Our team has made a difference on high-profile projects in aquatic environments throughout North America.

Select Publications

Bandrowski, D., Lai, Y., Bradley, N., Gaeuman, D.A., Murauskas, J., Som, N.A., Martin, A., Goodman, D., Alvarez, J. 2014. "2D Hydrodynamic Based Logic Modeling Tool for River Restoration Decision Analysis: A Quantitative Approach to Project Prioritization." AGU Fall Meeting Abstracts 43.

Beaugrand, G., Conversi, A., Chiba, S., Edwards, M., Fonda-Umani, S., Greene, C., Mantua, N.J., Otto, S.A., Reid, P.C., Stachura, M.M., Stemmann, L., and Sugisaki, H. 2015. "Synchronous Marine Pelagic Regime Shifts in the Northern Hemisphere." Philosophical Transactions of the Royal Society B: Biological Sciences. 370(1659). doi: 10.1098/rstb.2013.0272.

Bliznyuk, N., Ruppert, D., Shoemaker, C., Regis, R., Wild, S., Mugunthan, P. 2008. "Bayesian Calibration and Uncertainty Analysis for Computationally Expensive Models Using Optimization and Radial Basis Function Approximation." Journal of Computational and Graphical Statistics 17:270–294.

Caldwell, L.K., and Courter, L.A. 2020. "Abiotic Factors Influence Surface Water Herbicide Concentrations Following Silvicultural Aerial Application in Oregon's North Coast Range." Integrated Environmental Assessment and Management 16:114-127.

Caldwell, L.K., Pierce, A.L., and Nagler, J.J. 2013. "Metabolic Endocrine Factors Involved in Spawning Recovery and Rematuration of Iteroparous Female Rainbow Trout (Oncorhynchus mykiss)." General and Comparative Endocrinology 194:124-132.

Caldwell, L.K., Pierce, A.L., Riley, L.G., Duncan, C.A., and Nagler, J.J. 2014. "Plasma Nesfatin-1 Is Not Affected by Long-Term Food Restriction and Does Not Predict Rematuration Among Iteroparous Female Rainbow Trout (Oncorhynchus mykiss)." PLoS ONE 9:e85700.

Clemens, B.J., Beamish, R.J., Coates, K.C., Docker, M.F., Dunham, J.B., Gray, A.E., Hess, J.E., Jolley, J.C., Lampman, R.T., McIlraith, B.J., Moser, M.L., Murauskas, J.G., Noakes, D.L.G., Schaller, H.A., Schreck, C.B., Starcevich, S.J., Streif, B., Wetering, S.J. van de, Wade, J., Weitkamp, L.A., and Wyss, L.A. 2017. "Conservation Challenges and Research Needs for Pacific Lamprey in the Columbia River Basin." Fisheries 42(5):268–280.

Cramer, S.P., and Caldwell, L. 2020. "Bias and Consequences in Attempts to Estimate Historic Salmon Abundance." Canadian Journal of Fisheries and Aquatic Sciences 77:132-145.

Cope, J.M., Sampson, D., Stephens, A., Key, M., Mirick, P.P., Stachura, M.M., Tsou, T.-S., Weyland, P., Berger, A., Buell, T., Councill, E., Dick, E.J., Fenske, K.H., Monk, M. and Rodomsky, B.T. 2015. Assessments of Black Rockfish (Sebastes melanops) Stocks in California, Oregon, and Washington Coastal Waters. Pacific Fishery Management Council, Portland, OR.

Deng, Z.D., Carlson, T.J., Li, H., Xiao, J., Myjak, M.J., Lu, J., Martinez, J.J., Woodley, C.M., Weiland, M.A., and Eppard, M.B. 2015. "An Injectable Acoustic Transmitter for Juvenile Salmon." Sci Rep 5.

