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  • Title

    Habitat, hatcheries, and nonnative predators interact to affect juvenile salmon behavior and survival

    Lead University of California - Santa Cruz [UCSC]
    Description Chinook salmon are an iconic part of California's environment and heritage, and important both economically and culturally. In the Sacramento River, the winter-run Chinook population is endangered, and there is strong interest in restoring these populations. To do so, resource managers need to better understand the pressures on wild populations. Predation by nonnative predators affects survival of young salmon but may also affect the behavior of salmon. Changes to salmon behavior also have costs but are not currently considered in management. Managers need information on how predators affect juvenile salmon behavior, how they might vary under different conditions, and how they scale up to affect populations.
    Science topics Chinook Salmon, Fishing
    Updated November 12, 2025
  • Title

    Low-Cost Satellite Remote Sensing of the Sacramento-San Joaquin Delta to Enhance Mapping for Invasive and Native Aquatic Vegetation

    Lead University of California - Davis [UC Davis]
    Description Invasive aquatic vegetation (IAV) acts as an ecosystem engineer by changing habitat conditions and water quality. This negatively affects the survival of native species. Over the past 15 years, IAV has more than doubled its footprint in the Sacramento-San Joaquin Delta waterways. The State of California spends millions of dollars each year to control IAV in the Delta-Suisun region and costs are likely to continue to rise. Gaining a better understanding of the spread, life history characteristics, and potential vulnerabilities of these species can lead to more effective control strategies. The recent launch of the Sentinel-2 satellite can fill temporal gaps left by annual airborne surveys. This study will create a data pipeline for sustained, low-cost satellite-based monitoring of aquatic and marsh vegetation year-round. To quantify one of the Delta Plan performance measures, the time and degree of floodplain inundation for the Yolo Bypass will be measured. This study will result in new metrics to measure progress toward habitat goals in several restoration sites.
    Science topics Aquatic vegetation, Invasive and non native species
    Updated October 3, 2024
  • Title

    Consequences of Phragmites invasion for community function in Suisun Marsh

    Lead University of California - Davis [UC Davis]
    Description

    This project aims to quantify the impacts of common reed (Phragmites) invasion on community structure and ecosystem function during early stages of tidal restoration in wetlands. The study will focus on the Tule Red Tidal Restoration site in Suisun Marsh. The research aims to produce a conceptual model that will describe habitat structure, invertebrate communities, and predator use of wetlands affected by Phragmites invasion. The conceptual model resulting from this study will guide future predictions of wetland response to invasion and to develop mitigation strategies. Data collected will also support food web models and the understanding of invasive plants as stressors, as well as foster translational science to the management community.

    Science topics Invasive and non native species
    Updated February 28, 2025
  • Title

    Marine Invasive Species Program [MISP]

    Lead California Department of Fish and Wildlife [CDFW]
    Description The Marine Invasive Species Program (MISP) is responsible for analysis of shipping vectors (pathways) responsible for the introduction of non-indigenous species (NIS) into California's coastal waters. MISP has partnered with the Smithsonian Environmental Research Center (SERC) and Moss Landing Marine Laboratories (MLML) to undertake an extensive program to analyze spatial and temporal patterns of NIS invasions in marine and estuarine waters of California. MISP collaborates with the California State Lands Commission (CSLC) to regulate and minimize the introduction of Nonindigenous Species (NIS) into California by ocean-going vessels. MISP is partners with the Smithsonian Environmental Research Center (SERC) to conduct biological surveys monitoring the coastal waters of California to determine the level of invasion by NIS;and San Jose State University's Moss Landing Marine Labs (MLML) to conduct genetic analysis of NIS. The California Ballast Water Management Act of 1999 initiated baseline surveys by the California Department of Fish and Wildlife (CDFW) to document the distribution of nonindigenous species in the state's coastal and estuarine waters.
    Science topics Striped bass, Corbicula and Potamocorbula, Water hyacinth, Brazilian waterweed, Spongeplant, Giant reed, Yellow star thistle, Invasive and non native species
    Updated April 29, 2022
  • Title

    Aquatic Invasive Species Programs

    Lead California Department of Parks and Recreation [PARKS]
    Description The Aquatic Weed Control Program includes both floating and submersed aquatic vegetation. DBW uses an Integrated Pest Management strategy with the following components: - Public information and education - Prevention - Pre-established action levels for chemical, biological and physical control - Environmental monitoring Since submersed and floating aquatic vegetation are well established in the Sacramento- San Joaquin Delta, eradication may not be feasible, while controlling invasive growth is likely to lessen negative economic and biological impacts.
    Science topics Salinity, Water temperature, Dissolved oxygen, pH, Turbidity, Main channels, Sloughs, Backwater, Floating aquatic vegetation, Water hyacinth, Brazilian waterweed, Spongeplant, Conductivity, Saltwater and freshwater marshes, Other species
    Updated April 29, 2022
  • Title

