San Francisco Bay

Comparing and integrating fish surveys in the San Francisco Estuary: Why diverse long-term surveys are important

UnIversity of California, Davis (UC Davis) | June 30th, 2020

Comparing Futures for the Sacramento-San Joaquin Delta

Public Policy Institute of California (PPIC) | July 16th, 2008

For over 50 years, California has been pumping water through the Sacramento-San Joaquin Delta for extensive urban and agricultural uses around the state. Today, the Del

For over 50 years, California has been pumping water through the Sacramento-San Joaquin Delta for extensive urban and agricultural uses around the state. Today, the Delta is ailing and in urgent need of a new management strategy. This report concludes that building a peripheral canal to carry water around the Delta is the most promising way to balance two critical policy goals: reviving a threatened ecosystem and ensuring a reliable, high-quality water supply for California. More information can be found in the following supporting appendices: Appendix A. Policy and Regulatory Challenges for the Delta of the Future Appendix B. Levee Decisions and Sustainability for the Delta Appendix C. Delta Hydrodynamics and Water Salinity with Future Conditions Appendix D. The Future of the Delta Ecosystem and Its Fish Appendix E. Expert Survey on the Viability of Delta Fish Populations Appendix F. The Economic Costs and Adaptations for Alternative Delta Regulations Appendix G. Peripheral Canal Design and Implementation Options Appendix H. Delta Drinking Water Quality and Treatment Costs Appendix I. The Economic Effects on Agriculture of Water Export Salinity South of the Delta Appendix J. Decision Analysis of Delta Strategies Interactive Map: Voting Patterns on Proposition 9 (Peripheral Canal), June 1982 Interactive Map: A Multi-Purpose, Eco-Friendly Delta Interactive Feature: Delta Island Flooding (With Repairs) Interactive Feature: Delta Island Flooding (No Repairs)

Comparison of potential drinking water source contamination across one hundred U.S. cities

Nature Portfolio (Springer Nature) | December 13th, 2021

Drinking water supplies of cities are exposed to potential contamination arising from land use and other anthropogenic activities in local and distal source watersheds. B

Drinking water supplies of cities are exposed to potential contamination arising from land use and other anthropogenic activities in local and distal source watersheds. Because water quality sampling surveys are often piecemeal, regionally inconsistent, and incomplete with respect to unregulated contaminants, the United States lacks a detailed comparison of potential source water contamination across all of its large cities. Here we combine national scale geospatial datasets with hydrologic simulations to compute two metrics representing potential contamination of water supplies from point and nonpoint sources for over a hundred U.S. cities. We reveal enormous diversity in anthropogenic activities across watersheds with corresponding disparities in the potential contamination of drinking water supplies to cities. Approximately 5% of large cities rely on water that is composed primarily of runoff from non-pristine lands (e.g., agriculture, residential, industrial), while four-fifths of all large cities that withdraw surface water are exposed to treated wastewater in their supplies.

Compilation of 2018 Delta Levee Five-Year Plan Data

California Department of Water Resources (DWR) | December 14th, 2024

Information provided in the Plans of the participating 74 Levee Maintaining Agencies (LMAs) include the level of protection of the LMAS' levee system at the time of the c

Information provided in the Plans of the participating 74 Levee Maintaining Agencies (LMAs) include the level of protection of the LMAS' levee system at the time of the creation of the Plans, the proposed work within the next five years to bring the LMAS' levee system to their desired level of protection, and a summary of the cost related to the proposed work. Proposed work includes multi-benefit projects, levee projects to meet a desired level of protection, studies, emergency planning, habitat enhancement projects, and additional protection. Also in this report is a summary of the LMAs’ 2009 five-Year plans, which were submitted to DWR in accordance with the Delta Levees Special Flood Control Projects Program 2009 Five-Year Plan Solicitation.

