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| Monitoring of the threatened Delta Green Ground Beetle at the East Wilcox Ranch (Solano County, CA) in 2007 | Upland Habitat and Wildlife Friendly Agriculture | Arnold, R. | 2008 |
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| Potential Sensitive Plant Species at Selby Creek | Upland Habitat and Wildlife Friendly Agriculture | Baker, A. | 2006 |
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| Selby Creek - Silverado Trail Culvert Fish Passage Assessment | Upland Habitat and Wildlife Friendly Agriculture | Koehler, J. and Blank, P. | 2006 |
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| Wilcox Ranch 2008-2011 Ecological Monitoring Report | Upland Habitat and Wildlife Friendly Agriculture | Vollmar Natural Lands Consulting | 2/2012 |
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| Monitoring of the threatened Delta Green Ground Beetle at the East Wilcox Ranch (Solano County, CA) in 2008 | Upland Habitat and Wildlife Friendly Agriculture | Arnold, R. | 2009 |
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| Monitoring of the threatened Delta Green Ground Beetle at the East Wilcox Ranch (Solano County, CA) in 2009 | Upland Habitat and Wildlife Friendly Agriculture | Arnold, R. | 2010 |
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| Monitoring of the threatened Delta Green Ground Beetle at the East Wilcox Ranch (Solano County, CA) in 2010 | Upland Habitat and Wildlife Friendly Agriculture | Arnold, R. | 2011 |
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| Flooded Islands Pre-Feasibility Study Report | Shallow Water and Marsh Habitat | Bishop, D. | 2005 |
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| Tidal wetland restoration in San Francisco Bay: History and current issues | Shallow Water and Marsh Habitat | Callaway, J. C., Parker, V. T., Vasey, M. C., Schile, L. M. and Herbert, E. | 12/11/2015 |
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| Restoration trajectories and food web linkages in San Francisco Bay's estuarine marshes: a manipulative translocation experiment | Shallow Water and Marsh Habitat | Howe, E. R. and Simenstad, C. A. | 2007 |
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| Isotopic determination of food web origins in restoring and ancient estuarine wetlands of the San Francisco Bay and Delta | Shallow Water and Marsh Habitat | Howe, E. R. and Simenstad, C. A. | 2011 |
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| Landscape influence on the quality of heron and egret colony sites | Shallow Water and Marsh Habitat | Kelly, J. P., Stralberg, D., Etienne, K. and McCaustland, M. | 2008 |
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| Vegetation colonization in a restoring tidal marsh: a remote sensing approach | Shallow Water and Marsh Habitat | Tuxen, K. A., Schile, L. M., Kelly, M. and Siegel, S. W. | 2008 |
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| Primary productivity rates and nutrient availability in natural and restoring wetlands of the northern San Francisco Estuary | Shallow Water and Marsh Habitat | Cohen, R. A., Wilkerson, F. P. and Carpenter, E. J. | 2011 |
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| Mapping changes to vegetation pattern in a restoring wetland: finding pattern metrics that are consisten across spatial scale and time | Shallow Water and Marsh Habitat | Kelly, M., Tuxen, K. A. and Stralberg, D. | 2011 |
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| Genetic Assay Technical Paper | Non-Native Invasive Species | Brandl, S. | 2013 |
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| Captive Feeding Trial Report | Non-Native Invasive Species | Brandl, S. | 2013 |
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| Quantifying incidence of predation on salmonids and other species of interest using high-throughput qPCR found in gut contents | Non-Native Invasive Species | Brandl, S. | 2014 |
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| Persistence of delta smelt DNA in the gut of Mississippi silversides and other preliminary experiments for detecting prey in non-native fish stomachs using real-time PCR. | Non-Native Invasive Species | Brandl, S., Schreier, B., Conrad, J. L. and Baerwald, M. | 2012 |
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| Surveys of selected marshlands in the San Francisco Estuary California Clapper Rail (Rallus longirostris obsoletus): Invasive Spartina Project, 2007. | Non-Native Invasive Species | Avocet Research Associates | 7/9/2007 |
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| Laboratory Protocols for Genotyping Spartina | Non-Native Invasive Species | Feinstein, L. | 2009 |
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| San Francisco Estuary Invasive Spartina Project 2008-2009 Monitoring Report | Non-Native Invasive Species | Hogle, I. | 2011 |
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| San Francisco Estuary Invasive Spartina Project Monitoring Program Quality Assurance Document | Non-Native Invasive Species | Hogle, I., Kerr, D., Olofson, P. and McBroom, J. | 2008 |
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| Summary of Suspended-Sediment Concentration Data, San Francisco Bay, California, Water Year 2001 | Hydrodynamics, Sediment Transport, and Flow Regimes | Buchanan, P. A. and N. K. Ganju | 2003 |
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| Sacramento River Ecological Flows Study: Off-Channel Habitat Study Results | Hydrodynamics, Sediment Transport, and Flow Regimes | Kondolf, G. M. | 2007 |
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| Sacramento River Ecological Flows Study: Meander Migration Modeling Final Report | Hydrodynamics, Sediment Transport, and Flow Regimes | Larsen, E. W. | 2007 |
