human Health: a unified approach to the challenge of harmful algal blooms..

Fullerton, A. H., A. Steel, Y. Caras, M. B. Sheer, P. Olson, J. Kaje. In press. Incorporating Future Land Use Trends into Comparisons of Alternative Restoration Strategies: an Application of a Spatially-Explicit Decision-Support Tool. Ecological Applications.

Goldstein, T., T. S. Zabka, R. DeLong, E. A. Wheeler, G. M. Ylitalo, S. Bargu, M. W. Silver, T. Leighfield, F. M. Van Dolah, G. Langlois, J. L. Dunn, F. M. Gulland. In press. The role of domoic acid in abortion and premature parturition of California sea lions (Zalophus californianus) on San Miguel Island, California. Journal of Wildlife Diseases.

Herman, D. P., C. O. Matkin, G. M. Ylitalo, J. W. Durban, M. B. Hanson, M. E. Dahlheim, J. M. Straley, P. R. Wade, K. L. Tilbury, R. H. Boyer, R. W. Pearce, M. M. Krahn. In press. Assessing the age-distributions of killer whale (Orcinus orca) populations from the composition of endogenous fatty acids in their outer-blubber layers. Marine Ecology Progress Series.

Johnson, L. L., D. P. Lomax, M. S. Myers, O. P. Olson, S. Y. Sol, S. M. O'Neill, J. E. West, T. K. Collier. In press. Xenoestrogen Exposure and Effects in English Sole (Parophrys vetulus) from Puget Sound, WA. Aquatic Toxicology, 88:29-38.

Kiffney, P. M. In press. The structure of simple food chains in headwater streams of southwestern British Columbia in response to gradients of resource supply and predation pressure. Oikos.

Lefebvre, K. A., B. D. Bill, A. Erickson, K. A. Baugh, L. O'Rourke, P. R. Costa, S. L. Nance, V. L. Trainer. In press. Characterization of dissolved and particulate saxitoxin levels in both field and cultured Alexandrium samples from Sequim Bay, WA. Marine Drugs.

Liermann, M., P. Roni. In press. More sites or more years? - optimal study design for monitoring fish response to watershed restoration. North American Journal of Fisheries Management.

McCarthy, S. G., J. Incardona, N. L. Scholz. In press. Coastal storms, toxic turnoff, and the sustainable conservation of fish and fisheries. Transactions of the American Fisheries Society.

Moore, S. K., N. Mantua, V. L. Trainer, B. M. Hickey. In press. Long-term measurements of paralytic shellfish toxins in Puget Sound shellfish. Part II: The influence of climate and capacity for prediction. Harmful Algae.

Myers, M. S., B. F. Anulacion, B. L. French, W. L. Reichert, C. A. Laetz, J. Buzitis, O. P. Olson, S. Y. Sol, T. K. Collier. In press. Improved Flatfish Health Following Remediation of a PAH-contaminated Site in Eagle Harbor, Washington. Aquatic Toxicology.

Nino-Torres, C. A., S. C. Gardner, T. Zenteno-Savin, G. M. Ylitalo. In press. Organochlorine pesticides and polychlorinated biphenyls in California sea lions (Zalophus californianus californianus) from the Gulf of California, Mexico. Archives of Environmental Contamination and Toxicology.

Pess, G. R., M. L. McHenry, T. J. Beechie, and J. Davies. 2008. Biological impacts of the Elwha River dams and potential salmonid responses to dam removal. Northwest Science 82 (Special Issue):72-90.

Poole, G. C., S. J. O'Daniel, K. L. Jones, W. W. Woessner, E. S. Bernhardt, A. M. Helton, J. A. Stanford, B. R. Boer, T. J. Beechie. In press. Hydrologic spirals: the role of multiple interactive flow paths in stream ecosystems. River research and applications.

Reichert, W. L., C. M. Greene, R. E. Bilby. In press. Seasonal variations in stable isotope ratios of juvenile coho salmon (Oncorhynchus kisutch) from western Washington rivers. Canadian Journal of Fisheries and Aquatic Sciences, 65(4):681-690.

Roni, P., D. Van Slyke, B. A. Miller, J. L. Ebersole, G. R. Pess. In press. Adult coho salmon and steelhead use of boulder weirs in Southwest Oregon stream. North American Journal of Fisheries Management.

Roni, P., K. Hanson, T. J. Beechie. In press. Global review of the physical and biological effectiveness of stream habitat rehabiliataion techniques. North American Journal of Fisheries Management.

Scholin, C. A., F. Gulland, G. Doucette, S. Benson, M. Busman, F. P. Chavez, J. Cordaro, R. DeLong, A. DeVogelaere, C. J. Harvey, M. Haulena, K. A. Lefebvre, T. Lipscomb, S. Loscutoff, L. J. Lowenstine, R. Martin III, P. E. Miller, B. McLellan, P. Moeller, C. L. Powell, T. Rowles, P. Silvagni, M. W. Silver, T. Spraker, V. L. Trainer, F. M. Van Dolah. In press. Mortality of sea lions along the central California coast linked to a toxic diatom bloom. Nature.

Sol, S. Y., L. L. Johnson, D. Boyd, O. P. Olson, D. P. Lomax, T. K. Collier. In press. Retionships between anthropogenic chemical contaminant exposure and associated changes in reproductive parameters in male English sole (Parophrys vetulus) collected from Hylebos Waterway, Puget Sound, Washington. Archives of Environmental Contamination and Toxicology.

Stewart, J. R., R. J. Gast, R. S. Fujioka, H. M. Solo-Gabriele, J. S. Meschke, L. A. Amaral-Zettler, E. D. Castillo, M. F. Polz, T. K. Collier, M. S. Strom, C. Sinigalliano, P. D. Moeller, A. F. Holland. In press. The coastal environment and human health: Microbial indicators, pathogens, sentinels and reservoirs. Environmental Health.

Trainer, V. L. In press. Ecological linkages between physical oceanographic conditions and the seasonal growth and distribution of toxic algal blooms..

Waples, R. S., T. J. Beechie, G. R. Pess. In press. Evolutionary history, habitat disturbance regimes, and anthropogenic changes: What do these mean for resilience of Pacific salmon populations? Ecology and Society.

2008

Acker, S., T. Beechie, P. Shafroth. 2008. Effects of a natural dam-break flood on geomorphology and vegetation on the Elwha River, Washington, U.S.A. Special Issue on Dam Removal and Ecosystem Restoration in the Elwha River Watershed, Washington State, Northwest Science, 82:210-223

Anderson, J. H., P. M. Kiffney, G. R. Pess, T. P. Quinn. 2008. Distribution and growth of juvenile coho salmon (Oncorhynchus kisutch) during colonization of newly accessible habitat. Transactions of the American Fisheries Society, 137:772-781.

Angilletta Jr., M. J., E. A. Steel, K. K. Bartz, J. G. Kingsolver, M. D. Scheuerell, B. R. Beckman, L. G. Crozier. 2008. Big dams and salmon evolution: changes in thermal regimes and their potential evolutionary consequences. Evolutionary Applications, 1(2):286299.

Beechie, T.J., M.M. Pollock, S. Baker. 2008. Channel incision, evolution and potential recovery in the Walla Walla and Tucannon River basins, northwestern USA. Earth Surface Processes and Landforms 33: 784-800.

Beechie, T., G. Pess, P. Roni, and G. Giannico. 2008. Setting river restoration priorities: a review of approaches and a general protocol for identifying and prioritizing actions. N. Am. J. Fish. Mgmt. 28:891-905.

Carls, M. G., L. Holland, M. Larsen, T. K. Collier, N. L. Scholz, J. Incardona. 2008. Fish embryos are damaged by dissolved PAHs, not oil particles. Aquatic Toxicology, 88:121-127.

Hall, A. J., F. M. Gulland, G. M. Ylitalo, D. J. Greig, L. J. Lowenstine. 2008. Changes in blubber contaminant concentrations in California sea lions (Zalophus californianus) associated with weight loss and gain during rehabilitation. Environmental Science & Technology, 42:4181-4187.

Kiffney, P. M., G. R. Pess, J. H. Anderson, K. Burton, P. Faulds, S. Riley. 2008. Changes in fish communities following recolonization of the Cedar River, WA, USA by Pacific salmon after 103 years of local extirpation. River research and applications.

Kloehn, K.K., T.J. Beechie, S.A. Morley, H.J. Coe, and J.J. Duda. 2008. Influence of dams on river-floodplain dynamics in the Elwha River, Washington. Northwest Science 82 (Special Issue):224-235.

Krahn, M. M., R. Pitman, D. G. Burrows, D. P. Herman, R. W. Pearce. 2008. Use of chemical tracers to assess diet and persistent pollutants in Antarctic type C killer whales. Marine Mammal Science, 24(3):6663-663.

McClure, M. M., S. M. Carlson, T. J. Beechie, G. R. Pess, J. C. Jorgensen, S. M. Sogard, S. E. Sultan, D. M. Holzer, J. Travis, B. L. Sanderson, M. E. Power, R. W. Carmichael. 2008. Evolutionary consequences of habitat loss for Pacific anadromous salmonids. Evolutionary Applications.

McIntyre, J. K., D. H. Baldwin, J. P. Meador, N. L. Scholz. 2008. Chemosensory deprivation in juvenile coho salmon exposed to dissolved copper under varying water chemistry conditions. Environmental Science & Technology, 42(4):1352-1358.

Meador, J. P., J. Buzitis, C. F. Bravo. 2008. Using fluorescent aromatic compounds (FACs) in bile from juvenile salmonids to predict exposure to polycyclic aromatic hydrocarbons. Environmental Toxicology and Chemistry, 27(4):845-853.

Morley, S.A., J.J. Duda, H.J. Coe, K.K. Kloehn, and M.L. McHenry. 2008. Benthic Invertebrates and Periphyton in the Elwha River Basin: Current Conditions and Predicted Response to Dam Removal. Northwest Science 82 (Special Issue):179-196.

Myers, M. J., G. M. Ylitalo, M. M. Krahn, D. Boyd, D. Calkins, V. Burkanov, S. Atkinson. 2008. Organochlorine contaminants in endangered stellar sea lion pups (eumetopias jubatus) from Western Alaska and the Russian Far East. Science of the Total Environment.

Waples, R. S., G. R. Pess, and T. Beechie. 2008. Evolutionary history of Pacific salmon in dynamic environments. Evolutionary Applications 1:189-206.

Waples, R. S., R. W. Zabel, M. D. Scheuerell, and B. L. Sanderson. 2008. Evolutionary responses by native species to major anthropogenic changes to their ecosystems: Pacific salmon in the Columbia River hydropower system. Molecular Ecology 17:84-96.

West, J. E., S. M. O'Neill, G. M. Ylitalo. 2008. Spatial extent, magnitude, and patterns of persistent organochlorine pollutants in Pacific herring (Clupea pallasi) populations; implications for the Puget Sound and Strait of Georgia pelagic food web. Science of the Total Environment, 394:369-378.

Ylitalo, G. M., M. S. Meyers, B. Stewart, P. K. Yochem, R. Braun, L. Kashinsky, D. Boyd, G. A. Antonelis, S. Atkinson, A. A. Aquirre, M. M. Krahn. 2008. Organochlorine contaminants in blubber and whole blood of Hawaiian monk seals in the northwestern Hawaiian Islands. Marine Pollution Bulletin, 56:231-244.

Zuellig, R. E., D. R. Kashian, M. L. Brooks, P. M. Kiffney, W. H. Clements. 2008. The influence of metal exposure history and ultraviolet-B radiation on benthic commuities in Colorado Rocky Mountain streams. Journal of the North American Benthological Society, 27:120-134.

2007

Davies, Jeremy R., Kerry M. Lagueux, Beth Sanderson, and Timothy J. Beechie, 2007. Modeling Stream Channel Characteristics From Drainage-Enforced DEMs in Puget Sound, Washington, USA. Journal of the American Water Resources Association (JAWRA) 43(2):414-426.

Dickhoff, W. W., T. K. Collier, U. Varanasi. 2007. The seafood "dilemma". Fisheries, 32(5):244-246.

Fukushima, M., S. Kameyama, M. Kaneko, K. Nakao, E. A. Steel. 2007. Modeling the effects of dams on freshwater fish distributions in Hokkaido, Japan. Freshwater Biology, 52:1511-1524.

Gardner, S. C., G. M. Ylitalo, U. Varanasi. 2007. Comparative assessment of organochlorine concentrations in porpoise melon and blubber. Marine Mammal Science, 23(2):434-444.

Good, T. P., T. J. Beechie, P. McElhany, M. M. McClure, M. H. Ruckelshaus. 2007. Recovery planning for Endangered Species Act-listed Pacific salmon: Using science to inform goals and strategies. Fisheries, 32:426-440.

Greig, D. J., G. M. Ylitalo, A. J. Hall, D. A. Fauquier, F. M. Gulland. 2007. Transplacental transfer of organochlorines in California sea lions (Zalophus californianus). Environmental Toxicology and Chemistry, 26(1):37-44.

Hall, J.E., D.M. Holzer, and T.J. Beechie. 2007. Predicting river floodplain and lateral channel migration for salmon habitat conservation. Journal of the American Water Resources Association. 43(3):786-797.

Herman, D. P., G. M. Ylitalo, C. O. Matkin, J. W. Durban, M. B. Hanson, M. E. Dahlheim, J. M. Straley, K. L. Tilbury, M. M. Krahn. 2007. Assessing the age-distributions of killer whale (Orcinus orca) populations from the composition of endogenous fatty acids in their outer-blubber layers. Scientific Committee of the International Whaling Commission.

Johnson, L. L., G. M. Ylitalo, M. R. Arkoosh, A. N. Kagley, C. L. Stafford, J. L. Bolton, J. Buzitis, B. F. Anulacion, T. K. Collier. 2007. Contaminant exposure in outmigrant juvenile salmon from Pacific Northwest estuaries. Environmental Monitoring and Assessment, 124:167-194.

Kiffney, P. M., P. Roni. 2007. Relationship between productivity, physical habitat, and aquatic invertebrate and vertebrate populations of forest streams: An information-theoretic approach. Transactions of the American Fisheries Society, 136:1088-1103.

Krahn, M. M., M. B. Hanson, R. W. Baird, R. H. Boyer, D. G. Burrows, C. K. Emmons, J. K. Ford, L. L. Jones, D. P. Noren, P. S. Ross, G. S. Schorr, T. K. Collier. 2007. Persistent organic pollutants and stable isotope ratios in biopsy samples (2004-2006) from Southern Resident killer whales. Marine Pollution Bulletin, 54(12):1903-1911.

Krahn, M. M., D. P. Herman, C. O. Matkin, J. W. Durban, L. Barrett-Lennard, D. G. Burrows, M. E. Dahlheim, N. Black, R. E. LeDuc, P. R. Wade. 2007. Use of chemical tracers in assessing the diet and foraging regions of eastern North Pacific killer whales. Marine Environmental Research, 63:91-114.

Labenia, J. S., D. H. Baldwin, B. L. French, J. W. Davis, N. L. Scholz. 2007. Behavioral impairment and increased predation mortality in cutthroat trout exposed to carbaryl. Marine Ecology Progress Series, 329:1-11.

Lefebvre, K. A., D. P. Noren, I. R. Schultz, S. M. Bogard, B. L. Eberhart. 2007. Uptake, tissue distribution and excretion of domoic acid after oral exposure in coho salmon (Oncorhynchus kisutch). Aquatic Toxicology, 81:266-274.

Lema, S. C., I. R. Schultz, N. L. Scholz, J. Incardona, P. Swanson. 2007. Cardiac arrhythmia, spinal defects and changes in cerebrospinal fluid flow in fish larvae following embryonic exposure to 2,2',4,4'-tetrabromodiphenyl ether (PBDE 47). Aquatic Toxicology, 82(4):296-307.

McMillan, J. R., S. L. Katz, G. R. Pess. 2007. Observational Evidence of Spatial and Temporal Structure in a Sympatric Anadromous (Winter Steelhead) and Resident Rainbow Trout Mating System on the Olympic Peninsula, Washington. Transactions of the American Fisheries Society, 136(3):736-748.

Rosa, C., J. E. Blake, L. Mazzaro, P. Hoekstra, G. M. Ylitalo, T. M. O'Hara. 2007. Vitamin A and E tissue distribution with comparisons to organochlorine concentration in the serum, blubber and liver of the bowhead whale (Balaena mysticetus). Comparative Biochemistry and Physiology, Part B: Biochemistry and Molecular Biology, 148:454-462.

Sandahl, J. F., D. H. Baldwin, J. J. Jenkins, N. L. Scholz. 2007. A sensory system at the interface between urban stormwater runnoff and salmon survival. Environmental Science & Technology, 41(8):2998-3004.

Steel, A., I. A. Lange. 2007. Alteration of water temperature regimes at multiple scales: effects of multi-purpose dams in the Willamette River basin. River research and applications, 23:351-359.

Stevens, R. C., S. D. Soelberg, B. L. Eberhart, S. Spencer, J. C. Wekell, T. M. Chinowsky, V. L. Trainer, C. E. Furlong. 2007. Detection of the toxin domoic acid from clam extracts using a portable surface plasmon resonance biosensor. Harmful Algae, 6(2).

Trainer, V. L., M. Suddleson. 2007. Monitoring approaches for early warning of domoic acid poisoning events. Oceanography, 18(2):228-237.

Trainer, V. L., W. P. Cochlan, A. Erickson, B. D. Bill, F. Cox, J. A. Borchert, K. A. Lefebvre. 2007. Recent domoic acid closures of shellfish harvest areas in Washington State inland waterways. Harmful Algae.

2006

Adams, N. G., A. MacFadyen, B. M. Hickey, V. L. Trainer. 2006. The nearshore advection of a toxigenic /Pseudo-nitzschia/ bloom and subsequent domoic acid contamination of intertidal bivalves. African Journal of Marine Science.

Arkoosh, M. R., A. N. Kagley, B. F. Anulacion, D. Boylen, B. P. Sandford, F. Loge, L. L. Johnson, T. K. Collier. 2006. Disease susceptibility of hatchery Snake River spring/summer Chinook salmon (Onchorynchus tshawytscha) with different juvenile migration histories in the Columbia River. Journal of Aquatic Animal Health, 18:223-231.

Bargu, S., K. A. Lefebvre, M. W. Silver. 2006. Effect of dissolved domoic acid on the grazing rate of krill Euphausia pacifica. Marine Ecology Progress Series, 312:169-175.

Bartz, K. K., K. M. Lagueux, M. D. Scheuerell, T. J. Beechie, A. D. Haas, M. H. Ruckelshaus. 2006. Translating restoration scenarios into habitat conditions: an initial step in evaluating recovery strategies for Chinook salmon (Oncorhynchus tshawytscha). Canadian Journal of Fisheries and Aquatic Sciences, 63:1578-1595.

Baugh, K. A., J. M. Bush, B. D. Bill, K. A. Lefebvre, V. L. Trainer. 2006. Estimates of specific toxicity in several Pseudo-nitzschia species based on culture and field studies. African Journal of Marine Science, 28(2):403-407.

Beechie, T. J., M. Liermann, M. M. Pollock, S. Baker, J. R. Davies. 2006. Channel pattern and river-floodplain dynamics in forested mountain river systems. Geomorphology, 78(1-2):124-141.

Beechie, T.J., M. Ruckelshaus, E. Buhle, A. Fullerton, L. Holsinger. 2006. Hydrologic regime and the conservation of salmon life history diversity. Biological Conservation 130(4):560-572.

Beechie, T. J., C. M. Greene, L. Holsinger, E. M. Beamer. 2006. Incorporating parameter uncertainties into evaluation of spawning habitat limitations on salmon populations. Canadian Journal of Fisheries and Aquatic Sciences, 63(6):1242-1250.

Bill, B. D., F. Cox, R. A. Horner, J. A. Borchert, V. L. Trainer. 2006. The first closure of shellfish harvesting due to domoic acid in Puget Sound, Washington, USA. African Journal of Marine Science, 28(2):435-440.

Buzitis, J., G. M. Ylitalo, M. M. Krahn. 2006. Rapid method for determination of dioxin-like polychlorinated biphenyls and other congeners in marine sediments using sonic extraction and photodiode array detection. Archives of Environmental Contamination and Toxicology, 51(3):337-346.

Coe, H., P. M. Kiffney, G. R. Pess. 2006. A comparison of methods to evaluate the response of periphyton and invertebrates to wood placement in large Pacific coastal rivers. Northwest Science, 80(4):298-307.

Colt, J., P. D. Plesha. 2006. Impact of Net Positive Suction Head on the Design and Operation of Seawater Pumping Systems for Use in Aquaculture. Aquacultural Engineering, 35(3):239-257.

