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Publications

Journal Articles

In Press

Boström, C., S. Pittman and C. Simenstad. In press. Ecological consequences of seagrass and saltmarsh seascape patterning on marine fauna. In S.J. Pittman (ed.), Seascape Ecology: Taking Landscape Ecology into the Sea. Wilkey & Sons.

Cordell J.R., Toft J.D., Munsch S.H., Goff M. In press. Benches, beaches, and bumps: how habitat monitoring and experimental science can inform urban seawall design. Living Shorelines: The Science and Management of Nature-based Coastal Protection. (eds D.M. Bilkovic, M.R. Mitchell, J.D. Toft, M.K. La Peyre), pp. TBD. CRC Press, Boca Raton, FL

2016

Cloern, J.E., Robinson, A., Richey, A., Grenier, L., Grossinger, R., Boyer, K.E., Burau, J., Canuel, E.A., DeGeorge, J.F., Drexler, J.Z., Enright, C., Howe, E.R., Kneib, R., Mueller–Solger, A., Naiman, R.J., Pinckney, J.L., Safran, S.M., Schoellhamer, D., and Simenstad, C. 2016. Primary production in the delta: Then and now. San Fran. Est. Watershed Sci. 14. DOI: org/10.15447/sfews.2016v14iss3art1

David, A. T., C.A. Simenstad, J.R. Cordell, J.D. Toft, C. Ellings, A. Gray and H. Berge. 2016. Wetland loss, juvenile salmon foraging performance, and density dependence in Pacific Northwest estuaries. Estuaries Coasts. 39:767-780. DOI: 10.1007/s12237-015-0041-5

David, A.T., P.A.K. Goertler, S.H. Munsch, B.R. Jones, C.A. Simenstad, J.T. Toft, J.R. Cordell, E.R. Howe, A. Gray, M.P. Hannam, W. Matsubu and E.E. Morgan. 2016. Influences of natural and anthropogenic factors and tidal restoration on terrestrial arthropod assemblages in west coast North American estuarine wetlands. Estuaries Coasts 39:1491-1504. DOI: 10.1007/s12237-016-0091-3

Elliott, M., L. Mander, K. Mazik, C. Simenstad, F. Valesini, E. Wolanski and A. Whitfield. 2016. Ecoengineering with ecohydrology: successes and failures in estuarine restoration. Est. Coast. Shelf Sci. 176:12-35. DOI: 10:1016/j.ecss.2016.04.003

Flitcroft, R., D. Bottom, K. Bierly, K. Haberman, K. Ellingson, C. Simenstad, A. Gray, K. Jones, E. Baumgartner, T. Cornwell, and L. Campbell. 2016. Expect the unexpected: place-based protections can lead to unforseen benefits.. Aquat. Conserv. 26 (Supple. 1): 39-59 DOI: 10.1002/aqe.2660

Goertler, P.A.L., M.D. Scheurell, C.A. Simenstad and D.L. Bottom. 2016. Estimating common growth patterns in juvenile Chinook salmon (Oncorhynchus tshawytscha) from diverse genetic stocks and a large spatial extent. PLoS ONE 11: e0162121 DOI: 10.1371/journal.pone.016212

Munsch, S.H., J.R. Cordell, and J.D. Toft. 2016. Fine-scale habitat use and behavior of a nearshore fish community: nursery functions, predation avoidance, and spatiotemporal habitat partitioning. Mar. Ecol. Prog. Ser. 557:1-15. DOI: 10.3354/meps11862

2015

Heerhartz, S. M., J. D. Toft, J. R. Cordell, M. N. Dethier, and A. S. Ogston. 2015. Shoreline armoring in an estuary constrains wrack-associated invertebrate communities. Est. Coasts. DOI: 10.1007/s12237-015-9983-x

Heerhartz, S. M., and J. D. Toft. 2015. Movement patterns and feeding behavior of juvenile salmon (Oncorhynchus spp.) along armored and unarmored estuarine shorelines. Environ. Biol. Fishes. 98:1501-1511. DOI: 10.1007/s10641-015-0377-5

Howe, E. R., and C. A. Simenstad. 2015. Using isotopic measures of connectivity and ecosystem capacity to compare restoring and natural marshes in the Skokomish River estuary, WA, USA. Estuaries Coasts. 38:619-658. DOI: 10.1007/s12237-014-9831-4

Howe, E. R., and C. A. Simenstad. 2015. Using stable isotopes to discern mechanisms of connectivity in estuarine detritus-based food webs. Mar. Ecol. Prog. Ser. 518:13-29. DOI: 10.3354/meps11066

Johnson, L. K., and C. A. Simenstad. 2015. Variation in the flora and fauna of tidal freshwater forest ecosystems along the Columbia River estuary gradient: Controlling factors in the context of river flow regulation. Estuaries Coasts. 38:679-698. DOI: 10.1007/s12237-014-9839-9

Munsch, S.H., J.R. Cordell, and J.D. Toft. 2015. Effects of seawall armoring on juvenile Pacific salmon diets in an urban estuarine embayment. Mar. Ecol. Prog. Ser. 535:213-229. DOI: 10.3354/meps11403

Munsch, S. H., J. R. Cordell, and J. D. Toft. 2015. Effects of shoreline engineering on shallow subtidal fish and crab communities in an open estuary: A comparison of armored shorelines and nourished beaches. Ecol. Engineer. 81:312-320. DOI: 10.1016/j.ecoleng.2015.04.075

2014

Bollens, S.M., J.K. Breckenridge, J.R. Cordell, C.A. Simenstad and O. Kalata. 2014. Zooplankton of tidal marsh channels in relation to environmental variables in the upper San Francisco Estuary. Aquat. Biol. 21:205-219. DOI: 10.3354/ab00589

Craig, B.E., C.A. Simenstad and D.L. Bottom. 2014. Rearing in natural and recovering tidal wetlands enhances growth and life-history diversity of Columbia Estuary tributary coho salmon Oncorhynchus kisutch population. J. Fish. Biol. DOI: 10.1111/jfb.12433

David, A., C. Ellings, I. Woo, C.A. Simenstad, J.Y. Takekawa, K.L. Turner, A.L. Smith, and J.E. Takekawa. 2014. Foraging and growth potential of juvenile Chinook salmon following tidal restoration of a large river delta. Trans. Am. Fish. Soc. 143:1515-1529. DOI: 10.1080/00028487.2014.945663

Fleming, I. A., D.L. Bottom, K.K. Jones and C.A. Simenstad. 2014. Editorial: Resilience of anadromous and resident salmonid populations. J. Fish. Biol. 85:1-7. Available: http://onlinelibrary.wiley.com/doi/10.1111/jfb.12429/pdf

Heerhartz, S.M., M.N. Dethier, J.D. Toft, J.R. Cordell, and A.S. Ogston. 2015. Effects of shoreline armoring on beach wrack subsidies to the nearshore ecotone in an estuarine fjord. Estuaries Coasts. 37:1256-1268. Available: http://link.springer.com/article/10.1007%2Fs12237-013-9754-5

Herbold, B., D. M. Baltz, L. Brown, R. Grossinger, W. Kimmerer, P. Lehman, P. B. Moyle, M. Nobriga, and C. A. Simenstad. 2014. The role of tidal marsh restoration in fish management in the San Francisco estuary. San Francisco Est. Watershed Sci. 12(1):1-6. Available: http://escholarship.org/uc/item/1147j4nz

Howe, E.R., C.A. Simenstad, J.D. Toft, J.R. Cordell, and S.M. Bollens. 2014. Macroinvertebrate prey availability and fish diet selectivity in relation to environmental variables in natural and restoring North San Francisco Bay tidal marsh channels. San Francisco Estuary and Watershed Science. 12 (1). Available: http://escholarship.org/uc/item/0p01q99s

Munsch, S.H., J.R. Cordell, J.D. Toft, and E.E. Morgan. 2014. Effects of seawalls and piers on fish assemblages and juvenile salmon feeding behavior. N. AM. J. Fish. Mgmt. 34:814-824. DOI: 10.1080/02755947.2014.910579

Ono, K., and C.A. Simenstad. 2014. Reducing the effect of overwater structures on migrating juvenile salmon: an experiment with light. Ecol. Engineer. 71:180-189. DOI:  10.1016/j.ecoleng.2014.07.010

Teel, D.J., D.L. Bottom, S.A. Hinton, D.R. Kuligowski,  G.T. McCabe, R. McNatt, G.C. Roegner, L.A. Stamatiou,  and C.A. Simenstad. 2014. Genetic identification of Chinook salmon in the Columbia River estuary: Stock-specific distributions of juveniles in shallow tidal freshwater habitats. N. Am. J. Fish. Mgmt. 34:621-641 DOI: 10.1080/02755947.2014.901258

Toft, J.D., J.R. Cordell and E.A. Armbrust. 2014. Shoreline armoring impacts and beach restoration effectiveness vary with elevation. Northwest Sci. 88:367-375. DOI: 10.3955/046.088.0410

2013

Cordell, J.R., Levy, C, and Toft, J.D. 2013. Ecological implications of invasive tunicates associated with artificial structures in Puget Sound, Washington, USA. Biol. Invasions 15:1303-1318. DOI: 10.1007/s10530-012-0366-y

Dethier, M. N., E. Sosik, A. W. E. Galloway, D. O. Duggins and C. A. Simenstad. 2013. Addressing assumptions: variation in stable isotopes and fatty acids of marine macrophytes can confound conclusions of food web studies. Mar. Ecol. Prog. Ser. 478:1-14. DOI: 10.3354/meps10310

Park, E-O, J.R. Cordell, and H.Y. Soh. 2013. Occurrence characteristics of two sibling species, Pseudodiaptomus inopinus and Pseudodiaptomus poplesia (Copepoda, Calanoida, Pseudodiaptomidae), in the Mankyung River estuary, South Korea. Zoological Studies. 52:7. DOI: 10.1186/1810-522X-52-7

Sosik, E. A., and C. A. Simenstad. 2013. Isotopic evidence and consequences of the role of microbes in macroalgae detritus-based food webs. Mar. Ecol. Prog. Ser. 494:107-119. DOI: 10.3354/meps10544

Toft, J.D., A.S. Ogston, S.M. Heerhartz, J.R. Cordell, and E E. Flemer. 2013. Ecological response and physical stability of habitat enhancements along an urban armored shoreline. Ecol. Engr. 57:97-108.

Smits, A.P., Litt, A., Cordell, J, Kalata, O., and Bollens, S. 2013. Non-native freshwater cladoceran Bosmina coregoni established in Pacific coast of North America. Bioinvasions Records 4:281-286. DOI: 10.3391/bir.2013.2.4.03

2012

Bollens, S.M., Breckenridge, J.K., Cordell, J.R., Rollwagen-Bollens, G, and Kalata, O. 2012. Invasive copepods in the Lower Columbia River Estuary: Seasonal abundance, co-occurrence and potential competition with native copepods. Aquat. Invas. 7: 101-109.

