USGS Professional Pages
Western Fisheries Research Center
B.S. Biology, Wayne State University, 1993
M.S. Biology (Ecology), Wayne State University, 1998
U.S. Army Corps of Engineers, Construction Engineering Research Laboratory, Biological Technician, 1993-1995
U.S. Geological Survey, Western Fisheries Research Center, Seattle, Ecologist, 1998 - 2004
U.S. Geological Survey, Western Fisheries Research Center, Seattle, Research Ecologist. 2004 - Present
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East, A.E., G.R. Pess, J.A. Bountry, C.S. Magirl, A.C. Ritchie, J.B. Logan, T.J. Randle, M.C. Mastin, J.T. Minear, J.J. Duda, M.C. Liermann, M.L. McHenry, T.J. Beechie, and P.B. Shafroth. In Press. Large-scale dam removal on the Elwha River, Washington, USA: River channel and floodplain geomorphic change. Geomorphology.
Brenkman, S.J., J.J. Duda, P.R. Kennedy, and B. Baker. In Press. A legacy of divergent fishery management regimes and the resilience of unique rainbow and cutthroat trout populations in Lake Crescent, Olympic National Park, Washington. Northwest Science 88(4):000-000.
Curran, C.A., C.S. Magirl, and J.J. Duda. 2013. Suspended-sediment concentration during dam decommissioning in the Elwha River, Washington. U.S. Geological Survey Data Set. Available online athttp://wa.water.usgs.gov/pubs/misc/elwha/ssc, doi:10.5066/F7M043DB.
Warrick, J.A., J.J. Duda, C.S. Magirl, and C.A. Curran. 2012. River turbidity and sediment loads during dam removal on the Elwha River, Washington. EOS, Transactions of the American Geophysical Union 93:425-426.
Kuehne, L, J.D. Olden, and J.J. Duda. 2012. Costs of living for juvenile Chinook salmon in an increasingly warming and invaded world. Canadian Journal of Fisheries and Aquatic Sciences 69:1621-1630. DOI: 10.1139/f2012-094.
Rice, C.A. J.J. Duda, C.M. Greene, and J.R. Karr. 2012. Geographic patterns of fishes and jellyfish in Puget Sound surface waters. Marine and Coastal Fisheries 4:117-128 <Open Access>
Graham, J.H., J.J. Duda, M.L. Brown, S. Kitchen, J.M. Emlen, J. Malol, E. Bankstahl, A.J. Krzysik, H. Balbach, and D.C. Freeman. 2012. The effects of drought and disturbance on the growth and developmental instability of loblolly pine (Pinus taeda L.). Ecological Indicators 20:143-150.
Brenkman, S.J., J.J. Duda, C.E. Torgersen, E. Welty, R. Peters, M. McHenry, and G. Pess. 2011. A riverscape persective on distributions and abundances of Pacific salmonids in Washington State's Elwha River prior to large-scale dam removal and ecosystem restoration. Fisheries Management and Ecology 19:36-53.