Fullerton, A.H., and G.A. Lamberti. 2006. A comparison of habitat use and habitat-specific feeding efficiency by Eurasion ruffe (Gymnocephalus cernuus) and yellow perch (Perca flavescens). Ecology of Freshwater Fish 15(1): 1-9.

Fullerton, A.H., T.J. Beechie, S.E. Baker, J.E. Hall, and K.A. Barnas. 2006.0Regional Patterns of Riparian Characteristics in the Interior Columbia River Basin, Northwestern USA: Applications for Restoration Planning. Landscape Ecology 21:1347-1360.

Heintz, R., M. M. Krahn, G. M. Ylitalo, F. Morado. 2006. Organochlorines in Walleye Pollock From the Aleutian Islands and Southeastern Alaska. Proceedings of the Lowell Wakefield Symposium of the Sea Lions of the World.

Hellou, J., J. Leonard, T. K. Collier, F. Ariese. 2006. Assessing PAH exposure in feral finfish from the Northwest Atlantic. Marine Pollution Bulletin, 52:433-441.

Incardona, J., H. L. Day, T. K. Collier, N. L. Scholz. 2006. Developmental toxicity of 4-ring polycyclic aromatic hydrocarbons in zebrafish is differentially dependent on AH receptor isoforms and hepatic cytochrome P450 1A metabolism. Toxicology and Applied Pharmacology, 217:308-321.

Kiffney, P. M., C. M. Greene, J. R. Davies, J. E. Hall. 2006. Tributary streams create spatial discontinuities in habitat, biological productivity, and diversity in mainstem rivers. Canadian Journal of Fisheries and Aquatic Sciences.

Kucklick, J. R., M. M. Krahn, P. R. Becker, B. J. Porter, M. M. Schantz, G. S. York, T. M. O'Hara, S. A. Wise. 2006. Persistent organic pollutants in Alaskan ringed seal (Phoca hispida) and walrus (Odobenus rosmarus) blubber. Journal of Environmental Monitoring, 8:848-854.

Linbo, T. L., C. M. Stehr, J. Incardona, N. L. Scholz. 2006. Dissolved copper triggers cell death in the peripheral mechanosensory system of larval fish. Environmental Toxicology and Chemistry, 25(2):597-603.

Loge, F., M. R. Arkoosh, T. R. Ginn, L. L. Johnson, T. K. Collier. 2006. Impact of Environmental Stressors on the Dynamics of Disease Transmission. Environmental Science & Technology, 39(18):7329-7336.

Marchetti, A., V. L. Trainer, P. Harrison. 2006. Environmental conditions and phytoplankton dynamics associated with Pseudo-nitzchia abundance and domoic acid in the Juan de Fuca eddy. Marine Ecology Progress Series, 281:1-24.

Meador, J. P., F. C. Sommers, G. M. Ylitalo, C. A. Sloan. 2006. Altered growth and related physiological responses in juvenile chinook salmon (Oncorhynchus tshawytscha) from dietary exposure to polycyclic aromatic hydrocarbons (PAHs). Canadian Journal of Fisheries and Aquatic Sciences, 63:2364-2376.

Meador, J. P. 2006. Rationale and procedures for using the tissue-residue approach for toxicity assessment and determination of tissue, water, and sediment quality guidelines for aquatic organisms. Human and Ecological Risk Assessment, 12:1018-1073.

Rhodes, L.D., C. Durkin, S.L. Nance, and C.A. Rice. 2006. Prevalence and analysis of Renibacterium salmoninarum infection among juvenile Chinook salmon Oncorhynchus tshawytscha in North Puget Sound. Dis. Aquat. Organ. 71(3):179-190.

Roni, P., S. A. Morley, P. S. Garcia, C. Detrick, I. D. King, E. M. Beamer. 2006. Coho salmon smolt production from constructed and natural floodplain habitats. Transactions of the American Fisheries Society, 135:1398.

Roni, P., T. R. Bennett, S. A. Morley, G. R. Pess, K. Hanson, D. Van Slyke, P. Olmstead. 2006. Rehabilitation of bedrock stream channels: the effects of boulder weir replacement on aquatic habitat and biota. River research and applications, 22: 967-980.

Ruesink, J. L., B. E. Feist, C. J. Harvey, J. S. Hong, A. C. Trimble, L. M. Wisehart. 2006. Changes in productivity associated with four introduced species: ecosystem transformation of a "pristine" estuary. Marine Ecology Progress Series, 311:203-215.

Scholz, N. L., N. Truelove, J. S. Labenia, D. H. Baldwin, T. K. Collier. 2006. Does-additive addition of chinook salmon acetylcholinesterase activity by mixtures of organophosphate and carbamate insecticides. Environmental Toxicology and Chemistry, 25(5).

Scholz, N. L., W. A. Hopkins. 2006. The Ecotoxicology of Anticholinesterase Pesticides: Data Gaps and Research Challenges. Environmental Toxicology and Chemistry, 25:1185-1186.

Sheer, M.B. and E.A. Steel. 2006. Lost watersheds: barriers, aquatic habitat connectivity and salmon persistence in the Willamette and Lower Columbia basins. Transactions of the American Fisheries Society 135(6):1654-1669.

Spromberg, J. A., J. P. Meador. 2006. Relating chronic toxicity responses to population-level effects: A comparison of population-level parameters for three salmon species as a function of low-level toxicity. Ecological Modelling, 199(2006):240-252.

Stehr, C. M., T. L. Linbo, J. Incardona, N. L. Scholz. 2006. The developmental neurotoxicity of fipronil: notochord degeneration and locomotor defects in zebrafish embryos and larvae. Toxicological Sciences.

Trainer, V. L., M. Suddleson. 2006. Monitoring approaches for early warning of domoic acid poisoning events in Washington State. Oceanography, 18(2):228-237.

da Silva, D. A., J. Buzitis, M. M. Krahn, M. C. Bicego, A. S. Pires-Vanin. 2006. Metabolites in bile of fish from Sao Sebastiao Channel, Sao Paulo, Brazil as biomarkers of exposure to petrogenic polycyclic aromatic compounds. Marine Pollution Bulletin, 52(2):175-183.

2005

Beechie, T. J., M. Liermann, E. M. Beamer, R. Henderson. 2005. A classification of habitat types in a large river and their use by juvenile salmonids. Transactions of the American Fisheries Society, 134:717-729.

Bilby, R. E., W. Ehinger, T. P. Quinn, G. Volkhardt, K. Krueger, D. E. Seiler, G. R. Pess, C. E. Jordan, D. Poon. 2005. Study evaluates fish response to management actions. Western Forester, 50(2):14-15.

Bricelj, V. M., L. Connell, K. Konoki, S. P. MacQuarrie, T. Scheuer, W. A. Catterall, V. L. Trainer. 2005. Sodium channel mutation leading to saxitoxin resistance in clams increases risk of PSP. Nature, 434:763-767.

Cook, M. A., K. Guthrie, M. B. Rust, P. D. Plesha. 2005. Effects of salinity and temperature during incubation on hatching and development of lingcod Ophiodon elongatus Girard, embryos. Aquaculture Research, 36(13):1298-1303.

Debier C, Ylitalo GM, Weise M, Gulland F, Costa DP, Le Boeuf BJ, de Tillesse T, Larondelle Y. 2005. PCBs and DDTs in the serum of juvenile California sea lions: Associations with vitamins A and E and thyroid hormones. Environmental Pollution. 134:323-332

Fairgrieve, W. T., C. L. Masada, W. C. McAuley, M. E. Peterson, M. S. Myers, M. S. Strom. 2005. Accumulation and clearance of orally administered erythromycin and its derivative, azithromycin, in juvenile fall Chinook salmon (Oncorhynchus tshawytscha). Diseases of Aquatic Organisms, 64:99-106.

Greene, C.M., D.W. Jensen, E. Beamer, G.R. Pess, and A.E. Steel. 2005. Effects of environmental conditions during stream, estuary, and ocean residency on Chinook salmon return rates in the Skagit River, WA. Transactions of the American Fisheries Society. 134:1562-1581.

Herman, D. P., D. G. Burrows, P. R. Wade, J. W. Durban, C. D. Matkin, R. E. LeDuc, L. Barrett-Lennard, M. M. Krahn. 2005. Feeding ecology of eastern North Pacific killer whales Orcinus orca from fatty acid, stable isotope, and organochlorine analyses of blubber biopsies. Marine Ecology Progress Series, 302:275-291.

Incardona, J., M. G. Carls, H. Teraoka, C. A. Sloan, T. K. Collier, N. L. Scholz. 2005. Aryl hydrocarbon receptor-independant toxicity of weathered crude oil during fish development. Environmental Health Perspectives.

Incardona, J. 2005. From sensing cellular sterols to assembling sensory structures. Developmental Cell, 8:798-799.

Karlsson, O. M., J. S. Richardson, P. M. Kiffney. 2005. Modelling organic matter dynamics in headwater streams of south-western British Columbia, Canada. Ecological Modelling, 183:463-476.

Kudela, R., G. Pitcher, F. Figueiras, T. Probyn, T. Moita, V. L. Trainer. 2005. Harmful algal blooms in coastal upwelling systems. Oceanography, 18:184-187.

Lefebvre, K. A., N. Elder, P. K. Hershberger, V. L. Trainer, C. M. Stehr, N. L. Scholz. 2005. Dissolved saxitoxin causes transient inhibition of sensorimotor function in larval Pacific herring (Clupea harengus pallasi). Marine Biology, 147:1393-1402.

Loge, F., M. R. Arkoosh, T. R. Ginn, L. L. Johnson, T. K. Collier. 2005. Impact of environmental stressors on the dynamics of disease transmission. Environmental Science & Technology, 39:7329-7336.

Meador, J. P., D. W. Ernest, A. N. Kagley. 2005. A comparison of the non-essential elements cadmium, mercury, and lead found in fish and sediment from Alaska and California. Science of the Total Environment, 339:189-205.

Morley, S. A., P. S. Garcia, T. R. Bennett, P. Roni. 2005. Juvenile salmonid (Oncorhynchus spp.) use of constructed and natural side channels in Pacific Northwest Rivers. Canadian Journal of Fisheries and Aquatic Sciences, 62:2811-2821.

Rice, C. A. 2005. Effects of shoreline modification on a northern Puget Sound beach: microclimate and embryo mortality in summer spawning surf smelt (Hypomesus pretiosus). Estuaries and Coasts, 29(1):63-71.

Sandahl, J. F., D. H. Baldwin, J. J. Jenkins, N. L. Scholz. 2005. Comparative thresholds for acetylcholinesterase inhibition and behavioral impairment in coho salmon exposed to chlorpyrifos. Environmental Toxicology and Chemistry, 24:136-145.

Scheuerell, M. D., P. S. Levin, R. W. Zabel, J. G. Williams, B. L. Sanderson. 2005. A new perspective on the importance of marine-derived nutrients to threatened stocks of Pacific salmon (Oncorhynchus sp.). Canadian Journal of Fisheries and Aquatic Sciences, 62(5):961-964.

Spromberg JA, Meador JP. 2005. Relating results of chronic toxicity responses to population-level effects: modeling effects on wild Chinook salmon populations. Integrated Environmental Assessment and Management 1(1):9-21.

Trainer, V. L., M. Suddleson. 2005. Monitoring approaches for early warning of domoic acid events in Washington State. Oceanography, 18:228-237.

Wells, M. L., C. G. Trick, W. P. Cochlan, M. P. Hughes, V. L. Trainer. 2005. Domoic acid: the synergy of iron, copper and the toxicity of diatoms. Limnology and Oceanography, 50:1908-1917.

Ylitalo, G. M., J. E. Stein, T. Hom, L. L. Johnson, K. L. Tilbury, A. J. Hall, T. Rowles, D. Greig, L. J. Lowenstine, F. Gulland. 2005. The role of organochlorines in cancer-associated mortality in California sea lions (Zalophus californianus). Marine Pollution Bulletin, 50:30-39.

2004

Arkoosh, M. R., L. L. Johnson, P. A. Rossignol, T. K. Collier. 2004. Predicting the impact of perturbations on salmon communities: implications for monitoring. Canadian Journal of Fisheries and Aquatic Sciences, 61:1166-1175.

Arkoosh, M. R., E. R. Clemons, A. N. Kagley, C. L. Stafford, A. Glass, K. C. Jacobson, P. Reno, M. S. Myers, E. Casillas, L. L. Johnson, F. Lodge, T. K. Collier. 2004. Survey of pathogens in juvenile salmon onchorhynchus spp. migrating through Pacific Northwest estuaries. Journal of Aquatic Animal Health, 16:186-196.

Benda, L., L. Poff, D. Miller, T. Dunne, G. Reeves, G. R. Pess, M. M. Pollock. 2004. Network disturbance theory: landscape and river organization of environmental variance. Bioscience, 54:413-427.

Benda, L., N. L. Poff, D. Miller, T. Dunne, G. Reeves, G. R. Pess, M. M. Pollock. 2004. The network dynamics hypothesis: How channel networks structure riverine habitats. Bioscience, 54:413-427.

Bolton, J. L., C. M. Stehr, D. T. Boyd, D. G. Burrows, A. V. Tkalin, T. S. Lishavskaya. 2004. Organic and trace metal contaminants in sediments and English sole tissues from Vancouver Harbour, Canada. Marine Environmental Research, 57(1-2):19-36.

Booth, D. B., J. R. Karr, S. Schauman, C. P. Konrad, S. A. Morley, M. G. Larson, S. J. Burges. 2004. Reviving urban streams: land use, hydrology, biology, and human behavior. Journal of the American Water Resources Association, 40:1351-1364.

Greene, C. M., T. J. Beechie. 2004. Consequences of potential density-dependent mechanisms on recovery of ocean-type chinook salmon (Oncorhynchus tshawytscha). Canadian Journal of Fisheries and Aquatic Sciences, 61:590-602.

Hyatt, T. L., T. Z. Waldo, T. J. Beechie. 2004. A watershed scale assessment of riparian forests, with implications for restoration. Restoration Ecology, 12:175-183.

Incardona, J., T. K. Collier, N. L. Scholz. 2004. Defects in cardiac function precede morphological abnormalities in fish embryos exposed to polycyclic aromatic hydrocarbons. Toxicology and Applied Pharmacology, 196(2):191-205.

Kiffney, P. M., C. J. Volk, T. J. Beechie, G. L. Murray, G. R. Pess, R. E. Edmonds. 2004. A high-severity disturbance event alters community and ecosystem properties in West Twin Creek, Olympic National Park, Washington, USA. American Midland Naturalist, 152:268-303.

Kiffney, P. M., J. S. Richardson, J. P. Bull. 2004. Establishing light as a causal mechanism structuring stream communities in response to experimental manipulation of riparian buffer width. Journal of the North American Benthological Society, 23:542-555.

Krahn, M. M., D. P. Herman, G. M. Ylitalo, C. A. Sloan, D. G. Burrows, R. C. Hobbs, B. A. Mahoney, G. K. Yanagida, J. Calambokidis, S. E. Moore. 2004. Stratification of lipids, fatty acids and organochlorine contaminants in blubber of white whales and killer whales. Journal of Cetacean Research and Management, 64:175-189.

Lefebvre, K. A., V. L. Trainer, N. L. Scholz. 2004. Morphological abnormalities and sensorimotor deficits in larval fish exposed to dissolved saxitoxin. Aquatic Toxicology, 66(2):159-170.

Levings, C., J. E. Stein, C. M. Stehr, S. C. Samis. 2004. Introduction to the PICES practical workshop: objectives, overview of the study area, and projects conducted by the participants. Marine Environmental Research, 57(1-2):3-18.

Liermann, M., A. Steel, M. Rosing, P. Guttorp. 2004. Random denominators and the analysis of ratio data. Environmental and Ecological Statistics, 11:55-71.

Macneale, K. H., B. L. Peckarsky, G. Likens. 2004. Contradictory results from different methods for measuring direction of insect flight. Freshwater Biology, 49:1260-1268.

Marchetti, A., V. L. Trainer, P. Harrison. 2004. Environmental conditions and phytoplankton dynamics associated with Pseudo-nitzschia abundance and domoic acid in the Juan de Fuca eddy. Marine Ecology Progress Series, 281:1-12.

Meador, J. P., D. W. Ernest, A. N. Kagley. 2004. Bioaccumulation of arsenic in marine fish and invertebrates from Alaska and California. Archives of Environmental Contamination and Toxicology, 47:223-233.

Pinkney, A. E., J. C. Harshbarger, E. B. May, W. L. Reichert. 2004. Tumor prevalence and biomarkers of exposure and response in brown bullhead (Ameiurus nebulosus) from the Anacostia River, Washington, DC and Tuckahoe River, Maryland, USA. Environmental Toxicology and Chemistry, 23:638-647.

Pollock, M. M., G. R. Pess, T. J. Beechie, D. R. Montgomery. 2004. The importance of beaver ponds to coho salmon production in the Stillaguamish River basin, Washington, USA. North American Journal of Fisheries Management, 24:749-760.

Steel, E. A., B. E. Feist, D. Jenson, G. R. Pess, M. B. Sheer, J. Brauner, R. E. Bilby. 2004. Landscape models to understand steelhead (Oncorhynchus mykiss) distribution and help prioritize barrier removals in the Willamette Basin, OR, U.S.A. Canadian Journal of Fisheries and Aquatic Sciences, 61:999-1011.

Steel, E. A., K. A. Kelsey, J. Morita. 2004. The Truth About Science: A middle school curriculum teaching the scientific method and data analysis in an ecology context. Environmental and Ecological Statistics, 11:21-29.

Stehr, C. M., M. S. Myers, L. L. Johnson, S. Spencer, J. E. Stein. 2004. Toxicopathic liver lesions in English sole and chemical contaminant exposure in Vancouver Harbour, Canada. Marine Environmental Research, 57:55-74.

Trainer, V. L., B. D. Bill. 2004. Characterization of a domoic acid binding site from Pacific razor clam. Aquatic Toxicology, 69:125-132.

Wekell, J. C., K. A. Lefebvre, J. Hurst. 2004. The origin of the regulatory limits for PSP and ASP toxins in shellfish. Journal of Shellfish Research, 23:927-930.

Willcox, M. K., L. A. Woodward, G. M. Ylitalo, J. Buzitis, S. Atkinson, Q. X. Li. 2004. Organochlorines in the free-ranging Hawaiian monk seal (Monachus schauinslandi) from French Frigate Shoals, North Pacific Ocean. Science of the Total Environment, 322:81-93.

2003

Baldwin, D. H., J. F. Sandahl, J. S. Labenia, N. L. Scholz. 2003. Sublethal effects of copper on coho salmon: impacts on nonoverlapping receptor pathways in the peripheral olfactory nervous system. Environmental Toxicology and Chemistry, 22(10):2266-2274.

Barron, M. G., R. Heintz, M. M. Krahn. 2003. Contaminant exposure and effects in pinnipeds: implications for Steller sea lion declines in Alaska. Science of the Total Environment, 311:111-133.

Beckmen, K. B., J. E. Blake, G. M. Ylitalo, J. L. Stott, T. M. O'Hara. 2003. Organochlorine contaminant exposure and associations with hematological and humoral immune functional assays with dam age as a factor in free-ranging northern fur seal pups (Callorhinus ursinus). Marine Pollution Bulletin, 46:594-606.

Collier, T. K., S. M. Adams. 2003. Establishing causal relationships between environmental stressors and biological effects in field studies. Human and Ecological Risk Assessment, 9:15.

Collier, T. K. 2003. Forensic ecotoxicology: Establishing causality between contaminants and biological effects in field studies. Human and Ecological Risk Assessment, 9:259-266.

Feist, B. E., E. A. Steel, G. R. Pess, R. E. Bilby. 2003. The influence of scale on salmon habitat restoration priorities. Animal Conservation, 6:271-282.

Greene, C. M. 2003. Habitat selection reduces extinction of populations subject to Allee effects. Theoretical Population Biology, 64:1-10.

Jacobson, K. C., M. R. Arkoosh, A. N. Kagley, E. R. Clemons, T. K. Collier, E. Casillas. 2003. Cumulative effects of natural and anthropogenic stress on immune function and disease resistance in juvenile chinook salmon. Journal of Aquatic Animal Health, 15:1-12.

Kiffney, P. M., J. S. Richardson, J. P. Bull. 2003. Responses of periphyton and insect consumers to experimental manipulation of riparian buffer width along headwater streams. Journal of the American Water Resources Association, 40:1060-1076.

Krahn, M. M., G. M. Ylitalo, J. E. Stein, A. Aguilar, A. Borrell. 2003. Organochlorine contaminants in cetaceans: how to facilitate interpretation and avoid errors when comparing datasets. Journal of Cetacean Research and Management, 5:103-113.

