Journal Article

In press

Volk, E. C., D. L. Bottom, K. K. Jones, C. A. Simenstad. In press. Reconstructing Juvenile Chinook Salmon Life History In The Salmon River Estuary (Oregon) using Otolith Microchemistry and Microstructure. Transactions of the American Fisheries Society.

2009

Hall, J. E., J. Chamberlin, A. N. Kagley, C. M. Greene, K. L. Fresh. 2009. Effects of gastric and surgical insertions of dummy ultrasonic transmitters on juvenile Chinook salmon in seawater. Transactions of the American Fisheries Society, 138:52-57.

Schmitt, L., S. Larsson, J. Burdukiewicz, J. Ziker, K. Svedhage, J. E. Zamon, H. Steffen. 2009. Chronological insights, cultural change, and resources exploitation on the west coast of Sweden during the Late Palaeolithic/early Mesolithic transition. Oxford Journal of Archaeology, 28(1):1-27.

2008

Bersine, K., V. E. Brenneis, R. C. Draheim, A. M. Wargo Rub, J. E. Zamon, R. K. Litton, S. A. Hinton, M. D. Sytsma, J. R. Cordell, 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). Biological Invasions.

2007

Roegner, G. C., D. Armstrong, A. Shanks. 2007. Wind and tidal influences on crab recruitment to an Oregon estuary. Marine Ecology Progress Series, 351:177-188.

Shanks, A., G. C. Roegner. 2007. Recruitment limitation in dungeness crab populations is driven by variation in atmospheric forcing. Ecology, 88(7):1726-1737.

Zamon, J. E., T. J. Guy, K. Balcomb, D. Ellifrit. 2007. Winter observations of southern resident killer whales (Orcinus orca) near the Columbia River plume during the 2005 spring Chinook salmon (Oncorhynchus tshawytscha) spawning migration. Northwestern Naturalist, 88:193-198.

2005

Bottom, D. L., K. K. Jones, T. J. Cornwell, A. Gray, C. A. Simenstad. 2005. Patterns of Chinook salmon migration and residency in the Salmon River estuary (Oregon). Estuarine, Coastal and Shelf Science, 64:79-93.

Zamon, J. E., D. W. Welch. 2005. Rapid shift in zooplankton community composition on the northeast Pacific shelf during the 1998-1999 El Nino-La Nina event. Canadian Journal of Fisheries and Aquatic Sciences, 62:133-144.

2004

Mackas, D. L., W. T. Peterson, J. E. Zamon. 2004. Comparisons of interannual biomass anomalies of zooplankton communities along the continental margins of British Columbia and Oregon. Deep Sea Research Part II: Topical Studies in Oceanography, 51:875-896.

2003

Roegner, G. C., D. A. Armstrong, B. M. Hickey, A. Shanks. 2003. Ocean Distribution of Dungeness Crab Megalopae and Recruitment Patterns to Estuaries in Southern Washington State. Estuaries, 26:1058-1070.

Ruesink, J. L., G. C. Roegner, B. R. Dumbauld, J. A. Newton, D. A. Armstrong. 2003. Contributions of Coastal and Watershed Energy Sources to Secondary Production in a Northeastern Pacific Estuary. Estuaries, 26:1079-1093.

2002

Emmett, R. L., S. A. Hinton, D. J. Logan, G. T. McCabe Jr. 2002. Introduction of a Siberian Freshwater Shrimp to Western North America. Biological Invasions, 4:447-450.

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

Roegner, G. C., B. M. Hickey, J. A. Newton, A. Shanks, D. A. Armstrong. 2002. Wind-induced plume and bloom intrusions into Willapa Bay, Washington. Limnology and Oceanography, 47:1033-1042.

2001

Roegner, G. C., A. Shanks. 2001. Import of coastally-derived chlorophyll a to South Slough, Oregon. Estuaries, 24(2):244-256.

2000

Muir, W. D., G. T. McCabe Jr., M. J. Parsley, S. A. Hinton. 2000. Diet of first-feeding larval and young-of-the-year white sturgeon in the lower Columbia River. Northwest Science, 74(1):25-33.

Roegner, G. C. 2000. Transport of larval molluscs through a shallow estuary. Journal of Plankton Research, 22:1779-1800.

1999

Williams, R. N., P. A. Bisson, D. L. Bottom, L. D. Calvin, C. C. Coutant, M. W. Erho, C. A. Frissell, J. A. Lichatowich, W. J. Liss, W. E. McConnaha, P. R. Mundy, J. A. Stanford, R. R. Whitney. 1999. Scientific issues in the restoration of salmonid fishes in the Columbia River. Fisheries, 24(3):10-25.

1998

McCabe, G. T. Jr., S. A. Hinton, R. L. Emmett. 1998. Benthic invertebrates and sediment characteristics in a shallow navigation channel of the lower Columbia River, before and after dredging. Northwest Science, 72:116-126.

Roegner, G. C. 1998. Hydrodynamic control of the supply of suspended chlorophyll a to estuarine infaunal bivalves. Estuarine, Coastal and Shelf Science, 47:369-384.