Compounding effects of climate change and WUI expansion quadruple the likelihood of extreme-impact wildfires in California

Nature Portfolio (Springer Nature) | February 21st, 2025

Previous research has examined individual factors contributing to wildfire risk, but the compounding effects of these factors remain underexplored. Here, we introduce the

Previous research has examined individual factors contributing to wildfire risk, but the compounding effects of these factors remain underexplored. Here, we introduce the “Integrated Human-centric Wildfire Risk Index (IHWRI)” to quantify the compounding effects of fire-weather intensification and anthropogenic factors—including ignitions and human settlement into wildland—on wildfire risk. While climatic trends increased the frequency of high-risk fire-weather by 2.5-fold, the combination of this trend with wildland-urban interface expansion led to a 4.1-fold increase in the frequency of conditions conducive to extreme-impact wildfires from 1990 to 2022 across California. More than three-quarters of extreme-impact wildfires—defined as the top 20 largest, most destructive, or deadliest events on record—originated within 1 km from the wildland-urban interface. The deadliest and most destructive wildfires—90% of which were human-caused—primarily occurred in the fall, while the largest wildfires—56% of which were human-caused—mostly took place in the summer. By integrating human activity and climate change impacts, we provide a holistic understanding of human-centric wildfire risk, crucial for policy development.

Concentrations, Loads, and Associated Trends of Nutrients Entering the Sacramento–San Joaquin Delta, California

University of California, Davis (UC Davis) | December 15th, 2021

Statistical modeling of water-quality data collected at the Sacramento River at Freeport and San Joaquin River near Vernalis, California, USA, was used to examine trends

Statistical modeling of water-quality data collected at the Sacramento River at Freeport and San Joaquin River near Vernalis, California, USA, was used to examine trends in concentrations and loads of various forms of dissolved and particulate nitrogen and phosphorus that entered the Sacramento–San Joaquin River Delta (Delta) from upstream sources between 1970 and 2019. Ammonium concentrations and loads decreased at the Sacramento River site from the mid-1970s through 1990 because of the consolidation of wastewater treatment and continuously reduced from the mid-1970s to 2019 at the San Joaquin River site. Current ammonium concentrations are mostly below 4 µM (0.056 mg N L–1) at both sites, a concentration above which reductions in phytoplankton productivity or changes in algal species composition may occur. The Sacramento River at Freeport site is located upstream of the Sacramento Regional County Sanitation District’s treatment facility’s discharge point; nutrient water quality there is representative of upstream sources. Inorganic nitrogen (nitrate plus ammonium) concentrations and loading differed at both sites. At the Sacramento River location, concentrations decrease in the summer agricultural season, reducing the molar ratios of nitrogen to phosphorus. In contrast, inorganic nitrogen concentrations increase in the San Joaquin River during the agricultural season as a result of irrigation runoff, increasing the molar ratio of nitrogen to phosphorus. This increase suggests a possible nitrogen limitation in the northern Delta and a phosphorus limitation in the southern Delta, as indicated by the molar ratios of bioavailable nitrogen to bioavailable phosphorus. Planned upgrades to the Sacramento Regional Wastewater Treatment Plant (SRWTP) will reduce inorganic nitrogen inputs to the northern Delta. Consequently, the supply of bioavailable nitrogen throughout the upper estuary should diminish. Source modeling of nitrogen and phosphorus identifies agriculture, atmospheric deposition, and wastewater effluent as sources of total nitrogen in the Central Valley. In contrast, geologic sources, agriculture, and wastewater discharge are the primary sources of phosphorus.