McClure, M. M., E. E. Holmes, B. L. Sanderson, C. E. Jordan. 2003. A large-scale, multispecies status assessment: anadromous salmonids in the Columbia River Basin. Ecological Applications, 13:964-989. (Pre-Press Word | PDF)

Myers, M. S., L. L. Johnson, T. K. Collier. 2003. Establishing the causal relationship between polycyclic aromatic hydrocarbon (PAH) exposure and hepatic neoplasms and neoplasia-related liver lesions in English sole (Pleuronectes vetulus). Human and Ecological Risk Assessment, 9:67-94.

Roni, P. 2003. Responses of benthic fishes and giant salamanders to placement of large woody debris in small Pacific Northwest streams. North American Journal of Fisheries Management, 23:1087-1097.

Roy, L. A., J. L. Armstrong, K. Sakamoto, S. Steinert, E. Perkins, D. P. Lomax, L. L. Johnson, D. Schlenk. 2003. The relationships of biochemical endpoints to histopathology and population metrics in feral flatfish species collected near the municipal wastewater outfall of Orange County, California, USA. Environmental Toxicology and Chemistry, 22:1309-1317.

Steel, E. A., L. Johnston, B. E. Feist, G. R. Pess, R. E. Bilby, D. Jensen, T. J. Beechie, J. M. Myers. 2003. Pacific salmon recovery planning and the Salmonid Watershed Analysis Model (SWAM): a broad-scale tool for assisting in the development of habitat recovery plans. Endangered Species Update, 20(1):3-15.

Trainer, V. L., B. L. Eberhart, J. C. Wekell, N. G. Adams, L. Hanson, F. Cox, J. Dowell. 2003. Paralytic shellfish toxins in Puget Sound, Washington state. Journal of Shellfish Research, 22:213-223.

2002

Arkoosh, M. R., T. K. Collier. 2002. Ecological Risk Assessment Paradigm for Salmon: Analyzing immune function to evaluate risk. Human and Ecological Risk Assessment, 8:265-276.

Collier, T. K., J. P. Meador, L. L. Johnson. 2002. Introduction: Fish tissue and sediment effects thresholds for polychlorinated biphenyls, polycyclic aromatic hydrocarbons, and tributyltin. Aquatic Conservation: Marine and Freshwater Ecosystems, 12:489-492.

Johnson, L. L., T. K. Collier, J. E. Stein. 2002. An analysis in support of sediment quality thresholds for polycyclic aromatic hydrocarbons (PAHs) to protect estuarine fish. Aquatic Conservation: Marine and Freshwater Ecosystems, 12:517-538.

Judd, N. L., W. C. Griffith, G. M. Ylitalo, E. M. Faustman. 2002. Alternative strategies for PCB risk reduction from contaminated seafood: Options for children as susceptible populations. Bulletin of Environmental Contamination and Toxicology, 69:847-854.

Kiffney, P. M., J. P. Bull, M. C. Feller. 2002. Climatic and hydrologic variability in a coastal watershed of southwestern British Columbia. Journal of the American Water Resources Association, 38:1437-1451.

Lefebvre, K. A., S. Bargu, T. Kieckhefer, M. W. Silver. 2002. From sanddabs to blue whales: the pervasiveness of domoic acid. Toxicon, 40:971-977.

Levin, P. S., S. Achord, B. E. Feist, R. W. Zabel. 2002. Non-indigenous brook trout and the demise of threatened Snake River salmon: a forgotten threat? Proceedings of the Royal Society of London. Series B, 269:1663-1670.

Loughlin, T. R., M. A. Castellini, G. M. Ylitalo. 2002. Spatial aspects of organochlorine contamination in northern fur seal tissues. Marine Pollution Bulletin, 44:1024-1034.

Meador, J. P., T. K. Collier, J. E. Stein. 2002. Determination of a tissue and sediment threshold for tributyltin to protect prey species for juvenile salmonids listed by the U. S. Endangered Species Act. Aquatic Conservation: Marine and Freshwater Ecosystems, 12:539-551.

Meador, J. P., T. K. Collier, J. E. Stein. 2002. Use of tissue and sediment-based threshold concentrations of polychlorinated biphenyls (PCBs) to protect juvenile salmonids listed under the U.S. Endangered Species Act. Aquatic Conservation: Marine and Freshwater Ecosystems, 12:493-516.

Morley, S. A., J. R. Karr. 2002. Assessing and restoring the health of urban streams in the Puget Sound Basin. Conservation Biology, 16:1498-1509.

Pess, G. R., D. R. Montgomery, E. A. Steel, R. E. Bilby, B. E. Feist, H. M. Greenberg. 2002. Landscape characteristics, land use, and coho salmon (Oncorhynchus kisutch) abundance, Snohomish River, Wash., USA. Canadian Journal of Fisheries and Aquatic Sciences, 59:613-623.

Pess, G. R., D. R. Montgomery, R. E. Bilby, E. A. Steel, B. E. Feist, H. M. Greenberg. 2002. Landscape characteristics, land use, and coho salmon (Oncorhynchus kisutch) abundance, Snohomish River, Washington, USA. Canadian Journal of Fisheries and Aquatic Sciences, 59:613-623.

Roni, P., T. J. Beechie, R. E. Bilby, F. E. Leonetti, M. M. Pollock, G. R. Pess. 2002. A review of stream restoration techniques and a hierarchical strategy for prioritizing restoration in Pacific Northwest watersheds. North American Journal of Fisheries Management, 22(1):1-20.

Roni, P. 2002. Habitat Use by Fishes and Pacific Giant Salamanders in Small Western Oregon and Washington Streams. Transactions of the American Fisheries Society, 131:743-761.

Stehr, C. M., L. Connell, K. A. Baugh, B. D. Bill, N. G. Adams, V. L. Trainer. 2002. Morphological, toxicological, and genetic differences among Pseudo-nitzschia (Bacillariophyceae) species in inland embayments and outer coastal waters of Washington State, USA. Journal of Phycology, 38:55-65.

Tilbury, K. L., J. E. Stein, C. A. Krone, R. L. Brownell Jr., S. A. Blokhin, J. L. Bolton, D. W. Ernest. 2002. Chemical contaminants in juvenile gray whales (Eschrichtius robustus) from a subsistence harvest in Arctic feeding grounds. Chemosphere, 47:555-564.

Trainer, V. L., B. M. Hickey, R. A. Horner. 2002. Biological and physical dynamics of domoic acid production off the Washington U.S.A. coast. Limnology and Oceanography, 47:1438-1446.

Trainer, V. L. 2002. Marine biology - Unveiling an ocean phantom. Nature, 418:925-926.

Wargo Rub, A. M., D. J. Wright, J. A. Jones. 2002. A novel landscape ecology approach for determining habitat correlations and macrofaunal patchiness in extreme environments: pilot study for the Southern East Pacific Rise at 17-18 degrees S. Cahiers de Biologie Marine, 43:307-311.

Wekell, J. C., V. L. Trainer, D. Ayres, D. Simons. 2002. A study of spatial variability of domoic acid in razor clams: recommendations for resource management on the Washington coast. Harmful Algae, 1:35-43.

Welty, J. J., T. J. Beechie, K. Sullivan, D. M. Hyink, R. E. Bilby, C. Andrus, G. R. Pess. 2002. Riparian Aquatic Interaction Simulator (RAIS): a model of riparian forest dynamics for the generation of large woody debris and shade. Forest Ecology and Management, 162:299-318.

2001

Aas, E., J. Beyer, G. Jonsson, W. L. Reichert, O. K. Andersen. 2001. Evidence of uptake, biotransformation and DNA binding of polyaromatic hydrocarbons in Atlantic cod and sea partridge caught in the vicinity of an aluminum works. Marine Environmental Research, 52:213-229.

Arkoosh, M. R., E. Casillas, E. R. Clemons, P. A. Huffman, A. N. Kagley, T. K. Collier, J. E. Stein. 2001. Increased susceptibility of juvenile chinook salmon (Oncorhynchus tshawytscha) to vibriosis after exposure to chlorinated and aromatic compounds found in contaminated urban estuaries. Journal of Aquatic Animal Health, 13:257-268.

Beechie, T. J. 2001. Empirical predictors of annual bed load travel distance, and implications for salmonid habitat restoration and protection. Earth Surface Processes and Landforms, 26:1025-1034.

Herman, D. P., J. I. Effler, D. T. Boyd, M. M. Krahn. 2001. An efficient clean-up method for the GC-MS determination of methylsulfonyl-PCBs/DDEs extracted from various marine mammal tissues. Marine Environmental Research, 52(2):127-150.

Hyyti, O. M., M. Nyman, M. L. Willis, H. Raunio, O. Pelkonen. 2001. Distribution of cytochrome P4501A (CYP1A) in the tissues of Baltic ringed and grey seals. Marine Environmental Research, 51:465-485.

Juhl, A. R., V. L. Trainer, M. I. Latz. 2001. Effect of fluid shear and irradiance on population growth and cellular toxin content of the dinoflagellate Alexandrium fundyense. Limnology and Oceanography, 46(4):758-764.

Kahler, T. H., P. Roni, T. P. Quinn. 2001. Summer movement and growth of juvenile anadromous salmonids in small western Washington streams. Canadian Journal of Fisheries and Aquatic Sciences, 58:1947-1956.

Kiffney, P. M., J. S. Richardson. 2001. Interactions among nutrients, periphyton, and invertebrate and vertebrate (Ascaphus truei) grazers in experimental channels. Copeia, 2001:422-429.

Koponen, K., M. S. Myers, O. Ritola, S. E. Husskonen, P. Lindstrom-Seppa. 2001. Histopathology of feral fish from a PCB-contaminated freshwater lake. Ambio, 30(3):122-126.

Krahn, M. M., G. M. Ylitalo, D. G. Burrows, J. Calambokidis, S. E. Moore, M. Gosho, P. Gearin, P. D. Plesha, R. L. Brownell Jr., S. A. Blokhin, K. L. Tilbury, T. Rowles, J. E. Stein. 2001. Organochlorine contaminant concentrations and lipid profiles in eastern North Pacific gray whales (Eschrichtius robustus). Journal of Cetacean Research and Management, 3(1):19-29.

Larson, M. L., D. B. Booth, S. A. Morley. 2001. Effectiveness of large woody debris in stream rehabilitation projects in urban basins. Ecological Engineering, (18)211-226.

Meador, J. P., C. A. Rice. 2001. Impaired growth in the polychaete Armandia brevis exposed to tributyltin in sediment. Marine Environmental Research, 51:113-129.

Roni, P., T. P. Quinn. 2001. Density and size of juvenile salmonids in response to placement of large woody debris in western Oregon and Washington streams. Canadian Journal of Fisheries and Aquatic Sciences, 58:282-292.

Roni, P., T. P. Quinn. 2001. Effects of artificial wood placement on movements of trout and juvenile coho in natural and artificial channels. Transactions of the American Fisheries Society, 130:675-685.

Roni, P., T. P. Quinn. 2001. Effects of wood placement on movements of trout and juvenile coho salmon in natural and artificial stream channels. Transactions of the American Fisheries Society, 130:675-685.

Rose, W. L., B. L. French, W. L. Reichert, M. Faisal. 2001. Persistence of benzo[a]pyrene-DNA adducts in hematopoietic tissues and blood of the mummichog, Fundulus heteroclitus. Aquatic Toxicology, 52:319-328.

Willett, K. L., D. Wassenberg, L. Lienesch, W. L. Reichert, R. T. Di Giulio. 2001. In vivo and In vitro inhibition of CYP1A-dependent activity in Fundulus heteroclitus by the polynuclear aromatic hydrocarbon (PAH) fluoranthene. Toxicology and Applied Pharmacology, 177:264-271.

Ylitalo, G. M., C. O. Matkin, J. Buzitis, M. M. Krahn, L. L. Jones, T. Rowles, J. E. Stein. 2001. Influence of life-history parameters on organochlorine concentrations in free-ranging killer whales (Orcinus orca) from Prince William Sound, AK. Science of the Total Environment, 281:183-203.

2000

Adams, N. G., M. Lesoing, V. L. Trainer. 2000. Environmental conditions associated with domoic acid in razor clams on the Washington coast. Journal of Shellfish Research, 19:1007-1015.

Arukwe, A., R. Male, L. L. Johnson, K. A. Peck-Miller, T. K. Collier, A. Goksoyr. 2000. Fish Zona radiata (eggshell) proteins: evaluation and validation as a biomarker for xenoestrogen monitoring. Marine Environmental Research, 50:195-196.

Baro, D. J., A. Ayali, L. French, N. L. Scholz, J. S. Labenia, C. C. Lanning, K. Graubard, R. M. Harris-Warrick. 2000. Molecular underpinnings of motor pattern generation: Differential targeting of shal and shaker in the pyloric motor system. Journal of Neuroscience, 20:6619-6630.

Beechie, T. J., G. R. Pess, P. Kennard, R. E. Bilby, S. Bolton. 2000. Modeling recovery rates and pathways for woody debris recruitment in northwestern Washington streams. North American Journal of Fisheries Management, 20:436-452.

Curtis, K. M., V. L. Trainer, S. E. Shumway. 2000. Paralytic shellfish toxins in geoduck clams (Panope abrupta): variability, anatomical distribution, and comparison of two toxin detection methods. Journal of Shellfish Research, 19(1):313-319.

Feist, B. E., C. A. Simenstad. 2000. Expansion rates and recruitment frequency of exotic smooth cordgrass, Spartina alterniflora (Loisel), colonizing unvegetated littoral flats in Willapa Bay, Washington. Estuaries, 23(2):267-274.

Kent, M. L., M. S. Myers. 2000. Hepatic infection of redstriped rockfish (Sebastes proriger) by a putative herpesvirus and associated histopathology. Diseases of Aquatic Organisms, 41:237-239.

Khattra, J. S., S. J. Gresoviac, M. L. Kent, M. S. Myers, R. P. Hedrick, R. H. Devlin. 2000. Molecular detection and phylogenetic placement of a microsporidian from English sole (Pleuronectes vetulus) affected by X-cell tumors. Journal of Parasitology, 86(4):867-871.

Kiffney, P. M., J. P. Bull. 2000. Factors controlling periphyton accrual during summer in headwater streams of southwestern British Columbia, Canada. Journal of Freshwater Ecology, 15:339-351.

Kiffney, P. M., J. S. Richardson, M. C. Feller. 2000. Fluvial and epilithic organic matter dynamics in small streams of southwestern British Columbia, Canada. Archives of Hydrobiology, 149:109-129.

Koponen, K., M. S. Myers. 2000. Seasonal changes in intra- and interorgan occurrence of rodlet cells in freshwater bream. Journal of Fish Biology, 56:250-263.

Meador, J. P. 2000. Predicting the fate and effects of tributyltin in marine systems. Reviews of Environmental Contamination and Toxicology, 166:1-48.

Rice, C. A., M. S. Myers, M. L. Willis, B. L. French, E. Casillas. 2000. From sediment bioassay to fish biomarker - connecting the dots using simple trophic relationships. Marine Environmental Research, 50:527-533.

Richardson, J. S., P. M. Kiffney. 2000. Responses of a macroinvertebrate community from a pristine, southern British Columbia, Canada stream to metals in experimental mesocosms. Environmental Toxicology and Chemistry, 19:736-734.

Richardson, J., P. M. Kiffney. 2000. Response of macroinvertebrate communities from a pristine, southern British Columbia stream to metals in experimental mesocosms. Environmental Toxicology and Chemistry, 19:736-743.

Roni, P., A. Fayram. 2000. Estimating winter salmonid abundance in small western Washington streams: a comparison of three techniques. North American Journal of Fisheries Management, 20:683-692.

Rose, W. L., B. L. French, W. L. Reichert, M. Faisal. 2000. DNA adducts in hematopoietic tissues and blood of the mummichog (Fundulus heteroclitus) from a creosote-contaminated site in the Elizabeth River, Virginia. Marine Environmental Research, 50:581-589.

Scholz, N. L., N. Truelove, B. L. French, B. A. Berejikian, T. P. Quinn, E. Casillas, T. K. Collier. 2000. Diazinon disrupts antipredator and homing behaviors in chinook salmon (Oncorhynchus tshawytscha). Canadian Journal of Fisheries and Aquatic Sciences, 57:1911-1918.

Scholz, N. L., T. K. Collier. 2000. Endangered salmon and probabilistic risk assessments for organophosphate pesticides. SETAC Globe, 1:32-33.

Sol, S. Y., L. Lyndal, B. Johnson, H. Horness, T. K. Collier. 2000. Relationship between oil exposure and reproductive parameters in fish collected following the EXXON VALDEZ oil spill. Marine Pollution Bulletin, 40:1139-1147.

Stehr, C. M., D. W. Brown, T. Hom, B. F. Anulacion, W. L. Reichert, T. K. Collier. 2000. Exposure of juvenile chinook and chum salmon to chemical contaminants in the Hylebos Waterway of Commencement Bay, Tacoma, Washington. Journal of Aquatic Ecosystem Stress and Recovery, 7:215-227.

Trainer, V. L., N. G. Adams, B. D. Bill, C. M. Stehr, J. C. Wekell, P. Moeller, M. Busman, D. Woodruff. 2000. Domoic acid production near California upwelling zones, June 1998. Limnology and Oceanography, 45(8):401-440.

1999

Beckmen, K. B., G. M. Ylitalo, R. G. Towell, M. M. Krahn, T. M. O'Hara, J. E. Blake. 1999. Factors affecting organochlorine contaminant concentrations in milk and blood of northern fur seal (Callorhinus ursinus) dams and pups from St. George Island, Alaska. Science of the Total Environment, 231:183-200.

Clemons, E. R., M. R. Arkoosh, E. Casillas. 1999. Enhanced superoxide anion production in activated peritoneal macrophages from English sole (Pleuronectes vetulus) exposed to polycyclic aromatic compounds. Marine Environmental Research, 47:71-87.

Gallagher, E. P., K. Sheehy, P. Janssen, D. L. Eaton, T. K. Collier. 1999. Isolation and cloning of homologous glutathione S-transferase cDNAs from English sole and starry flounder. Aquatic Toxicology, 44:171-182.

Hufnagle, L. C. Jr., S. E. Camarata, D. W. Ernest, C. A. Krone, S. Chan, M. M. Krahn. 1999. Development and application of a high-performance liquid chromatography screening method for aromatic compounds in invertebrate tissues. Archives of Environmental Contamination and Toxicology, 37:220-226.

Johnson, L. L., S. Y. Sol, G. M. Ylitalo, T. Hom, B. L. French, O. P. Olson, T. K. Collier. 1999. Reproductive injury in English sole (Pleuronectes vetulus) from Hylebos Waterway, Commencement Bay, Washington. Journal of Aquatic Ecosystem Stress and Recovery, 6:289-310.

Krahn, M. M., D. G. Burrows, J. E. Stein, P. R. Becker, M. M. Schantz, D. C. Muir, T. M. O'Hara. 1999. White whales (Delphinapterus leucas) from three Alaskan stocks: concentrations and patterns of persistent organochlorine contaminants in blubber. Journal of Cetacean Research and Management, 1:239-249.

Krone, C. A., P. A. Robisch, K. L. Tilbury, J. E. Stein, E. A. Mackey, P. R. Becker, T. M. O'Hara, L. M. Philo. 1999. Elements in liver tissues of bowhead (Balaena mysticetus) whales. Marine Mammal Science, 15:123-142.

Meador, J. P., D. W. Ernest, A. A. Hohn, K. L. Tilbury, J. Gorzelany, G. Worthy, J. E. Stein. 1999. Comparison of elements in bottlenose dolphins stranded on the beaches of Texas and Florida in the Gulf of Mexico over a one-year period. Archives of Environmental Contamination and Toxicology, 36:87-98.

O'Hara, T. M., M. M. Krahn, D. T. Boyd, P. R. Becker, L. M. Philo. 1999. Organochlorine contaminant levels in eskimo harvested bowhead whales of arctic Alaska. Journal of Wildlife Diseases, 35:741-752.

Reichert, W. L., B. L. French, J. E. Stein. 1999. Biological effects of contaminants: Measurement of DNA adducts in fish by 32P -postlabelling. International Council for the Exploration of the Sea Techniques in Marine Environmental Sciences, 25(1-45).

Reichert, W. L., B. L. French, J. E. Stein. 1999. Exposure of Marine Mammals to Genotoxic Environmental Contaminants: Application of the 32p-Postlabeling Assay for Measuring DNA-Xenobiotic Adducts. Environmental Monitoring and Assessment, 56:223-239.

Sanderson, B. L., T. R. Hrabik, J. J. Magnuson, D. M. Post. 1999. Cyclic dynamics of a yellow perch (Perca flavescens) population in an oligotrophic lake: evidence for the role of intraspecific interactions. Canadian Journal of Fisheries and Aquatic Sciences, 56:1534-1542.