Deng, Z., Guensch, G.R., Richmond, M.C., Weiland, M.A., and Carlson, T.J. 2007. "Prototype Measurements of Pressure Fluctuations in The Dalles Dam Stilling Basin." Journal of Hydraulic Research 45:674–678.

Deng, Z. (Daniel), Weiland, M., Carlson, T., Eppard, B., Fu, T., and Ploskey, G. 2011. "A Cabled Acoustic Telemetry System for Detecting and Tracking Juvenile Salmon." The Journal of the Acoustical Society of America 129:2699–2699.

Elder, T., Woodley, C.M., Weiland, M.A., and Strecker, A.L. 2016. "Factors Influencing the Survival of Outmigrating Juvenile Salmonids through Multiple Dam Passages: An Individual-Based Approach." Ecol Evol 6:5881–5892.

Evans, A.F., Payton, Q., Turecek, A., Cramer, B., Collis, K., Roby, D.D., Loschl, P.J., Sullivan, L., Skalski, J., Weiland, M., and Dotson, C. 2016. "Avian Predation on Juvenile Salmonids: Spatial and Temporal Analysis Based on Acoustic and Passive Integrated Transponder Tags." Transactions of the American Fisheries Society 145:860–877.

Franklin, T.W., Dysthe, J.C., Rubenson, E.S., Carim, K.J., Olden J.D., McKelvey, K.S., Young, M.K., and Schwartz, M.K. "A Non-Invasive Sampling Method for Detecting Non-Native Smallmouth Bass (Micropterus dolomieu)." Northwest Science 92: 149-157.

Hare, J.A., Morrison, W.E., Nelson, M.W., Stachura, M.M., Teeters, E.J., Griffis, R.B., Alexander, M.A., Scott, J.D., Alade, L., Bell, R.J., Chute, A.S., Curti, K.L., Curtis, T.H., Kircheis, D., Kocik, J.F., Lucey, S.M., McCandless, C.T., Milke, L.M., Richardson, R.E., Robillard, E., Walsh, H.J., McManus, M.C., Marancik, K.E., and Griswold, C.A. 2016. "A Vulnerability Assessment of Fish and Invertebrates to Climate Change on the Northeast U.S. Continental Shelf." PLoS ONE. 11(2): e0146756. doi: 10.1371/journal.pone.0146756.

Hayward, R.S., and Weiland, M.A. 1998. "Gastric Evacuation Rates and Maximum Daily Rations of Rainbow Trout Fed Chironomid Larvae at 7.8, 10.0 and 12.8°C." Environmental Biology of Fishes 51:321–330.

Harstad, D.L., Larsen, D.A., Miller, J., Adams, I., Spangenberg, D.K., Nance, S., Rohrbach, L., Murauskas, J.G. and Beckman, B.R. 2018. "Winter‐Rearing Temperature Affects Growth Profiles, Age of Maturation, and Smolt‐to‐Adult Returns for Yearling Summer Chinook Salmon in the Upper Columbia River Basin." North American Journal of Fisheries Management 38(4):67-885.

Hedden-Nicely, D., and Caldwell, L.K. 2020. "Indigenous Rights and Climate Change: The Influence of Climate Change on the Quantification of Reserved Instream Water Rights for American Indian Tribes." Utah Law Review 2020(3):article 4.

Hughes, J.S., Deng, Z.D., Weiland, M.A., Martinez, J.J., and Yuan, Y. 2011. "Water Velocity Measurements on a Vertical Barrier Screen at the Bonneville Dam Second Powerhouse." Energies 4:2038–2048.

Ingraham, J.M., Deng, Z.D., Martinez, J.J., Trumbo, B.A., Mueller, R.P., and Weiland, M.A. 2014. "Feasibility of Tracking Fish with Acoustic Transmitters in the Ice Harbor Dam Tailrace." Sci Rep 4.