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| Sacramento River Ecological Flows Study: Final Report | Hydrodynamics, Sediment Transport, and Flow Regimes | The Nature Conservancy, Stillwater Sciences and ESSA Technologies | 2008 |
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| Sacramento River Ecological Flows Study: State of the System Report (Public Review Draft) | Hydrodynamics, Sediment Transport, and Flow Regimes | Stillwater Sciences | 2006 |
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| Linking Biological Responses to River Processes: Implications for Conservation and Management of the Sacramento River – A Focal Species Approach: Final Report | Hydrodynamics, Sediment Transport, and Flow Regimes | Stillwater Sciences | 2007 |
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| Sacramento River Ecological Flows Study: Gravel Study Final Report | Hydrodynamics, Sediment Transport, and Flow Regimes | Stillwater Sciences | 2007 |
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| Physical Modeling Experiments to Guide River Restoration Projects: Restoration Manuals | Hydrodynamics, Sediment Transport, and Flow Regimes | Stillwater Sciences, University of California Berkeley and San Francisco State University | 2008 |
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| Stockton Deep Water Ship Channel tidal hydraulics and downstream tidal exchange. | Ecosystem Water and Sediment Quality | Brown, R. T. | 2002 |
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| Zooplankton abundance and diversity in the lower San Joaquin River above the Stocton Deep Water Ship Channel. | Ecosystem Water and Sediment Quality | Brunell, M. S., G. M. Litton and Borglin, S. | 2007 |
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| Evaluation of aeration technology for the Stockton Deep Water Ship Channel | Ecosystem Water and Sediment Quality | Brown, R. T. | 2003 |
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| Task 6: Modeling Study, Forecasting Procedure Report | Ecosystem Water and Sediment Quality | Herr, J. W. and C. W. Chen | 2007 |
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| Sources and Transport of Nutrients, Organic Carbon, and Chlorophyll-a in the San Joaquin River Upstream of Vernalis, California, during Summer and Fall, 2000 and 2001 | Ecosystem Water and Sediment Quality | Kratzer, C. R., Dileanis, P.D., C. Zamora and S. R. Silva | 2003 |
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| Linking the San Joaquin River to the Stockton Deep Water Ship Channel Draft Final Report | Ecosystem Water and Sediment Quality | Litton, G. M., M. S. Brunell, J. C. Monroe and Quinn,N.W.T | 2008 |
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| Bathymetric and geophysical surveys of Englebright Lake, Yuba-Nevada Counties, California | Ecosystem Water and Sediment Quality | Childs, J. R., N. P. Snyder and M. A. Hampton | 2003 |
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| Transport, transformation, and effects of selenium and carbon in the Delta of the Sacramento-San Joaquin Rivers: implications for ecosystem restoration | Ecosystem Water and Sediment Quality | Lucas, L. and Stewart, R. | 2005 |
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| Discriminating between west-side sources of nutrients and organic carbon contributing to algal growth and oxygen demand in the San Joaquin River | Ecosystem Water and Sediment Quality | Stringfellow, W. T. and Quinn, N.W.T. | 2002 |
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| Real-Time Water Quality Management in the Grassland Water District | Ecosystem Water and Sediment Quality | Quinn, N.W.T., Hanna, W.M., Burns, J.R., Taylor,C.M., D. Marciochi, Lower, S., Woodruff, V., Wright, D. and Poole, T. | 2004 |
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| San Joaquin River Up-Stream DO TMDL Project -- Task 12: DO Project Final Report | Ecosystem Water and Sediment Quality | Stringfellow, W. T. | 2008 |
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| Mercury and methylmercury processes in north San Francisco Bay tidal wetland ecosystems | Ecosystem Water and Sediment Quality | Yee, D., Collins, J., Grenier, L., Takekawa, J., Tsao-Melcer, D., Woo, I., Schwarzbach, S., Marvin-DiPasquale, M., Windham, L., Krabbenhoft, D., Olund, S. and DeWild, J. | 2008 |
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| Task 6: Effluent Discharge Point Water Collection and Exposure Report | Ecosystem Water and Sediment Quality | Brander, S. M., Cole, B., Hasenbein, M., Jeffries, K. M., DeCourten, B., Fangue, N. A. and Connon, R. E. | 8/13/2013 |
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| Menidia beryllina baseline spawning trials | Ecosystem Water and Sediment Quality | Brander, S. M., Cole, B., Jeffries, K. M., DeCourten, B., Fangue, N. A. and Connon, R. E. | 2013 |
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| Interplay of environmental forcing and growth-selective mortality in the poor year-class success of delta smelt in 2005 | At-Risk Species Assessment | Bennett, W. A., Hobbs, J. A. and Teh, S. J. | 2005 |
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| Monitoring Responses of the Delta Smelt Population to Multiple Restoration Actions in the San Fransico Estuary | At-Risk Species Assessment | Bennett, W. A., S. J. Teh and Kimmerer, W. | 2013 |
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| Lindsey Slough Freshwater Tidal Marsh Enhancement Project - Cultural Resources Asessment | Shallow Water and Marsh Habitat | Coleman, J. | 2012 |
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| Delta Working Lands Final Report | Upland Habitat and Wildlife Friendly Agriculture | Will, A. and Hart, J. | 9/2013 |
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| Delta Working Landscapes -- Feasibility Report | Upland Habitat and Wildlife Friendly Agriculture | Will, A. and Hart, J. | 2013 |