Tilbury, K. L., N. G. Adams, C. A. Krone, J. P. Meador, G. Early, U. Varanasi. 1999. Organochlorines in stranded pilot whales (Globicephala melaena) from the Coast of Massachusetts. Archives of Environmental Contamination and Toxicology, 37:125-134.

Trainer, V. L., D. G. Baden. 1999. High-affinity binding of red tide neurotoxins to marine mammal brain. Aquatic Toxicology, 46:139-148.

Ylitalo, G. M., J. Buzitis, M. M. Krahn. 1999. Analyses of tissues of eight marine species from Atlantic and Pacific Coasts for dioxin-like chlorobiphenyls (CBs) and total CBs. Archives of Environmental Contamination and Toxicology, 37:205-219.

1998

Anulacion, B. F., M. S. Myers, M. L. Willis, T. K. Collier. 1998. Quantitation of CYP1A expression in two flatfish species showing different prevalences of contaminant-induced hepatic disease. Marine Environmental Research, 46:7-11.

Arkoosh, M. R., E. Casillas, E. R. Clemons, A. N. Kagley, R. Olson, P. Reno, J. E. Stein. 1998. Effect of pollution on fish diseases: Potential impacts on salmonid populations. Journal of Aquatic Animal Health, 10:182-190.

Arkoosh, M. R., E. R. Clemons, A. N. Kagley, R. Olson, P. Reno, E. Casillas, J. E. Stein. 1998. Effects of pollution of fish diseases: Potential impacts on salmonid populations. Journal of Aquatic Animal Health, 10:182-190.

Arkoosh, M. R., E. Casillas, P. A. Huffman, E. R. Clemons, J. Evered, J. E. Stein, U. Varanasi. 1998. Increased susceptibility of juvenile chinook salmon from a contaminated estuary to Vibrio anguillarum. Transactions of the American Fisheries Society, 127:360-374.

Brown, D. W., B. B. McCain, B. H. Horness, C. A. Sloan, K. L. Tilbury, S. M. Pierce, D. G. Burrows, S. Chan, J. T. Landahl, M. M. Krahn. 1998. Status, correlations and temporal trends of chemical contaminants in fish and sediment from selected sites on the Pacific coast of the USA. Marine Pollution Bulletin, 37:67-85.

Collier, T. K., L. L. Johnson, C. M. Stehr, M. S. Myers, J. E. Stein. 1998. A comprehensive assessment of the impacts of contaminants on fish from an urban waterway. Marine Environmental Research, 46:243-247.

Collier, T. K., B. F. Anulacion, B. D. Bill. 1998. Hepatic CYP1A in winter flounder (Pleuronectes americanus) along the northeast coast: Results from the National Benthic Surveillance Project. Marine Pollution Bulletin, 37:86-91.

Horness, B. H., D. P. Lomax, L. L. Johnson, M. S. Myers, S. M. Pierce, T. K. Collier. 1998. Sediment quality thresholds: Estimates from hockey stick regression of liver lesion prevalence in English sole (Pleuronectes vetulus). Environmental Toxicology and Chemistry, 17:872-882.

Johnson, L. L., J. T. Landahl, L. A. Kubin, B. H. Horness, M. S. Myers, T. K. Collier, J. E. Stein. 1998. Assessing the effects of anthropogenic stressors on Puget Sound flatfish populations. Journal of Sea Research, 39:125-137.

Johnson, L. L., D. Misitano, S. Y. Sol, G. M. Nelson, B. L. French, G. M. Ylitalo, T. Hom. 1998. Contaminant effects on ovarian development and spawning success in rock sole from Puget Sound, Washington. Transactions of the American Fisheries Society, 127:375-392.

Krahn, M. M., J. E. Stein. 1998. Assessing exposure of marine biota and habitats to petroleum compounds. Analytical Chemistry, 70:186A-192A.

Lomax, D. P., W. T. Roubal, J. D. Moore, L. L. Johnson. 1998. An Enzyme-Linked Immunosorbent Assay (ELISA) for measuring vitellogenin in English sole (Pleuronectes vetulus): Development, validation and cross reactivity with other Pleuronectids. Comparative Biochemistry and Physiology, 121:425-436.

Meador, J. P., T. H. Sibley, G. L. Swartzman, F. B. Taub. 1998. Copper tolerance by the freshwater algal species Oocystis pusilla and its ability to alter free-ion copper. Aquatic Toxicology, 44:69-82.

Meador, J. P., P. A. Robisch, R. C. Clark Jr., D. W. Ernest. 1998. Elements in fish and sediment from the Pacific Coast of the United States: Results from the National Benthic Surveillance Project. Marine Pollution Bulletin, 37:56-66.

Myers, M. S., B. L. French, W. L. Reichert, M. L. Willis, B. F. Anulacion, T. K. Collier, J. E. Stein. 1998. Reductions in CYP1A expression and hydrophobic DNA adducts in liver neoplasms of English sole (Pleuronectes vetulus): Further support for the "resistant hepatocyte" model of hepatocarcinogenesis. Marine Environmental Research, 46:197-202.

Myers, M. S., L. L. Johnson, O. P. Olson, C. M. Stehr, B. H. Horness, T. K. Collier, B. B. McCain. 1998. Toxicopathic hepatic lesions as biomarkers of chemical contaminant exposure and effects in marine bottomfish species from the Northeast and Pacific Coasts, USA. Marine Pollution Bulletin, 37:92-113.

Myers, M. S., L. L. Johnson, T. Hom, T. K. Collier, J. E. Stein, U. Varanasi. 1998. Toxicopathic hepatic lesions in subadult English sole (Pleuronectes vetulus) from Puget Sound, Washington, USA: Relationships with other biomarkers of contaminant exposure. Marine Environmental Research, 45:47-67.

Peck-Miller, K. A., M. S. Myers, T. K. Collier, J. E. Stein. 1998. Complete cDNA sequence of the Ki-ras proto-oncogene in liver of wild English sole (Pleuronectes vetulus) and mutation analysis of hepatic neoplasms and other toxicopathic liver lesions. Molecular Carcinogenesis, 23:207-216.

Reichert, W. L., M. S. Myers, K. A. Peck-Miller, B. L. French, B. F. Anulacion, T. K. Collier, J. E. Stein, U. Varanasi. 1998. Molecular epizootiology of genotoxic events in marine fish: linking contaminant exposure, DNA damage, and tissue-level alterations. Mutatation Research, 411:215-225.

Sol, S. Y., O. P. Olson, D. P. Lomax, L. L. Johnson. 1998. Gonadal development and associated changes in plasma reproductive steroids in English sole (Pleuronectes vetulus) from Puget Sound, Washington. Fishery Bulletin, 96:859-870.

Stehr, C. M., L. L. Johnson, M. S. Myers. 1998. Hydropic vacuolation in the liver of three species of fish from the US West Coast: lesion description and risk assessment associated with contaminant exposure. Diseases of Aquatic Organisms, 32:119-135.

Watson, D. E., W. L. Reichert, R. T. DiGiulio. 1998. Induction of hepatic CYP1A in channel catfish increases binding of 2-aminoanthracene to DNA in vitro and in vivo. Carcinogenesis, 19:1495-1501.

1997

Anulacion, B. F., B. D. Bill, T. K. Collier. 1997. Stability of cytochrome P4501A-associated enzyme activity in cryogenically stored teleost liver samples. Chemosphere, 34:2029-2039.

Eufemia, N. A., T. K. Collier, J. E. Stein, D. E. Watson, R. T. DiGiulio. 1997. Biochemical responses to sediment-associated contaminants in brown bullhead (Ameriurus nebulosus) from the Niagara River ecosystem. Ecotoxicology, 6:13-34.

Huffman, P. A., M. R. Arkoosh, E. Casillas. 1997. Characteristics of peripheral blood cells from rainbow trout evaluated by particle counter, image analysis, and hemocytometric techniques. Journal of Aquatic Animal Health, 9:239-248.

Johnson, L. L., S. Y. Sol, D. P. Lomax, G. M. Nelson, C. A. Sloan, E. Casillas. 1997. Fecundity and egg weight in English sole (Pleuronectes vetulus) from Puget Sound, Washington, U.S.A.: Influence of nutritional status and chemical contaminants. Fishery Bulletin, 92:232-250.

Johnson, L. L., B. Norberg, M. L. Willis, H. Zebroski, P. Swanson. 1997. Isolation, characterization and radioimmunoassay of Atlantic halibut somatolactin and plasma levels during stress and reproduction in flatfish. General and Comparative Endocrinology, 105:194-209.

Johnson, L. L., B. Norberg, M. L. Willis, H. Zebrowski, P. Swanson. 1997. Isolation, characterization, and measurement of plasma levels of somatolactin in Atlantic halibut (Hippoglossus hippoglossus). General and Comparative Endocrinology, 105:194-209.

Krahn, M. M., J. E. Stein. 1997. Analytical approaches for assessing exposure of marine biota and habitats to petroleum-related aromatic compounds. Analytical Chemistry, 70:186A-192A.

Krahn, M. M., P. R. Becker, K. L. Tilbury, J. E. Stein. 1997. Organochlorine contaminants in blubber of four seal species: Integrating biomonitoring and specimen banking. Chemosphere, 34:2109-2121.

Landahl, J. T., L. L. Johnson, T. K. Collier, J. E. Stein, U. Varanasi. 1997. Marine pollution and fish population parameters: English sole (Pleuronectes vetulus) in Puget Sound, Washington. Transactions of the American Fisheries Society, 126:519-535.

Lund, J., H. Barnett, C. L. Hatfield, E. J. Gauglitz Jr., J. C. Wekell, B. Rasco. 1997. Domoic acid uptakes and depuration in Dungeness crab (Cancer magister dana 1852). Journal of Shellfish Research, 16(1):225-232.

Meador, J. P., N. G. Adams, E. Casillas, J. L. Bolton. 1997. Comparative bioaccumulation of chlorinated hydrocarbons from sediment by two infaunal invertebrates. Archives of Environmental Contamination and Toxicology, 33:388-400.

Meador, J. P. 1997. Comparative toxicokinetics of tributyltin in five marine species and its utility in predicting bioaccumulation and acute toxicity. Aquatic Toxicology, 37:307-326.

Meador, J. P., C. A. Krone, D. W. Dyer, U. Varanasi. 1997. Toxicity of sediment-associated tributyltin to infaunal invertebrates: species comparison and the role of organic carbon. Marine Environmental Research, 43:219-241.

Roubal, W. T., D. P. Lomax, M. L. Willis, L. L. Johnson. 1997. Purification and partial characterization of English sole (Pleuronectes vetulus) vitellogenin. Comparative Biochemistry and Physiology, Part B: Biochemistry and Molecular Biology, 118:613-622.

Stehr, C. M., M. S. Myers, D. G. Burrows, M. M. Krahn, J. P. Meador, B. B. McCain, U. Varanasi. 1997. Chemical contamination and associated liver diseases in two species of fish from San Francisco Bay and Bodega Bay, CA. Ecotoxicology, 6(1):35-65.

Tilbury, K. L., J. E. Stein, J. P. Meador, C. A. Krone, S. Chan. 1997. Chemical contaminants in harbor porpoise (Phocoena phocoena) from the north Atlantic coast: Tissue concentrations and intra- and inter-organ distribution. Chemosphere, 34(9/10):2159-2181.

1996

Arkoosh, M. R., E. R. Clemons, P. A. Huffman, H. R. Sanborn, E. Casillas, J. E. Stein. 1996. Evaluation of the leukoproliferative response of English sole (Pleuronectes vetulus) as a biomarker for immune dysfunction. Marine Environmental Research, 42:181-186.

Arkoosh, M. R., E. R. Clemons, P. A. Huffman, H. R. Sanborn, E. Casillas, J. E. Stein. 1996. Leukoproliferative response of splenic leukocytes from English sole (Pleuronectes vetulus) exposed to chemical contaminants. Environmental Toxicology and Chemistry, 15(7):1154-1162.

Collier, T. K., C. A. Krone, M. M. Krahn, J. E. Stein, S. Chan, U. Varanasi. 1996. Petroleum exposure and associated biochemical effects in subtidal fish after the Exxon Valdez oil spill. Transactions of the American Fisheries Society, 18:671-683.

French, B. L., W. L. Reichert, T. Hom, M. Nishimoto, H. R. Sanborn, J. E. Stein. 1996. Accumulation and dose-response of hepatic DNA adducts in English sole (Pleuronectes vetulus) exposed to a gradient of contaminated sediments. Aquatic Toxicology, 36:1-16.

Husoy, A. M., M. S. Myers, A. Goksoyr. 1996. Cellular localization of cytochrome P450 (CYP1A) induction and histology in Atlantic cod (Gadus morhua L) and European flounder (Platichthys flesus) after environmental exposure to contaminants by caging in Sorfjorden, Norway. Aquatic Toxicology, 36:53-74.

Kerr, D., J. P. Meador. 1996. Modeling dose-response with generalized linear models. Environmental Toxicology and Chemistry, 15:395-401.

McCain, B. B., D. W. Brown, T. Hom, M. S. Myers, S. M. Pierce, T. K. Collier, J. E. Stein, S. Chan, U. Varanasi. 1996. Chemical contaminant exposure and effects in four fish species from Tampa Bay, Florida. Estuaries, 19:86-104.

Wekell, J. C., R. H. Lorenzana, M. Hogan, H. Barnett. 1996. Survey of paralytic shellfish poison and domoic acid in Puget Sound predatory gastropods. Journal of Shellfish Research, 15(2):231-236.

1995

Collier, T. K., B. F. Anulacion, J. E. Stein, A. Goksoyr, U. Varanasi. 1995. A field evaluation of cytochrome P4501A as a biomarker of contaminant exposure in three species of flatfish. Environmental Toxicology and Chemistry, 14:143-152.

Hardy, R. W., T. M. Scott, C. L. Hatfield, H. Barnett, E. J. Gauglitz Jr., J. C. Wekell, M. W. Eklund. 1995. Domoic acid in rainbow trout (Oncorhynchus mykiss) feeds. Aquaculture, 131:253-260.

Hatfield, C. L., E. J. Gauglitz Jr., H. Barnett, J. Lund, J. C. Wekell. 1995. The fate of domoic acid in Dungeness crab (Cancer magister) as a function of processing. Journal of Shellfish Research, 14(2):359-363.

Johnson, L. L., J. E. Stein, T. Hom, T. K. Collier, S. Y. Sol, U. Varanasi. 1995. Effects of exposure to Prudhoe Bay crude oil on reproductive function in gravid female flatfish. Environmental Science, 3(2):67-81.

Meador, J. P., J. E. Stein, W. L. Reichert, U. Varanasi. 1995. Bioaccumulation of polycyclic aromatic hydrocarbons by marine organisms. Reviews of Environmental Contamination and Toxicology, 143:79-165.

Meador, J. P., E. Casillas, C. A. Sloan, U. Varanasi. 1995. Comparative bioaccumulation of polycyclic aromatic hydrocarbons from sediment by two infaunal invertebrates. Marine Ecology Progress Series, 123:107-124.

Myers, M. S., M. L. Willis, A. M. Husoy, T. K. Collier, A. Goksoyr. 1995. Immunohistochemical localization of cytochrome P4501A1 in multiple types of contaminant-associated hepatic lesions in English sole (Pleuronectes vetulus). Marine Environmental Research, 39:283-288.

Nishimoto, M., B. L. Eberhart, H. R. Sanborn, C. A. Krone, U. Varanasi, J. E. Stein. 1995. Effects of a complex mixture of chemical contaminants of hepatic glutathione, L-cysteine and gamma -glutamylcysteine synthetase in English sole (Pleuronectes vetulus). Environmental Toxicology and Chemistry, 14:461-469.

Rice, C. A., P. D. Plesha, E. Casillas, D. Misitano, J. P. Meador. 1995. Growth and survival of three marine invertebrate species in sediments from the Hudson-Raritan estuary, New York. Environmental Toxicology and Chemistry, 14:1931-1940.

Stein, J. E., T. Hom, T. K. Collier, D. W. Brown, U. Varanasi. 1995. Contaminant exposure and biochemical effects in outmigrant juvenile chinook salmon from urban and non-urban estuaries of Puget Sound, WA. Environmental Toxicology and Chemistry, 14:1019-1029.

Stein, J. E., W. L. Reichert, B. L. French, B. F. Anulacion, U. Varanasi. 1995. Toxicokinetics of xenobiotic-DNA adducts in English sole (Pleuronectes vetulus): studies with laboratory and environmentally exposed sole. Marine Environmental Research, 39:373.

Teskeredzic, A., D. A. Higgs, B. S. Dosanjh, J. R. Mcbride, R. W. Hardy, R. M. Beames, J. D. Jones, M. Simell, T. Vaara, R. B. Bridges. 1995. Assessment of undephytinized and dephytinized rapeseed protein concentrate as sources of dietary protein for juvenile rainbow trout (Oncorhynchus mykiss). Aquaculture, 131:261-277.

1994

Arkoosh, M. R., E. R. Clemons, E. Casillas. 1994. Proliferative response of English sole splenic leukocytes to mitogens. Transactions of the American Fisheries Society, 123:230-241.

Arkoosh, M. R., E. R. Clemons, M. S. Myers, E. Casillas. 1994. Suppression of B-cell mediated immunity in juvenile chinook salmon (Oncorhynchus tshawytscha) after exposure to either a polycyclic aromatic hydrocarbon or to polychlorinated biphenyls. Immunopharmacology and Immunotoxicology, 16(2):293-314.

Fairgrieve, W. T., M. S. Myers, R. W. Hardy, F. M. Dong. 1994. Gastric abnormalities in rainbow trout (Oncorhynchus mykiss) fed amine-supplemented diets or chicken gizzard-erosion-positive fish meal. Aquaculture, 127:219-232.

Hatfield, C. L., J. C. Wekell, E. J. Gauglitz Jr., H. Barnett. 1994. Salt clean-up procedure for the determination of domoic acid by HPLC. Natural Toxins, 2:206-211.

Husoy, A. M., M. S. Myers, M. L. Willis, T. K. Collier, M. Celander, A. Goksoyr. 1994. Immunohistochemical localization of CYP1A and CYP3A-like isozymes in hepatic and extrahepatic tissues of Atlantic cod (Gadus morhua L.), a marine fish. Toxicology and Applied Pharmacology, 129:294-308.

Johnson, L. L., J. T. Landahl. 1994. Chemical contaminants, liver disease, and mortality rates in English sole (Pleuronectes vetulus). Ecological Applications, 4:59-68.

Johnson, L. L., J. E. Stein, T. K. Collier, E. Casillas, U. Varanasi. 1994. Indicators of reproductive development in prespawning female winter flounder (Pleuronectes americanus) from urban and non-urban estuaries in the northeast United States. Science of the Total Environment, 141:241-260.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, C. A. Sloan, D. T. Boyd, S. Chan, U. Varanasi. 1994. Screening for planar chlorobiphenyl congeners in tissues of marine biota by high-performance liquid chromatography with photodiode array detection. Chemosphere, 29(1):117-139.

Meador, J. P., U. Varanasi, P. A. Robisch, S. Chan. 1994. Toxic metals in pilot whales (Globicephala melaena) from strandings in 1986 and 1990 on Cape Cod, Massachusetts. Canadian Journal of Fisheries and Aquatic Sciences, 50:2698-2706.

Myers, M. S., C. M. Stehr, O. P. Olson, L. L. Johnson, B. B. McCain, S. Chan, U. Varanasi. 1994. Relationships between toxicopathic hepatic lesions and exposure to chemical contaminants in English sole (P. vetulus), starry flounder (P. stellatus), and white croaker (G. lineatus) from selected marine sites on the Pacific Coast, USA. Environmental Health Perspectives, 102:200-215.

Stein, J. E., W. L. Reichert, U. Varanasi. 1994. Molecular epizootiology: Assessment of exposure to genotoxic compounds in teleosts. Environmental Health Perspectives, 102(Suppl. 12):19-23.

Varanasi, U., J. E. Stein, K. L. Tilbury, J. P. Meador, C. A. Sloan, R. C. Clark Jr., S. Chan. 1994. Chemical contaminants in gray whales (Eschrichtius robustus) stranded along the west coast of North America. Science of the Total Environment, 145:29-53.

Wekell, J. C., E. J. Gauglitz Jr., H. Barnett, C. L. Hatfield, D. Simons, D. Ayres. 1994. Occurrence of domoic acid in Washington State razor clams (Siliqua patula) during 1991-1993. Natural Toxins, 2:197-205.