Morley, S.A., J.D. Toft, K. Hanson. 2012. Ecological effects of shoreline armoring on intertidal habitats of a Puget Sound urban estuary. Estuaries and Coasts 35:774-784. DOI: 10.1007/s12237-012-9481-3

2011

Bollens, S.M., Breckenridge, J.K., Vanden Hoof, R.C., and Cordell, J.R. 2011. Mesozooplankton of the lower
San Francisco Estuary: spatio-temporal patterns, ENSO effects and the prevalence of non-indigenous species. J. Plankt. Res. 33: 1358-1377.

Boström, C., S.J. Pittman, C. Simenstad, and R.T. Kneib. 2011. Seascape ecology of coastal biogenic habitats: advances, gaps, and challenges. Pages 191-217 in S. Pittman, R. Kneib, C. Simenstad, and I. Nagelkerken (eds), Seascape Eecology: Application of Landscape Ecology to the Marine Environment. Mar. Ecol. Prog. Ser. 427:187-302. DOI: 10.3354/meps09139.

Cordell, J.R., J.D. Toft, A. Gray, G.T. Ruggerone, and M. Cooksey. 2011. Functions of restored wetlands for juvenile salmon in an industrialized estuary. Ecol. Engineer. 37:343-353. DOI: 10.1016/j.ecoleng.2010.11.028.

Howe, E.R. and C.A. Simenstad. 2011. Isotopic determination of food web origins in restoring and ancient estuarine wetlands of the San Francisco Bay and Delta. Estuaries Coasts 34:597-617. DOI: 10.1007/s12237-011-9376-8.

Maier, G. O., J. D. Toft, and C. A. Simenstad. 2011. Variability in isotopic (δ13C, δ15N, δ34S) composition of organic matter contributing to detritus-based food webs of the Columbia River estuary. Northwest Sci. 85:41-54.

Miller, J.A., V.L. Butler, C.A. Simenstad, D.H. Backus, and A.J.R. Kent. 2011. Life history variation in upper Columbia River Chinook salmon (Oncorhynchus tshawytscha): a comparison using modern and ~500­year-old archaeological otoliths. Can. J. Fish. Aquat. Sci. 68:603-617. DOI: 10.1139/F11-002.

Pittman, S.J., R.T. Kneib, and C.A. Simenstad. 2011. Practicing coastal seascape ecology. Pages 187-190 in S. Pittman, R. Kneib, C. Simenstad, and I. Nagelkerken (eds), Seascape Eecology: Application of Landscape Ecology to the Marine Environment. Mar. Ecol. Prog. Ser. 427:187-302. DOI: 10.3354/meps09139.

Pittman, S., R. Kneib, C. Simenstad, and I. Nagelkerken (eds). 2011. Seascape Eecology: Application of Landscape Ecology to the Marine Environment (Theme Section). Mar. Ecol. Prog. Ser. 427:187-302. DOI: 10.3354/meps09139.

Spilseth, S.A., and C.A. Simenstad. 2011. Seasonal, diel, and landscape effects on resource partitioning between juvenile Chinook salmon (Oncorhynchus tshawytscha) and threespine stickleback (Gasterosteus aculeatus) in the Columbia River estuary. Estuaries Coasts 34:159-171. DOI: 10.1007/s12237-010-9349-3.

2010

Bollens, S.M., R. vanden Hoof, M. Butler, J.R. Cordell, and B.W. Frost. 2010. Feeding ecology of juvenile Pacific salmon (Oncorhynchus spp.) in a northeast Pacific fjord: diet, availability of zooplankton, selectivity for prey, and potential competition for prey resources. Fish. Bull. 108:393-407.

Borja, A., D.M. Dauer, M. Elliott and C.A. Simenstad. 2010. Medium and long-term recovery of estuarine and coastal marine ecosystems — an approach for new scenarios to restore ecological integrity. Estuaries Coasts 33:1249-1260. DOI: 10.1007/s12237-010-9347-5.

Cordell, J.R., L.M. Tear, and S.M. Bollens. 2010. Modelling physico-chemical factors affecting occurrences of a non-indigenous planktonic copepod in northeast Pacific estuaries. Biol. Invasions 12:1427-1445. DOI: 10.1007/s10530-009-9558-5.

Lawrence, D.J., and J.R. Cordell. 2010. Relative contributions of domestic and foreign sourced ballast water to propagule pressure in Puget Sound, Washington, USA. Biol. Cons. 143:700-709.

Sobocinski, K. L., J. R. Cordell, and C. A. Simenstad. 2010. Effects of shoreline modifications on supratidal macroinvertebrate fauna on Puget Sound, Washington beaches. Estuaries Coasts 33:699-711 DOI: 10.1007/s12237-009-9262-9]

Volk, E. C., D. L. Bottom, K. K. Jones, and C. A. Simenstad. 2010. Reconstructing juvenile Chinook salmon life history in the Salmon River estuary, Oregon using otolith microchemistry and microstructure. Trans. Am. Fish. Soc. 139:535-549. DOI: 10.1577/T08-163.1.

2009 & Earlier

Bottom, D. L., K. K. Jones, C. A. Simenstad, and C. L. Smith. 2009. Reconnecting social and ecological resilience in salmon ecosystems. Ecol. Society 14: 5. Online: http://www.ecologyandsociety.org/vol14/iss1/art5/

Cordell, J.R., D.J. Lawrence, N.C. Ferm, L.M. Tear, S.S. Smith, and R.P. Herwig. 2009. Factors influencing densities of non-indigenous species in the ballast water of ships arriving at ports in Puget Sound, Washington, United States. Aquat. Conserv. Mar. Freshwat. Ecosyst. 19: 322–343.

Gardner, R. C., J. Zedler, A. Redmond, R. E. Turner, C. A. Johnston, V. R. Alvarez, C. A. Simenstad, K. L. Prestegaard, and W. J. Mitsch. 2009a. Compensating for wetland losses under the Clean Water Act (Redux): Evaluating the Federal Compensatory Mitigation Regulation.  Stetson Law Rev. 38:213-249.

Gardner, R. C., J. Zedler, A. Redmond, R. E. Turner, C. A. Johnston, V. R. Alvarez, C. A. Simenstad, K. L. Prestegaard, and W. J. Mitsch. 2009b. Compensating for wetland losses under the Clean Water Act (Redux): Evaluating the Federal Compensatory Mitigation Regulation.  Natl. Wetl. Newsletter 31:1, 3-7,20. [synopsis of Gardner et al. 2009a]

Maier, G. O., and C. A. Simenstad. 2009. The role of marsh-derived macrodetritus to the food webs of juvenile Chinook salmon in a large altered estuary. Estuaries Coasts 32: 984-998.

Bersine, K., V.E.F. Brenneis, R.C. Draheim, A.M. Wargo Rub, J.E. Zamon, R.K. Litton, S.A. Hinton, M.D. Sytsma, J.R. Cordell, and J.W. Chapman. 2008. Distribution of the invasive New Zealand mudsnail (Potamopyrgus antipodarum) in the Columbia River Estuary and its first recorded occurrence in the diet of juvenile Chinook salmon (Oncorhynchus tshawytscha). Biol. Invas. DOI: 10.1007/s10530-007-9213-y.

Cordell, J.R., S.M. Bollens, R. Draheim, and M. Sytsma. 2008. Asian copepods on the move: recent invasions in the Columbia–Snake River system, USA. ICES J. Mar. Sci. 65: 753–758. DOI: 10.1093/icesjms/fsm195.

Peterson, C.H., K. W. Able, C. F. DeJong, M.F. Piehler, C. A. Simenstad, and J. B. Zedler. 2008. Practical proxies for tidal marsh ecosystem services: Application to injury and restoration. Adv. Mar. Biol. 54:221-264.

Santagata, S., Z.R. Gasiñaite, E. Verling, J.R. Cordell, K. Eason, J.S. Cohen, K. Bacela, G. Quilez-Badia, T.H. Johengen, D.F. Reid, and G.M. Ruiz. 2008. Effect of osmotic shock as a management strategy to reduce transfers of nonindigenous species among low-salinity ports by ships. Aquat. Invas. 3:61-76. DOI: 10.3391/ai.2008.3.1.10.

Cordell, J.R., R. Draheim, and M. Sytsma. 2007. First record of the harpacticoid genus Harpacticella in the Pacific Northwest, USA: another probable introduction. Aquat. Biol. 1:17-20. DOI: 10.3354/ab00005.

Cordell, J.R., M. Rasmussen, and S.M. Bollens. 2007. Biology of the introduced copeped Pseudodiaptomus inopinus in a northeast Pacific estuary. Mar. Ecol. Prog. Ser. 333:213-227.

Day, J.W., D.F. Boesch, E.J. Clairain, G.P. Kemp, S.B. Laska, W.J. Mitsch, K. Orth, H. Mashriqui, D.J. Reed, L. Shabman, C.A. Simenstad, B.J. Streever, R.R. Twilley, C.C. Watson, J.T. Wells, D.F. Whigham. 2007. Restoration of the Mississippi Delta: lessons from hurricanes Katrina and Rita. Science 315:1679-1684.

Toft, J., J. Cordell, L. Stamatiou and C. A. Simenstad. 2007. Fish distribution, abundance, and behavior along city shoreline types in Puget Sound. N. Am. J. Fish. Mgmt. 27: 465–480.

Howe, E.R., and C. A. Simenstad. 2007. Characterizing restoration trajectories through food web linkages in San Francisco Bay’s estuarine marshes: A manipulative translocation experiment. Mar. Ecol. Prog. Ser. 351:65-76.

Boström, C., E. L. Jackson and C. A. Simenstad. 2006. Seagrass landscapes and their effects on associated fauna: A review. Est. Coast. Shelf Sci. 68: 383-403.

Herwig, R.P, J.R. Cordell, J.C. Perrins, P.A. Dinnel, R.W. Gensemer, W.A. Stubblefield, G.M. Ruiz, J.A. Kopp, M.L. House, and W.J. Cooper. 2006. Ozone treatment of ballast water on the oil tanker S/T Tonsina: chemistry, biology and toxicity. Mar. Ecol. Progr. Ser. 324: 37-55.

Matousek, R.C., D.W. Hill, R.P. Herwig, J.R. Cordell, B.C. Nielsen, N.C. Ferm, D.J. Lawrence, and J.C. Perrins. 2006. Electrolytic sodium hypochlorite system for treatment of ballast water. J. Ship Prod. 22:160-171.

