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Publications for James E. Cloern

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2017Cloern, J.E. A.D. Jassby, T.S. Schraga, E. Nejad and C.S. Martin. 2017. Ecosystem Variability along the Estuarine Salinity Gradient: Examples from Long-term Study of San Francisco Bay. Limnology and Oceanography. [get publication]
2017Cloern, James E.; Kay, Jane; Kimmerer, Wim; Mount, Jeffrey; Moyle, Peter B.; & Mueller-Solger, Anke, 2017, Water Wasted to the Sea?. San Francisco Estuary and Watershed Science, 15(2). [get publication]
2017Schraga, T.S., Cloern, J.E., 2017, Water quality measurements in San Francisco Bay by the U.S. Geological Survey, 1969-2015, Scientific Data, 4. [get publication]
2016Cloern, J.E., Barnard, P.L., Beller, E., Callaway, J.C., Grenier, J.L., Grosholz, E.D., Grossinger, R., Hieb, K., Hollibaugh, J.T., Knowles, N., Sutula, M., Veloz, S., Wasson, K., Whipple, A., 2016, Life on the Edge – California’s Estuaries, in Ecosystems of California: A Source Book, edited by Harold  Mooney and Erika Zavaleta, University of California Press, 359-387.
2016Cloern, J.E., and Schraga, T.S., 2016, USGS Measurements of Water Quality in San Francisco Bay (CA), 1969-2015: U. S. Geological Survey data release. [get publication]
2016Cloern, James E.; Robinson, April; Richey, Amy; Grenier, Letitia; Grossinger, Robin; Boyer, Katharyn E.;  et al.(2016). Primary Production in the Delta: Then and Now. San Francisco Estuary and Watershed Science, 14(3). [get publication]
2016Lucas, L.V., Cloern, J.E., Thompson, J.K., Stacey, M.T., Koseff, J.R., 2016, Bivalve grazing can shape phytoplankton communities: Front. Mar. Sci., v. 3. [get publication]
2016Raimonet, M. and J.E. Cloern. 2016. Estuary-ocean Connectivity: Fast Physics, Slow Biology. Global Change Biology . [get publication]
2015Carstensen, J., R. Klais, J.E. Cloern. 2015. Phytoplankton Blooms in Estuarine-Coastal Waters: Seasonal Patterns and Key Species. Estuarine and Coastal Marine Science, 160:98-109. [get publication]
2015Cloern, J.E., A. Malkassian, R. Kudela, E. Novick, M. Peacock, T. Schraga, D. Senn. 2015. The Suisun Bay Problem: Food Quality or Food Quantity?, Interagency Ecological Program Newsletter, 2:15-23 [get publication]
2015Cloern, James E., Paulo C. Abreu, Jacob Carstensen, Laurent Chauvaud, Ragnar Elmgren, Jacques Grall, Holly Greening, J.O. Roger Johansson III, Mati Kahru, E.T. Sherwood, Jie Xu, Kedong Yin. 2015. Human Activities and Climate Variability Drive Fast-Paced Change across the World’s Estuarine-Coastal Ecosystems. Global Change Biology. [get publication]
2015Feyrer, F., J.E. Cloern, L.R. Brown, M.A. Fish, K.A. Hieb, R. Baxter. 2015. Estuarine Fish Communities Respond to Climate Variability over both River and Ocean Basins. Global Change Biology, doi: 10.1111/gcb.12969. [get publication]
2015Klais, R., J. Carstensen, J.E. Cloern, editors, 2015. Special Issue: Global Patterns of Phytoplankton Dynamics in Coastal Ecosystems. Estuarine, Coastal and Shelf Science, 162: 1-160. [get publication]
2015Klais, R., J.E. Cloern, P.R Harrison. 2015. Resolving variability of phytoplankton species composition and blooms in coastal ecosystems, Estuarine, Coastal and Shelf Science, 162:4-6. [get publication]
2014Charles van Riper III, James D. Nichols, G. Lynn Wingard, Jeffrey L. Kershner, James Cloern, Robert B. Jacobson, Robin P. White, Anthony D. McGuire,Byron K. Williams, Guy Gelfenbaum, and Carl D. Shapiro. 2014 USGS Ecosystem Research for the Next Decade: Advancing Discovery and Application in Parks and Protected Areas through Collaboration. The George Wright Forum, 31:129-136.
2014Cloern, J.E. 2014. Comment: Allocating a Scientist’s Scarcest Resource – Time. Earth Magazine, February 2014: 8-9.