Wekell, J. C., E. J. Gauglitz Jr., H. Barnett, C. L. Hatfield, M. W. Eklund. 1994. The occurrence of domoic acid in razor clams (Siliqua patula), dungeness crab (Cancer magister), and anchovies (Engraulismordax). Journal of Shellfish Research, 13:587-593.

Wirgin, J. I., C. Grunwald, S. Courtenay, G. Kreamer, W. L. Reichert, J. E. Stein. 1994. A biomarker approach to assessing xenobiotic exposure in Atlantic tomcod from the North American Atlantic Coast. Environmental Health Perspectives, 102:764-770.

1993

Casillas, E., L. L. Johnson, D. Misitano, T. K. Collier, J. E. Stein, B. B. McCain, U. Varanasi. 1993. Inducibility of spawning, reproductive success, and egg production of flatfish species form urban and non-urban areas of Puget Sound, Washington. Marine Environmental Research, 35:227.

Collier, T. K., J. E. Stein, H. R. Sanborn, T. Hom, M. S. Myers, U. Varanasi. 1993. A field study of the relationship between bioindicators of maternal contaminant exposure and egg and larval viability of English sole (Parophrys vetulus). Marine Environmental Research, 35:171-175.

Collier, T. K., J. E. Stein, A. Goksoyr, M. S. Myers, J. W. Gooch, R. J. Huggett, U. Varanasi. 1993. Biomarkers of PAH exposure in oyster toadfish (Opsanis tau) from the Elizabeth River, Virginia. Environmental Science, 2:161-177.

Egaas, E., J. U. Skaare, N. O. Svendsen, M. Sandvik, J. G. Falls, W. C. Dauterman, T. K. Collier, J. Netland. 1993. A comparative study of effects of atrazine of xenobiotic metabolizing enzymes in fish and insect, and of the in vitro phase II atrazine metabolism in some fish, insects, mammals and one plant species. Comparative Biochemistry and Physiology, Part C: Toxicology and Pharmocology, 106C:141-149.

Husoy, A. M., M. J. Willis, M. S. Myers, T. K. Collier, A. Goksoyr. 1993. Immunohistochemical localization of cytochrome P450 1A1 in different organs of Atlantic cod (Gadus morhua). Science of the Total Environment, Suppl.:671-680.

Johnson, L. L., C. M. Stehr, O. P. Olson, M. S. Myers, S. M. Pierce, C. A. Wigren, B. B. McCain, U. Varanasi. 1993. Chemical contaminants and hepatic lesions in winter flounder (Pleuronectes americanus) from the Northeast Coast of the United States. Environmental Science & Technology, 27:2579-2771.

Johnson, L. L., E. Casillas, T. K. Collier, J. E. Stein, U. Varanasi. 1993. Contaminant effects on reproductive success in selected benthic fish. Marine Environmental Research, 35:165-170.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, J. L. Bolton, C. A. Wigren, S. Chan, U. Varanasi. 1993. Analyses for petroleum-related contaminants in marine fish and sediments following the ROPME Sea oil spill. Marine Pollution Bulletin, 27:285-292.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, S. Chan, U. Varanasi, T. L. Wade, T. J. Jackson, J. M. Brooks, D. A. Wolfe, C. Manen. 1993. Comparison of high-performance liquid chromatography/fluorescence screening and gas chromatography/mass spectrometry analysis for aromatic compounds in sediments sampled after the Exxon Valdez oil spill. Environmental Science & Technology, 27(4):699-708.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, S. Chan, U. Varanasi. 1993. Rapid high-performance liquid chromatographic methods that screen for aromatic compounds in environmental samples. J. Chromat, 642:15-32.

Landahl, J. T., L. L. Johnson. 1993. Contaminant exposure and population growth of English sole in Puget Sound: The need for better early life-history data. American Fisheries Society Symposium, 14:117-123.

Meador, J. P., F. B. Taub, T. H. Sibley. 1993. Copper dynamics and the mechanism of ecosystem level recovery in a standardized aquatic microcosm. Ecological Applications, 3(1):139-155.

Meador, J. P., U. Varanasi, C. A. Krone. 1993. Differential sensitivity of marine infaunal amphipods to tributyltin. Marine Biology, 116:231-239.

Meador, J. P. 1993. The effect of laboratory holding on the toxicity response of marine infaunal amphipods to cadmium and tributyltin. Journal of Experimental Marine Biology and Ecology, 174:227-242.

Stein, J. E., W. L. Reichert, B. L. French, U. Varanasi. 1993. 32P-postlabeling analysis of DNA adduct formation and persistence in English sole (Pleuronectes vetulus) exposed to benzo[a]pyrene and 7H-dibenzo[c,g]carbazole. Chemico-Biological Interactions, 88:55-69.

Stein, J. E., T. K. Collier, W. L. Reichert, E. Casillas, T. Hom, U. Varanasi. 1993. Bioindicators of Contaminant Exposure and Sublethal Effects in Benthic Fish from Puget Sound, WA. Marine Environmental Research, 35:95-100.

1992

Collier, T. K., J. E. Stein, H. R. Sanborn, T. Hom, M. S. Myers, U. Varanasi. 1992. Field Studies of Reproductive Success and Bioindicators in English Sole (Parophrys vetulus): Correlations with Bioindicators of Maternal Contaminant Exposure. Sci. Tot. Environ, 116:169-185.

Collier, T. K., J. E. Stein, H. R. Sanborn, T. Hom, M. S. Myers, U. Varanasi. 1992. Field studies of reproductive success in English sole (Parophrys vetulus): Correlations with bioindicators of maternal contaminant exposure. Science of the Total Environment, 116:169-185.

Collier, T. K., S. D. Connor, B. L. Eberhart, B. F. Anulacion. 1992. Using Cytochrome P450 to monitor the aquatic environment: Initial results from regional and national surveys. Marine Environmental Research, 34:195-199.

Johnson, L. L., E. Casillas, J. E. Stein, T. K. Collier, U. Varanasi. 1992. Contaminant effects on reproductive effects on reproductive success in selected benthic fish species. Marine Environmental Research, 35:165-170.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, S. Chan, U. Varanasi. 1992. Comparison of HPLC/Fluorescence Screening and GC/MS Analysis for Aromatic Compounds in Sediments Sampled after the Exxon Valdez Oil Spill. Environmental Science & Technology, 27:699-708.

Krahn, M. M., D. G. Burrows, G. M. Ylitalo, D. W. Brown, C. A. Wigren, T. K. Collier, S. Chan, U. Varanasi. 1992. Mass spectrometric analysis for aromatic compounds in bile of fish sampled after the EXXON Valdez oil spill. Environmental Science & Technology, 26:116-126.

McCain, B. B., S. Chan, M. M. Krahn, D. W. Brown, M. S. Myers, J. T. Landahl, S. M. Pierce, R. C. Clark Jr., U. Varanasi. 1992. Chemical contamination and associated fish diseases in San Diego Bay. Environmental Science & Technology, 26:725-733.

Myers, M. S., P. Olson, L. L. Johnson, C. S. Stehr, T. Hom, U. Varanasi. 1992. Hepatic Lesions Other than Neoplasms in Subadult Flatfish from Puget Sound, WA; Relationships with Indices of Contaminant Exposure. Marine Environmental Research, 34:45-51.

Nishimoto, M., G. K. Yanagida, J. E. Stein, W. M. Baird, U. Varanasi. 1992. Metabolism of benzo(a)pyrene by English sole (Parophrys vetulus): comparison between isolated hepatocytes in vitro and liver in vivo. Xenobiotica, 22:949-961.

Reichert, W. L., J. E. Stein, B. L. French, P. Goodwin, U. Varanasi. 1992. Storage phosphor imaging technique for detection and quantitation of DNA adducts measured by the 32P-postlabeling assay. Carcinogenesis, 13:1475-1479.

Stein, J. E., T. K. Collier, W. L. Reichert, E. Casillas, U. Varanasi. 1992. Bioindicators of contaminant exposure and sublethal effects: Studies with benthic fish in Puget Sound, WA. Environmental Toxicology and Chemistry, 11:701-714.

1991

Arkoosh, M. R., S. L. Kaattari. 1991. Development of Immunological memory in rainbow trout (Oncorhynchus mykiss). I. An immunochemical and cellular analyses of the B cell response. Developmental and Comparative Immunology, 15:279-293.

Arkoosh, M. R., E. Casillas, E. R. Clemons, B. B. McCain, U. Varanasi. 1991. Suppression of immunological memory in juvenile chinook salmon (Oncorhynchus tshawytscha) from an urban estuary. Fish and Shellfish Immunology, 1:261-277.

Bartholomew, J., M. R. Arkoosh, J. S. Rohovec. 1991. Demonstration of the specificity of the salmonid humoral response to Renibacteriumsalmoninarum using a monoclonal antibody against salmonid immunoglobulin. Journal of Aquatic Animal Health, 3:254-259.

Casillas, E., D. Misitano, L. L. Johnson, L. D. Rhodes, T. K. Collier, J. E. Stein, B. B. McCain, U. Varanasi. 1991. Inducibility of spawning and reproductive success of female English sole (Parophrys vetulus) from urban and nonurban areas of Puget Sound, Washington. Marine Environmental Research, 31:99-122.

Gronlund, W. D., S. Chan, B. B. McCain, R. C. Clark Jr., M. S. Myers, P. D. Plesha, J. E. Stein, D. W. Brown, J. T. Landahl, M. M. Krahn, W. L. Reichert, U. Varanasi. 1991. Multidisciplinary assessment of pollution in Long Island Sound. Estuaries, 14:299-305.

Johnson, L. L., E. Casillas, M. S. Myers, L. D. Rhodes, O. P. Olson. 1991. Patterns of oocyte development and related changes in plasma 17β estradiol, vitellogenin, and plasma chemistry in English sole Parophrys vetulus Girard. Journal of Experimental Marine Biology and Ecology, 152:161-185.

Krahn, M. M., G. M. Ylitalo, J. Joss, S. Chan. 1991. Rapid, semi-quantitative screening of sediments for aromatic compounds using sonic extraction and HPLC/fluorescence analysis. Marine Environmental Research, 31:175-96.

Meador, J. P. 1991. The interaction of dissolved organic carbon, pH, and total copper in the determination of ionic copper and toxicity. Aquatic Toxicology, 19:13-32.

Nishimoto, M., W. T. Roubal, J. E. Stein, U. Varanasi. 1991. Oxidative DNA damage in tissues of English Sole (Parophrys vetulus) exposed to nitrofurantoin. Chemico-Biological Interactions, 80:317-326.

Taub, F. B., A. C. Kindig, J. P. Meador, G. L. Swartzman. 1991. Effects of "seasonal succession" and grazing on copper toxicity in aquatic microcosms. Verh Internat Verein Limnol, 24:2205-2214.

1990

Landahl, J. T., B. B. McCain, M. S. Myers, L. D. Rhodes, D. W. Brown. 1990. Consistent associations between hepatic lesions in English sole (Parophrys vetulus ) and polycyclic aromatic hydrocarbons in bottom sediment. Environmental Health Perspectives, 89:195-203.

McCain, B. B., D. C. Malins, M. M. Krahn, D. W. Brown, W. D. Gronlund, L. K. Moore, S. Chan. 1990. Uptake of aromatic and chlorinated hydrocarbons by juvenile chinook salmon (Oncorhynchus tshawytscha) in an urban estuary. Archives of Environmental Contamination and Toxicology, 19:10-6.

Meador, J. P., B. D. Ross, P. A. Dinnel, S. J. Picquelle. 1990. An Analysis of the relationship between a sand-dollar embryo elutriate assay and sediment contaminants from stations in an urban embayment of Puget Sound, Washington. Marine Environmental Research, 30:251-272.

Stehr, C. M., M. S. Myers. 1990. The ultrastructure and histology of cholangiocellular carcinomas in English sole (Parophrys vetulus) from Puget Sound, Washington. Toxicol. Path, 18(3):28-55.

Stein, J. E., W. L. Reichert, M. Nishimoto, U. Varanasi. 1990. Overview of studies on liver carcinogenesis in English sole from Puget Sound, evidence for a xenobiotic chemical etiology II. Biochemical studies. Science of the Total Environment, 94:51-69.

Swartzman, G. L., F. B. Taub, C. Huang, J. P. Meador, A. C. Kindig. 1990. Modeling the effect of timing of copper addition in a multispecies aquatic microcosm. Aquatic Toxicology, 17:93-117.

1989

Krahn, M. M., C. A. Wigren, L. K. Moore, D. W. Brown. 1989. High-performance liquid chromatographic method for isolating coprostanol from sediment extracts. J. Chromatogr, 481:263-273.

Meador, J. P. 1989. Chemoreception in a Lysianassid amphipod: The chemicals that elicit food-searching behavior. Journal of Marine Behavior and Physiology, 14:65-80.

Varanasi, U., W. L. Reichert, J. E. Stein. 1989. 32P-Postlabeling analysis of DNA adducts in liver of wild English sole (Parophrys vetulus) and winter flounder (Pseudopleuronectes americanus). Cancer Research, 49:1171-1177.

Varanasi, U., W. L. Reichert, B. L. Eberhart, J. E. Stein. 1989. Formation and persistence of benzo(a)pyrene-diolepoxide DNA adducts in liver of English sole (Parophrys vetulus). Chemico-Biological Interactions, 69:203-216.

1988

Krahn, M. M., L. K. Moore, R. G. Bogar, C. A. Wigren, S. Chan, D. W. Brown. 1988. High performance liquid chromatographic method for isolating organic contaminants from tissue; sediment extracts. J. Chromatogr, 437:161-175.

Malins, D. C., B. B. McCain, J. T. Landahl, M. S. Myers, M. M. Krahn, D. W. Brown, S. Chan, W. T. Roubal. 1988. Neoplastic and other diseases in fish in relation to toxic chemicals: an overview. Aquatic Toxicology, 11:43-67.

McCain, B. B., D. W. Brown, M. M. Krahn, M. S. Myers, R. C. Clark Jr., S. Chan, D. C. Malins. 1988. Marine pollution problems, North American West Coast. Aquatic Toxicology, 11(1,2):143-62.

Myers, M. S., L. D. Rhodes. 1988. Morphologic similarities and parallels in geographic distribution of suspected toxicopathic liver lesions in rock sole (Lepidopsetta bilineata) starry flounder (Platichthys stellatus), Pacific staghorn sculpin (Leptocottus armatus), and dover sole (Microstomus pacificus) as compared to English sole (Parophrys vetulus) from urban and non-urban embaymens in Puget Sound, Washington. Aquatic Toxicology, 11:410-411.

Plesha, P. D., J. E. Stein, M. H. Schiewe, B. B. McCain, U. Varanasi. 1988. Toxicity of marine sediments supplemented with mixtures of chlorinated and aromatic hydrocarbons to the infaunal amphipod Rhepoxynius abronius. Marine Environmental Research, 25:85-97.

Stehr, C. M., L. D. Rhodes, M. S. Myers. 1988. The ultrastructure and histology of hepatocellular carcinomas of English sole (Parophrys vetulus) from Puget Sound, Washington. Toxicol. Path, 16(4):418-431.

1987

Krahn, M. M., D. G. Burrows, W. D. MacLeod Jr., D. C. Malins. 1987. Determination of individual metabolites of aromatic compounds in hydrolyzed bile of English sole (Parophrys vetulus) from polluted sites in Puget Sound, Washington. Archives of Environmental Contamination and Toxicology, 16:511-22.

Malins, D. C., B. B. McCain, M. S. Myers, D. W. Brown, M. M. Krahn, W. T. Roubal, M. H. Schiewe, J. T. Landahl, S. Chan. 1987. Field and laboratory studies of the etiology of liver neoplasms in marine fish from Puget Sound. Environmental Health Perspectives, 71:5-16.

Malins, D. C., B. B. McCain, D. W. Brown, U. Varanasi, M. M. Krahn, M. S. Myers, S. Chan. 1987. Sediment-associated contaminants and liver diseases in bottom-dwelling fish. Hydrobiologia, 149:67-74.

Malins, D. C., B. B. McCain, D. W. Brown, M. S. Myers, M. M. Krahn, S. Chan. 1987. Toxic chemicals, including aromatic and chlorinated hydrocarbons and their derivatives, and liver lesions in white croaker (Genyonemus liniatus) from the vicinity of Los Angeles. Environmental Science & Technology, 21:765-70.

Myers, M. S., L. D. Rhodes, B. B. McCain. 1987. Pathologic anatomy and patterns of occurrence of hepatic neoplasms, putative preneoplastic lesions and other idiopathic hepatic conditions in English sole (Parophrys vetulus) from Puget Sound, Washington, U. S. A. J. Natl. Cancer Inst., 78(2):333-363.

Rhodes, L. D., M. S. Myers, W. D. Gronlund, B. B. McCain. 1987. Epizootic characteristics of hepatic and renal lesion in English sole (Parophrys vetulus ) from Puget Sound. Journal of Fish Biology, 31:395-407.

Varanasi, U., J. E. Stein, M. Nishimoto, W. L. Reichert, T. K. Collier. 1987. Chemical Carcinogenesis in feral fish--uptake, activation and detoxication of organic xenobiotics. Environmental Health Perspectives, 71:155-170.

1986

Collier, T. K., J. E. Stein, R. J. Wallace, U. Varanasi. 1986. Xenobiotic metabolizing enzymes in spawning English sole (Parophrys vetulus) exposed to organic-solvent extracts of marine sediments from contaminated and reference areas. Comparative Biochemistry and Physiology, 84C:291-298.

Krahn, M. M., L. J. Kittle Jr., W. D. MacLeod Jr. 1986. Evidence for exposure of fish to oil spilled into the Columbia River. Marine Environmental Research, 20:291-8.

Stehr, C. M., D. J. Whitaker. 1986. Host-parasite interaction of the Myxosporeans Kudoa paniformis, Kabata and Whitaker, 1981 and Kudoa thrysites (Gilchrist, 1924) in the muscle of Pacific whiting Merluccius productus (Ayers): An ultrastructural study. Journal of Fish Diseases, 9:505-517.

Stehr, C. M. 1986. Sporogenesis of the Myxosporean Kudoa paniformis, Kabata and Whitaker, 1981 infecting the muscle of Pacific whiting, Merluccius productus (Ayers). Journal of Fish Diseases, 9:493-504.

Varanasi, U., M. Nishimoto, W. L. Reichert, B. L. Eberhart. 1986. Comparative Metabolism of Benzo(a)pyrene and Covalent Binding to Hepatic DNA in English Sole, Starry Flounder, and Rat. Cancer Research, 46:3817-3824.

Wekell, J. C., K. D. Shearer, E. J. Gauglitz Jr. 1986. Zinc supplementation of trout diets: indicators of zinc status. Progressive Fish-Culturist, 48:205-212.

1985

Casillas, E., M. S. Myers, L. D. Rhodes, B. B. McCain. 1985. Serum chemistry of diseased English sole, Parophrys vetulus Girard, from polluted areas of Puget Sound, Washington. Journal of Fish Diseases, 8:437-449.

Malins, D. C., M. M. Krahn, D. W. Brown, L. D. Rhodes, M. S. Myers, B. B. McCain, S. Chan. 1985. Toxic chemicals in marine sediment and biota from Mukilteo, Washington: Relationships with hepatic neoplasms and other hepatic lesions in English sole (Parophrys vetulus)., 74:487-94.

Malins, D. C., M. M. Krahn, M. S. Myers, L. D. Rhodes, D. W. Brown, C. A. Krone, B. B. McCain, S. Chan. 1985. Toxic chemicals in sediments and biota from a creosote-polluted harbor: Relationships with hepatic neoplasms and other hepatic lesions in English sole (Parophrys vetulus). Carcinogenesis, 6:1463-9.

Reichert, W. L., B. L. Eberhart, U. Varanasi. 1985. Exposure of two species of deposit-feeding amphipods to sediment-associated [3H]benzo[a]pyrene: uptake, metabolism and covalent binding to tissue macromolecules. Aquatic Toxicology, 6:45-56.

Rhodes, L. D., E. Casillas, B. McKnight, W. D. Gronlund, M. S. Myers, O. P. Olson, B. B. McCain. 1985. Interactive effects of cadmium, polychlorinated biphenyls, and fuel oil on experimentally exposed English sole (Parophrys vetulus). Canadian Journal of Fisheries and Aquatic Sciences, 42:1870-1880.

Varanasi, U., W. L. Reichert, J. E. Stein, D. W. Brown, H. R. Sanborn. 1985. Bioavailability and biotransformation of aromatic hydrocarbons in benthic organisms exposed to sediment from an urban estuary. Environmental Science & Technology, 19(9):836-841.

1984

Krahn, M. M., M. S. Myers, D. G. Burrows, D. C. Malins. 1984. Determination of metabolites of xenobiotics in the bile of fish from polluted waterways. Xenobiotica, 14:633-46.