Perrins, J.C., J.R. Cordell, N.C. Ferm, J. Grocock, and R.P. Herwig. 2006. Mesocosm experiments for evaluating the biological efficacy of ozone treatment of marine ballast water. Mar. Poll. Bull. 52:1756-1767.

Reisewitz, S. E., J. A. Estes, and C. A. Simenstad. 2006. Indirect food web interactions: sea otters and kelp forest fishes in the Aleutian archipelago. Oecologia 146:623-631.

Simenstad, C.A., D. Reed, and M. Ford. 2006. When is restoration not? Incorporating landscape-scale processes to restore self-sustaining ecosystems in coastal wetland restoration. Ecol. Engineer. 26: 27-39.

Tomikawa, K., H. Morino, J. Toft, and S.F. Mawatari. 2006. A revision of Eogammarus Birstein, 1933 (Crustacea, Amphipoda, Anisogammaridae), with a description of a new species. J. Natural History 40: 1083-1148.

Van Cleve, F. B., T. Leschine, T. Klinger, and C. A. Simenstad. 2006. An evaluation of the influence of natural science in regional-scale restoration projects. Environ. Mgmt. 37: 367-379.

Visintainer, T. A., S. M. Bollens, and C. A. Simenstad. 2006. Community composition and diet of fishes as a function of tidal channel order: A field study in China Camp Marsh, San Francisco Estuary. Mar. Ecol. Prog. Ser. 321: 227-243.

Koehler, M. E., K. L. Fresh, D. A. Beauchamp, J. R. Cordell, C. A. Simenstad and D. Siler. 2006. Diet and bioenergetics of lake-rearing juvenile Chinook salmon in Lake Washington. N. Am. J. Fish Mgmt. 135: 1580-1591.

Bottom, D. L., K. K. Jones, T. J. Cornwell, A. Gray, and C. A. Simenstad. 2005. Patterns of Chinook salmon migration and residency in the Salmon River Estuary (Oregon). Est. Coastal Shelf Sci. 1:79-93.

Dean, A. F., S. M. Bollens, C. A. Simenstad and J. R. Cordell. 2005. Marshes as sources or sinks of an estuarine mysid: demographic patterns and tidal flux of Neomysis kadiakensis at China Camp marsh, San Francisco estuary. Est., Coast. Shelf Sci. 63:1-11.

Orth, K., J. W. Day, D. F. Boesch, E. J. Clairain, W. J. Mitsch, L. Shabman, C. Simenstad, B. Streever, C. Watson, J. Wells, D. Whigham. 2005. Lessons learned: An assessment of the effectiveness of a National Technical Review Committee for oversight of the plan for the restoration of the Mississippi Delta. Ecol. Eng. 25:153-167.

Simenstad, C., C. Tanner, C. Crandell, J. White, J. Cordell. 2005. Challenges of habitat restoration in a heavily urbanized estuary: evaluating the investment. J. Coast. Res. 40:6-23.

Garono, R. J., C. A. Simenstad, R. Robinson and H. Ripley. 2004. Using high spatial resolution hyperspectral imagery to map intertidal habitat structure in Hood Canal, Washington, U.S.A. Can. J. Remote Sens. 30:54­63

Levings, C.D., J.R. Cordell, S. Ong, and G.E. Piercey. 2003. The origin and identity of invertebrate organisms being transported to Canada's Pacific coast by ballast water. Can. J. Fish. Aquat. Sci. 61:1-11. DOI: 10.1139/f03-135.

Lubetkin, S. C., and C. A. Simenstad. 2004. Two multi-source mixing models using conservative tracers to estimate food web sources and pathways. J. Appl. Ecol. 41:996-1008.

Toft, J. D., C. A. Simenstad, J. R. Cordell, L. F. Grimaldo. 2003. The effects of introduced water hyacinth on habitat structure, invertebrate assemblages, and fish diets. Estuaries 26:746-758.

Tanner, C.D, J.R. Cordell, J. Rubey, and L.M. Tear. 2002. Restoration of freshwater intertidal habitat functions at Spencer Island, Everett, Washington. Rest. Ecol. 17:656-658

Toft, J. T., J. C. Cordell, and W. C. Fields. 2002. New records of crustaceans (Amphipoda, Isopoda) in the Sacramento/San Joaquin Delta, California and application of criteria for introduced species. Journal of Crust. Biol. 22:200-210.

Bollens, S.M., J.R. Cordell, S. Avent, and R. Hooff. 2002. Occurrences, causes and consequences of zooplankton invasions: a brief review, plus two case studies from the northeast Pacific Ocean. Hydrobiologia 480:87-110.

Gray, A., C. A. Simenstad, D. L. Bottom and T. J. Cornwell. 2002. Contrasting functional performance of juvenile salmon in recovering wetlands of the Salmon River estuary, Oregon USA. Restor. Ecol. 10:514­526.

Toft, J. D., J. R. Cordell, and W. C. Fields. 2002. New records of crustaceans (Amphipoda, isopoda) in the Sacramento/San Joaquin Delta, California, and application of criteria for introduced species. J. Crustacean Biol. 22:190-200.

Feist, B. E., and 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 23:267-274.

Magniez, G., and J. Toft. 2000. Présence d’un Asellide épigé originaire d’Extrême-Orient en Californie. Bull. mensuel de la Société Linnéenne de Lyon 69:127-132.

Simenstad, C. A., and J. R. Cordell. 2000. Ecological assessment criteria for restoring anadromous salmonid habitat in Pacific Northwest estuaries. Ecol. Engineering 15:283-302.

K. Wasson, B. Von Holle, J. Toft, and G. Ruiz. 2000. Detecting invasions of marine organisms: kamptozoan case histories. Biol. Invas. 2:59-74.

Prahl, F. P., L. F. Small, B. Sullivan, J. Cordell, C. A. Simenstad, B. C. Crump, and J. A. Baross. 1998. Biogeochemical gradients in the lower Columbia River. Hydrobiologia 361:37-52.

Crump, B. C., J. A. Baross and C. A. Simenstad. 1997. Dominance of particle-attached bacteria in the Columbia River estuary, USA. Aquat. Microb. Ecol. 14:7-18.

Miller, J. A., and C. A. Simenstad. 1997. A comparative assessment of a natural and created estuarine slough as rearing habitat for juvenile chinook and coho salmon. Estuaries 20:792-806.

Morgan, C. A., J. R. Cordell, and C. A. Simenstad. 1997. Sink or swim? Copepod population maintenance in the Columbia River estuarine turbidity maxima region. Mar. Biol. 129:309-317.

Cordell, J.R. and S.M. Morrison. 1996. The invasive Asian copepod Pseudodiaptomus inopinus in Oregon, Washington, and British Columbia estuaries. Estuaries 19:629-638.

Jay, D. A., and C. A. Simenstad. 1996. Downstream effects of water withdrawl in a small, West Coast river basin: erosion and deposition on the Skokomish River delta. Estuaries 19:501-517.

Paveglio, F. L., K. M. Kilbride, C. E. Grue, C. A. Simenstad, and K. L. Fresh. 1996. Use of Rodeo® and X-77® Spreader to control smooth cordgrass (Spartina alterniflora) in a southwestern Washington estuary: I. Environmental fate. Environ. Toxicol. Chem. 15:961-968.

Simenstad, C. A., J. R. Cordell, L. Tear, L. A. Weitkamp, F. L. Paveglio, K. M. Kilbride, K. L. Fresh and C. E. Grue. 1996. Use of Rodeo® and X-77® Spreader to control smooth cordgrass (Spartina alterniflora) in a southwestern Washington estuary: II. Effects on benthic microflora and invertebrates. Environmental Toxicology and Chemistry 15:969-978.

Simenstad, C. A., and R. M. Thom. 1996. Assessing functional equivalency of habitat and food web support in a restored estuarine wetland. Ecol. Appl. 6:38-56.

Bollens, S. M., B. W. Frost, and J. R. Cordell. 1995. Diversity of cues in zooplankton vertical migration: a reply to Ringelberg's comment. J. Plankton Res. 17:656-658.

Simenstad, C. A., and K. L. Fresh. 1995. Influence of intertidal aquaculture on benthic communities in Pacific Northwest estuaries: scales of disturbance. Estuaries 18:43-70.

Simenstad, C. A., and R. M. Thom. 1995. Spartina alterniflora as an invasive halophyte in Pacific Northwest estuaries. Hortus Northwest 6:9­12,38-40.

Baross, J. A., B. Crump and C. A. Simenstad. 1994. Elevated microbial loop activities in the Columbia River estuarine turbidity maxima. Pp. 459­464 in K. Dyer & B. Orth (eds.), Changing Particle Flux in Estuaries: implications from science to management (ECSA22/ERF Symposium, Plymouth, September 1992), Olsen & Olsen Press, Fredensborg.

Boesch, D. F., M. N. Josselyn, A. J. Mehta, J. T. Morris, W. K. Nuttle, C. A. Simenstad, and D. J. P. Swift. 1994. Scientific assessment of coastal wetland loss, restoration and management in Louisiana. J. Coast. Res., Spec. Issue 20. 103 p.

Bollens, S.M., B.W. Frost and J.R. Cordell. 1994. Chemical, mechanical, and visual cues in the vertical migration behavior of the marine planktonic copepod Acartia hudsonica. J. Plankton Res. 16:555-564.

Ruckelshaus, M. H., R. C. Wissmar, and C. A. Simenstad. 1994. Scale of habitat quality relevant to mussel growth in a well-mixed, temperate estuary. Estuaries 17:898-912.

Simenstad, C.A., D.J. Reed, D.A. Jay, J.A. Baross, F.G. Prahl and L.F. Small. 1994a. Land-margin ecosystem research in the Columbia River estuary: investigations of the couplings between physical and ecological processes within estuarine turbidity maxima. Pp. 437-444 in K. Dyer & B. Orth (eds.), Changing Particle Flux in Estuaries: implications from science to management (ECSA22/ERF Symposium, Plymouth, September 1992), Olsen & Olsen Press, Fredensborg.

Simenstad, C.A., C.A. Morgan, J.R. Cordell, and J.A. Baross. 1994b. Flux, passive retention, and active residence of zooplankton in Columbia River estuarine turbidity maxima. Pp. 473-482 in K. Dyer & B. Orth (eds.), Changing Particle Flux in Estuaries: implications from science to management (ECSA22/ERF Symposium, Plymouth, September 1992), Olsen & Olsen Press, Fredensborg.

Hassett, R. P., D. O. Duggins, and C. A. Simenstad. 1993. Egg production rates of the neritic marine copepod Acartia tumida Willey in the Aleutian Archipelago. Polar Biol. 13:515-523.