    California Recreational Fisheries Survey [CRFS]

    Lead California Department of Fish and Wildlife [CDFW]
    Description

    The California Recreational Fisheries Survey (CRFS) mission is to collect fishery-dependent data on California's marine recreational fisheries, and to accurately estimate catch and effort in a time frame and on a scale that meets management needs. CRFS collects the data necessary to estimate catch and effort for California's diverse recreational finfish fisheries which range from the California-Mexico border to the California-Oregon border extending over 1,100 miles of coast and is surveyed at over 400 sampling sites. Annually, CRFS conducts over 7,000 sampling assignments and contacts over 68,000 fishing parties. High sampling rates produce confidence in estimates with a 20 percent sample rate of private boat anglers during salmon or groundfish seasons. CRFS collects the data to produce the estimates for all sport-caught finfish.

    Science topics Fishing
    Updated June 26, 2025
  • Title

    San Francisco Estuary Invasive Spartina Project

    Lead California State Coastal Conservancy
    Description "The Invasive Spartina Project is a coordinated regional effort among local, state and federal organizations dedicated to preserving California's extraordinary coastal biological resources through the elimination of introduced species of Spartina(cordgrass). Introduced cordgrasses are highly aggressive invaders that significantly alter both the physical structure and biological composition of our tidal marshes, mudflats, and creeks. The project also monitors Ridgway Rails (formerly Clapper Rail) and water quality. Funding for the Invasive Spartina Project comes from the CALFED Bay-Delta Program, United States Fish and Wildlife Service Coastal Program, National Fish and Wildlife Foundation, and the California State Coastal Conservancy.
    Science topics Intertidal and transition zones, Saltwater and freshwater marshes, Other species
    Updated April 29, 2022
  • Title

    Nutria Eradication Program

    Lead California Department of Fish and Wildlife [CDFW]
    Description CDFW implemented the Nutria Eradication Incident Command System in 2018 to detect, assess, control and eradicate invasive nutria in the Sacramento San Joaquin Delta. The program includes rights of entry, camera traps, trapping and removal of 823 (to date) nutria.
    Science topics Levees, Sloughs, Backwater, Managed ponds, Nutria, Environmental drivers, Socio economic drivers
    Updated April 29, 2022
  • Title

    Aquatic Invasive Species [AIS] Program

    Lead U.S. Fish and Wildlife Service [USFWS]
    Description

    The overarching AIS goal is that "Risks of aquatic invasive species invasions are substantially reduced, and their economic, ecological, and human health impacts are minimized. This goal is addressed through a series of performance and workload measures. The AIS Program provides funding for Aquatic Invasive Species Coordinators for each Region within the Service and their respective aquatic nuisance species activities. These coordinators work closely with the public and private sector to develop and implement invasive species projects. One of the primary initiatives of the program is the prevention of invasive species via boats through the "100th Meridian Initiative" (overseen by individual AIS regional coordinators). This initiative aims to prevent the spread of aquatic invasive species by boats personal watercraft and other pathways. Through boat inspections and boaters assessments along the 100th meridian, partners can learn how to prevent the spread of zebra mussels and other AIS via transport of boats and personal watercraft.

    Science topics Above highwater refugia, Amphibians and reptiles, Backwater, Brazilian waterweed, Corbicula and Potamocorbula, Crustaceans, Fish, Floating aquatic vegetation, Giant reed, Intertidal and transition zones, Invasive and non native species, Main channels, Mammals, Managed ponds, Mollusks, Mudflats, Nutria, Open water, Riparian wildlife, Saltwater and freshwater marshes, Seasonally flooded, Sloughs, Spongeplant, Striped bass, Submerged aquatic vegetation, Water hyacinth, Yellow star thistle
    Updated June 26, 2025
  • Title

    Aquatic Invasive Species Program [CDFW]

    Lead California Department of Fish and Wildlife [CDFW]
    Description The mission of the Invasive Species Program is to reduce the negative effects of non-native invasive species on the wildlands and waterways of California. We are involved in efforts to prevent the introduction of these species into the state, detect and respond to introductions when they occur, and prevent the spread of invasive species that have become established. Our projects address problems with introduced animals and plants, both terrestrial and aquatic. More fundamentally, we try to identify and address the ways by which the species are introduced, typically inadvertently, by human activities. Studies show that preventing introductions is the most effective and cost-efficient way to manage invasive species. We conduct our work in coordination with other government agencies and non-governmental organizations.
    Science topics Habitat, Invasive and non native species, Main channels, Managed ponds, Mollusks, Other species, Recreation and tourism, Saltwater and freshwater marshes, Sloughs, Submerged aquatic vegetation, Vessels and shipping channels
    Updated July 31, 2024
  • Title

    Environmental Monitoring Program (EMP)

    Lead California Department of Water Resource [DWR]
    Description

    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. 

