The Environmental Monitoring Program (EMP) began in 1975 to conduct baseline and compliance monitoring of water quality, phytoplankton, zooplankton, and benthic invertebrates in the San Francisco Bay-Delta estuary. This monitoring program was designed to track the impact of water diversions to the State Water Project (SWP) and Central Valley Project (CVP) on the Bay-Delta. In the decades since, EMP scientists have monitored these constituents at fixed and floating stations throughout the estuary and ensured compliance with state and federal mandates such as Water Right Decision 1641 (D-1641). In the years and decades since its inception, EMP has become one of the cornerstones for scientists' and managers' understanding of the pace and pattern of change in this critical ecosystem. By sampling water quality and biological communities concurrently, EMP has created a dataset that is uniquely useful in better understanding causal connections between physical, biological, and biogeochemical processes.
The CDFW Fish Restoration Program will collect fish and invertebrate data near existing and planned tidal wetlands. These data will provide information on how fish and invertebrate communities change pre-/post-restoration. While collecting these data, the variability of invertebrate catches will be assessed for each gear type to determine the optimal number of samples per sampling site.
Under the 2008, 2019, 2024 State Water Project/Central Valley Project Joint Operations Biological Opinion from United States Fish and Wildlife Service, 2009, 2019, 2024 National Marine Fisheries Service, and 2009, 2020, and 2024 State Water Project Incidental Take Permit, Department of Water Resources (DWR) is required to restore >8,000 acres of tidal wetlands in the Sacramento-San Joaquin Delta (Delta) and Suisun Marsh to improve habitat and food web resources for threatened fishes. The Fish Restoration Program is responsible for biological monitoring in these restored tidal habitats to assess their success for providing habitat and food web benefits for at-risk native fishes.
Assess the food web resources (nutrients, phytoplankton, zooplankton, and macroinvertebrates) associated with pre- and post-restoration tidal wetlands, as well as with existing reference wetlands
Assess the fish community of restoring wetlands including use by rearing salmonids and characterization of the predator and competitor communities
The Wetland Regional Monitoring Program (WRMP) Fish and Fish Habitat Monitoring project is a collaborative effort to track biological responses to tidal wetland restoration in the San Francisco Estuary. Monthly sampling is conducted across a network of benchmark, reference, and project restoration sites in the South Bay and North Bay, with the goal of evaluating how wetland restoration influences fish assemblages, habitat use, and ecological condition.
The study uses primarily otter trawls to monitor fish and macroinvertebrate communities. Standardized field methods align with those used in long-term monitoring programs to ensure comparability and data integration across regions. Environmental data, including water temperature, salinity, and dissolved oxygen, are collected in tandem with biological sampling to assess habitat quality and seasonal dynamics.
The program addresses WRMP Guiding Question #4: How do policies, programs, and projects to protect and restore tidal marshes affect the distribution, abundance, and health of fish and wildlife? The data support adaptive management, regulatory compliance, and science-based restoration planning by identifying key habitats, tracking restoration performance, and detecting regional patterns in species composition and abundance over time.
This lidar project provides high-resolution, region-wide elevation data for the San Francisco Bay-Delta Estuary, offering an unprecedented view of the landscape, landforms, and habitat conditions. LiDAR, which stands for Light Detection and Ranging, uses laser pulses to measure the distance between the sensor and the ground, creating detailed three-dimensional maps of terrain. This dataset captures fine-scale features across the San Francisco Bay-Delta Estuary. This supports researchers, community members, and agencies to better visualize changes in topography, habitat distribution, and flood risk. By providing consistent, accurate, and comprehensive coverage, the lidar data supports a wide range of applications. Researchers can use the data to study habitat dynamics, track landscape change over time, model ecological processes, and more. Agencies and planners can integrate the information into flood risk management, infrastructure planning, and climate adaptation strategies. Community organizations and local stakeholders can also use the data to understand environmental conditions in their neighborhoods and inform local projects. The lidar data will be made publicly available following final review in 2026.
Availability details and links will be shared here as soon as the data are released.
This lidar collection collaboration would not be possible without funding support from the Wetlands Regional Monitoring Program (through funding awarded by the San Francisco Bay Restoration Authority), Delta Stewardship Council, California Department of Water Resources, South Bay Salt Pond Restoration Project, and Valley Water (Santa Clara County).
Project Details:
Area
~1.25 million acres (the size of Delaware)
Timing
Coordinated with low tides
Aircraft
Cessna Caravan
Sensor
Riegl VQ-1560ii-S
Accuracy
Precise to ~12 cm (height of a soda can!)
Quality
Q1 (last LiDAR collection in 2017 was at Q2)
The California Department of Parks and Recreation, Division of Boating and Waterways (DBW) operates a control program for both floating and submerged IAV. This project is an IEP Synthesis effort that will integrate a historical and ongoing dataset of the Delta IAV coverage and DBW IAV treatment records for the past 14 years. This study seeks to determine if treatment efficacy differs across space (e.g., different habitat types) and time. It will assess the impact of IAV control effort on the distribution, growth rate, spread and persistence, and species richness and community composition of the IAV communities. Gaining such understanding on the relationship between IAV treatment and IAV distribution, coverage, and species composition is an urgent management issue for the Delta, given the sharp rise in coverage of IAV from 9000 acres in 2004 to 12,500 acres in 2014 and its likely impact on the shallow-water habitat.
The objectives of this study are:
1. What are the rates and patterns of spread for floating IAV? Do the rates of spread into water or marsh differ? Where do these floating IAV persist and what mechanisms can be linked to their ability of persistence? If there are specific locations that promote persistence, for example over-wintering nurseries, could they be targeted for removal?
2. Has treatment for both water primrose and water hyacinth been successful in reducing species cover over the last 15 years? If so, was treatment effective in reducing density, reducing growth rates, slowing down expansion, and therefore changing distribution of target species? Does treatment efficacy change over different habitats and through time?
3. Does herbicide control of target submerged IAV species reduce density, growth rates, slow down expansion and persistence, and change submerged community composition towards native species? Does treatment efficacy change over different habitats and through time? Does it change the patch size and distribution?
