Annotated Bibliography of CRETM-LMER Publications

1992

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

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.

LMER Coordinating Committee (Boynton, W., J. T. Hollibaugh, D. Jay, M. Kemp, J. Kremer, C. Simenstad, S. V. Smith, and I. Valiela). 1992. Understanding changes in coastal environments: the Land Margin Ecosystems Research Program. EOS 73: 481-485.

Morgan, S. R. 1992. Seasonal and tidal influence of the estuarine turbidity maximum on primary biomass and production in the Columbia River estuary. M.S. thesis, Oregon State Univ., Corvallis, OR. 87pp. Abstract

Prahl F. G., Hayes J. M. and Xie T. -M. 1992. Diploptene, an indicator of soil organic matter in Washington coastal sediments. Limnol. Oceanogr. 37: 1290-1300. Abstract

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.), New Perspective in Watershed Management, Springer-Verlag, New York. 543 pp. Abstract

1993

Morgan, C. A. 1993. Sink or swim? Copepod population maintenance in the Columbia River estuarine turbidity maxima region. M.S. thesis, Univ. Washington, Seattle, WA. 85 pp. Abstract

1994

Baross, J. A., B. Crump, and C. A. Simenstad. 1994. Elevated 'microbial loop' activities in the Columbia River estuary turbidity maximum. Pp. 459-464 In K. Dyer and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

Jay, D. A. 1994. Residence time, box models and shear fluxes in tidal channel flows. Pp. 3-12 In K. Dyer and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

Jay, D. A. and J. D. Musiak. 1994. Particle trapping in estuarine turbidity maxima. J. Geophys. Res. 99: 20,446-461. Abstract

Keil R.G., E. Tsamakis, C. B. Fuh, J. C. Giddings and J. I. Hedges J.I. 1994. Mineralogical and textural controls on the organic composition of coastal marine sediments: hydrodynamic separations using SPLITT-fractionation. Geochim. Cosmochim. Acta 58: 879-893. Abstract

Prahl F. G. and Coble P. G. 1994. Input and behavior of dissolved organic carbon in the Columbia River Estuary. Pp. 451-457 In K. Dyer and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

Prahl, F. G., J. R. Ertel, M. A. Goni, M. A. Sparrow and B. Eversmeyer. 1994. Terrestrial organic carbon contributions to sediments on the Washington margin. Geochim. Cosmochim. Acta 58: 3035-3048. Abstract

Reed, D. J. and J. Donovan. 1994. The character and composition of the Columbia River estuarine turbidity maximum. Pp. 445-450 In K. Dyer and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

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 and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

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 and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

Small, L. F., and S. R. Morgan. 1994. Phytoplankton attributes in the turbidity maximum of the Columbia River Estuary, USA. Pp. 465-472 In K. Dyer and R. Orth (ed.), Changing Particle Fluxes in Estuaries: Implications from Science to Management, ECSAERF22 Symposium, Olsen & Olsen Press, Friedensborg. Abstract

1995

Jay, D. A., and E. P. Flinchem. 1995. Wavelet transform analyses of non-stationary tidal currents. Pp. 101-106 In S. Anderson, J. R. Appel, and A. E. Willimas (eds.), Proc. IEEE Fifth Working Conf. Current Measurement.

Jay, D. A. and J. D. Musiak. 1995. Internal Tidal Asymmetry in Channel Flows: Origins and Consequences. Pp. 219-258 In C. Pattiaratchi (ed.), Mixing Processes in Estuaries and Coastal Seas, Amer. Geophy. Union, Coastal Estuar. Sci. Monogr. Abstract

1996

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. Abstract

Crump, B., and J. A. Baross. 1996. Particle-attached bacteria and heterotrophic plankton associated with the Columbia River estuarine turbidity maxima. Mar. Ecol. Prog. Ser. 138: 265-273. Abstract

Cudaback, C. N. and D. A. Jay. 1996. Formation of the Columbia River plume: hydraulic control in action? In D. G. Aubrey (ed.), Buoyany Effects on Coastal Dynamics, AGU Coastal Est. Sci. Monogr. 53: 139-154.Abstract

Fortunato, A. B., and A. M. Baptista. 1996. Vertical discretization in tidal flow simulations. Internat. J. Numerical Methods Fluids 22:815-834. Abstract

Fortunato, A. B., and A. M. Baptista. 1996. Evaluation of horizontal gradients in sigma-coordinate shallow water model. Atmosphere-Ocean 34: 489-514. Abstract

Jay, D. A. and C. A. Simenstad. 1996. Downstream Effects of Water Withdrawal in a Small, High-Gradient Basin: Erosion and Deposition on the Skokomish River Delta. Estuaries 19: 501-517. Abstract

Kay, D. J., D. A. Jay and J. D. Musiak, 1996. Salt transport through an estuarine cross-section calculated from moving vessel ADCP and CTD data. In D. G. Aubrey (ed.), Buoyancy Effects on Coastal and Estuarine Dynamics, AGU Coastal and Estuarine Studies 53:195-212. Abstract