Simenstad, C. A., D. O. Duggins, and P. D. Quay. 1993. High turnover of inorganic carbon in kelp habitats as a cause of δ13C variability in marine food webs. Mar. Biol. 116:147-160.

Cordell, J. R., C. A. Simenstad, and C. A. Morgan. 1992. Establishment of the Asian calanoid copepod Pseudodiaptomus inopinus in the Columbia River estuary. J. Crustacean Biol. 12:260-269.

Cordell, J. R., C. A. Simenstad, and C. A. Morgan. 1992.  The Asian calanoid copepod Pseudodiaptomus inopinus in Pacific Northwest rivers--biology of an invasive zooplankter. N.W. Environ. J. 8:164-165.

Shreffler, D. K., C. A. Simenstad, and R. M. Thom. 1992. Juvenile salmon foraging in a restored estuarine wetland. Estuaries 15:204-213.

Simenstad, C. A., and J. R. Cordell. 1992. Species and assemblage diversity of nearshore epibenthic harpacticoid copepods--natural and human influences. N.W. Environ. J. 8:154-155.

Weitkamp, L. A., R. C. Wissmar, C. A. Simenstad, K. L. Fresh, and J. G. Odell. 1992. Gray whales foraging on ghost shrimp (Callianassa californiensis) in littoral sand flats of Puget Sound, U.S.A. Can. J. Zool. 70: 2275-2280.

Shreffler, D. K., C. A. Simenstad, and R. M. Thom. 1990. Temporary residence by juvenile salmon of a restored estuarine wetland. Can. J. Fish. Aquat. Sci. 47:2079-2084.

Jones, K. K., C. A. Simenstad, D. L. Higley, and D. L. Bottom. 1990. Structure, distribution, and standing crop of benthos, epibenthos, and plankton in the Columbia River estuary. Prog. Oceanogr. 25:211-242.

Sherwood, C. R., D. A. Jay, R. B. Harvey, P. Hamilton, and C. A. Simenstad. 1990. Historical Changes in the Columbia River Estuary. Prog. Oceanogr. 25:299-357.

Simenstad, C. A., C. D. McIntire, and L. F. Small. 1990. Consumption processes and food web structure in the Columbia River estuary. Prog. Oceanogr. 25:271-298.

Simenstad, C. A., L. F. Small, C. D. McIntire, D. A. Jay, and C. R. Sherwood. 1990. An Introduction to the Columbia River Estuary: Brief History, Prior Studies, and the Role of the CREDDP Studies. Prog. Oceanogr. 25:1-14.

Duggins, D. O., C. A. Simenstad, and J. A. Estes. 1989. Magnification of secondary production by kelp detritus in coastal marine ecosystems. Science 245:170-174.

Wissmar, R. C., and C. A. Simenstad. 1988. Energetic constraints of juvenile chum salmon (Oncorhynchus keta) migrating in estuaries. Can. J. Fish. Aquat. Sci. 45:1555-1560.

Simenstad, C. A., and J. R. Cordell. 1985. Structural dynamics of epibenthic zooplankton in the Columbia River Delta. Verh. Internat. Verein. Limnol. 22:2173-2182.

Simenstad, C. A., and R. C. Wissmar. 1985. δ13C evidence of the origins and fates of organic carbon in estuarine and nearshore marine food webs. Mar. Ecol. Prog. Ser. 22:141-152.

Volk, E. C., R. C. Wissmar, C. A. Simenstad, and D. M. Eggers. 1984. The relationship between otolith microstructure and the growth of juvenile chum salmon under different prey conditions. Can. J. Fish. Aquat. Sci. 41:126-133.

Simenstad, C. A., J. A. Estes, and K. W. Kenyon. 1978. Aleuts, sea otters, and alternate stable state communities. Science 200:403-411.

Isakson, J. S., C. A. Simenstad, and R. L. Burgner. 1971. Fish communities and food chains in the Amchitka area. BioScience 21:666-670.

Book/Proceedings Chapters

Bilkovic, D.M, M.M. Mitchell, M.K. La Peyre, J.D. Toft (eds.). 2017. Living Shoreline: The Science and Management of Nature-Based Coastal Protection. CRC Press/Taylor & Francis Group, Boca Raton, FL, 499pp. link

Cordell, J.R. 2012. Invasive freshwater copepods of North America. In: Frances, R.A., (ed.),  A Handbook of Global Freshwater Invasive Species. Routledge, London, 456pp.

Pittman, S., R. Kneib, C. Simenstad, and I. Nagelkerken. 2011. Seascape ecology: application of landscape ecology to the marine environment. Theme Section, Mar. Ecol. Prog. Ser. 427:187-302.

Toft, J.D., Cordell, J.R., Heerhartz, S.M., Armbrust, E.A., and Simenstad, C.A, 2010, Fish and invertebrate response to shoreline armoring and restoration in Puget Sound. Pp. 161-170 in Shipman, H., Dethier, M.N., Gelfenbaum, G., Fresh, K.L., and Dinicola, R.S. (eds.), Puget Sound Shorelines and the Impacts of Armoring — Proceedings of a State of the Science Workshop, May 2009: U.S. Geological Survey Scientific Investigations Report 2010-5254.

Cordell, J.R. 2007. Free-living Copepoda (orders Calanoida, Cyclopoida, and Harpacticoida). Pages 446-464 in J.T. Carlton (ed), The Light & Smith Manual: Intertidal Invertebrates from Central California to Oregon. The University of California Press.

Cordell, J.R. 2007. Commensal and parasitic Copepoda (Orders Cyclopoida, Siphonostomatoida, and Monstrilloida). Pages 464-475 in J.T. Carlton (ed), The Light & Smith Manual: Intertidal Invertebrates from Central California to Oregon. The University of California Press. Tomikawa, K., H. Morino, J. Toft, and S.F. Mawatari. 2006. A revision of Eogammarus Birstein, 1933 (Crustacea, Amphipoda, Anisogammaridae), with a description of a new species. J. Nat. Hist. 40:1083-1148.

Rice, C. A., W. G. Hood, L. M. Tear, C. A. Simenstad, G. D. Williams, L.  L. Johnson, B. E. Feist, and P. Roni. 2005. Monitoring rehabilitation in temperate North American estuaries. Pages 167-207 in P. Roni (ed.), Monitoring Stream and Watershed Restoration. American Fisheries Society, Bethesda, Maryland. 300 p.

Simenstad, C. A., A. Wick, S. Van de Wetering, and D. L. Bottom. 2003. Dynamics and ecological functions of wood in estuarine and coastal marine ecosystems. Pages 265 to 277 in S. V. Gregory, K. Boyer, and A. Gurnell, editors. The Ecology and Management of Wood in World Rivers, American Fisheries Society Symp. 37, Bethesda, MD.

Bottom, D. L., and C. A. Simenstad. 2001. Bottlenecks, barges, and super fish: Rethinking conservation of estuaries and salmon. Pp. 87-95 In Oregon Salmon: Essays on the State of the Fish at the Turn of the Millennium. Oregon Trout, Portland, OR. 175 p.

Committee on Mitigating Wetland Losses, National Research Council. 2001. Compensating for Impacts Under the Clean Water Act. Comm. Mitigation Wetl. Losses, Board Environ. Studies Toxicol., Natl. Res. Council. Natl. Acad. Press, Washington, D.C., 322 p.

Garono, R. J., C. A. Simenstad, and R. Robinson. 2000. Using High Spatial Resolution Hyperspectral Imagery to Describe Eelgrass (Zostera marina) Landscape Structure in Hood Canal, WA. Pp. 582-591 in Proc. 17th Internatl. Conf. The Coastal Soc., Portland, OR USA.

Simenstad, C. A., S. B. Brandt, A. Chalmers, R. Dame, L. A. Deegan, R. Hodson, and E. D. Houde. 2000. Habitat-Biotic Interactions. Pp. 427-455 (Chap. 16) in J. E. Hobbie (ed.), Estuarine Science: A Synthetic Approach to Research and Practice. Island Press, Washington, DC. 539 p.

Simenstad, C. A., W. G. Hood, R. M. Thom, D. A. Levy and D. L. Bottom. 2000. Landscape structure and scale constraints on restoring estuarine wetlands for Pacific Coast juvenile fishes. Pp. 597-630 in M. P. Weinstein and D. A. Kreeger (eds.), Concepts and Controversies in Tidal Marsh Ecology, Kluwer Academic Publ., Dordrecht. 864 p.

Simenstad, C. A., M. Dethier, C. Levings, and D. Hay. 1997. The Land-Margin Interface of Coastal Temperate Rain Forest Ecosystems: Shaping the Nature of Coastal Interactions. Pp. 149-187 (Chap. 7) in P. Schoonmaker, B. von Hagen, and E. Wolf (eds.) The Rain Forests of Home: Profile of a North American Bioregion. Ecotrust/Interain Pacific and Island Press. 480 p.

Simenstad, C. A., D. A. Jay, and C. R. Sherwood. 1992. Impacts of watershed management on land-margin ecosystems: the Columbia River estuary as a case study. Pp. 266-306 in R. J. Naiman (ed.), Watershed Management: Balancing Sustainability and Environmental Change. Springer-Verlag. 543 p.

Simenstad, C. A., and R. M. Thom. 1992. Restoring wetland habitats in urbanized Pacific Northwest estuaries. Pp. 423-472 in G. W. Thayer (ed.), Restoring the Nation's Marine Environment, Maryland Sea Grant, College Park, Maryland. 716 p.

Workshop/Conference Proceedings (non-primary journal)

Simenstad, C. A., D. Finlayson, M. Logsdon, R. J. Garono, and R. Robinson. 2002. Natural and anthropogenic factors influencing fine-grain landscape structure of intertidal eelgrass (Zostera marina) in Hood Canal, Washington (USA). Pp. 303-320 in Proceedings of the Third Joint Meeting, The Coastal Environment Science and Technology (CEST) Panel of the United States-Japan Cooperative Program in Natural Resources (UNJR), 16-19 July 2002, Yokohama, Japan.

Mills, C.E., A.N. Cohen, H.K. Berry, M.J. Wonham, B. Bingham, B. Bookheim, J.T. Carlton, J.W. Chapman, J. Cordell, L.H. Harris, T. Klinger, A.J. Kohn, C. Lambert, G. Lambert, K. Li, D.L. Secord, and J. Toft. 2000. The 1998 Puget Sound Expedition: a shallow water rapid assessment survey for nonindigenous species, with comparisons to San Francisco Bay. Pp 130-138. In: Marine Bioinvasions: Proc. First Natl. Conf., January 24-27, 1999 (Judith Pederson, ed.), MIT Sea Grant Prog., Cambridge, MA.