    Science topics Algae, Ammonia, Benthic, Benthos, Bivalve, Carbon, Chemistry, Chlorophyll A B, Climate change, Conductivity, Corbicula and Potamocorbula, Crustaceans, Cyanobacteria, Delta islands, Detritus, Dissolved oxygen, Docks and ports, Drought, Environmental drivers, Estuaries, Food webs, Harmful algal blooms HAB, Invasive and non native species, Invertebrates, Jellyfish, Main channels, Mollusks, Nitrogen, Nitrogen and ammonia, Nutrients, Open water, Other species, Other zooplankton, pH, Phosphorous, Phytoplankton, Primary production, Salinity, Sediments, Sloughs, Surface water flow, Suspended sediment, Temperature, Tidal wetlands, Tides, Turbidity, Water, Water conveyance and infrastructure, Water management, Water operations and exports, Water temperature, Zooplankton
    Updated October 16, 2024
  • Title

    Striped Bass Study

    Lead California Department of Fish and Wildlife [CDFW]
    Description Staff of the Striped Bass Study calculate adult Striped Bass abundance, relative abundance, harvest rate, and survival rate by using data from Commercial Passenger Fishing Vessels (Party Boats;CPFV), various creel surveys, and a mark-recapture program. We monitor the relative abundance of adult Striped Bass by calculating catch per unit effort (CPUE) from data submitted by Commercial Passenger Fishing Vessels. The Department's Marine Region compiles the data, we request the data at intervals, and we calculate CPUE. By applying tags to adult Striped Bass and monitoring the subsequent ratio of tagged fish to untagged fish, we calculate adult Striped Bass abundance, relative abundance, harvest rate, and survival rate. During April and May we use large traps near Knights Landing and nets near Antioch to collect adult Striped Bass, then we tag and release them on-site. Each tag includes our mailing address and a unique code, and some tags include a reward value. By posting "Tagged-fish Wanted" posters around the Estuary and making presentations, we encourage anglers to return tags to us. We also recover tags by talking with anglers during various creel surveys.
    Science topics Water temperature, Main channels, Striped bass
    Updated April 29, 2022
  • Title

    Vegetation Classification and Mapping Program [VegCAMP]

    Lead California Department of Fish and Wildlife [CDFW]
    Description VegCAMP focuses on developing and maintaining maps and classifying all vegetation and habitats in the state to support conservation and management decisions at the local, regional, and state levels. The principal roles of the program include: Developing and maintaining a standardized vegetation classification system for California;Implementing and updating best methods of vegetation assessment including sampling, analyzing, reporting, and mapping vegetation at multiple scales;Training resource professionals on these methods and coordinating with other agencies and organizations to ensure a statewide, standardized approach toward collecting, reporting, and interpreting vegetation data;Developing best practices for using these data for long-range conservation and management of natural lands in the state;Conducting integrated vegetation assessments throughout the state in areas with high conservation and management interest to the Department of Fish and Wildlife and other agencies;Archiving and distributing vegetation data;Coordinating with other state, federal, and local agencies and organizations involved in vegetation assessment;Integrating standard vegetation classification systems with species distributions to encourage unified habitat assessments and conservation efforts. Long-range goals of the program include: Completing and maintaining a statewide SCV-compliant classification and map in collaboration with other agencies and organizations;Developing and updating the most appropriate vegetation products for conservation planning and natural resources management within the state;Integrating the program with similar ones from other states and countries to facilitate national and international conservation and management of natural resources.
    Science topics Forest harvesting, Agriculture, Urban development, Wildfire, Mudflats, Intertidal and transition zones, Riparian wildlife, Forests, Non forested vegetation, Delta islands, Pacific flyway, Saltwater and freshwater marshes, Habitat
    Updated April 29, 2022
  • Title