2014Cloern, J.E., Foster, S.Q., Kleckner, A.E. 2014. Phytoplankton primary production in the world’s estuarine-coastal ecosystems. Bigoeosciences, 11:2477-2501. [get publication]
2014Levin, L.A., K.K Liu, K.C Emeis, D.L. Breitburg, J.E. Cloern, C. Deutsch, M. Giani, A. Goffart, E.E. Hofmann, Z. Lachkar, K. Limburg, S.M. Liu, E. Montes, W. Naqvi, O. Ragueneau, C. Rabouille, S.K. Sarkar, D.P. Swaney, P. Wassman, K.F. Wishner. 2014. Comparative Biogeochemistry - Ecosystem - Human Interactions on Dynamic Continental Margins Journal of Marine Systems [get publication]
2013Cloern, J.E. 2013. Changing Perspectives on How Scientists Should Allocate our Most Precious Resource – Time. Invited AGU blogpost. [get publication]
2013Cloern, J.E. and E. Hanak. 2013. It’s time for bold new approaches to link Delta science and policymaking. Invited essay for publication in San Francisco Estuary and Watershed Science 11(3). [get publication]
2013Williams, B.K., Wingard, G.L., Brewer, Gary, Cloern, J.E., Gelfenbaum, Guy, Jacobson, R.B., Kershner, J.L., McGuire, A.D., Nichols, J.D., Shapiro, C.D., van Riper III, Charles, and White, R.P., 2013, U.S. Geological Survey Ecosystems Science Strategy—Advancing discovery and application through collaboration: U.S. Geological Survey Circular 1383–C, 43 p. [get publication]
2012Cloern, J.E. and A.D. Jassby. 2012. Drivers of change in estuarine-coastal ecosystems: discoveries from four decades of study in San Francisco Bay. Reviews of Geophysics, in press, doi:10.1029/2012RG000397 [get publication]
2012Cloern, J.E. et al. 2012. Perils of correlating CUSUM-transformed variables to infer ecological relationships (Breton et al. 2006, Glibert 2010). Limnology and Oceanography, 57(2): 665-668. [get publication]
2011Cloern, James E., Knowles, Noah, Brown, Larry R., Cayan, Daniel, Dettinger, Michael D., Morgan, Tara L., Schoellhamer, David H., Stacey, Mark T., van der Wegen, Mick, Wagner, R. Wayne, and Jassby, Alan D., 2011, Projected Evolution of California's San Francisco Bay-Delta-River System in a Century of Climate Change: PLoS ONE, v. 6, iss. 9, e24465 p. [get publication]
2011Guarini, Jean-Marc, Chauvaud, Laurent, Cloern, James E., Clavier, Jacques, Coston-Guarini, Jennifer, and Patry, Yann, 2011, Seasonal variations in ectotherm growth rates: Quantifying growth as an intermittent non steady state compensatory process: Journal of Sea Research, v. 65, iss. 3, p. 355-361. [get publication]
2010Cloern, J.E. and R. Dugdale. 2010. San Francisco Bay, pp. 117-126 in Glibert, P.M. et al. (eds), Nutrients in Estuaries: A Summary Report of the national Estuarine Experts Workgroup 2005-2007.
2010Cloern, James E., Hieb, Kathryn A., Jacobson, Teresa, Sansó, Bruno, Lorenzo, Emanuele Di, Stacey, Mark T., Largier, John L., Meiring, Wendy, Peterson, William T., Powell, Thomas M., Winder, Monika, and Jassby, Alan D., 2010, Biological communities in San Francisco Bay track large-scale climate forcing over the North Pacific: Geophysical Research Letters, v. 37, 6 PP. [get publication]
2010Cloern, James, and Jassby, Alan, 2010, Patterns and Scales of Phytoplankton Variability in Estuarine–Coastal Ecosystems: Estuaries and Coasts, v. 33, iss. 2, p. 230-241. [get publication]
2010Jassby, A.D. and J.E. Cloern. 2010. R package wq0.3-3: Exploring water quality monitoring data. [get publication]
2010Winder, Monika, and Cloern, James E., 2010, The annual cycles of phytoplankton biomass: Philosophical Transactions of the Royal Society B: Biological Sciences, v. 365, iss. 1555, p. 3215-3226. [get publication]
2010Windham-Myers, L., G. Aiken, J. Bales, B. Bekins, J. E Cloern, C. A Eagles-Smith, R. P Eganhouse, E. Kakouros, D. P. Krabbenhoft, J. R Lacy, L. G Larsen, L. Lucas, M. Marvin-DiPasquale, N. B Rybicki, A. Slowey, R. Stewart, C. Swarzenski, J. K Thompson, M. P Waldrop. Conceptual Model Framework for a Long-Term Science Plan Response to the Deepwater Horizon Oil Spill. Submitted July 9, 2010
2009Cloern, J.E. and A.D. Jassby. 2009. Patterns and scales of phytoplankton variability in estuarine-coastal ecosystems. Estuaries and Coasts DOI: 10.1007/s12237-009-9195-3 [get publication]
2008Cloern, James E., and Jassby, Alan D., 2008, Complex seasonal patterns of primary producers at the land–sea interface: Ecology Letters, v. 11, iss. 12, p. 1294-1303. [get publication]
2008Smetacek, V. and J.E. Cloern. 2008. Perspective: On phytoplankton trends. Science 319:1346-1348.