Giles, S.L. and J.R. Cordell. 1999. Zooplankton composition and abundance in Budd Inlet, Washington. Pp. 634-642 in: Puget Sound Research '98: From Basic Science to Resource Management, Puget Sound Wat. Qual. Action Team, Olympia, WA.

Wissmar, R. C., and C. A. Simenstad. 1998. Variability of estuarine and riverine ecosystem productivity for supporting Pacific salmon. Pp. 253­301 in G. R. McMurray and R. J. Bailey (eds.), Change in Pacific Northwest Coastal Ecosystems, NOAA Coastal Ocean Prog., Decision Analysis Series No. 11, NOAA Coastal Ocean Office, Silver Spring, MD. 342 p.

Simenstad, C. A. 1997. The relationship of estuarine primary and secondary productivity to salmonid production: bottleneck or window of opportunity? Pp. 133-145 in R. Emmett and M. Schiewe (eds.), Proc. Estuarine and Ocean Survival of Northeastern Pacific Salmon, Proc. Workshop March 20-22, 1996, Newport, OR. NOAA Tech. Memo. NMFS-NWFSC-29, Natl. Marine Fish. Serv., NW Fish. Sci. Center, Seattle, WA. 313 p. (extended abstract).

Simenstad, C. A., L. P. Rozas, T. J. Minello, D. J. Reed, R. N. Coats, and J. Zedler. 1997. Importance of tidal channel geomorphology to restoring ecological functions of coastal wetlands. (abstract) Pp. 276-277 in K. B. Mcdonald and F. Weinmann (eds.), Wetland and Riparian Restoration: Taking a Broader View, Proc. Soc. Ecol. Restoration Intl. Conf., September 14-16, 1995. EPA910-R-97-007, US Environ. Protect. Agency, Region 10, Seattle, WA. 284 p.

Thom, R. M., D. A. Shreffler, C. A. Simenstad, A. M. Olson, S. Wyllie-Scheverria, J. R. Cordell, and J. Shafer. 1997. Mitigating impacts from ferry terminals on eelgrass (Z. marina L.). Pp. 95-107 in K. B. Mcdonald and F. Weinmann (eds.), Wetland and Riparian Restoration: Taking a Broader View, Proc. Soc. Ecol. Restoration Intl. Conf., September 14-16, 1995. EPA910-R-97-007, US Environ. Protect. Agency, Region 10, Seattle, WA. 284 p.

Toft, J.D., Hines, A.H., and G.M. Ruiz. 1995. Docks as shallow water refuge for juvenile blue crabs. Proceedings of the Second Annual Marine and Estuarine Shallow Water Science and Management Conference.

Simenstad, C. A. (ed.). 1990. Effects of Dredging on Anadromous Pacific Coast Fishes. Workshop proc., Seattle, Sept. 8-9, 1988. Wash. Sea Grant Publ. WSG-WO 90-1, Univ. Wash., Seattle, WA. 160 p.

Simenstad, C. A., and R. D. Powell. 1990. Benthic, epibenthic and planktonic invertebrates in ice-proximal glacimarine environs: Life in the turbidity lane. Pp. 120-126 in A. M. Milner and J. D. Wood, Jr. (ed.), Proc. Second Glacier Bay Science Symposium, Natl. Park Service, Alaska Region. Off., Anchorage, AK. 165 p.

Technical Reports

Reports (i.e., FRI-UW-xxxx and SAFS-UW-xxxx) pdfs can be obtained via the UW Library webpage.

Brandon, T., N. Gleason, C. Simenstad, and C. Tanner. 2013. Puget Sound Nearshore Ecosystem Restoration Project Monitoring Framework. Prepared for the Puget Sound Nearshore Ecosystem Restoration Project. Published by Washington Department of Fish and Wildlife, Olympia, Washington, and U.S. Army Corps of Engineers, Seattle, Washington. 73 pp.

Walker, C. M., C. A. Simenstad, T. H. Neher, S. J. Barid, J. Maurer, and E. Sosik. 2013. Identifying key habitats for juvenile salmon in the Fox River flats estuary State Wildlife Grant Project T-10-3 P17, Kachemak Bay Research Reserve, Homer, Alaska. 98 pp.

Cereghino, P., J. Toft, C. Simenstad, E. Iverson, S. Campbell, C. Behrens, J. Burke. 2012. Strategies for nearshore protection and restoration in Puget Sound. Puget Sound Nearshore Report No. 2012-01. Published by Washington Department of Fish and Wildlife, Olympia, Washington, and the U.S. Army Corps of Engineers, Seattle, Washington. PDF file

Cordell, J.R., J. Toft, E. Armbrust, and C. Levy. 2011. Evaluation of biota from recently restored shorelines along Lake Washington, Seattle, Washington. Report to City of Seattle Department of Parks and Recreation, 20 pp.

Fresh K., M. Dethier, C. Simenstad, M. Logsdon, H. Shipman, C. Tanner, T. Leschine, T. Mumford, G. Gelfenbaum, R. Shuman, J. Newton. 2011. Implications of Observed Anthropogenic Changes to the Nearshore Ecosystems in Puget Sound. Prepared for the Puget Sound Nearshore Ecosystem Restoration Project. Technical Report 2011-03. Published by Washington Department of Fish and Wildlife, Olympia, Washington, Seattle, Washington. PDF file

Simenstad, C.A., M. Ramirez, J. Burke, M. Logsdon, H. Shipman, C. Tanner, J. Toft, B. Craig, C. Davis, J. Fung, P. Bloch, K. Fresh, S. Campbell, D. Myers, E. Iverson, A. Bailey, P. Schlenger, C. Kiblinger, P. Myre, W. Gerstel, and A. MacLennan. 2011. Historical Change and Impairment of Puget Sound Shorelines: Atlas and Interpretation of Puget Sound Nearshore Ecosystem Restoration Project Change Analysis. Puget Sound Nearshore Ecosystem Restoration Project Report No. 2011-01. Published by Washington Department of Fish and Wildlife, Olympia, Washington, and U.S. Army Corps of Engineers, Seattle, Washington. PDF file

Dethier, M. N., G. Gelfenbaum and C.A. Simenstad. 2010. Summary of discussion from breakout groups. Pp. 221-228 in H. Shipman, M.N. Dethier, G. Gelfenbaum, K.L. Fresh, and R.S. Dinicola (eds.),Puget Sound Shorelines and the Impacts of Armoring—Proceedings of a State of the Science Workshop, May 2009: U.S. Geological Survey Scientific Investigations Report 2010–5254.

Ono, K., C.A. Simenstad, J.D. Toft, S.L. Southard, K.L. Sobocinski, and A. Borde. 2010. Assessing and Mitigating Dock Shading Impacts on the Behavior of Juvenile Pacific Salmon (Oncorhynchus spp.): Can Artificial Light Mitigate the Effects? Wash. State Transport, Center, Res. Rept. WA-RD-755.1, prep. for Wash. State Dept. Transport., Olympia, WA. 74 pp + appendices.

Toft, J.D., J.R. Cordell, S.M. Heerhartz, E.A. Armbrust and C.A. Simenstad. 2010. Fish and invertebrate response to shoreline armoring and restoration in Puget Sound. Pp. 161-170 in H. Shipman, M.N. Dethier, G. Gelfenbaum, K.L. Fresh, and R.S. Dinicola (eds.),Puget Sound Shorelines and the Impacts of Armoring—Proceedings of a State of the Science Workshop, May 2009: U.S. Geological Survey Scientific Investigations Report 2010–5254.

Toft, J., A. Ogston, S. Heerhartz, J. Cordell, E. Armbrust, and C. Levy. 2010. Olympic Sculpture Park: Year 3 Monitoring of Shoreline Enhancements. Technical report SAFS-UW-1002, School of Aquatic and Fishery Sciences, University of Washington. Prepared for Seattle Public Utilities, City of Seattle. 110 pp.

Armbrust, E., J. Toft, and J. Cordell. 2009. Evaluation of Selected Corps of Engineers Ecological Restoration Projects in the Central Puget Sound Region, 2009. Prepared for USACE. 67 pp.

Clancy, M., I. Logan, J. Lowe, J. Johannessen, A. MacLennan, F.B. Van Cleve, J. Dillon, B. Lyons, R. Carmen, P. Cereghino, B. Barnard, C. Tanner, D. Myers, R. Clark, J. White, C. Simenstad, M. Gilmer, and N. Chin. 2009. Management measures for protecting and restoring the Puget Sound nearshore. Tech. Rep. 2009-01, Puget Sound Nearshore Ecosystem Restoration Project, Washington, Department of Fish and Wildlife, Olympia, WA. 295 pp.

Toft, J.D. 2009. Benthic macroinvertebrate monitoring at Seahurst Park 2008, year 3 post-restoration of seawall removal. Technical report SAFS-UW-0903, School of Aquatic and Fishery Sciences, University of Washington. Prepared for the City of Burien. 22 pp.

Toft, J., S. Heerhartz, J. Cordell, E. Armbrust, A. Ogston, and E. Flemer. 2009. Olympic Sculpture Park: Year 2 Fish, Epibenthos, and Physical Monitoring Including Additional Beaches. Technical report SAFS-UW-0902, School of Aquatic and Fishery Sciences, University of Washington. Prepared for Seattle Public Utilities, City of Seattle. 51 pp.

Armbrust, E., J.R. Cordell, A. Cummins, and J. Toft. 2008. Inspection of Corps of Engineers Ecological Restoration Projects in the Puget Sound Region, 2008. Prepared for USACE. 112 pp.

Bottom, D. L., G. Anderson,  A. Baptista, J. Burke,  M. Burla, M. Bhuthimethee, L. Campbell, E. Casillas, S. Hinton, K. Jacobson, D. Jay, R. McNatt, P. Moran, G. C. Roegner, C. A. Simenstad, V. Stamatiou, D. Teel, and J. E. Zamon. 2008. Salmon life histories, habitat, and food webs in the Columbia River estuary: an overview of research results, 2002-2006. Rep. Res., Fish Ecol. Conserv. Biol. Div., NW Fish. Sci. Center, Natl. Mar. Fish. Serv., Natl. Oceanic Atmos. Admin., Seattle, WA. 45 pp.

Cordell, J.R., J. Toft, and E. Armbrust. 2008. Fish and Invertebrates at a Wetland Restoration Site in the Duwamish River Estuary, Seattle, Washington. Prepared for the Port of Seattle. 53 pp.