Johnson, G.E., Ploskey, G.R., Hedgepeth, J., Khan, F., Mueller, R.P., Nagy, W.T., Richmond, M.C., and Weiland, M.A. 2008. Reducing the Impacts of Hydroelectric Dams on Juvenile Anadromous Fishes: Bioengineering Evaluations Using Acoustic Imaging in the Columbia River, USA (No. PNNL-SA-61525). WP Hayes & MC Barnes; Nova Science Publishers, Hauppauge, NY.

Johnson, W.F., and Stachura, M.M. 2011. Creation of Glacier Bay Oceanographic Information Products Defined in Protocol OC-2010.1 Using Legacy Data Covering 1993 through 2008: Methods, Quality Levels, and Exceptions. Natural Resource Data Series NPS/SEAN/NRDS—2011/130. National Park Service, Fort Collins, Colorado.

Koontz, E.D., Steel, E.A., and Olden, J.D. 2018. "Stream Thermal Responses to Wild Fire in the Pacific Northwest." Freshwater Science 37(November 2017). https://doi.org/10.1086/700403.

Kuehne, L.M., Olden, J.D., and Rubenson, E.S. 2016. "Multi-Trophic Impacts of an Invasive Aquatic Plant." Freshwater Biology 61: 1846-1861.

Li, X., Deng, Z.D., Martinez, J.J., Fu, T., Titzler, P.S., Hughes, J.S., Weiland, M.A., Brown, R.S., Trumbo, B.A., Ahmann, M.L., and Renholds, J.F. 2015. "Three-Dimensional Tracking of Juvenile Salmon at a Mid-Reach Location between Two Dams." Fisheries Research 167:216–224.

Lowerre-Barbieri, S., DeCelles, G. Pepin, P., Catalan, I.A., Muhling, B., Erisman, B., Cadrin, S.X., Alós, J., Ospina- Alvarez, A., Stachura, M.M., Tringali, M.D., Burnsed, S.W., and Paris, C.B. 2017. "Reproductive Resilience: A Paradigm Shift in Understanding Spawner-Recruit Systems in Exploited Marine Fish." Fish and Fisheries. doi: 10.1111/faf.12180.

McDonough, K.M., Lambert, D.C., Mugunthan, P., and Dzombak, D.A., 2005a. "Hydrologic and Geochemical Factors Governing Chemical Evolution of Discharges from an Abandoned, Flooded, Underground Coal Mine Network." Journal of Environmental Engineering 131:643–650.

McDonough, K.M., Lambert, D.C., Mugunthan, P., and Dzombak, D.A., 2005b. "Processes Governing Flow and Chemical Characteristics of Discharges from Free-Draining, Underground Coal Mines." Journal of Environmental Engineering 131:1361–1368.

McMichael, G.A., Eppard, M.B., Carlson, T.J., Carter, J.A., Ebberts, B.D., Brown, R.S., Weiland, M., Ploskey, G.R., Harnish, R.A., and Deng, Z.D. 2010. "The Juvenile Salmon Acoustic Telemetry System: A New Tool." Fisheries 35:9–22.

McMichael, G.A., Harnish, R.A., Weiland, M.A., Deng, Z., Eppard, M.B. 2011. "Fish Passage: A New Tool to Investigate Fish Movement: JSATS." Hydro Review 30:34-42.

Merz, J., Caldwell, L., Beakes, M., Hammersmark, C., and Sellheim, K. 2019. "Balancing Competing Life Stage Requirements in Salmon Habitat Rehabilitation: Between a Rock and a Hard Place." Restoration Ecology 27:661-671.

Miller, J.L., Hamon, T., Jones, T., and West, F. 2007. Kokanee Exploit Large Prey in the Absence of Limnetic Predators, in: American Fisheries Society Symposium. American Fisheries Society p. 73.

Mugunthan, P., Russell, K.T., Gong, B., Riley, M.J., Chin, A., McDonald, B.G., and Eastcott, L.J. 2017. "A Coupled Groundwater–Surface Water Modeling Framework for Simulating Transition Zone Processes." Groundwater 55:302–315.