2008Thébault, Julien, Schraga, Tara S., Cloern, James E., and Dunlavey, Eric G., 2008, Primary Production and Carrying Capacity of Former Salt Ponds After Reconnection to San Francisco Bay: Wetlands, v. 28, iss. 3, p. 841-851. [get publication]
2007Cloern, J E, 2007, Habitat connectivity and ecosystem productivity: Implications from a simple model: American Naturalist, v. 169, p. 21-33. [get publication]
2007Cloern, James E., Jassby, Alan D., Thompson, Janet K., and Hieb, Kathryn A., 2007, A cold phase of the East Pacific triggers new phytoplankton blooms in San Francisco Bay: Proceedings of the National Academy of Sciences, v. 104, iss. 47, p. 18561-18565. [get publication]
2007Monsen, Nancy E., Cloern, James E., and Burau, Jon R., 2007, Effects of Flow Diversions on Water and Habitat Quality: Examples from California's Highly Manipulated Sacramento-San Joaquin Delta: San Francisco Estuary and Watershed Science, v. 5, iss. 3. [get publication]
2006Bachman, R.W., J.E. Cloern, R.E. Hecky and D.W. Schindler (editors). 2006. Eutrophication of Freshwater and Marine Ecosystems. Limnology and Oceanography, Special Issue 51: 351-800.
2006Cloern, James (Lead Author) 2006. "Eutrophication." In: Encyclopedia of Earth. Eds. Cutler J. Cleveland (Washington, D.C.: Environmental Information Coalition, National Council for Science and the Environment) [get publication]
2006Lopez, Cary, Cloern, James, Schraga, Tara, Little, Amy, Lucas, Lisa, Thompson, Janet, and Burau, Jon, 2006, Ecological Values of Shallow-Water Habitats: Implications for the Restoration of Disturbed Ecosystems: Ecosystems, v. 9, iss. 3, p. 422-440. [get publication]
2005Cloern, J E, Schraga, T S, Lopez, Burns, and C, 2005, Heat wave brings an unprecedented red tide to San Francisco Bay: Eos, Transactions American Geophysical Union, v. 86, 66 p.
2005Cloern, James E., Schraga, Tara S., Lopez, Cary B., Knowles, Noah, Labiosa, Rochelle Grover, and Dugdale, Richard, 2005, Climate anomalies generate an exceptional dinoflagellate bloom in San Francisco Bay: Geophysical Research Letters, v. 32, 5 PP. [get publication]
2005Cloern, James E., and Dufford, Richard, 2005, Phytoplankton community ecology: principles applied in San Francisco Bay: Marine Ecology Progress Series, v. 285, p. 11-28. [get publication]
2005Sobczak, W.V., J.E. Cloern, A.D. Jassby, B.E. Cole, T.S. Schraga, and A. Arnsberg. 2005. Detritus fuels ecosystem metabolism but not metazoan food webs in San Francisco Estuary’s freshwater Delta. Estuaries 28(1):122-135.
2003Chauvaud, L, Thompson, J K, Cloern, J E, and Thouzeau, G, 2003, Clams as CO2 generators: The Potamocorbula amurensis example in San Francisco Bay: United States Geological Survey, p. 2086-2092. [get publication]
2003Cloern, J E, Schraga, T S, Lopez, C B, and Labiosa, R, 2003, Lessons from monitoring water quality in San Francisco Bay: 2003: Pulse of the Estuary, San Francisco Estuary Institute, p. 15-20. [get publication]
2003Jassby, A D, Cloern, J E, and Muller-Solger, A, 2003, Phytoplankton fuels Delta food web: California Agriculture, v. 57, p. 104-109.
2003May, Christine L., Koseff, Jeffrey R., Lucas, Lisa V., Cloern, James E., and Schoellhamer, David H., 2003, Effects of spatial and temporal variability of turbidity on phytoplankton blooms: Marine Ecology Progress Series, v. 254, p. 111-128. [get publication]
2002Lucas, L.V. and J.E. Cloern.  2002.  Effects of tidal shallowing and deepening on phytoplankton production dynamics: a modeling study. Estuaries 25(4A): 497-507. [get publication]
2002Lucas, L.V., J.E. Cloern, J.K. Thompson, and N. E. Monsen.  2002.  Functional variability of habitats in the Sacramento-San Joaquin Delta: restoration implications. Ecological Applications 12(5): 1528-1547. [get publication]
2002Monsen, N. E., J. E. Cloern, L. V. Lucas, and S. G. Monismith.  2002.  A comment on the use of flushing time, residence time and age as transport time scales.  Limnology and Oceanography 47(5): 1545-1553. [get publication]