Simenstad, C. A., R. J. Garono, T. Labbe, A. C. Mortimer, R. Robinson, C. Weller, S. Todd, J. Toft, J. Burke, D. Finlayson, J. Coyle, M. Logsdon, and C. Russell. 2008. Assessment of Intertidal Eelgrass Habitat Landscapes for Threatened Salmon in the Hood Canal and Eastern Strait of Juan de Fuca, Washington State. Technical Report 08-01, Point No Point Treaty Council, 7999 N.E. Salish Lane, Kingston, WA 98346. 152 pp.

Toft, J., J. Cordell, S. Heerhartz, E. Armbrust, A. Ogston, and E. Flemer. 2008. Olympic Sculpture Park: Results from Year 1 Post-construction Monitoring of Shoreline Habitats. Technical Report SAFS-UW-0801, School of Aquatic and Fishery Sciences, University of Washington. Prepared for Seattle Public Utilities, City of Seattle. 113 pp.

Cordell, J.R., J. Toft, E. Armbrust, and S. Heerhartz. 2007. 2006 fish and invertebrate monitoring at Turning Basin Number Three. Technical report prepared for Port of Seattle. 43 pp.

Cordell, J.R., J. Toft, S. Heerhartz, E. Armbrust, and M. Cooksey. 2007. 2004 and 2005 fish and invertebrate monitoring at Turning Basin Number Three. Technical report prepared for Port of Seattle. 52 pp.

Toft, J. 2007. Benthic macroinvertebrate monitoring at Seahurst Park 2006, pre-construction of seawall removal. Report to City of Burien. SAFS-UW-0702, School Aqut. Fish. Sci., Univ. Wash., Seattle. 20 p.

Cordell, J., J. Toft, M. Cooksey, and A. Gray. 2006. 2005 Juvenile Chinook Duwamish River Studies, Study 2: fish assemblages and patterns of Chinook salmon abundance, diet, and growth at restored sites in the Duwamish River. Technical report prepared for WRIA9. 53 pp.

Gelfenbaum, G., T. Mumford, J. Brennan, H. Case, M. Dethier, K. Fresh, G. Goetz, M. van Heeswijk, T. Leschine, M. Logsdon, D. Myers, J. Newton, H. Shipman, C. Simenstad, C. Tanner and D. Woodson. 2006. Coastal habitats in Puget Sound: A research plan in support of the Puget Sound Nearshore Partnership. Tech. Rep. 2006-1, Puget Sound Nearshore Partnership, Olympia, WA. 44 pp.

Simenstad, C., M. Logsdon, K. Fresh, H. Shipman, and J. Newton. 2006. Conceptual Model for Assessing Restoration of Puget Sound Nearshore Ecosystems. Puget Sound Nearshore Partnership. Tech. Re. 2006-03. Olympia, WA. 43 pp.

Southard, S.L., R.M. Thom, G.D. Williams, J.D. Toft, C.W. May, G.A. McMichael, J.A. Vucelick, J.T. Newell, and J.A. Southard. 2006. Impacts of ferry terminals on juvenile salmon movement along Puget Sound shorelines. Battelle Memorial Institute technical report prepared for WSDOT. 84 pp.

Toft, J., and J. Cordell. 2006. Olympic Sculpture Park: Results from preconstruction biological monitoring of shoreline habitats. Report to Seattle Public Utilites. SAFS-UW-0601, School Aqut. Fish. Sci., Univ. Wash., Seattle. 36 p.

Cordell, J.R., J. Toft, S. Heerhartz, and E. Armbrust. 2006. 2005 invertebrate monitoring at Duwamish Waterway restoration sites: Hamm Creek, Herring’s House, and Northwind’s Weir. Technical report prepared for United States Fish and Wildlife Service. 52 pp.

Toft, J, J Cordell, B Starkhouse. 2005. Salmon Bay natural area pre-restoration monitoring 2004. Report to the Seattle Public Utilities. SAFS¬UW-0503, School Aquat. Fish. Sci., Univ. Wash., Seattle. 29 p.

Fresh, K., C. Simenstad, J. Brennan, M. Dethier, G. Gelfenbaum, F. Goetz, M. Logsdon, D. Myers, T. Mumford, J. Newton, H. Shipman, and C. Tanner. 2004. Guidance for protection and restoration of nearshore ecosystems of Puget Sound. Tech. Rep. 2004-02, Puget Sound Nearshore Partnership, Olympia, WA. 20 pp.

Goetz, F., C. Tanner, C. Simenstad, K. Fresh, T. Mumford, and M. Logsdon. 2004. Guiding restoration principles. Tech. Rep. 2004-03, Olympia, WA. 22 pp.

Toft, J. 2005. Benthic macroinvertebrate monitoring at Seahurst Park 2004, pre-construction of seawall removal. Report to City of Burien. SAFS-UW-0502, School Aquat. Fish. Sci., Univ. Wash., Seattle. 20 p.

Toft, J., C. Simenstad, J. Cordell, L. Stamatiou. 2004. Fish distribution, abundance, and behavior at nearshore habitats along City of Seattle marine shorelines, with an emphasis on juvenile salmonids. Report to Seattle Public Utilities. SAFS-UW-0401, School Aquat. Fish. Sci., Univ. Wash., Seattle. 51 p.

Van Cleve, F. B., C. Simenstad, F. Goetz and T. Mumford. 2004. Application of the “best available science” in ecosystem restoration: lessons learned from large-scale restoration project efforts in the US. Tech. Rep. 2004-01, Puget Sound Nearshore Partnership, Olympia, WA. 34 pp.

Garono, R. J., B. D. Anderson, R. Robinson, and C. Simenstad. 2003. Change in land cover along the lower Columbia River estuary as determined from LANDSAT TM imagery. Earth Design Consult., Corvallis, OR. 39 p.

Toft, J., C. Simenstad, J. Cordell, C. Young, L. Stamatiou. 2003. Analysis of Methods for Sampling Juvenile Salmonids along City of Seattle Marine Shorelines. SAFS-UW-0301, School Aquat. Fish. Sci., Univ. Wash., Seattle. 36 p.

Toft, J., C. Simenstad, K. Dodd, T. Miller. 2003. Inventory and mapping of City of Seattle shorelines along Lake Washington, the Ship Canal, and Shilshole Bay. SAFS-UW-0310, School Aquat. Fish. Sci., Univ. Wash., Seattle. 15 p.

Toft, J., C. Simenstad, C. Young, L. Stamatiou. 2003. Inventory and Mapping of City of Seattle Shorelines along Lake Washington, the Ship Canal, and Shilshole Bay. SAFS-UW-0302, School Aquat. Fish. Sci., Univ. Wash., Seattle. 34 p.

Cordell, J. R., L. M. Tear, and K. Jensen. 2002. Biological monitoring at Duwamish River Coastal America restoration and reference sites: a seven-year retrospective. SAFS-UW-0108, School of Aquatic and Fishery Sciences, Univ. Wash., Seattle, WA.

Garono, R. J., R. Robinson, and C. Simenstad. 2002. Assessment of estuarine and nearshore habitats for threatened salmon stocks in the Hood Canal and eastern Strait of Juan de Fuca, Washington State: Focal Areas 1-4. Rept. submitted to Point No Point Treaty Council, Earth Design Consultants, Inc., Wetland & Watershed Assessment Group, Corvallis, OR. 27 pp + figs.

Haas, M. E., C. A. Simenstad, J. R. Cordell, D. A. Meauchamp and B. S. Miller. 2002 Effects of large overwater structures on epibenthic juvenile salmon prey assemblages in Puget Sound, Washington. Res. Proj. T1803, Task 30, Washington State Dept. Transportation, Olympia, WA. 114 p.

Woodruff, D., A. Borde, G. Williams, J. Southard, R. Thom, C. Simenstad, R. Garono, R. Robinson and J. Norris. 2002. Mapping of subtidal and intertidal habitat resources: Hood Canal Floating Bridge, Washington. Res. Proj. T1803, Task 46, Washington State Dept. Transportation, Olympia, WA.

Cordell, J. R., M. Stamey, C. Tanner, and J. K. Aitken. 2001. Fish assemblages and juvenile salmon diets at a breached-dike wetland site, Spencer Island, Washington 1999. SAFS-UW-0104, School Aquat. Fish. Sci., Univ. Wash., Seattle, WA.

Cordell, J. R., M. Stamey, C. Tanner, and J. K. Aitken. 2001. Fish Assemblages and juvenile salmon diets at a breached-dike wetland site, Spencer Island, Washington 1999. SAFS-UW-0104, School of Aquatic and Fishery Sciences, Univ. Wash., Seattle, WA.

Cordell, J. R., L. M. Tear, and K. Jensen. 2001. Biological monitoring at Duwamish River Coastal America restoration and reference sites: a seven-year retrospective. SAFS-UW-0107, School Aquat. Fish. Sci., Univ. Wash., Seattle, WA.

Nightengale, B., and C. Simenstad. 2001. White paper--overwater structures: marine issues. Rept. no. WA-RD 508.1, Wash. State Transport. Center, Univ. Wash., Seattle, WA. 133 pp + append.

Nightengale, B., and C. Simenstad. 2001. White paper—dredging activities: marine issues. Rept. no. WA-RD 507.1, Wash. State Transport. Center, Univ. Wash., Seattle, WA. 119 pp + append.

Toft, J. D. 2001. Shoreline and dock modifications in Lake Washington. SAFS-UW-0106, School Aquat. Fish. Sci., Univ. Wash., Seattle, WA. 21 p.

Cordell, J. R., C. Tanner, and J. K. Aitken. 1999. Fish Assemblages and juvenile salmon diets at a breached-dike wetland site, Spencer Island, Washington 1997-98. FRI-UW-9905, Fish. Res. Inst., Univ. Wash., Seattle, WA.

Cordell, J. R., L. M. Tear, K. Jensen, and H. Higgins. 1999. Duwamish River Coastal America restoration and reference sites: results from 1997 monitoring studies. FRI-UW-9903, Fish. Res. Inst., Univ. Wash., Seattle, WA.

Ruiz, G., S. Godwin, J. Toft, D. Smith, A. Hines, and J. Carlton. 1999. Ballast water transfer and management by U.S. navy vessels. Technical report to U.S. Department of Defense.

Simenstad, C. A., B. J. Nightengale, R. M. Thom, D. K. Shreffler, W. M. Gardiner and J. R. Cordell. 1999. Impacts of ferry terminals on juvenile salmon migrating along Puget Sound shorelines, Phase I: synthesis of state of knowledge. Res. Rep., Res. Proj. T9903, Task A2, to Wash. State Transport. Comm. and U.S. Dept. Transport., Univ. Wash., Seattle, WA, and Battelle Mar. Sci. Lab., Sequim, WA.