Mugunthan, P., Shoemaker, C.A. 2004. "Time Varying Optimization for Monitoring Multiple Contaminants under Uncertain Hydrogeology." Bioremediation Journal 8:129–146.

Mugunthan, P., and Shoemaker, C.A. 2006. "Assessing the Impacts of Parameter Uncertainty for Computationally Expensive Groundwater Models." Water Resour. Res. 42:W10428.

Murauskas, J.G. 2013. "Chinook Smolts Raised in Circular Tanks with Partial Recirculation Outperform Fish Reared in Traditional Raceways. Hatchery International 14:31.

Murauskas, J.G., and Rulifson, R.A. 2009. A Comprehensive Approach to Understanding Diadromy at the Species Level: Learning from the Spawning Migration of Hickory Shad, in: American Fisheries Society Symposium pp. 837–840.

Murauskas, J.G., and Rulifson, R.A. 2011. "Reproductive Development and Related Observations during the Spawning Migration of Hickory Shad." Transactions of the American Fisheries Society 140:1035–1048.

Murauskas, J.G., Fryer, J.K., Nordlund, B., and Miller, J.L. 2014. "Trapping Effects and Fisheries Research: A Case Study of Sockeye Salmon in the Wenatchee River, USA." Fisheries 39:408–414.

Murauskas, J.G., Orlov, A.M., and Siwicke, K.A. 2013. "Relationships between the Abundance of Pacific Lamprey in the Columbia River and Their Common Hosts in the Marine Environment." Transactions of the American Fisheries Society 142:143–155.

Murauskas, J.G., Schultz, L.D., and Orlov, A.M. 2016. "Trends of Pacific Lamprey Populations across a Broad Geographic Range in the North Pacific Ocean, 1939–2014." Jawless Fishes of the World 2:73–96.

Nagler, J., Cavileer, T., Caldwell, L., and Schultz, I. 2011. "Duplication of the Kisspeptin-2 Gene in Rainbow Trout (Oncorhynchus mykiss) Brain and Pituitary." Biology of Reproduction 85:814-814.

Nye, J.A., Baker, M.R., Bell, R., Kenny, A., Kilbourne, K.H., Friedland, K.D., Martino, E., Stachura, M.M., Van Houtan, K.S., and Wood, R. 2014. "Ecosystem Effects of the Atlantic Multidecadal Oscillation." Journal of Marine Systems 133: 103-116. doi: 10.1016/j.jmarsys.2013.02.006.

Olsen, J.B., Wenburg, J.K., Pavey, S.A., Miller, J.L., and Hamon, T.R. 2017. "The Time of Origin and Genetic Diversity of Three Isolated Kokanee Populations in Southwest Alaska." Transactions of the American Fisheries Society 146:1212–1222.

Pearsons, T.N., Murauskas, J.G., Larsen, D., and Beckman, B. 2013. "Hitting the Right Target: Rearing Innovations for Conservation Aquaculture." Hatchery International 14:26-28.

Pearsons, T.N., Murdoch, A.R., Mackey, G., Murdoch, K.G., Hillman, T.W., Cooper, M.R., and Miller, J.L. 2012. "Ecological Risk Assessment of Multiple Hatchery Programs in the Upper Columbia Watershed Using Delphi and Modeling Approaches." Environ Biol Fish 94:87–100.

Pierce, A.L., Blodgett, J.W., Cavileer, T.D., Medeiros, L.R., Boyce, J., Caldwell, L.K., Bosch, W.J., Branstetter, R., Fast, D.E., Hatch, D.R., and Nagler, J.J. 2017. "Reproductive Development in Captive Reconditioned Female Steelhead Kelts: Evidence for Consecutive and Skip Spawning Life Histories." Canadian Journal of Fisheries and Aquatic Sciences 74:1049-1060.