Malins, D. C., B. B. McCain, D. W. Brown, S. Chan, M. S. Myers, J. T. Landahl, P. G. Prohaska, A. J. Friedman, L. D. Rhodes, D. G. Burrows, W. D. Gronlund. 1984. Chemical pollutants in sediments and diseases in bottom-dwelling fish in Puget Sound, Washington. Environmental Science & Technology, 18:705-713.

1983

Stehr, C. M. 1983. Changes in the surface epithelium of the developing olfactory organ in the sand sole (Psettichthys melanastictus) and the rex sole (Glyptocephalus zachirus). Scanning Electron Microscopy, 1983(IV):1947-1954.

Stehr, C. M., J. W. Hawkes. 1983. The development of the hexagonally structured egg envelope of the C-O sole (Pleuronichthys coenosus). Journal of Morphology, 178:267-284.

Wekell, J. C., K. D. Shearer, C. R. Houle. 1983. High zinc supplementation of trout diets. Progressive Fish-Culturist, (3)144-147.

1982

Hawkes, J. W., C. M. Stehr. 1982. Cytopathology of the brain and retina of embryonic surf smelt (Hypomesus pretiosus) exposed to crude oil. Environmental Research, 27:164-178.

Krahn, M. M., D. C. Malins. 1982. Gas chromatographic-mass spectrometric determination of aromatic hydrocarbon metabolites from livers of fish exposed to fuel oil. J. Chromatogr, 248:99-107.

Varanasi, U., M. Nishimoto, W. L. Reichert, J. E. Stein. 1982. Metabolism and subsequent covalent binding of benzo(a)pyrene to macromolecules in gonads and liver of ripe English sole (Parophrys vetulus). Xenobiotica, 12:417-425.

1980

Collier, T. K., M. M. Krahn, D. C. Malins. 1980. The disposition of naphthalene and its metabolites in the brain of rainbow trout (Salmo gairdneri). Environmental Research, 23:35-41.

Krahn, M. M., D. W. Brown, T. K. Collier, A. J. Friedman, R. G. Jenkins, D. C. Malins. 1980. Rapid analysis of naphthalene and its metabolites in biological systems: Determination by high-performance liquid chromatography/fluorescence detection and by plasma desorption/chemical ionization mass spectrometry. J. Biochem. Biophys. Methods, 2:233-46.

Malins, D. C., M. M. Krahn, D. W. Brown, W. D. MacLeod Jr., T. K. Collier. 1980. Analysis for petroleum products in marine environments. Helgolander Meeresuntersuchungen, 33:257-71.

1979

Stehr, C. M., J. W. Hawkes. 1979. The comparative ultrastructure of the egg membrane and associated pore structures in the starry flounder Platichthys stellatus (Pallas) and pink salmon Oncorhynchus gorbuscha (Walbaum). Cell and Tissue Research, 202:341-356.

Book

In press

Greene, C. M., G. R. Pess. In press. Multispecies modeling for salmon: alternatives, challenges, and opportunities. AFS Special Publication: Pacific Salmon Environment and Life History Models.

2008

Trainer, V. L., B. M. Hickey, S. S. Bates. 2008. Diatoms.

2007

Bates, S. S., V. L. Trainer. 2007. The Ecology of Harmful Diatoms. Springer Verlag.

2005

Ariese, F., J. M. Beyer, G. Jonsson, C. Porte-Visa, M. M. Krahn. 2005. Review of analytical methods for determining metabolites of polycyclic aromatic compounds (PACs) in fish bile. ICES Techniques in Marine Environmental Sciences. 39 International Council for the Exploration of the Sea, Copenhagen, Denmark, ii, 41 p.

Roni, P. (Editor) 2005. Monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland, x, 350 p.

2002

Taylor, F. J., V. L. Trainer. (Eds.) 2002. Harmful algal blooms in the PICES region of the North Pacific. PICES Scientific Report no. 23. North Pacific Marine Science Organization, Sidney BC V8L 4B2, iii, 152 p.

1999

Reichert, W. L., B. L. French, J. E. Stein. 1999. Protocols for assaying levels of large hydrophobic DNA adducts in fish by 32P-postlabeling. Techniques in Marine Environmental Sciences no. 25. International Council for the Exploration of the Sea, Copenhagen, Denmark, 45 p.

Section

In press

Beechie, T. J., G. R. Pess, M. M. Pollock, M. H. Ruckelshaus, P. Roni. In press. Restoring rivers in the 21st century: science challenges in a management context. In Fish and Fisheries Series. Springer.

Burnett, K. M., J. L. Ebersole, R. E. Gresswell, D. P. Larsen, P. W. Lawson, D. J. Miller, J. D. Rodgers, E. A. Steel, D. L. Stevens, C. E. Torgersen. In press. Data and Modeling Tools for Assessing Landscape-Level Influences on Salmonid Population: Examples from Western Oregon. In Sustainability of the Arctic-Yukon-Kuskokwim Salmon Fisheries. AFS.

Greene, C. M. In press. Population Dynamics - Allee effects. In The Encyclopedia of Ecology. Elsevier, San Fransisco, CA.

Meador, J. P. In press. Ecotoxicology of Polycyclic Aromatic Hydrocarbons. In Encyclopedia of Ecology. Elsevier.

2008

Roni, P., M. McHenry, G. R. Pess, T. J. Beechie. 2008. Evaluating changes in salmon spawning habitat and spawners in the Elwha River following dam removal. In

Spromberg, J. A., L. L. Johnson. 2008. Potential effects of freshwater and estuarine contaminant exposure on Lower Columbia River Chinook Salmon (Oncorhynchus tshawytscha) populations. Page 288 in Akcakaya, H. R., J. D. Stark, T. S. Bridges. (Eds.) Demographic Toxicity Methods in Ecological Risk Assessment. Oxford University Press, Oxford, United Kingdom.

2006

Baker, J. E., W. F. Bohlen, R. Bopp, B. Brownawell, T. K. Collier, K. J. Farley, W. R. Geyer, R. Nairn, L. Rosman. 2006. PCBs in the Upper and Tidal Freshwater Hudson River Estuary: The Science Behind the Dredging Controversy. Pages 349-367 in Levinton, J. S., J. R. Waldman. (Eds.) The Hudson River Estuary. Cambridge University Press.

2005

Arkoosh, M. R., D. Boylen, C. L. Stafford, L. L. Johnson, T. K. Collier. 2005. Use of disease challenge assay to assess immunotoxicity of xenobiotics in fish. Pages 19-37 in Ostrander, G. K. (Ed.) Techniques in Aquatic Toxicology. Taylor & Francis Group, New York.

Baldwin, D. H., N. L. Scholz. 2005. The electro-olfactogram: an in vivo measure of peripheral olfactory function and sublethal neurotoxicity in fish. Pages 257-276 in Ostrander, G. K. (Ed.) Techniques in Aquatic Toxicology. CRC Press, Boca Raton, FL.

Beechie, T. J., C. N. Veldhuisen, E. M. Beamer, D. E. Schuett-Hames, R. H. Conrad, P. DeVries. 2005. Monitoring Treatments to Reduce Sediment and Hydrologic Effects from Roads. Pages 35-65 in Roni, P. (Ed.) Monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Elskus, A., T. K. Collier, E. Monosson. 2005. Interactions between lipids and persistent organic pollutants in fish. Pages 119-152 in Environmental toxicology. Elsevier, San Diego.

Kiffney, P. M., R. E. Bilby, B. L. Sanderson. 2005. Monitoring the Effects of Nutrient Enrichment on Freshwater Ecosystems. Pages 237-265 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Lucchetti, G., K. O. Richter, R. E. Schaefer. 2005. Monitoring of acquisitions and conservation easements. Pages 277-311 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Medina, A. L., J. N. Rinne, P. Roni. 2005. Riparian Restoration through Grazing Management: Considerations for Monitoring Project Effectiveness. Pages 97-126 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Moore, D. W., R. Baudo, J. M. Conder, P. F. Landrum, V. A. McFarland, J. P. Meador, R. N. Millward, J. Shine, J. Q. Word. 2005. Bioaccumulation in the assessment of sediment quality: uncertainty and potential application. Pages 429-495 in Use of Sediment Quality Guidelines and Related Tools for the Assessment of Contaminated Sediments. SETAC Press, Pensacola, FL.

Moser, M. L., M. S. Myers, B. J. Burke, S. M. O'Neill. 2005. Effects of surgically-implanted transmitters on survival and feeding behavior of adult English sole. Pages 1-7 in Lembo, G., G. Marmulla, M. T. Spedicato. (Eds.) Aquatic Telemetry: Advances and Applications.

Pess, G. R., S. A. Morley, P. Roni. 2005. Evaluating fish response to culvert replacement and other methods for reconnecting isolated aquatic habitats. Pages 267-276 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Pess, G. R., S. A. Morley, J. L. Hall, R. K. Timm. 2005. Monitoring floodplain restoration. Pages 127-166 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Plummer, M. 2005. The Economic Evaluation of Stream and Watershed Restoration Projects. Pages 313-330 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Pollock, M. M., T. J. Beechie, S. S. Chan, R. Bigley. 2005. Monitoring Restoration of Riparian Forests. Pages 67-96 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Pollock, M. M., T. J. Beechie, S. Chan, R. Bigley. 2005. Monitoring and evaluating riparian restoration efforts. In Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Rice, C. A., W. G. Hood, L. M. Tear, C. A. Simenstad, G. D. Williams, L. L. Johnson, B. E. Feist, P. Roni. 2005. Monitoring Rehabilitation in Temperate North American Estuaries. Pages 167-207 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Roni, P., A. Fayram, M. Miller. 2005. Monitoring and Evaluating Instream Habitat Enhancement. Pages 209-236 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Roni, P. 2005. Overview and background. Pages 1-11 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Roni, P., M. Liermann, C. E. Jordan, E. A. Steel. 2005. Steps for Designing a Monitoring and Evaluation Program for Aquatic Restoration. Pages 13-34 in Roni, P. (Ed.) Methods for monitoring stream and watershed restoration. American Fisheries Society, Bethesda, Maryland.

Rust, M. B., K. C. Massee, P. D. Plesha, T. M. Scott, N. Ashton, L. Britt, M. A. Cook, K. Guthrie, R. Campbell, E. Kroeger. 2005. Aquaculture of lingcod. In Aquaculture in the 21st century. American Fisheries Society Symposium 46. American Fisheries Society, Bethesda, Maryland.

Sloan, C. A., D. W. Brown, R. W. Pearce, R. H. Boyer, J. L. Bolton, D. G. Burrows, D. P. Herman, M. M. Krahn. 2005. Determining aromatic hydrocarbons and chlorinated hydrocarbons in sediments and tissues using accelerated solvent extraction and gas chromatography/mass spectrometry. In Techniques in Aquatic Toxicology. CRC Press, Boca Raton, FL.

Word, J. Q., B. B. Albrecht, M. I. Anghera, R. Baudo, S. M. Bay, D. M. Di Toro, J. I. Hyland, C. G. Ingersoll, P. F. Landrum, E. R. Long, J. P. Meador, D. W. Moore, T. P. O'Connor, J. Shine. 2005. Predictive ability of sediment quality guidelines Chapter 4. Pages 121-161 in Use of Sediment Quality Guidelines and Related Tools for the Assessment of Contaminated Sediments. Society of Environmental Toxicology and Chemistry (SETAC).

Ylitalo, G. M., G. K. Yanagida, L. C. Hufnagle Jr., M. M. Krahn. 2005. Determination of lipid classes and lipid content in tissues of aquatic organisms using a thin layer chromatography/flame ionization detection (TLC/FID) microlipid method. Pages 227-237 in Ostrander, G. K. (Ed.) Techniques in Aquatic Toxicology. CRC Press, Boca Raton, FL.

Ylitalo, G. M., J. Buzitis, D. T. Boyd, D. P. Herman, K. L. Tilbury, M. M. Krahn. 2005. Improvements to high-performance liquid chromatography/photodiode array detection (HPLC/PDA) method that measures dioxin-like polychlorinated biphenyls and other selected organochlorines in marine biota. Pages 449-464 in Ostrander, G. K. (Ed.) Techniques in Aquatic Toxicology, Volume 2. CRC Press, Boca Raton, FL.

2004

Bechmann, R. K., I. C. Taban, G. Jonsson, S. Sanni, W. L. Reichert, S. Plisson-Saune, M. Buffagni. 2004. Bioaccumulation, biomarker responses, and effects on reproduction in fish exposed to a mixture of PAHs (polycyclic aromatic hydrocarbons) and to dispersed oil. In The Seventh SPE International Conference on Health, Safety, and Environment in Oil and Gas Exploration and Production. Society of Petroleum Engineers, Calgary, Alberta, Canada.

Duncan, P. B., T. K. Collier, K. Kinnee, A. Markiewicz. 2004. Overview of results from a workshop addressing PCBs in Puget Sound and Georgia Basin ecosystems. In Droscher, T. W., D. A. Fraser. (Eds.) Proceedings of the 2003 Georgia Basin/Puget Sound Research Conference. Puget Sound Action Team, Olympia, WA. (4e_dunca.pdf | PDF on Puget Sound Partnership web site)

Fairgrieve, W. T., C. L. Masada, W. C. McAuley, M. E. Peterson, M. S. Myers, M. S. Strom. 2004. Use of antibiotics and new vaccines to reduce mortality from bacterial kidney disease in chinook salmon: evaluation of toxic effects of long-term prophylactic use of azithromycin and erythromycin. Final Report for FY 1999-2002. In Berejikian, B. A., C. E. Nash. (Eds.) Research On Captive Broodstock Programs For Pacific Salmon. Report to Bonneville Power Administration for FY02, Project No. 1993-056-00, Contract No. 99-AI-17859.

Ginn, T. R., F. Loge, M. R. Arkoosh. 2004. Population balance modeling of dose in environmental mixtures. In Miller, C. T. (Ed.) Computational Methods in Water Resources, Proceedings of the 2004 International Conference, Chapel Hill, North Carolina USA, June 13-17, 2004.

Meador, J. P., F. Sommers, L. A. Kubin, R. J. Wolotira. 2004. Conducting Dose-Response Feeding Studies with Salmonids: Growth as an Endpoint. In Ostrander, G. K. (Ed.) Techniques in Aquatic Toxicology, Volume 2. CRC Press, Boca Raton, FL..

Pess, G. R., T. J. Beechie, S. A. Morley, E. M. Beamer. 2004. Analyses for Phase II Recovery Planning: Identifying ecosystem restoration actions. Pages 40-59 in Beechie, T. J., P. Roni, E. A. Steel. (Eds.) Ecosystem recovery planning for listed salmon: An integrated assessment approach for salmon habitat. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-58, 183 p.

Roni, P., T. J. Beechie, G. R. Pess. 2004. Prioritizing restoration actions within watersheds. Pages 60-73 in Beechie, T. J., E. A. Steel, P. Roni. (Eds.) Ecosystem Recovery Planning for Listed Salmon: An Integrated Assessment Approach for Salmon Habitat. NOAA Technical Memorandum NMFS-NWFSC-58, Seattle, Washington.

2003

Beamer, E. M., T. J. Beechie, B. S. Perkowski, J. R. Klochak. 2003. Restoration of habitat forming processes: an applied restoration strategy for the Skagit River. Pages 157-183 in Beechie, T. J., E. A. Steel, P. Roni, E. Quimby. (Eds.) (editors) Ecosystem recovery planning for listed salmon: an integrated assessment approach. U.S. Dept. Commerce, NOAA Technical Memorandum, NMFS-NWFSC-58, 183 p.

Beechie, T. J. 2003. An assessment approach for habitat recovery planning. Pages 5-17 in Beechie, T. J., E. A. Steel, P. Roni, E. Quimby. (Eds.) Ecosystem recovery planning for listed salmon: an integrated assessment approach for salmon habitat. U.S. Dept. Commerce, NOAA Technical Memorandum, NMFS-NWFSC-58, 183 p.

Burgess, R. M., M. J. Ahrens, C. W. Hickey, P. J. Besten, D. T. Hulscher, A. G. Hattum, J. P. Meador, P. E. Douben. 2003. An overview of the partitioning and bioavailability of PAHs in sediments and soils. Pages 99-126 in Douben, P. E. (Ed.) PAHs: an ecological perspective. John Wiley & Sons Ltd., London, U.K..

Meador, J. P. 2003. Bioaccumulation of PAHs in Marine Invertebrates. Pages 147-171 in Douben, P. E. (Ed.) PAHs: An Ecotoxicological Perspective. John Wiley.

Payne, J. F., A. Mathieu, T. K. Collier. 2003. Ecotoxicological studies focusing on marine and freshwater fish. Pages 191-224 in Douben, P. E. (Ed.) PAHs: An Ecotoxicological Perspective. John Wiley.

Pess, G. R., T. J. Beechie, J. E. Williams, D. R. Whitall, J. I. Lange, J. R. Klochak. 2003. Chapter 8 - Watershed assessment techniques and the success of aquatic restoration activities. Pages 185-201 in Wissmar, R. C., P. A. Bisson. (Eds.) Strategies for Restoring River Ecosystems: Sources of Variability and Uncertainty in Natural and Managed Systems. American Fisheries Society, Bethesda, Maryland.

Roni, P., M. Liermann, A. Steel. 2003. Methods for monitoring salmonid and responses of other fishes to in-stream restoration. In Montgomery, D. R., D. Bolton, D. B. Booth. (Eds.) Restoration of Puget Sound Rivers.

Sanderson, B. L., E. A. Steel, T. J. Beechie, G. R. Pess, M. B. Sheer, C. A. Campbell. 2003. Analyses for Phase I recovery planning: setting recovery goals. Pages 18-39 in Beechie, T. J., E. A. Steel, P. Roni, E. Quimby. (Eds.) Ecosystem recovery planning for listed salmon: an integrated assessment approach for salmon habitat. U.S. Dept. Commerce, NOAA Technical Memorandum, NMFS-NWFSC-58, 183 p.

Steel, E. A., M. Liermann, P. McElhany, N. L. Scholz, A. Cullen. 2003. Managing uncertainty in habitat recovery planning. In Beechie, T. J., P. Roni, E. A. Steel, E. Quimby. (Eds.) Ecosystem recovery planning for listed salmon: An integrated assessment approach for salmon habitat. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-58, 183 p.

Stein, J. E., K. L. Tilbury, J. P. Meador, J. Gorzelany, G. Worthy, M. M. Krahn. 2003. Ecotoxicological Investigations of Bottlenose Dolphin (Tursiops truncatus) Strandings: Accumulation of Persistent Organic Chemicals and Metals. Pages 458-488 in Vos, J. G., e. al. (Eds.) Toxicology of marine mammals. Taylor & Francis, New York.

Volk, C. J., P. M. Kiffney, R. L. Edmonds. 2003. Role of Riparian Red Alder in the Nutrient Dynamics of Coastal Streams of the Olympic Peninsula, Washington, USA. In Stockner, J. (Ed.) Nutrients in Salmonid Ecosystems: Sustaining Production and Biodiversity. American Fisheries Society Symposium, Bethesda, MD.

2002

Abbe, T. B., G. R. Pess, D. R. Montgomery, K. Fetherston. 2002. Integrating Engineered Log Jam Technology into Reach-Scale River Restoration. Pages 443-482 in Montgomery, D. R., S. Bolton, D. B. Booth. (Eds.) Restoration of Puget Sound Rivers. University of Washington Press, Seattle, WA.

Beechie, T. J., G. R. Pess, E. M. Beamer, G. Lucchetti, R. E. Bilby. 2002. Role of watershed assessments in recovery planning for salmon. Pages 194-225 in Montgomery, D. R., S. Bolton, D. B. Booth. (Eds.) Restoration of Puget Sound Rivers. University of Washington Press, Seattle, WA.

Eberhart, B. L., J. C. Wekell, V. L. Trainer, F. Cox, L. Hanson. 2002. PSP in Puget Sound: An historical perspective. In Proceedings of 10th International conference on harmful algae, Oct 21-25, 2002, St. Pete Beach, Florida.

Johnson, L. L., T. K. Collier. 2002. Assessing contaminant-induced stress across levels of biological organization. Pages 533-564 in Adams, S. M. (Ed.) Biological indicators of aquatic ecosystem stress. American Fisheries Society, Bethesda, Maryland.

Kiffney, P. M., W. H. Clements. 2002. Ecological effects of metals on benthic invertebrate communities. In Simon, T., P. Stewart. (Eds.) Biological Response Signatures: A multimetric index patterns for assessment of freshwater aquatic assemblages. CRC Press.

McClure, M. M., G. R. Pess. 2002. Revision of water conservation. In McGraw-Hill Encyclopedia of Science and Technology, 9th Ed.