Cohen, A., C. Mills, H. Berry, M. Wohnam, B. Bingham, B. Bookheim, J. Carlton, J. Chapman, J. Cordell, L. Harris, T. Klinger, A. Kohn, C. Lambert, G. Lambert, K. Li, D. Secord, and J. Toft. 1998. Puget Sound expedition: a rapid assessment survey of non-indigenous species in the shallow waters of Puget Sound. Tech. Rep., Wash. Dept. Nat. Res., Olympia, WA.

Cordell, J. R., H. Higgins, C. Tanner, and J. K. Aitken. 1998. Biological status of fish and invertebrate assemblages in a breached-dike wetland site at Spencer Island, Washington. FRI-UW-9805, Fish. Res. Inst., Univ. Wash., Seattle, WA

Cordell, J. R., L. M. Tear, K. Jensen, and V. Luiting 1997. Duwamish River Coastal America restoration and reference sites: results from 1996 monitoring studies. FRI-UW-9709, Fish. Res. Inst., Univ. Wash., Seattle, WA.

Simenstad, C. A., J. R. Cordell, W. G. Hood, B. E. Feist, and R. M. Thom. 1997. Ecological status of a created estuarine slough in the Chehalis River estuary: Assessment of created and natural estuarine sloughs, January-December 1995. FRI-UW-9621, Fish. Res. Inst., School Fish., Univ. Wash., Seattle, WA. 47 p.

Simenstad, C. A., R. M. Thom, and A. M. Olson (eds.). 1997. Mitigation between regional transportation needs and preservation of eelgrass beds. Final Report WA-RD 421.1, Res. Proj. T9903, Task 51, Washington State Department of Transportation, Olympia, WA. Appendices I (143 p.) and II.

Wyllie-Echeverria, S., J.R. Cordell, J. Haddad, L.M. Tear, and M. Hershman. 1995. Biological monitoring of vegetation characteristics and epibenthic organisms from transplanted and reference eelgrass patches at LaConner, Skagit County, Washington: Final Report. SMA 95-3, School of Marine Affairs, Univ. Wash., Seattle WA.

Cordell, J. R., L. M. Tear, C. A. Simenstad, S. M. Wenger, and W. G. Hood. 1994. Duwamish River Coastal America restoration and reference sites: results and recommendations from year one pilot and monitoring studies. FRI-UW-9416, Fish. Res. Inst., School Fish., Univ. Wash., Seattle, WA. 109 p.

Miller, J. A., and C. A. Simenstad. 1994. Growth of juvenile coho salmon in natural and created estuarine habitats: A comparative study using otolith microstructure analysis. FRI-UW-9405. Fish. Res. Inst., Univ. Wash., Seattle, WA. 30 p. Miller, J. A., and C. A. Simenstad. 1994. Otolith microstructure preparation, analysis, and interpretation: A potential habitat assessment tool. FRI-UW-9406. Fish. Res. Inst., Univ. Wash., Seattle, WA.

Simenstad, C. A., J. R. Cordell, and L. M. Tear. 1993. Effects of glyphosate (Rodeo‚) and surfactant (AAPOE, X-77‰) Spreader) on a mudflat community in Willapa Bay, Washington: Results of an experiment to evaluate the effects of herbicide control of Spartina alterniflora. FRI-UW­9315. Fish. Res. Inst., Univ. Wash., Seattle, WA.

Simenstad, C. A., J. R. Cordell, J. A. Miller, W. G. Hood, and R. M. Thom. 1993. Ecological status of a created estuarine slough in the Chehalis River estuary: Assessment of created and natural estuarine sloughs, January-December 1992. FRI-UW-9305. Fish. Res. Inst., Univ. Wash., Seattle, WA. 56 p.

Simenstad, C. A., L. A. Weitkamp, and J. R. Cordell. 1993. Effects of substrate modification on littoral flat epibenthos: Assemblage structure changes associated with predator exclusion nets. FRI-UW-9310. Fish. Res. Inst., Univ. Wash., Seattle, WA. 50 p.

Simenstad,  C. A., J. R. Cordell, W. G. Hood, J. A. Miller and R. M. Thom. 1992. Ecological status of a created estuarine slough in the Chehalis River estuary: Report of monitoring in created and natural estuarine sloughs, January-December 1991. FRI-UW-9206. Fish. Res. Inst., Univ. Wash., Seattle, WA. 49 pp.

Simenstad, C. A., J. R. Cordell, and L. A. Weitkamp. 1991. Effects of substrate modification on littoral flat meiofauna: Assemblage structure changes associated with adding gravel. FRI-UW-9124. Fish. Res. Inst., Univ. Wash., Seattle, WA. 91 p.

Simenstad, C. A. K. L. Fresh, J. Flemma, and D. Clarke. 1991. Effects of estuarine habitat modifications on anadromous salmonids: A literature survey. FRI-UW-9123. Fish. Res. Inst., Univ. Wash., Seattle, WA. 47 p.

Thom, R. M., C. A. Simenstad, J. R. Cordell, and L. Hamilton. 1991. The Gog-Li-Hi-Te wetland system in the Puyallup River estuary, Washington; Phase V Report, Year five monitoring, January-December 1990. FRI-UW­9108. Fish. Res. Inst., Univ. Wash., Seattle, WA. 44 p.

Thom, R. M., Charles A. Simenstad, Jeffery R. Cordell, David K. Shreffler, and Laura Hamilton. 1990. The Lincoln Avenue wetland system in the Puyallup River estuary, Washington: Phase IV report; year four monitoring, January-December 1989. FRI-UW-9004, Rep. to Port of Tacoma, Fish. Res. Inst., Univ. Wash., Seattle, WA. 44 p.

Theses & Dissertations (1997-present)

Anderson, G. Variations in estuarine life history diversity of juvenile chinook salmon based on stable isotope analysis of food web linkages. M.S. PDF file.

Bieber, Alisa. 2005. Variability in juvenile Chinook foraging and growth potential in Oregon estuaries: implications for habitat restoration. M.S. PDF file.

Craig, Bethany. 2010. Life history patterns and ecology of juvenile coho salmon (Oncorhynchus kisutch) within a tidal freshwater estuary. M.S. PDF file.

Eaton, Christopher. 2010. Resource partitioning, habitat connectivity, and resulting foraging variation among salmonids in the estuarine habitat mosaic. M.S. PDF file.

Feist, Blake E. A spatio-temporal analysis of the environmental and climatic factors controlling the expansion of Spartina alterniflora in Willapa Bay, Washington. Ph.D.

Goff, Maureen. 2010. Evaluating habitat enhancements of an urban intertidal seawall: ecological responses and management implications. M.S. PDF file.

Gray, Ayesha. The Salmon River estuary: restoring tidal inundation and tracking ecosystem response. Ph.D. PDF file.

Haas, Melora. Effects of Large Overwater Structures on Epibenthic Juvenile Salmon Prey Assemblages in Puget Sound, Washington. M.S.

Heatwole, Danelle. Insect-habitat associations in salt marshes of northern Puget Sound: implications of tidal restriction and predicted response to restoration. M.S. PDF file.

Heerhartz, Sarah. 2010. Evaluating the ecological performance of nearshore fish habitat enhancements in an urbanized estuarine bay in Puget Sound, WA, M. S. PDF file.

Hood, William G. Landscape allometry of oligohaline tidal channels of the lower Chehalis River, Washington. Ph.D.

Howe, Emily. 2006. Evaluating the role of restoration: an isotopic determination of food web origins in San Francisco Bay's estuarine wetlands. M.S. PDF file.

Howe, Emily. 2012. Detrital shadows: Evaluating landscape and species effects on detritus-based food web connectivity in Pacific Northwest estuaries. Ph.D. PDF file.

Johnson, Laura. 2010. Ecology and natural history of the freshwater tidal forested wetlands of the Columbia River estuary. M.S. PDF file.

Koehler, Michele E. Diet and prey resources of juvenile chinook salmon (Oncorhynchus tshawytscha) rearing in the littoral zone of an urban lake. M.S. 

Lott, M. A. 2004. Habitat-specific feeding ecology of ocean-type juvenile Chinook salmon in the lower Columbia River estuary. M.S. PDF file.

Lubetkin, Susan C. Multi-source mixing models: food web determination using stable isotope tracers. M.S.

Miller, Jessica. 1993. Juvenile Chinook (Oncorhynchus tshawytscha) and coho (O. kisutch) salmon in natural and created estuarine habitats: foraging and daily growth. M.S.

Morgan, Cheryl. 1993. Sink or swim? Copepod population maintenance in the Columbia River estuarine turbidity maxima region. M.S.

Ono, Kotaro. 2010. Assessing and mitigating dock shading impacts on the behavior of juvenile Pacific salmon (Oncorhynchus spp.): Can artificial light mitigate the effects? M.S.

Ramirez, Mary. 2008. Emergent aquatic insects: assemblage structure and patterns of availability in freshwater wetlands of the lower Columbia River estuary. M.S. PDF file.

Sobocinski, K. L. 2003. The impact of shoreline armoring on supratidal beach fauna of central Puget Sound. M.S. PDF file.

Spilseth, Sarah. 2008. Short-term competition between juvenile Chinook salmon (Oncorhynchus tshawytscha) and threespine stickleback (Gasterosteus aculeatus) in tidal channels. M.S. PDF file.

Toft, Jason D. Community effects of the non-indigenous aquatic plant water hyacinth (Eichhornia creassipes) in the Sacramento/San Joaquin Delta, California. M.S. PDF file.

Wick, Alicia J. Ecological function and spatial dynamics of large woody debris in oligohaline-brackish estuarine sloughs for juvenile Pacific salmon. M.S. PDF file

Zipperer, Victoria. 1996. Ecological effects of the introduced cordgrass, Spartina alterniflora, on the benthic community structure of Willapa Bay, Washington. M.S.

Other Miscellaneous Publications

Simenstad, C.A., Burke, J.L., O’Connor, J.E., Cannon, C., Heatwole, D.W., Ramirez, M.F., Waite, I.R., Counihan, T.D., and Jones, K.L. 2011. Columbia River Estuary Ecosystem Classification—Concept and Application: U.S. Geological Survey Open-File Report 2011-1228, 54 p.

Simenstad, C. A., and T. Yanagi (eds.). 2011. Chap. 1—Introduction to Classification of Estuarine and Nearshore Coastal Ecosystems, Treatise on Estuarine and Coastal Science, Elsevier. Online (pdf)

Kneib R, Simenstad C, Nobriga M, Talley D. 2008. Tidal marsh conceptual model. Sacramento (CA): Delta Regional Ecosystem Restoration Implementation Plan. CALFED Science Program, Sacramento, CA.