Conceptual Model Review of Napa Valley Groundwater Model

Napa County | November 15th, 2010

The purpose of this technical memorandum is to provide a general review of the Napa Valley Groundwater model (groundwater model) produced by DHI Water & Environment (

The purpose of this technical memorandum is to provide a general review of the Napa Valley Groundwater model (groundwater model) produced by DHI Water & Environment (DHI) as part of the 2005 Napa County Baseline Data Report (2005 BDR) (Jones & Stokes et al., 2005). This memorandum is not intended to be a full peer-review in which model code, input/output files, and output results would be analyzed. Opinions stated herein are based solely on a review of the 2006 Final BDR Technical Appendix (DHI, 2006a), which presents the model code, model construction, calibration, and application of modeling efforts introduced in Chapters 15, 16, and 17 of the BDR. Further information on the groundwater model was reviewed from the 2005 BDR and a 2007 technical memorandum Modeling Analysis in Support of Vineyard Development Scenarios Evaluation (DHI, 2007) in which the groundwater model was updated/expanded and applied in evaluating various vineyard development scenarios. The scope of Luhdorff & Scalmanini, Consulting Engineers’ (LSCE) work, described herein, included a review of the conceptual model developed by DHI from which the inputs to the groundwater model were based. In addition, information provided on the model code, construction, and development of the groundwater model and model calibration were also reviewed. The focus of LSCE’s work was to assess whether the information provided in the reviewed documents was complete and whether the model can be used for the stated purpose for which it was developed.

Conceptual Model to Support PCB Management and Monitoring in the Emeryville Crescent Priority Margin Unit

San Francisco Estuary Institute (SFEI) | April 3rd, 2017

The 2014 update of the RMP PCB Strategy called for a multi-year effort to implement the recommendations of the PCB Synthesis Report (Davis et al. 2014) pertaining to: 

The 2014 update of the RMP PCB Strategy called for a multi-year effort to implement the recommendations of the PCB Synthesis Report (Davis et al. 2014) pertaining to:  1. identifying margin units that are high priorities for management and monitoring,  2. development of conceptual models and mass budgets for margin units downstream of watersheds where management actions will occur, and  3. monitoring in these units as a performance measure.  The goal of the effort is to inform the review and possible revision of the PCB TMDL and the reissuance of the Municipal Regional Permit for Stormwater (MRP), both of which are tentatively scheduled to occur in 2020. Conceptual model development for four priority margin units (PMUs) that are high priorities for management and monitoring will provide a foundation for establishing effective and efficient monitoring plans to track responses to load reductions and will also help guide planning of management actions. The Emeryville Crescent (the Crescent) is the subject of this report and the first PMU to be studied. 

Conceptual Model to Support PCB Management and Monitoring in the San Leandro Bay Priority Margin Unit Final Report

San Francisco Estuary Institute (SFEI) | November 2nd, 2019

The goal of this report is to answer three questions related to management and monitoring of PCBs in priority margin units. To this end, a conceptual model was develope

The goal of this report is to answer three questions related to management and monitoring of PCBs in priority margin units. To this end, a conceptual model was developed that includes four major elements: 1. loading from the watersheds; 2. initial deposition and retention; 3. processes determining the long-term fate of PCBs in sediment and water; and 4. bioaccumulation in the food web

Conceptual Model to Support PCB Management and Monitoring in the San Leandro Bay Priority Margin Unit, Phase One

San Francisco Estuary Institute (SFEI) | June 1st, 2018

The goal of RMP PCB special studies over the next few years is to inform the review and possible revision of the PCB TMDL and the reissuance of the Municipal Regional P

The goal of RMP PCB special studies over the next few years is to inform the review and possible revision of the PCB TMDL and the reissuance of the Municipal Regional Permit for Stormwater, both of which are tentatively scheduled to occur in 2020. Conceptual model development for a set of four representative priority margin units will provide a foundation for establishing an effective and efficient monitoring plan to track responses to load reductions, and will also help guide planning of management actions. The Emeryville Crescent was the first PMU to be studied in 2015-2016. The San Leandro Bay PMU is second (2016-2017), Steinberger Slough in San Carlos is third (2017), and Richmond Harbor will be fourth (2018). The conceptual model reports for these four PMUs will be developed and presented using a consistent framework, and will build on each other to form an integrated assessment of these four areas. The lessons learned from these analyses will also be more generally applicable to similar contaminated sites on the margins of the Bay.