Myers, M. S., J. W. Fournie. 2002. Histopathological biomarkers as integrators of anthropogenic and environmental stressors. Pages 221-288 in Adams, S. M. (Ed.) Biological indicators of aquatic ecosystem stress. American Fisheries Society, Bethesda, Maryland.

Pess, G. R., D. R. Montgomery, T. J. Beechie, L. Holsinger. 2002. Anthropogenic alterations to the biogeography of salmon in Puget Sound. Pages 129-154 in Montgomery, D. R., S. Bolton, D. B. Booth. (Eds.) Restoration of Puget Sound Rivers. University of Washington Press, Seattle, WA.

Rice, C. D., M. R. Arkoosh. 2002. Immunological indicators of environmental stress and disease susceptibility in fishes. Pages 187-220 in Adams, S. M. (Ed.) Biological indicators of aquatic ecosystem stress. American Fisheries Society, Bethesda, Maryland.

Roni, P., M. Liermann, A. Steel. 2002. Monitoring and evaluating responses of salmonids and other fishes to in-stream restoration. In Montgomery, D. R., S. Bolton, D. B. Booth. (Eds.) Restoration of Puget Sound Rivers. University of Washington Press.

Trainer, V. L. 2002. Harmful algal blooms on the U.S. west coast. Pages 89-118 in Taylor, F. J., V. L. Trainer. (Eds.) Harmful algal blooms in the PICES region of the North Pacific. PICES Scientific Report no. 23.

2001

Beechie, T. J., B. D. Collins, G. R. Pess. 2001. Holocene and recent geomorphic processes, land use and salmonid habitat in two north Puget Sound river basins. Pages 37-54 in Dorava, J. B., D. R. Montgomery, F. Fitzpatrick, B. Palcsak. (Eds.) Geomorphic processes and riverine habitat, Water Science and Application. American Geophysical Union, Washington D.C..

Feist, B. E., E. O. Box. 2001. Vegetation and Ecosystem Mapping. In McGraw-Hill Encyclopedia of Science and Technology, 9th Edition. McGraw Hill.

Johnson, L. L., M. R. Arkoosh, T. K. Collier, M. M. Krahn, J. P. Meador, M. S. Myers, W. L. Reichert, J. E. Stein. 2001. The effects of Polycyclic aromatic hydrocarbons in fish from Puget Sound Washington. In Di Giulio, R. T., D. Hinton. (Eds.) The Toxicology of Fishes. Taylor & Francis, New York, London.

Trainer, V. L., N. G. Adams, J. C. Wekell. 2001. Domoic acid-producing Pseudo-nitzschia species off the U.S. West Coast associated with toxification events. Pages 46-48 in Hallegraef, G. M. (Ed.) Proceedings of the IX International HAB Conference.

2000

Fisher, J. P., M. S. Myers. 2000. Fish necropsy. Pages 543-556 in Ostrander, G. K. (Ed.) The Handbook of Experimental Animals: The Laboratory Fish. Academic Press, London.

Scholz, N. L., J. W. Truman. 2000. Invertebrate models for studying NO-mediated signaling. Pages 417-441 in Steinbusch, H., J. De Vente, S. R. Vincent, A. Bjorklund, T. Hokfelt. (Eds.) Handbook of Chemical Neuroanatomy Vol. 17: Functional Neuroanatomy of the Nitric Oxide System. Elsevier.

Trainer, V. L., M. A. Poli. 2000. Assays for Dinoflagellate Toxins, Specifically Brevetoxin, Ciguatoxin, and Saxitoxin. pp. 1-19. In Rochat, H., M. Martin-Eauclaire. (Eds.) Animal Toxins. Facts and Protocols.

1999

Ankley, G., A. Fairbrother, S. Bradbury, L. E. Gray, B. Francis, D. Hinton, R. Peterson, L. L. Johnson, G. Vander Kraak, L. Birnbaum. 1999. Reproductive and Develomental Toxicology of Contaminants in Oviparous Animals. Pages 283-361 in Reproductive and Developmental Effects of Contaminants on Oviparous Vertabrates. SETAC Press, Pensacola, FL.

Brown, D. W., D. G. Burrows, C. A. Sloan, R. W. Pearce, S. M. Pierce, J. L. Bolton, K. L. Tilbury, K. L. Dana, M. M. Krahn, S. Chan, U. Varanasi. 1999. Exposure of Alaskan subsistence shellfish to oil spilled from the Exxon Valdez. Pages 135-167 in Field, L. J. (Ed.) Evaluating and communicating subsistence seafood safety in a cross-cultural context: lessons learned from the Exxon Valdez oil spill. SETAC Press, Pensacola, FL.

Collier, T. K., K. Grodzinska, L. Lagadic, J. F. Borseth, J. Gonzalez-Lopez, A. Lebedev, M. Leinerte. 1999. Assessing environmental quality and efficacy of remedial activities in the Upper Vistula Basin of Poland, using biomarkers. Pages 211-227 in Peakall, D. B., e. al. (Eds.) Biomarkers: A Pragmatic Basis for Remediation of Severe Pollution in Eastern Europe. Kluwer Academic Publishers, The Netherlands.

Collier, T. K., M. S. Myers. 1999. Using biomarkers to monitor remedial actions at a subtidal estuarine site severely contaminated with polynuclear aromatic hydrocarbons. Pages 211-227 in Peakall, D. B., e. al. (Eds.) Biomarkers: A Pragmatic Basis for Remediation of Severe Pollution in Eastern Europe. Kluwer Academic Publishers, The Netherlands.

Hom, T., D. W. Brown, J. E. Stein, U. Varanasi. 1999. Measuring the exposure of subsistence fish and marine mammal species to aromatic compounds following the Exxon Valdez oil spill. Pages 169-194 in Field, L. J. (Ed.) Evaluating and communicating subsistence seafood safety in a cross-cultural context: lessons learned from the Exxon Valdez oil spill. SETAC Press, Pensacola, FL.

Sloan, C. A., D. W. Brown, R. W. Pearce, G. M. Ylitalo, D. G. Burrows, M. M. Krahn. 1999. Analytical protocols for aromatic contaminants in Alaskan subsistence seafoods. Pages 271-287 in Field, L. J., e. al. (Eds.) Evaluating and communicating subsistence seafood safety in a cross-cultural context: lessons learned from the Exxon Valdez oil spill. SETAC Press, Pensacola, FL.

Wekell, J. C., H. Barnett. 1999. Seafoods: Flavors and Quality. In Wiley, J. (Ed.) Wiley Encyclopedia of Food Science and Technology, Second Edition. Scientific Technical and Medical Publishing, New York, NY.

1998

Johnson, L. L., S. Y. Sol, G. M. Ylitalo, T. Hom, B. L. French, O. P. Olson, T. K. Collier. 1998. Reproductive anomalies in bottomfish from the Hylebos Waterway. Pages 712-722 in Proceedings Puget Sound Research '98.

Roni, P., L. A. Weitkamp, J. Scordino. 1998. Identification of essential fish habitat for salmon in the Pacific northwest: Initial efforts, information needs, and future direction. Pages 93-107 in Fish habitat: essential fish habitat and rehabilitation. American Fisheries Society Symposium 22.

1997

Casillas, E., B. B. McCain, M. R. Arkoosh, J. E. Stein, U. Varanasi. 1997. Estuarine pollution and juvenile salmon health: Potential impact on survival. Pages 169-178 in Estuarine and Ocean Survival of Northeastern Pacific Salmon: Proceedings of the workshop, Newport, OR. , U. S. A. Emmett, R. L. , M. H. Schiewe. (Eds. ) 1997. Estuarine and ocean survival of Northeastern Pacific salmon: Proceedings of the workshop. NOAA Technical Memorandum NMFS-NWFSC-29.

Stein, J. E., L. L. Johnson, J. T. Landahl, T. K. Collier, E. Casillas, U. Varanasi. 1997. Approaches for determining effects of pollution on fish populations in Puget Sound. Pages 121-126 in Stephan, C. D., K. Beidler. (Eds.) Philadelphia, PA, Management of Atlantic Coastal Marine Fish Habitat: Proceedings of a Workshop for Habitat Managers.

1996

Brown, D. W., D. G. Burrows, C. A. Sloan, R. W. Pearce, S. M. Pierce, J. L. Bolton, K. L. Tilbury, K. L. Dana, S. Chan, U. Varanasi. 1996. Survey of Alaskan Subsistence Invertebrate Seafoods Collected in 1989-1991 to Determine Exposure to Oil Spilled from the Exxon Valdez. Pages 844-855 in Rice, S. D., R. B. Spies, D. A. Wolfe, B. A. Wright. (Eds.) Proceedings of the Exxon Valdez Oil Spill Symposium. American Fisheries Society Symposium.

Hom, T., U. Varanasi, J. E. Stein, C. A. Sloan, K. L. Tilbury, S. Chan. 1996. Assessment of the exposure of subsistence fish to aromatic compounds following the Exxon Valdez Oil Spill. Pages 856-866 in Rice, S. D., R. B. Spies, D. A. Wolfe, B. A. Wright. (Eds.) Proceedings of the Exxon Valdez Oil Spill Symposium. American Fisheries Society Symposium.

1995

Balch, G. C., C. D. Metcalfe, W. L. Reichert, J. E. Stein. 1995. Biomarkers of exposure of brown bullheads to contaminants in Hamilton Harbour, Ontario. Pages 249-273 in Butterworth, F. M. (Ed.) Biomonitors and biomarkers as indicators of environmental change. Plenum Press, NY, NY.

Casillas, E., M. R. Arkoosh, E. R. Clemons, T. Hom, D. Misitano, T. K. Collier, J. E. Stein, U. Varanasi. 1995. Chemical contaminant exposure and physiological effects in outmigrant juvenile Chinook salmon from urban estuaries of Puget Sound, Washington. Pages 86-102 in Keefe, M. (Ed.) Proceedings from the 1994 Northwest Pacific Chinook and Coho Workshop: Salmon Ecosystem Restoration: Myth and Reality.

Casillas, E., M. R. Arkoosh, E. R. Clemons, T. Hom, D. Misitano, T. K. Collier, J. E. Stein, U. Varanasi. 1995. Chemical contaminant exposure and physiological effects in outmigrant juvenile chinook salmon from urban estuaries of Puget Sound, Washington. Pages 657-665 in Proceedings Puget Sound Research '95.

Ferguson, J. W., R. W. Pearce, M. F. Lindgren, J. Nestler. 1995. Chapter 7: Fish Passage and Protection. In Guidelines for Design of Intakes for Hydroelectric Plants. American Society of Civil Engineers, New York, N. Y.

Johnson, L. L., J. T. Landahl, B. H. Horness, K. Kardong. 1995. Chemical contaminants, fishing pressure, and population growth of Puget Sound English sole (Pleuronectes vetulus). Pages 686-698 in Proceedings Puget Sound Research '95.

Johnson, L. L., J. T. Landahl, B. H. Horness, K. Kardong. 1995. Contaminant exposure, fishing pressure, and population growth of English sole (Pleuronectes vetulus) in Puget Sound, WA. Pages 686-698 in Proceedings Puget Sound Research '95.

Johnson, L. L., S. Y. Sol, D. P. Lomax, T. K. Collier. 1995. Effects Of Endocrine-Disrupting Chemicals On Marine Flatfish Reproduction: An Approach To Environmental Risk Assessment. Page 188 in Goetz, R., P. Thomas. (Eds.) Proc. Int. Symp. on Fish Reprod. FishSymp 95, Univ. of Texas at Austin, Marine Sciences Institute, Port Aransas, TX.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, C. A. Sloan, D. T. Boyd, S. Chan. 1995. Rapid HPLC/PDA analysis of marine fish and invertebrates for dioxin-like and other chlorobiphenyl congeners. Pages 457-461 in Proc. 15th International Symposium on Chlorinated Dioxins and Related Compounds.

Sol, S. Y., L. L. Johnson, T. K. Collier, M. M. Krahn, U. Varanasi. 1995. Contaminant effects on reproduction in North Pacific flatfish. Pages 547-560 in Proceedings of the International Pacific Flatfish Conference, Anchorage, AK 1994.

Sol, S. Y., L. L. Johnson, T. K. Collier, M. M. Krahn, U. Varanasi. 1995. Contaminant effects on reproductive output in North Pacific flatfish. Pages 547-560 in Proc. International Symposium on North Pacific Flatfish. Alaska Sea Grant College Program Report 95-04, Alaska Fairbanks.

1994

Arkoosh, M. R., J. E. Stein, E. Casillas. 1994. Immunotoxicology of an anadromous fish: Field and laboratory studies of B-cell mediated immunity. Pages 33-48 in Stolen, J. S., T. C. Fletcher. (Eds.) Modulators of fish immune responses. Models for Environmental Toxicology/Biomarkers. Immunostimulators. Vol. 1. SOS Publications, Fair Haven, NY.

Johnson, L. L., M. S. Myers, D. Goyette, R. F. Addison. 1994. Toxic chemicals and fish health in Puget Sound and the Strait of Georgia. In Wilson, R. C., R. J. Beamish, F. Aitkens, J. Bell. (Eds.) Review of the marine environment and biota of Strait of Georgia, Puget Sound and Juan de Fuca Strait.

Kaattari, S. L., M. Adkinson, D. Shapiro, M. R. Arkoosh. 1994. Mechanisms of immunosuppression by Aflatoxin B1. Pages 151-156 in Stolen, J. S., T. C. Fletcher. (Eds.) Modulators of fish immune responses, Vol. I. SOS Publications, Fair Haven, NY.

Moore, M. J., M. S. Myers. 1994. Pathobiology of chemical-associated neoplasia in fish. Pages 327-386 in Malins, D. C., G. K. Ostrander. (Eds.) Aquatic toxicology: Molecular, biochemical and cellular perspectives. Lewis Publishers, Boca Raton, FL.

Reichert, W. L., J. E. Stein, U. Varanasi. 1994. DNA adducts in fish as molecular dosimeters of exposure to genotoxic compounds. Pages 107-112 in Application of DNA technology to the management of Pacific salmon. NOAA Tech. Memo. NMFS-NWFSC-17.

1993

Casillas, E., J. E. Stein, M. R. Arkoosh, D. W. Brown, D. Misitano, S. Chan, U. Varanasi. 1993. Effects of estuarine habitat quality on juvenile salmon: I. Chemical contaminant exposure, and II. Altered growth and immune function. Pages 548-562 in Coastal Zone-93 Proceedings, The Eight Symposium on Coastal and Ocean Management, New Orleans, LA.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, C. A. Krone, J. E. Stein, S. Chan, U. Varanasi. 1993. Screening methods for assessing damage to natural resources following the Exxon Valdez oil spill. Pages 872-3 in Proceedings 1993 International Oil Spill Conference.

Krahn, M. M., G. M. Ylitalo, J. Buzitis, J. L. Bolton, C. A. Wigren, S. Chan, U. Varanasi. 1993. Survey of oil contamination in marine fish and sediments following the ROPME Sea oil spill. In Proceedings of the Scientific Workshop on Results of the R/V Mt. Mitchell Cruise, Fisheries/Plankton Ecology Session, Kuwait City, Kuwait.

MacLeod, W. D. Jr., D. W. Brown, A. J. Friedman, D. G. Burrows, O. Maynes, R. W. Pearce, C. A. Wigren, R. G. Bogar. 1993. Standard Analytical Procedures of the NOAA National Analytical Facility, 1985-1986 (Revised/Edited by A. Cantillo, C. Sloan and G. Lauenstein). Extractable Toxic Organic Compounds. Pages 1-51 in Lauenstein, G. G., A. Y. Cantillo. (Eds.) NOAA Technical Memorandum, NOS ORCA 71. Sampling and Analytical Methods of the National Status and Trends Program, National Benthic Surveillance and Mussel Watch Projects 1984-1992. Volume IV. Comprehensive Descriptions of Trace Organic Analytical Methods.

Nishimoto, M., B. L. Eberhart, H. R. Sanborn, J. E. Stein, U. Varanasi. 1993. Hepatic glutathione in English sole (Pleuronectes vetulus): Response to complex mixtures of xenobiotics. In Proceedings of the 7th PRIMO, Goteborg, Sweden.

Sloan, C. A., N. G. Adams, R. W. Pearce, D. W. Brown, S. Chan. 1993. Northwest Fisheries Science Center Organic Analytical Procedures. Pages 53-97 in Lauenstein, G. G., A. Y. Cantillo. (Eds.) U. S. Dept. Commerce, NOAA Tech. Memo. NOS ORCA 71. Sampling and Analytical Methods of the National Status and Trends Program, National Benthic Surveillance and Mussel Watch Projects 1984-1992. Volume IV. Comprehensive Descriptions of Trace Organic Analytical Methods.

Stein, J. E., T. Hom, C. A. Wigren, K. L. Tilbury, S. Chan, U. Varanasi. 1993. Assessment of exposure of subsistence fish species to aromatic compounds following the Exxon Valdez oil spill. Pages 206-209 in Proceedings of the Exxon Valdez Oil Spill Symposium.

Varanasi, U., J. E. Stein, K. L. Tilbury, D. W. Brown, J. P. Meador, M. M. Krahn, S. Chan. 1993. Contaminant monitoring for NMFS Marine Mammal Health and Stranding Response Program. Pages 2517-2530 in Coastal Zone 93 Proceedings of the Eighth Symposium on Coastal and Ocean Management, New Orleans, LA. Vol. 3.

1992

Arkoosh, M. R., S. L. Kaattari. 1992. Induction of trout antibody-producing cells in microculture. Pages 67-77 in Stolen, J. S., T. C. Fletcher, D. P. Anderson, S. L. Kaattari, A. F. Rowley. (Eds.) Techniques in Fish Immunology. Fish Immunology Technical Communications 2. S.O.S. Publications, New Jersey.

Eberhart, B. L., M. Nishimoto, H. R. Sanborn, J. E. Stein. 1992. Hepatic glutathione levels in flatfish exposed to chemical contaminants. In Proceedings of the 1st annual meeting of the Pacific Northwest Chapter of the Society of Environmental Toxicology and Chemistry, Bellingham, Washington.

Varanasi, U., J. E. Stein, W. L. Reichert, K. L. Tilbury, S. Chan. 1992. Chlorinated and Aromatic Hydrocarbons in Bottom Sediments, Fish and Marine Mammals in US Coastal Waters: Laboratory and Field Studies of Metabolism and Accumulation. Pages 83-115 in Walker, C. H., D. R. Livingstone. (Eds.) Persistent Pollutants in the Marine Environment. Pergamon Press, New York, NY.

Varanasi, U., J. E. Stein, L. L. Johnson, T. K. Collier, E. Casillas, M. S. Myers. 1992. Evaluation of bioindicators of contaminant exposure and effects in coastal ecosystems. Pages 461 - 498 in McKenzie, D. H., D. E. Hyatt, V. J. McDonald. (Eds.) Proceedings International Symposium Ecological Indicators. Elseveir Applied Science, Barking, England.

1991

Brown, D. W., M. M. Krahn, D. G. Burrows, T. K. Collier, C. A. Wigren, G. M. Ylitalo, S. Chan, U. Varanasi. 1991. Metabolites of Aromatic Compounds in Bile of Fish Exposed to Weathered Crude Oil. In Proceedings of the 39th ASMS Conference on Mass Spectrometry and Allied Topics.

Eberhart, B. L., M. Nishimoto, H. R. Sanborn, J. E. Stein, U. Varanasi. 1991. Metabolism of xenobiotics by three species of crustacea. In Proceedings of the 12th annual meeting of the Society of Environmental Toxicology and Chemistry, Nov. 3-7.

1990

Arkoosh, M. R., S. L. Kaattari. 1990. Quantification of fish antibody to a specific antigen by an enzyme linked immunosorbent assay (ELISA). In Stolen, J. S., T. C. Fletcher, B. S. Roberson, W. B. van Muiswinkel. (Eds.) Techniques in Fish Immunology. Fish Immunology Technical Communications 1. S.O.S. Publications, New Jersey.

1989

Collier, T. K., B. L. Eberhart, J. E. Stein, U. Varanasi. 1989. Aryl hydrocarbon hydroxylase-A. Pages 608-610 in Proceed. Oceans '89.

Johnson, L. L., E. Casillas, D. Misitano, T. K. Collier, J. E. Stein, B. B. McCain, U. Varanasi. 1989. Bioindicators of reproductive impairment in female English sole (Parophrys vetulus) exposed to environmental contaminants. Pages 391-396 in Proceed. Oceans '89.

Krahn, M. M., D. W. Brown, C. A. Wigren, D. G. Burrows, W. D. MacLeod Jr., S. Chan. 1989. Rapid, automated methods to analyze for organic contaminants in environmental samples. Pages 397-401 in Proceedings Oceans '89. IEEE, Washington, DC.