Politano M., Arenas Amado A., Bickford S., Murauskas J., and Hay D., 2011. "Investigation into the Total Dissolved Gas Dynamics of Wells Dam Using a Two-Phase Flow Model." Journal of Hydraulic Engineering 137:1257–1268.

Politano, M., Arenas Amado, A., Bickford, S., Murauskas, J., and Hay, D. 2012. "Evaluation of Operational Strategies to Minimize Gas Supersaturation Downstream of a Dam." Computers & Fluids 68:168–185.

Rubenson, E.S., and Olden, J.D. 2016. "Spatiotemporal Spawning Patterns of Smallmouth Bass at its Upstream Invasion Edge." Transactions of the American Fisheries Society 145: 693-702.

Rubenson, E.S., and Olden, J.D. 2017. "Dynamism in the Upstream Invasion Edge of a Freshwater Fish Exposes Range Boundary Constraints." Oecologia 184:453-467.

Rubenson, E.S., and Olden, J.D. 2019. "Growth and Recruitment of Nonnative Smallmouth Bass along the Upstream Edge of its Riverine Distribution." Northwest Science 93(1):1.

Rubenson, E.S., Lawrence, D.J., and Olden, J.D. 2020. "Threats to Rearing Juvenile Chinook Salmon from Nonnative Smallmouth Bass Inferred from Stable Isotope and Fatty Acid Biomarkers." Transactions of the American Fisheries Society 149:350-363.

Skalski, J.R., Eppard, M.B., Ploskey, G.R., Weiland, M.A., Carlson, T.J., and Townsend, R.L. 2014. "Assessment of Subyearling Chinook Salmon Survival through the Federal Hydropower Projects in the Main-Stem Columbia River." North American Journal of Fisheries Management 34:741–752.

Skalski, J.R., Weiland, M.A., Ham, K.D., Ploskey, G.R., McMichael, G.A., Colotelo, A.H., Carlson, T.J., Woodley, C.M., Eppard, M.B., and Hockersmith, E.E. 2016. "Status after 5 Years of Survival Compliance Testing in the Federal Columbia River Power System (FCRPS)." North American Journal of Fisheries Management 36:720–730.

Skalski, J.R., Weiland, M.A., Ploskey, G.R., Woodley, C.M., Eppard, M.B., Johnson, G.E., Carlson, T.J., and Townsend, R.L. 2016. "Establishing and Using Study Criteria to Ensure the Rigor and Robustness of Survival Compliance Testing at Hydroelectric Dams." Environ Syst Decis 36:404–420.

Stachura, M.M., Essington, T.E., Mantua, N.J., Hollowed, A.B., Haltuch, M.A., Spencer, P.D., Branch, T.A., and Doyle, M.J. 2014. "Linking Northeast Pacific Recruitment Synchrony to Environmental Variability." Fisheries Oceanography 23(5):389-408. doi: 10.1111/fog.12066.

Stachura, M.M., Lunsford, C.R., Rodgveller C.J., and Heifetz, J. 2012. "Estimation of Discard Mortality of Sablefish (Anoplopoma fimbria) in Alaska Longline Fisheries." Fishery Bulletin 110:271- 279.

Stachura, M.M., Mantua, N.J., and Scheuerell, M.D. 2014. "Oceanographic Influences on Patterns in North Pacific Salmon Abundance." Canadian Journal of Fisheries and Aquatic Sciences 71(2):226-235. doi: 10.1139/cjfas-2013-0367.

Timm, R., Caldwell, L., Nelson, A., Long, C., Chillibeck, M., Johnson, M., Ross, K., Muller, A., and Brown, J. 2019. "Drones, Hydraulics, and Climate Change: Inferring Barriers to Steelhead Spawning Migration." WIREs Water 6:e1379.

Weiland, M.A., and Hayward, R.S. 1997. "Cause for the Decline of Large Rainbow Trout in a Tailwater Fishery: Too Much Putting or Too Much Taking?" Transactions of the American Fisheries Society 126:758–773.