Peterson, C. H., R. T. Barber, K. L. Cottingham, H. K. Lotze, C. A. Simenstad, R. R. Christian, M. F. Piehler and J. Wilson. 2008. Chap. 7, National Estuaries in S. H. Julius and J. M. West (eds.), Adaptation Options for Climate-Sensitive Ecosystems and Resources, U.S. Climate Change Sci. Prog. And Subcommittee on Global Climate Research,  Final Report, Synthesis and Assessment Product 4.4, U.S. Environmental Protection Agency, Washington, DC, USA, 873 pp.

Simenstad, C. A., D. Bottom and K. Jones. 2008. The Salmon River estuary: a case study in restoration of resilient estuarine ecosystems and Pacific salmon. Bull. Est. Coast. Sci. Assoc. 52:20-22.

Working Group for Post-Hurricane Planning for the Louisiana Coast. 2006. A New Framework for Planning the Future of Coastal Louisiana after the Hurricanes of 2005.  Univ. Maryland Center Environ. Science, Cambridge, MD. 48 pp.

Bottom, D. L., C. A. Simenstad, J. Burke, A. M. Baptista, D. A. Jay, K. K. Jones, E. Casillas, M. H. Schiewe. 2005. Salmon at river's end: The role of the estuary in the decline and recovery of Columbia River salmon. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-68, 246 pp.

Leary, J.C., J. L. Morace, C. A. Simenstad, J. L. Burke, T. D. Counihan, J. R. Hatten, I. R. Waite, K. L. Sobocinski, J. Dietrich, F. Loge, B. Anulacion, J. Spromberg, M. Arkoosh, and L. Johnson. 2005. Lower Columbia River Ecosystem Monitoring Project, Annual Report for Year 2 (September 2004 to August 2005). Lower Columbia River Estuary Partnership, Portland, OR. 47 pp.

Day, J., D. Bosch, W. Mitsch, K. Orth, K. Shabman, C. Simenstad, W. Streever, C. Watson, J. Wells, and D. Whigham. 2004. Lessons learned by the National Technical Review Committee for the Louisiana Coastal Area Study.Natl. Tech. Rev. Comm., Louisiana Coast. Area Study, New Orleans, LA. 29 p.

Haas, M. E., C. A. Simenstad, J. R. Cordell, D. A. Beauchamp and B. S. Miller. 2002. Effects of large overwater structures on epibenthic juvenile salmon prey assemblages in Puget Sound, Washington. Report WA-RD 550.1, Washington State Trans. Center, Univ. Wash., Seattle, WA.

Nightengale, B., and C. A. Simenstad. 2001. Overwater structures: marine issues. White Paper, Res. Proj. T1803, Task 35, Wash. State Dept. Transportation, Washington Sate Trans. Center (TRAC), Seattle, WA. 133 pp + appendices.

Avent, S.R., S.M. Bollens, W. Kimmerer, and J. Cordell. 2000. Copepods invade the San Francisco estuary. Ballast Exchange 2:4-5.

Cederholm, C. J., D. H. Johnson, R. E. Bilby, L. G. Dominguez, A. M. Garrett, W. H. Graeber, E. L. Greda, M. D. Kunze, B. G. Marcot, J. F. Palmisano, R. W. Plotnikoff, W. G. Pearcy, C. A. Simenstad and P. C. Trotter. 2000. Pacific salmon and wildlife--ecological contexts, relationships, and implications for management. Special Ed. Tech. Rep., prep. for D. H. Johnson and T. A. O’Neil (Manag. Dirs.), Wildlife-Habitat Relationships in Oregon and Washington. Wash. Dept. Fish. Wildl., Olympia, WA.138 p.

Cohen A.N., H. D. Berry, C, E. Mills, D. Milne, K. Britton-Simmons, M. J. Wonham, D. L. Secord, J. A. Barkas, B. Bingham, B. E. Bookheim, J. E. Byers, J. W. Chapman, J. R. Cordell, B. Dumbauld, A. Fukuyama, L. H. Harris, A. J. Kohn, K. Li, T. F. Mumford Jr., V. Radashevsky, A. T. Sewell, K. Welch. 2001. Washington State Exotics Expedition 2000: A Rapid Survey of Exotic Species in the Shallow Waters of Elliott Bay, Totten and Eld Inlets, and Willapa Bay. For the Washington State Department of Natural Resources, Olympia, WA and the United States Fish and Wildlife Service, Lacey, WA.

Simenstad, C. A. 2000. Estuarine landscape impacts on Hood Canal and Strait of Juan de Fuca summer chum salmon and recommended actions. Appendix Report 3.5, pp. A3.111-A3.132 in J. Ames, G. Graves, and C. Weller (eds.), Summer Chum Salmon Conservation Initiative: An Implementation Plan to Recover Summer Chum in the Hood Canal and Strait of Juan de Fuca Region. Wash. Dept. Fish. Wildl.., and Point-No-Point Treaty Tribes, Olympia, WA.

Simenstad, C. A. 2000. Tidal wetland restoration: promise and uncertainty (extended abstract). Pp. 40-41 in Restoration Primer--State of the Estuary 2000. San Francisco Estuary Project, San Francisco, CA.

Giles, S.L. and J.R. Cordell. 1999. Zooplankton composition and abundance in Budd Inlet, Washington. Pp. 634-642 in: Puget Sound Research '98: From Basic Science to Resource Management, Puget Sound Water Quality Action Team, Olympia, Washington.

Simenstad, C. A., J. R. Cordell, R. M. Thom, D. K. Shreffler, B. Nightengale and J. A. Schafer. 1999. Ferry terminal impacts on juvenile salmon migrating through Puget Sound nearshore environments. Puget Sound Notes 42: 9-12.

Simenstad, C. A., R. J. Garono, R. R. Robertson and P. A. Frost. 1999. Landscape analysis of eelgrass (Zostera marina) habitat structure using remote sensing: application to assessing impacts of shoreline modifications. Second Joint Meeting of the Coastal Environment Science and Technology (CEST) Panel of the United States-Japan Cooperative Program in Natural Resources (UNJR), 25-29 October 1999, Silver Spring, MD and Charleston, NC, USA.

Simenstad, C. A., B. J. Nightengale, R. M. Thom and D. K. Shreffler. 1999. Impacts of ferry terminals on juvenile salmon migrating along Puget Sound shorelines, Phase I: synthesis of state of knowledge. Final Res. Rept., Res. Proj. T9903, Task A2, Wash. State Dept. Transportation, Washington Sate Trans. Center (TRAC), Seattle, WA. 116 pp + appendices.

Simenstad, C., J. Toft, H. Higgins, J. Cordell, M. Orr, P. Williams, L. Gimaldo, Z. Hymanson and D. Reed. 1999. Preliminary results from the Sacramento-San Joaquin Delta Breached Levee Wetland Study (BREACH). IEP Newsletter 4: 15-21.

Cohen, A.N., C.E. Mills, H. Berry, M.J. Wonham, B. Bingham, B. Bookheim, J.T. Carlton, J.W. Chapman, J.R. Cordell, L.H. Harris, T. Klinger, A. Kohn, C.C. Lambert, G. Lambert, K. Li, D. Secord and J. Toft. 1998. Report of the Puget Sound Expedition, September 8-16, 1998; A Rapid Assessment Survey of Nonindigenous Species in the Shallow Waters of Puget Sound. For the Washington State Department of Natural Resources, Olympia, WA and the United States Fish and Wildlife Service, Lacey, WA.

Cordell, J.R. 1998. Asian copepods in Pacific Northwest estuaries. Puget Sound Notes 41:1-5.

Simenstad, C. A. 1998. Issues and approaches to restoring estuarine wetlands in urbanized and undisturbed estuaries. Proc. First Joint Meeting of the Coastal Environment Science and Technology (CEST) Panel of the United States-Japan Cooperative Program in Natural Resources (UNJR), 17-20 March 1998, Hayama, Japan.

Simenstad, C. A., T. M. Thom, and A. M. Olson (eds.). 1998. Mitigating potential impacts of ferry terminal siting and design on eelgrass habitat. WSG 98-05, Wash. Sea Grant, Univ. Wash., Seattle, WA. 103 p.

Thom, R.M., D.K. Shreffler, C.A. Simenstad, A.M. Olson, S.  Wyllie-Echeverria, J.R. Cordell and J. Schafer. 1997. Mitigating impacts from ferry terminals on eelgrass (Zostera marina L.). Pp. 95-107 in Wetland and Riparian Restoration: Taking a Broader View. Proc. Conf., EPA 910­R-97-007, U.S. Environ. Protect. Agency, Region 10, Seattle, WA.

Simenstad, C. A., and B. E. Feist. 1996. Restoration potential of diked estuarine wetlands: Inferring fate and recovery rate of historically-breached sites. US EPA, Region 10, Rep. EPA 910/R-96-005, Seattle, WA. 115 p.

Coastal Oceanography Subcommittee, UNOLS Fleet Improvement Committee (L.D. Wright, J. Bash, P. Betzer, T. Church, R. Dinsmore, M. Langseth, T. Malone, N. Marcus, C. Nittrouer, M. Scranton, and C. Simenstad & the participants in a UNOLS coastal oceanography workshop). 1994. Coastal oceanography: future trends and vessel requirements. University-National Oceanographic Laboratory System. 29 p.

Simenstad, C. A. 1994. Faunal associations and ecological interactions in seagrass communities of the Pacific Northwest coast. Pp. 10-17 in S. Wyllie-Echeverria, A. Olson, and M. J. Hershman (eds.). Seagrass Science and Policy in the Pacific Northwest: Proceedings of a Seminar Series, School of Marine Affairs, University of Washington, Seattle, WA. 60 p.

Simenstad, C. A., J. B. Anderson, J. R. Cordell, and L. Hallum. 1993. Analysis of changes in benthic and epibenthic invertebrate communities in Commencement Bay, Washington. Rep. to U.S. Army Corps Engineers-Seattle Dist., David Evans & Assoc., Inc., Bellevue, WA. 88 pp + appendices.

Simenstad, C. A., C. D. Tanner, F. Weinmann and M. Rylko. 1991. The Estuarine Habitat Assessment Protocol. Puget Sound Notes 25: 1-4.

Simenstad, C. A., C. D. Tanner, R. M. Thom, and L. Conquest. 1991. Estuarine Habitat Assessment Protocol. EPA 910/9-91-037, Puget Sound Estuary Program, U.S. Environ. Protect. Agency-Region 10, Seattle, WA., 191 pp + append.

Thom, R. M., C. A. Simenstad, and C. Tanner. 1991. The Puget Sound Wetland Restoration Monitoring Protocol. Pp. 55-60 in Proc. Symp. Biological Criteria: Research and Regulation, EPA-440/5-91-005, U.S. Environ. Protect. Agency, Office of Water, Washington, DC.