Duda, J.J., Warrick, J.A., and Magirl, C.S, 2011, The Coastal and Lower Elwha River Prior to Dam Removal: History, Status, and Defining Characteristics, Pp 1-26 in Duda, J.J., Magirl, C., and Warrick, J.A. (eds.), Coastal Habitats of the Elwha River: Biological and Physical Patterns and Processes Prior to Dam Removal: U.S. Geological Survey Scientific Investigations Report 2011-5120, 264 p. <Link>
Duda, J.J., Beirne, M.M., Larsen, K., Barry, D., Stenberg, K., and McHenry, M.L., 2011, Aquatic Ecology of the Elwha River Estuary Prior to Dam Removal, Pp. 175-224 in Duda, J.J., Magirl, C., and Warrick, J.A. (eds.), Coastal Habitats of the Elwha River: Biological and Physical Patterns and Processes Prior to Dam Removal: U.S. Geological Survey Scientific Investigations Report 2011-5120, 264 p. <Link>
Magirl, C.S., Curran, C.A., Sheibley, R.W., Warrick, J.A., Czuba, J.A., Czuba, C.R., Gendaszek, Shafroth, P.B., Duda, J.J., and Foreman, J.R., 2011, Baseline hydrologial studies in the Lower Elwha River prior to dam removal, Pp. in Duda, J.J., Magirl, C., and Warrick, J.A. (eds.), Coastal habitats of the Elwha River: Biological and Physical Patterns and Processes Prior to Dam Removal: U.S. Geological Survey Scientific Investigations Report 2011-5120, 264 p. <Link>
Rubin, S.P., Miller, I.M., Elder, N., Reisenbichler, R.R., and Duda, J.J., 2011, Nearshore Biological Communities Prior to Removal of the Elwha River Dams, Pp. 131-174 in Duda, J.J., Magirl, C., and Warrick, J.A. (eds.), Coastal Habitats of the Elwha River: Biological and Physical Patterns and Processes Prior to Dam Removal: U.S. Geological Survey Scientific Investigations Report 2011-5120, 264 p. <Link>
Gelfenbaum, G., Duda, J.J., and Warrick, J.A. 2011. Summary and anticipated responses to Elwha River dam removal. Pp. 249-263 in Duda, J.J., Magirl, C., and Warrick, J.A. (eds.), Coastal Habitats of the Elwha River: Biological and Physical Patterns and Processes Prior to Dam Removal: U.S. Geological Survey Scientific Investigations Report 2011-5120, 264 p. <Link>
Graham, J.H., and J.J. Duda. 2011. The hump-backed species richness curve: a contingent rule for community ecology. International Journal of Ecology. doi:10.1155/2011/868426. (open access; invited review). <Link>
Ostberg, C.O., J.J. Duda, J.H. Graham, S. Zhang, K.P. Haywood, B. Miller, and T.L. Lerud. 2011. Growth, morphology, and developmental instability of rainbow trout, Yellowstone cutthroat trout, and four hybrid generations. Transactions of the American Fisheries Society 140:334-344. <abstract>
Duda, J.J., S. Morley, H. Coe, and K. Kloehn. 2011. Establishing spatial trends in water chemistry and stable isotopes (d15N and d13C) in the Elwha River prior to dam removal and salmon recolonization. Rivers Research and Applications 27:1169-1181. DOI: 10.1002/rra.1413. <abstract>
Welsh, Jr., H.H., G.R. Hodgson, J.J. Duda, and J.M. Emlen. 2010. Faunal assemblages and multi-scale habitat patterns in headwater tributaries of the South Fork Trinity River – an unregulated river embedded within a multiple-use landscape. Animal Biodiversity and Conservation 33.1:63-87 <Link>
Pess, G.R., S.J. Brenkman, G.A. Winans, M.L. McHenry, T.J. Beechie, and J.J. Duda. 2010. The Elwha River dam removal: a major opportunity for salmon recolonization. The Osprey 65:1-8.
Hanson, L., R. Schrock, T.J. Waddle, J.J. Duda, and W.A. Lellis. 2009. USGS river ecosystem modeling: where we are, how did we get here, and where are we going? A report from the USGS River Ecosystem Modeling Work Group. USGS Scientific Investigations Report. Report 2009-5018. 102 p. <Link>
McCarthy, S.G., J.J. Duda, J.M. Emlen, and D.A. Beauchamp. 2009. Linking habitat quality with trophic performance of steelhead (Oncorhynchus mykiss) along forest gradients in the South Fork Trinity River watershed, California. Transactions of the American Fisheries Society 138:506-521.
Graham, J.H., A.J. Krzysik, D.A. Kovacic, J.J. Duda, D.C. Freeman, J.M. Emlen, J.C. Zak, W.R. Long, M.P. Wallace, C. Chamberlin-Graham, J.P. Nutter, and H. Balbach. 2009. Ant diversity in altered military landscapes. Ecological Indicators 9:866-877.