1997

McCabe, G. T. Jr., S. A. Hinton, R. L. Emmett, B. P. Sandford. 1997. Benthic invertebrates and sediment characteristics in main channel habitats in the Lower Columbia River. Northwest Science, 71(1):45-55.

1995

Roegner, G. C., R. Mann. 1995. Early recruitment and growth of the American oyster, Crassostrea virginica (Bivalvia: Ostreidae) with respect to tidal zonation and season. Marine Ecology Progress Series, 117:91-101.

1993

McCabe, G. T. Jr., R. L. Emmett, S. A. Hinton. 1993. Feeding ecology of juvenile white sturgeon (Acipenser transmontanus) in the lower Columbia River. Northwest Science, 67(3):170-180.

1991

Roegner, G. C. 1991. Temporal analysis of the relationship between settlement and early recruitment in the oyster Crassostrea virginica (Gmelin). Journal of Experimental Marine Biology and Ecology, 151:57-69.

1990

Roegner, G. C., R. Mann. 1990. Settlement patterns of Crassostrea virginica (Gmelin) larvae in relation to tidal zonation. Journal of Shellfish Research, 9:341-346.

Section

2004

Lundrigan, T. A., P. Moran, D. J. Teel, A. R. Marshall, S. F. Young, D. L. Bottom. 2004. Conservation and genetic stock identification: A study investigating the stock-specific distribution and performance of juvenile chinook salmon in the Columbia River estuary. Pages 70-71 in Workshop on Application of Stock Identification in defining Marine Distribution and Migration of Salmon. North Pacific Anadromous Fish Commission, Vancouver, BC.

2001

Bottom, D. L. 2001. Bottlenecks, barges, and super fish: Rethinking conservation of estuaries and salmon. In Oregon salmon: Essays on the state of the fish at the turn of the millennium. Oregon Trout, Portland, OR.

1991

Roegner, G. C., R. Mann. 1991. Habitat requirements for the hard clam, Mercenaria mercenaria, in Chesapeake Bay. In Funderburk, S. L., S. J. Jorden, J. A. Mihursky, D. Riley. (Eds.) Habitat requirements for Chesapeake Bay living resources. U. S. Fish Wildl. Ser.

Contract Report

2006

Kagley, A. N., K. L. Fresh, S. A. Hinton, G. C. Roegner, D. L. Bottom, E. Casillas. 2006. Habitat use by juvenile salmon in the Columbia River Estuary: Columbia River Channel Improvement Project research. Report by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration to the U.S. Army Corps of Engineers. Portland District.

2005

Muir, W. D., R. L. Emmett, R. A. McNatt. 2005. Evaluation of the relationship among time of ocean entry, physical and biological characteristics of the estuary and plume environment, and adult return rates, 2004. Report by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration to the U.S. Army Corps of Engineers, Portland District, Contract W66QKZ20374368, vi, 19 p.

2004

Achord, S., R. A. McNatt, E. E. Hockersmith, B. P. Sandford, K. W. McIntyre, N. N. Paasch, J. G. Williams, G. M. Matthews. 2004. Monitoring the Migrations of Wild Snake River Spring/Summer Chinook Salmon Smolts, 2003. Report to the Bonneville Power Administration, Contract 00005619, 107 electronic pages.

Muir, W. D., R. L. Emmett, R. A. McNatt. 2004. Evaluation of the relationship among time of ocean entry, physical and biological characteristics of the estuary and plume environment, and adult return rates, 2003. Report of research by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration to the U.S. Army Corps of Engineers, Portland, OR, v, 14 p p.

Muir, W. D., R. A. McNatt, G. A. Axel, S. G. Smith, D. M. Marsh, J. G. Williams. 2004. Survival of subyearling fall chinook salmon in the free-flowing Snake River and lower Snake River Reservoirs, 2003, and from McNary Dam tailrace to John Day Dam tailrace in the Columbia River, 1999-2002. Report to the Bonneville Power Administration, Contract DE-AI179-93BP10891, Project No. 199302900.

Roegner, G. C., D. L. Bottom, A. M. Baptista, J. Burke, S. A. Hinton, D. A. Jay, C. A. Simenstad, E. Casillas, K. K. Jones. 2004. Estuarine habitat and juvenile salmon: current and historical linkages in the lower Columbia River and estuary, 2002. Report of Research by Fish Ecology Division, Northwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration to the U.S. Army Corps of Engineers, Portland District, Contract W66QKZ20374382.

2003

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

2001

Bottom, D. L., C. A. Simenstad, A. M. Baptista, D. A. Jay, J. Burke, K. K. Jones, E. Casillas, M. H. Schiewe. 2001. Salmon at river's end: the role of the estuary in the decline and recovery of Columbia River salmon. Report to the U.S. Department of Energy, Bonneville Power Administration, Contract 98-AI06603, 255 p. plus appendix.

1998

Hinton, S. A. 1998. Benthic infauna and sediment characteristics offshore from the Columbia River, October/November 1995 and June 1996. Report to the U.S. Army Corps of Engineers, Contract E96960001, 51 p.