Stein, J. E., W. L. Reichert, B. L. Eberhart, U. Varanasi. 1989. 32P-Postlabeling of DNA: A sensitive method for assessing environmentally induced genotoxicity. Pages 385-390 in Proceed. Oceans '89.

Taub, F. B., A. C. Kindig, L. L. Conquest, J. P. Meador. 1989. Results of interlaboratory testing of the standardized aquatic microcosm protocol. Pages 368-394 in Suter, G. W., M. A. Lewis. (Eds.) Aquatic Toxicology and Environmental Fate: Eleventh Volume, ASTM STP 1007. American Society for Testing and Materials, Philadelphia, PA.

1988

Schiewe, M. H., J. T. Landahl, M. S. Myers, P. D. Plesha, F. J. Jacques, J. E. Stein, B. B. McCain, D. D. Weber, S. Chan, U. Varanasi. 1988. Relating field and laboratory studies: Cause-and-effect research. Pages 577-584 in Proceedings of the Ist Annual Meeting on Puget Sound Research. Puget Sound Water Quality Authority, Seattle, WA.

1985

Malins, D. C., B. B. McCain, M. M. Krahn, M. S. Myers, J. E. Stein, W. T. Roubal, D. W. Brown, U. Varanasi, H. O. Hodgins, S. Chan. 1985. Occurrence of hepatic neoplasms and other lesions in bottom-dwelling fish and relationships to pollution in Puget Sound, Washington. Pages 399-414 in Jolly, R. L., R. J. Bull, W. P. Davis, S. L. Katz, M. H. Roberts Jr., V. A. Jacobs. (Eds.) Effects, Vol. 5. Lewis Publishers, Inc., Chelsea, Michigan.

Contract Report

2007

Beamer, E. M., C. A. Rice, R. Henderson, K. L. Fresh, M. Rowse. 2007. Taxonomic Composition of Fish assemblages, and Density and Size of Juvenile Chinook Salmon in the Greater Skagit River Estuary: Field Sampling and Data Summary Report. Report to the Seattle District of the U.S. Army Corps of Engineers.

2003

Achord, S., E. E. Hockersmith, B. P. Sandford, R. A. McNatt, B. E. Feist, G. M. Matthews. 2003. Monitoring the Migrations of Wild Snake River Spring/Summer Chinook Salmon Smolts, 2002. Report to the Bonneville Power Administration, Contract 00005619, 95 electronic pages. (BPA Report DOE/BP-1991-028-00)

Moser, M. L., D. A. Ogden, S. G. McCarthy, T. C. Bjornn. 2003. Migration behavior of adult Pacific lamprey in the lower Columbia River and evaluation of Bonneville Dam modifications to improve passage, 2001. Report of Research by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration to the U.S. Army Corps of Engineers, Portland District, v, 50 p.

2002

Moser, M. L., L. C. Stuehrenberg, W. Cavender, S. G. McCarthy, T. C. Bjornn. 2002. Radiotelemetry investigations of adult Pacific lamprey migration behavior: evaluation of modifications to improve passage at Bonneville Dam, 2000. Report by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service to the U.S. Army Corps of Engineers, v, 79 p.

1996

Roni, P., L. A. Weitkamp. 1996. Environmental monitoring of the Manchester Naval Fuel Pier replacement, Puget Sound, Washington, 1991-1994. Report to the U.S. Department of Navy, Naval Facilities Engineering Command, Western Division, Contract N62474-91-MP-00758, 40 p. plus appendices.

Technical Memorandum

2008

Olson, O. P., L. L. Johnson, G. M. Ylitalo, C. A. Rice, J. R. Cordell, T. K. Collier, J. Steger. 2008. Fish habitat use and chemical contaminant exposure at restoration sites in Commencement Bay, Washington. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-88, 117 p.

Ward, L., P. Crain, B. Freymond, M. McHenry, D. Morrill, G. R. Pess, R. Peters, J. A. Shaffer, B. Winter, B. Wunderlich. 2008. Elwha River Fish Restoration Plan, developed pursuant to the Elwha River Ecosystem and Fisheries Restoration Act, Public Law 102-495. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-90, 168 p.

2007

Hard, J. J., J. M. Myers, M. J. Ford, R. G. Kope, G. R. Pess, R. S. Waples, G. A. Winans, B. A. Berejikian, F. W. Waknitz, P. B. Adams, P. A. Bisson, D. E. Campton, R. Reisenbichler. 2007. Status review of Puget Sound steelhead (Oncorhynchus mykiss). U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-81, 117 p.

Hecht, S. A., D. H. Baldwin, C. A. Mebane, T. Hawkes, S. J. Gross, N. L. Scholz. 2007. An overview of sensory effects on juvenile salmonids exposed to dissolved copper: Applying a benchmark concentration approach to evaluate sublethal neurobehavioral toxicity. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-83, 39 p.

2006

Sloan, C. A., D. W. Brown, G. M. Ylitalo, J. Buzitis, D. P. Herman, D. G. Burrows, G. K. Yanagida, R. W. Pearce, J. L. Bolton, R. H. Boyer, M. M. Krahn. 2006. Quality assurance plan for analyses of environmental samples for polycyclic aromatic compounds, persistent organic pollutants, fatty acids, stable isotope ratios, lipid classes, and metabolites of polycyclic aromatic compounds. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-77, 30 p.

2005

Fresh, K. L., E. Casillas, L. L. Johnson, D. L. Bottom. 2005. Role of the estuary in the recovery of Columbia River Basin salmon and steelhead: An evaluation of the effects of selected factors on salmonid population viability. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-69, 105 p.

2004

Krahn, M. M., M. J. Ford, W. F. Perrin, P. R. Wade, R. P. Angliss, M. B. Hanson, B. L. Taylor, G. M. Ylitalo, M. E. Dahlheim, J. E. Stein, R. S. Waples. 2004. 2004 Status Review of Southern Resident Killer Whales (Orcinus orca) under the Endangered Species Act. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-62, 73 p.

Sloan, C. A., D. W. Brown, R. W. Pearce, R. H. Boyer, J. L. Bolton, D. G. Burrows, D. P. Herman, M. M. Krahn. 2004. Extraction, cleanup, and gas chromatography/mass spectrometry analysis of sediments and tissues for organic contaminants. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-59, 47 p.

2003

Beechie, T. J., P. Roni, E. A. Steel, E. Quimby. (Eds.) 2003. Ecosystem recovery planning for listed salmon: An integrated assessment approach for salmon habitat. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-58, 183 p.

2002

Krahn, M. M., P. R. Wade, S. T. Kalinowski, M. E. Dahlheim, B. L. Taylor, M. B. Hanson, G. M. Ylitalo, R. P. Angliss, J. E. Stein, R. S. Waples. 2002. Status Review of Southern Resident Killer Whales (Orcinus orca) under the Endangered Species Act. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-54, 133 p.

2001

Johnson, L. L. 2001. An analysis in support of sediment quality thresholds for polycyclic aromatic hydrocarbons (PAHs) to protect estuarine fish. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-47, 30 p.

Meador, J. P., T. K. Collier, J. E. Stein. 2001. Determination of a tissue and sediment threshold for tributyltin (TBT) to protect prey species of juvenile salmonids listed under the Endangered Species Act. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-52, 21 p.

Meador, J. P., T. K. Collier, J. E. Stein. 2001. Use of tissue and sediment-based threshold concentrations of polychlorinated biphenyls (PCBs) to protect juvenile salmonids listed under the U.S. Endangered Species Act. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-48, 40 p.

Stout, H. A., B. B. McCain, R. D. Vetter, T. L. Builder, W. H. Lenarz, L. L. Johnson, R. D. Methot. 2001. Status Review of Copper Rockfish (Sebastes caurinus), Quillback Rockfish (S. maliger), and Brown Rockfish (S. auriculatus) in Puget Sound, Washington. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-46, xxiv, 158 p.

2000

McCain, B. B., D. W. Brown, S. Chan, J. T. Landahl, W. D. MacLeod Jr., M. M. Krahn, C. A. Sloan, K. L. Tilbury, S. M. Pierce, D. G. Burrows, U. Varanasi. 2000. National benthic surveillance project: Pacific Coast. Organic chemical contaminants, cycles I to VII (1984-90). U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-40, 121 p. (PDF | HTML)

1998

Collier, T. K., L. L. Johnson, M. S. Myers, C. M. Stehr, M. M. Krahn, J. E. Stein. 1998. Fish Injury in the Hylebos Waterway of Commencement Bay, Washington. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-36, 576 p.

1994

Meador, J. P., R. C. Clark Jr., P. A. Robisch, D. W. Ernest, J. T. Landahl, U. Varanasi, S. Chan, B. B. McCain. 1994. National Benthic Surveillance Project: Pacific Coast. Analysis of elements in sediment and tissue Cycles I to V (1984-88). U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-16, 206 p.

Reichert, W. L., B. L. French. 1994. The 32P-Postlabeling protocols for assaying levels of hydrophobic DNA adducts in fish. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-14, 89 p.

1993

Myers, M. S., C. M. Stehr, O. P. Olson, L. L. Johnson, B. B. McCain, S. Chan, U. Varanasi. 1993. National Status and Trends Program, National Benthic Surveillance Project: Pacific Coast, Fish histopathology and relationships between toxicopathic lesions and exposure to chemical contaminants for cycles I to V (1984-88). U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-6, 160 p.

Varanasi, U., J. E. Stein, K. L. Tilbury, J. P. Meador, C. A. Sloan, D. W. Brown, J. Calambokidis, S. Chan. 1993. Chemical contaminants in gray whales (Eschrichtius robustus) stranded in Alaska, Washington, and California, U.S.A. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-11, 115 p.

Varanasi, U., E. Casillas, M. R. Arkoosh, T. Hom, D. Misitano, D. W. Brown, S. Chan, T. K. Collier, B. B. McCain, J. E. Stein. 1993. Contaminant exposure and associated biological effects in juvenile Chinook salmon (Oncorhynchus tshawytscha) from urban and nonurban estuaries of Puget Sound, WA. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-8, 112 p.

Varanasi, U., D. W. Brown, T. Hom, D. G. Burrows, C. A. Sloan, L. J. Field, J. E. Stein, K. L. Tilbury, B. B. McCain, S. Chan. 1993. Vol. I. Survey of Alaskan Subsistence fish, marine mammal, and invertebrate samples collected 1989-91 for exposure to oil spilled from the Exxon Valdez. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-12, 110 p.

Varanasi, U., D. W. Brown, T. Hom, D. G. Burrows, C. A. Sloan, L. J. Field, J. E. Stein, K. L. Tilbury, B. B. McCain, S. Chan. 1993. Vol. II. Supplemental information concerning a survey of Alaskan subsistence fish, marine mammal, and invertebrate samples collected 1989-91 for exposure to oil spilled from the Exxon Valdez. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-13, 173 p.

1992

Johnson, L. L., J. E. Stein, T. K. Collier, E. Casillas, B. B. McCain, U. Varanasi. 1992. Bioindicators of contaminant exposure, liver pathology and reproductive development in prespawning female winter flounder (Pleuronectes americanus) from urban and nonurban estuaries on the Northeast Atlantic coast. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-01, 76 p.

Johnson, L. L., C. M. Stehr, O. P. Olson, M. S. Myers, S. M. Pierce, B. B. McCain, U. Varanasi. 1992. Fish Histopathology and Relationships Between Lesions and Chemical Contaminants (1987-89). U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-4.

Stein, J. E., K. L. Tilbury, D. W. Brown, C. A. Wigren, J. P. Meador, P. A. Robisch, S. Chan, U. Varanasi. 1992. Intra-organ Distribution of Chemical Contaminants in Tissues of Harbor Porpoise (Phocoena phocoena) from the Northwest Atlantic. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-3, 76 p.

1990

Varanasi, U., S. Chan, W. D. MacLeod Jr., J. E. Stein, D. W. Brown, D. G. Burrows, K. L. Tilbury, J. T. Landahl, C. A. Wigren, T. Hom, S. M. Pierce. 1990. Survey of Subsistence Fish and Shellfish for Exposure to Oil Spilled from the Exxon Valdez First Year: 1989. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-F/NWC-191, 151 p.

1988

Krahn, M. M., C. A. Wigren, R. W. Pearce, L. K. Moore, R. G. Bogar, W. D. MacLeod Jr., S. Chan, D. W. Brown. 1988. Standard Analytical Procedures of the NOAA National Analytical Facility, 1988. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS F/NWC-153, 52 p.

1986

Krahn, M. M., L. K. Moore, W. D. MacLeod Jr. 1986. Standard Analytical procedures of the NOAA National Analytical Facility, 1986: Metabolites of aromatic compounds in fish bile. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWC-102, 25 p.

1985

MacLeod, W. D. Jr., D. W. Brown, A. Freidman, D. G. Burrows, O. Maynes, R. W. Pearce, C. A. Wigren, R. G. Bogar. 1985. Standard Analytical Procedures of the NOAA National Analytical Facility, 1984-1985: Extractable Toxic Organic Compounds, Second Ed. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-F/NWC-9, 121 p.

Report

2006

Krahn, M. M., R. Pitman, D. G. Burrows, D. P. Herman, R. W. Pearce. 2006. Assessing the feeding ecology of Antarctic Type C killer whales using chemical tracers. Report to Scientific Committee of the International Whaling Commission St Kitts.

2005

Hard, J. J., J. M. Myers, M. J. Ford, R. G. Kope, G. R. Pess, R. S. Waples, G. A. Winans, B. A. Berejikian, F. W. Waknitz, P. B. Adams, P. A. Bisson, D. E. Campton, R. Reisenbichler. 2005. Status review update for Puget Sound steelhead. Report submitted to NOAA/NMFS Northwest Regional Office, Seattle, Washington, 26 July 2005, 70 p. + 4 appendices.

Pitcher, G., T. Moita, V. L. Trainer, R. Kudela, F. Figueiras, T. Probyn. (Eds.) 2005. Global Ecology and Oceanography of Harmful Algal Blooms - Core research project: HABs in upwelling systems. GEOHAB Report number 3, 88 p.

Roni, P., K. Hanson, T. J. Beechie, G. R. Pess, M. M. Pollock, D. M. Bartley. 2005. Habitat rehabilitation for inland fisheries. Global review of effectiveness and guidance for rehabilitation of freshwater ecosystems. FAO Fisheries Technical Paper. No. 484, Food and Agriculture Organization of the United Nations, 116 p.

2004

Rice, C. A. 2004. 2003 Bellingham Bay juvenile Chinook townetting project field sampling and data summary. Report to Port of Bellingham

2003

Edmonds, R.L., P.M. Kiffney, C.J. Volk, S.A. McAfee. Ecosystem and Watershed Studies in Olympic National Park: 2002 Annual Report. Technical Report PS/CCSOUW/NTRT-2002/03. Submitted to National Park Service 909 1st Ave. Seattle, WA 98104-1060.

Feist, B. E., A. Steel. 2003. Status Report of BPA Funded SWAM Analyses in the Columbia River Basin. Report to Bonneville Power Administration

2002

Burrows, D. G., J. L. Bolton, M. M. Krahn. 2002. Procedures for submission of data on chemical contaminants in cetacean products to the World Health Organization/Global Environment Monitoring System (WHO/GEMS) database. IWC Paper SC/54/E2.

Kiffney, P. M., C. J. Volk, C. Eberhart, J. E. Hall. 2002. Community and ecosystem attributes of the Cedar River watershed above Landsburg Diversion before arrival of Pacific salmon. Report to Seattle Public Utilities Technical draft report.

Rice, C. A., D. P. Lomax, C. A. Laetz, W. Osenga, T. K. Collier. 2002. Commencement Bay restoration fish monitoring - 2002 field sampling and data summary. Report to NOAA Restoration Center

2001

Riley, S., P. M. Kiffney, C. Inman. 2001. Habitat inventory and salmonid stock assessment in the Cedar River and tributaries. Report to Seattle Public Utilities Technical Report.

Roni, P. 2001. Responses of fishes and salamanders to instream restoration efforts in western Oregon and Washington. Report to Bureau of Land Management Project completion , Interagency Agreement No. 1422H952-A98-3007, National Marine Fisheries Service, Northwest Fisheries Science Center, Seattle, WA, 132 p.

Stehr, C. M., T. Horiguchi. (Eds.) 2001. Environmental Assessment of Vancouver Harbour. Data Report for the PICES Practical Workshop, PICES Sci. Rep. No. 16.

1999

Myers, M. S. 1999. PSAMP Data Report on fish bile fluorescent aromatic compounds, and liver and gonad histopathology. Submitted to Washington Department of Fish and Wildlife (Nov 1999). .

Simenstad, C. A., B. E. Feist, J. Morlan, P. B. Williams. 1999. Assessment of potential dike-breach restoration of estuarine wetlands in Tillamook Bay, Oregon. Report to Tillamook Bay National Estuary Project 57 p.

Ylitalo, G. M. 1999. PSAMP Data Report on chemical analyses of fish muscle from coho salmon, English sole, and rockfish. Submitted to Washington Department of Fish and Wildlife (Dec 1999).

1998

Krahn, M. M., J. Buzitis, G. M. Ylitalo, C. A. Sloan, D. W. Brown, D. G. Burrows, J. L. Bolton, T. K. Collier, J. E. Stein. 1998. Analyses for PCBs and PCTs in Sediment from the Duwamish River, Seattle, WA. Report to National Oceanic & Atmospheric Administration's Northwest Damage Assessment Center

Krahn, M. M., J. Buzitis, G. M. Ylitalo, C. A. Sloan, D. W. Brown, D. T. Boyd, J. L. Bolton, J. E. Stein. 1998. Comparison of PCB Concentrations in Split Samples of Sediment from the Duwamish River, Seattle, WA. Report to National Oceanic & Atmospheric Administration's Northwest Damage Assessment Center

Myers, M. S. 1998. PSAMP Data Report on fish bile FACs, and liver and gonad histopathology. Submitted to Washington Department of Fish and Wildlife (Sept 1998)..

1997

Casillas, E., B. L. Eberhart, F. Sommers, T. K. Collier, M. M. Krahn, J. E. Stein. 1997. Effects of Chemical Contaminants from the Hylebos Waterway on Growth of Juvenile Chinook Salmon: Hylebos Interpretive Report.

Collier, T. K., L. L. Johnson, T. Hom, M. M. Krahn, J. E. Stein. 1997. Exposure of winter flounder (Pleuronectes americanus) following the North Cape oil spill, and estimation of potential for biological injury. Summary Report submitted to Salt Pond Technical Working Group.

Johnson, L. L. 1997. Results of Hylebos Waterway Fish Injury Studies: Reproductive Toxicology. Interpretive Report prepared for NOAA Damage Assessment Center. Submitted to Trustess for review 7/8/96; final report submitted 1/97.

1996

Johnson, L. L. 1996. Barge North Cape Oil Spill: Potential impacts on winter flounder (Pleuronectes americanus) reproduction based on biliary FAC concentrations. Report to NCOS Salt Ponds Technical Working Group Final Report.

Simenstad, C. A., B. E. Feist. 1996. Restoration potential of diked estuarine wetlands: Inferring fate and the recovery rate of historically-breached sites. EPA 910/R-96-005, 115 p.

1995

Varanasi, U., T. K. Collier, C. A. Krone, M. M. Krahn, L. L. Johnson, M. S. Myers, S. Chan. 1995. Assessment of oil spill impacts on fisheries resources: Measurement of hydrocarbons and their metabolites, and their effects, in important species, Exxon Valdez Oil Spill State/Federal Natural Resource Damage Assessment Final Report (Subtidal 7). NMFS, NOAA, Seattle, Washington.

1994

Myers, M. S., L. L. Johnson, O. P. Olson, C. M. Stehr, D. P. Lomax, B. H. Horness, B. F. Anulacion, M. L. Willis, T. K. Collier, B. B. McCain, J. E. Stein, U. Varanasi. 1994. Toxicopathic hepatic lesions and other biomarkers of exposure to chemical contaminants in marine bottom fish species from the northeast and Pacific Coast. Report to U.S.A. Baltic Marine Biologists Publication No. 15, 81-98 p.

Thesis

2007

Rice, C. A. 2007. Evaluating the Biological Condition of Puget Sound. Aquatic and Fishery Sciences. Ph. D. Dissertation University of Washington, Seattle

1997

Rice, C. A. 1997. Multiple life stage sensitivity of a deposit-feeding polychaete to chemical toxicants in sediment. M.S. University of Washington, Seattle, xii, 118 p.

1988

Meador, J. P. 1988. The chemical and biological factors associated with ecosystem recovery from copper-stress as exemplified by microcosms. Ph.D. dissertation University of Washington., 230 p.

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