Graham, J.H., A.J. Krzysik, D.A. Kovacic, J.J. Duda, D.C. Freeman, J.M. Emlen, J.C. Zak, W.R. Long, M.P. Wallace, C. Chamberlin-Graham, J.P. Nutter, and H. Balbach. 2008. Ant community composition across a gradient of disturbed military landscapes at Fort Benning, Georgia. Southeastern Naturalist 7:429-448.
Duda, J.J., J.E. Freilich, and E.G. Schreiner. 2008. Restoration of the Elwha River ecosystem through dam removal: Introduction to the special issue. Northwest Science 82 (Special Issue):1-12. <Link>
Morley, S., J.J. Duda, H. Coe, K. Kloehn. 2008. Benthic invertebrate and periphyton in the Elwha River basin: current conditions and predicted responses to dam removal. Northwest Science 82 (Special Issue):179-196. <Link>
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. <Link>
Brenkman, S.J, G.R. Pess, C.E. Torgersen, K.K. Kloehn, J.J. Duda, and S.C. Corbett. 2008. Predicting the patterns and interactions of non-anadromous and anadromous salmonids to the removal of the Elwha River dams, Washington State, USA. Northwest Science 82 (Special Issue):91-106. <Link>
Duda, J.J., and R.J. Camp. 2008. Ecology in the information age: web citations, patterns of use, and attrition rates in the journals of the Ecological Society of America, 1997-2005. Frontiers in Ecology and the Environment 6(3):145-151 doi:10.1890/070022.
Minion, J.M., D. Barry, L. Urbanec, A. Gray, and J. Duda. 2007. Salmon, forests, and pre-restoration assessment using stable isotope analysis on riparian vegetation. Ecological Restoration 25:220-221.
Emlen, J.M., J.J. Duda, M. Kirchhoff, and D.C. Freeman. 2006. Interaction assessment: a modeling tool for predicting population dynamics from field data . Ecological Modeling 192:557-570.
Freeman, D.C., M.L. Brown, J.J. Duda, J.H. Graham, J.M. Emlen, A.J. Krzysik, H.E. Balbach, D.A. Kovacic, and J.C. Zak. 2005. Leaf fluctuating asymmetry, soil disturbance, and plant stress: A multiple year comparison using two herbs, Ipomoea pandurata and Cnidoscolus stimulosus. Ecological Indicators 5:85-95.
Freilich, J.E., R.J. Camp, J.J. Duda, and A.E. Karl. 2005. The problem of sampling desert tortoises: a simulation analysis based upon field data. Journal of Wildlife Management. 69:45-56.
Graham, J.H., H.H. Hughie, S. Jones, K. Wrinn, A.J. Krzysik, J.J. Duda, D.C. Freeman, J.M. Emlen, J.C. Zak, C. Chamberlin-Graham, and H.E. Balbach. 2004. Habitat disturbance and the diversity and abundance of ants (Formicidae) in the southeastern Fall-Line Sandhills. 15 pp. Journal of Insect Science, 4:30. <Link>
Freeman, D.C., M.L. Brown, J.J. Duda, J.H. Graham, J.M. Emlen, A.J. Krzysik, H.E. Balbach, D.A. Kovacic, and J.C. Zak. 2004. Photosynthesis and fluctuating asymmetry as indicators of plant response to soil disturbance in the Fall-Line Sandhills of Georgia: A case study using Rhus copallinum and Ipomoea pandurata. International Journal of Plant Science. 165(5):805-816.
Freeman, D.C., M.L. Brown, J.J. Duda, J.H. Graham, J.M. Emlen, A.J. Krzysik, J.C. Zak, and D.A. Kovacic. 2004. Developmental instability in Rhus copallinum L.: multiple stressors, years, and responses. International Journal of Plant Science. 165(1):53-63.
Duda, J.J., D.C. Freeman, M. Brown, J.M. Emlen, J.H. Graham, A.J. Krzysik, J.C. Zak, and D.A. Kovacic. 2003. Estimating disturbance effects from military training using developmental instability and physiological measures of plant stress. Ecological Indicators. 3(4):252-262.