McCabe, G. T. Jr., S. A. Hinton. 1998. Benthic Invertebrates and Sediment Characteristics in and Adjacent to a Proposed Channel Widening Area (River Mile 31-34), Columbia River Estuary. Report by National Marine Fisheries Service to the U.S. Army Corps of Engineers, Contract E96970007, 21 p.

1996

Hinton, S. A., R. L. Emmett. 1996. Benthic infauna and sediment characteristics offshore from the Columbia River, August 1994. Report to the U.S. Army Corps of Engineers, Contract E96930048, 43 p.

McCabe, G. T. Jr., S. A. Hinton. 1996. Benthic invertebrates and sediment characteristics at 10 dredged-material disposal areas (beach nourishment) in the lower Columbia River, 1994-1995. Report to the U.S. Army Corps of Eningeers, Contract E96940050, 110 p.

McCabe, G. T. Jr., S. A. Hinton, R. L. Emmett. 1996. Benthic invertebrates and sediment characteristics in Wahkiakum County Ferry Channel, Washington, before and after dredging. Report to the U.S. Army Corps of Engineers, Contract 96930051, 32 p.

1995

Emmett, R. L., S. A. Hinton. 1995. Benthic infauna and sediment characteristics offshore from the Columbia River, July 1993. Report to the U.S. Army Corps of Engineers, Contract E96930048, 56 p.

1994

Hinton, S. A., R. L. Emmett. 1994. Demersal fishes, benthic and epibenthic invertebrates, and sediment characteristics at and adjacent to offshore disposal Site F, Coos Bay, Oregon, April and October 1992. Report to the U.S. Army Corps of Engineers, Contract E96920027 and E96920028, 90 p.

1993

Hinton, S. A., R. L. Emmett. 1993. Demersal fishes, benthic and epibenthic invertebrates, and sediment characteristics at and adjacent to offshore disposal Site F, Coos Bay, Oregon, April 1992. Report to the U.S. Army Corps of Engineers, Contract E96920027 and E96920028, 54 p.

McCabe, G. T. Jr., S. A. Hinton, R. L. Emmett. 1993. Benthic and epibenthic invertebrates, fishes, and sediments at and adjacent to a proposed new site for Area D, an in-water dredged-material disposal site in the Lower Columbia River, 1991. Final Report to the U.S. Army Corps of Engineers, Contract E96910017 and E96910040, 42 p.

McCabe, G. T. Jr., S. A. Hinton. 1993. Benthic invertebrates and sediments in vegetated and nonvegetated habitats at three intertidal areas of the Columbia River estuary, 1992. Report to the U. S. Army Corp of Engineers, Contract E9592012, 37 p.

Siipola, M. D., R. L. Emmett, S. A. Hinton. 1993. Tongue point monitoring program, 1989-1992. Report to the U.S. Army Corps of Engineers, 63 p. plus appendices (72 p.).

Technical Memorandum

2009

Roegner, G. C., H. L. Diefenderfer, A. B. Borde, R. M. Thom, E. M. Dawley, A. H. Whiting, S. A. Zimmerman, G. E. Johnson. 2009. Protocols for monitoring habitat restoration projects in the lower Columbia River and estuary. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-97, 63 p.

2005

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 p.

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

Williams, J. G., S. G. Smith, R. W. Zabel, W. D. Muir, M. D. Scheuerell, B. P. Sandford, D. M. Marsh, R. A. McNatt, S. Achord. 2005. Effects of the Federal Columbia River Power System on Salmonid Populations. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-63, 150 p.

2000

Hinton, S. A., R. L. Emmett. 2000. Biological surveys of the Trestle Bay Enhancement Project 1994 and 1996-1997. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-39, 72 p. (PDF | HTML)

1996

McCabe, G. T. Jr., S. A. Hinton. 1996. Benthic invertebrates and sediment characteristics in freshwater, beach habitats of the lower Columbia River, 1994-95. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-26, 111 p.

1995

Hinton, S. A., G. T. McCabe Jr., R. L. Emmett. 1995. In-water restoration between Miller Sands and Pillar Rock Island, Columbia River: Environmental surveys, 1992-93. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-23, 47 p. (PDF | HTML)

1994

Hinton, S. A., R. L. Emmett. 1994. Juvenile salmonid stranding in the lower Columbia River, 1992 and 1993. U.S. Dept. of Commerce, NOAA Tech. Memo., NMFS-NWFSC-20, 48 p.

Report

1994

Hinton, S. A., R. L. Emmett. 1994. Benthic infauna, sediment, and fish offshore from the Columbia River, July 1992. Coastal Zone and Estuarine Studies Division, Northwest Fisheries Science Center, Seattle, WA, 60 p.

1993

McCabe, G. T. Jr., R. L. Emmett, S. A. Hinton. 1993. In-water restoration between Miller Sands and Pillar Rock Island, Columbia River: Biological surveys, 1992. Report to National Marine Fisheries Service, Habitat Research & Restoration Division 60 p.

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