1997

Jay, D. A., and E. P. Flinchem. 1997. Interaction of fluctuating river flow with a barotrophic tide: a demonstration of wavelet tidal analysis methods. J. Geophys. Res. 102:5705-5720. Abstract

Jay, D. A., R. J. Uncles, J. Largier, W. R. Geyer, J. Vallino, W. R. Boynton, 1997. Recent developments in estuarine scalar flux estimation. Estuaries 20: 262-280. Abstract

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. Abstract

Oliveira, A., and A. M. Baptista. 1997. Diagnostic modeling of residence times in estuaries. Wat. Resources Res. 33:1935-1946. Abstract

Prahl, F. G., L. F. Small, and B. Eversmeyer. 1997. Biogeochemical characterization of suspended particulate matter in the Columbia River estuary. Mar. Ecol. Prog. Ser. 160:173-184. Abstract

Simenstad, C. A., M. Dethier, C. Levings, and D. Hay. 1997. The Land- Margin Interface of Coastal Temperate Rain Forest Ecosytems: 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 pp.

Sullivan, B. E., 1997. Annual cycles of organic matter and phytoplankton attributes in the Columbia and Willamette Rivers, with reference to the Columbia River estuary. M.S. thesis, Oregon State University, Corvallis, OR. 114 pp.

1998

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

Cudaback, C. N., 1998. The effect of vertical mixing on along-channel transport in a layered flow. Ph.D. dissertation, University of Washington, Seattle, WA Abstract

Prahl, F. G., L. F. Small, B. A. 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. Abstract

1999

Crump, B.C. E.V. Armbrust, and J.A. Baross. 1999. Phylogenetic analysis of particle-attached and free-living bacterial communities in the Columbia River, estuary, and adjacent coastal ocean. Applied and Environmental Microbiology 65(7): 3192-3204. Abstract

Jay, D.A., P. Orton, D.J. Kay, A. Fain and A.M. Baptista. 1999. Acoustic determination of sediment concentrations, settling velocities, horizontal transports and vertical fluxes in estuaries. Proceedings of the IEEE Sixth Working Conference on Current Measurement, S. P. Anderson, E. A. Terray, J. A. Rizzoli White, and A. J. Williams, III, eds. 258-263. Abstract

Jay, D.A. and E.P. Flinchem. 1999. A comparison of methods for analysis of tidal records containing multi-scale non-tidal background energy. Continental Shelf Research. Abstract

2000

Crump B.C. and J.A. Baross. 2000. Archaeaplankton in the Columbia River, its estuary, and the adjacent coastal ocean, USA. FEMS Microbiol Ecol. 1104:1-9.

Geyer, W. R., J. T. Morris, F. G. Prahl and D. A. Jay, and. E. Turner. 2000. The coupling of physics, biogeochemistry and ecology. In Press. Estuarine Science, A Synthetic Approach to Research and Practice, J. E. Hobbie, ed. Island Press.

Jay, D. A., W. R. Geyer and D. R. Montgomery. 2000. An ecological perspective on estuarine classification. In press. Estuarine Science, A Synthetic Approach to Research and Practice, J. E. Hobbie (ed.), Island Press. Abstract

Submitted and In press

Baptista, A. M., M. Wilken, P. Pearson, C. McCandlish, D. Jay, B. Beck, S. Das, J. Hunt, P. Barrett. Towards a Nowcast-Forecast System for the Columbia River Estuary. Proceedings of the 5th International Conference on Estuarine and Coastal Modeling, Alexandria, VA (in press) Abstract

Cudaback, C. N. and D. A. Jay. Lateral force balance and circulation processes at the mouth of the Columbia River estuary. Submitted to Estuarine, Coastal and Shelf Sci.

Cudaback, C. N., and D. A. Jay. 1999. Vertical Mixing and Estuarine Exchange Transport: I. Observations and a Two-Layer Analysis. Submitted to J. Geophys. Res.

Cudaback, C. N., and D. A. Jay. 1999. Vertical Mixing and Estuarine Exchange Transport: II. A Three-Layer Model. Submitted to J. Geophys. Res.

Fain et al. 2000. Particulate Dynamics in a River Estuary.  Submitted to Estuaries. Abstract

Flinchem, E. P. and D. A. Jay. 2000. An introduction to wavelet transform tidal analysis methods. In Press. Coast. Estuar. Shelf Sci. Abstract

Kay, D. J. and D. A. Jay. 1999. Interfacial mixing in a highly-stratified estuary. 1: Characteristics of Mixing. Submitted to J. Geophys. Res.

Kay, D. J. and D. A. Jay. 1999. Interfacial mixing in a highly-stratified estuary. 2. a "method of constrained differences" approach for the determination of the momentum and mass balances and the energy of mixing. Submitted to J. Geophys. Res.

Sullivan, B.E., F.G. Prahl, L.F. Small and P.A. Covert. Seasonal variations in suspended particle and freshwater phytoplankton input to the Columbia River estuary.

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