Duda, J.J., D.C. Freeman, J.M. Emlen, J. Belnap, S.G. Kitchen, J.C. Zak, E. Sobek, M. Tracy, and J. Montante. 2003. Changes in native soil ecology associated with invasion of the exotic annual chenopod, Halogeton glomeratus. Biology and Fertility of Soils. 38(2):72-77.
Freilich, J.E., J.M. Emlen, J.J. Duda, D.C. Freeman, and P.J. Cafaro. 2003. Ranchland ecology: a six point critique. BioScience 53(8):759-765.
Emlen, J.M., D.C. Freeman, M.D. Kirchhoff, C.L. Alados, J. Escos, and J.J. Duda. 2003. Fitting population models from field data. Ecological Modeling 162:119-143.
Tracy, M., D.C. Freeman, J.J. Duda, K.J. Miglia, J.H. Graham, and R.A. Hough. 2003. Developmental instability: An appropriate indicator of plant fitness? Pp 196-212 in M. Polak (Ed.) Developmental Instability: Causes and Consequences. Oxford University Press, New York, NY.
Duda, J.J., A.J. Krzysik, and J.M. Meloche. 2002. Spatial organization of desert tortoises and their burrows at a landscape scale. Chelonian Conservation and Biology 4(2):387-397.
Duda, J.J., A.J. Krzysik, and J.E. Freilich. 1999. Effects of drought on desert tortoise movement and activity. Journal of Wildlife Management 63:1181-1192.
Duda, J.J. 1998. Home range, burrow use, and activity patterns of the desert tortoise (Gopherus agassizii) in the south-central Mojave Desert. M.S. Thesis. Wayne State University, Detroit, MI, 60 p.
Duda, J.J., and A.J. Krzysik. 1998. Radiotelemtery study of a desert tortoise population: Sand Hill Training Area, Marine Corps Air Ground Combat Center, Twentynine Palms, California. U.S. Army Construction Engineering Research Laboratories Technical Report 98/39. 75 p.
My Science Topics
My USGS Science Strategy AreasUnderstanding Ecosystems & Predicting Ecosystems Change
Ecosystem Responses to the Elwha River Dam Removal
My ongoing research efforts in the Elwha River involve developing monitoring and evaluation data on the freshwater, estuarine, and marine ecosystems during and following the Nation's largest dam decommissioning. Some of the focal points of this research are distribution and abundance patterns of fish, quality and quantity of restored fish habitat, response of stream-dwelling macroinvertebrates, and the use of stable isotopes to track the role of salmon-derived nutrients. I work with a network of research scientists from state, federal, and non-profit groups, the Lower Elwha Klallam Tribe, as well as the multidisciplinary USGS team assembled as part of the Coastal Habitats in Puget Sound Project (CHIPS).
Aside from the scientific research, I also have led efforts to link research with education and public outreach ( for example see http://pubs.usgs.gov/fs/2011/3097/ and http://gallery.usgs.gov/videos/509 and the USGS Elwha River Project page).
Some of my research activities have included: 3 years of baseline macroinvertebrate and periphyton data collected throughout the watershed and in an adjacent reference river; using existing and historical information on distribution and abundance patterns of resident freshwater trout and salmonids above and between the dams and predictions of the nature of interactions among these populations and re-colonizing anadromous salmonids; developing baselines of physical and biological processes in coastal habitats (see http://pubs.usgs.gov/sir/2011/5120), and conducting extensive 'riverscape' surveys of Olympic Peninsula Rivers.
Special Issue Editor: Dam Removal and Ecosystem Restoration in the Elwha River Watershed, Washington State
Editor 2008 - 2012, Northwest Science
Board of Directors, Northwest Scientific Association (2008 - 2012)
USGS Liason, Naturebridge Olympic National Park (2013 - present)
Member - Ecological Society of America, American Fisheries Society, Northwest Scientific Association
6505 N.E. 65th Street
Seattle, WA 98115
206-526-6654 - Fax
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