    Invasive Species Program

    Lead California Department of Fish and Wildlife [CDFW]
    Description The mission of the Invasive Species Program is to reduce the negative effects of non-native invasive species on the wildlands and waterways of California. We are involved in efforts to prevent the introduction of these species into the state, detect and respond to introductions when they occur, and prevent the spread of invasive species that have become established. The Quagga/Zebra program particularly relies heavily on water quality data, as the species will not establish in waters with low calcium. Therefore they rely substantially on water quality data collected and housed by others (primarily DWR). A large part of their effort is in training other state or private recreational agencies to recognize and report the species, and therefore also reported by others.
    Science topics Mudflats, Intertidal and transition zones, Main channels, Sloughs, Backwater, Submerged aquatic vegetation, Floating aquatic vegetation, Open water, Managed ponds, Waterfowl, Insects, Mollusks, Crustaceans, Corbicula and Potamocorbula, Nutria, Water hyacinth, Brazilian waterweed, Spongeplant, Giant reed, Yellow star thistle, Saltwater and freshwater marshes, Other species, Mammals, Amphibians and reptiles, Invasive and non native species
    Updated April 29, 2022
  • Title

    Functional diversity and predator dynamics along the Sacramento and San Joaquin River Delta

    Lead University of California - Santa Cruz [UCSC]
    Description This project's objectives are to: 1) determine snake species diversity and relative abundance, 2) establish resources available and examine the functional role that snakes play along field sites within the Sacramento-San Joaquin River Delta, 3) document predator-prey interactions, and 4) assess the thermal physiology of snakes and the thermal profile of microhabitats along the Sacramento-San Joaquin Delta.
    Science topics Habitat, Invasive and non native species
    Updated February 27, 2025
  • Title

    Integrating social and ecological research to control invasive species: fostering collective action among private and public stakeholders

    Lead Suisun Resource Conservation District
    Description This project will establish an integrated pest management approach for Phragmites (Common reed), an aggressive invasive plant in Delta wetlands. Results will highlight social and cultural barriers to collective action for invasive species control, and include communication tools for developing a regional strategy for Common reed control.
    Science topics Invasive and non native species, Pesticides, Phragmites, Socio economic drivers
    Updated October 13, 2023
  • Title

    Understanding and improving the EDRR process using a case study of an aquatic invasive, Vallisneria australis, through policy analysis and increased ecological understanding

    Lead California State University Long Beach
    Description Aquatic invasive species and their impacts have been ecological and management challenges in the Sacramento-San Joaquin Delta (Delta) since the 1970s. Despite these impacts, the Delta still provides a suite of ecosystem services. To continue to protect this watershed, an efficient early detection and rapid response (EDRR) framework must be implemented with the goal to find, report, and eradicate invasive species before they spread and cause harm. Effective EDRR frameworks require coordination as well as early action, but frequently the implementation of effective EDRR is limited by lack of information or coordination. Evaluation of the existing draft EDRR framework developed by the Delta Interagency Invasive Species Coordination (DIISC) Team at each stage using a specific species offers the opportunity to discover successful strategies and identify barriers to success. The University proposes to use an invasive submerged aquatic species (ribbon weed, Vallisneria australis) as a case study in the Delta to understand challenges with the EDRR process as well as to design stakeholder-informed interventions to update the existing EDRR framework. In addition, the University will conduct literature review and collect field data on abiotic conditions and plant traits to directly inform the response step of the EDRR process. Finally, the University intends to ensure dissemination of these findings to the DIISC Team and other stakeholders via regular meetings, reports, webinars, and scientific publications.
    Science topics None specified
    Updated July 30, 2024
  • Title

    Plant traits of Vallisneria australis

    Lead California State University [CSU]
    Description Individual clones/plants of Vallisneria australis were sampled from a Delta location. Specimens were sampled from the center of each patch (<200 m2) or bed (≥200 m2) to control for variation within each bed. Four (4) individual plants (rhizome with complete vertical shoots) were collected by hand and transported back to the laboratory in Ziplocs. Leaves per shoot, leaf area, shoot height, shoot width, rhizome length, rhizome diameter along the internodal segment of the main rhizome, and wet and dry biomass were measured for all plants. Those data are included in this Science Tracker report.
    Science topics Invasive and non native species
    Updated August 18, 2024
  • Title

    Remote sensing of the Sacramento-San Joaquin Delta to enhance mapping for invasive and native aquatic plant species

    Lead University of California - Davis [UC Davis]
    Description

    Invasive aquatic vegetation (IAV) is widespread in the Sacramento-San Joaquin Delta (Delta) and its change in coverage has been mapped at the species level using spectroscopy data collected once a year, from 2004 to 2008 and from 2014 to 2019. There was no funding to conduct a similar mapping campaign in 2020. This work aims to collect and analyze imagery in summer of 2020 to fulfill two main objectives. First is to inform the monitoring framework for aquatic vegetation put forth for the Interagency Ecological Program (IEP). Comparing spring and fall imagery of 2019 and the summer imagery of 2020, the project will evaluate which time period is ideal for optimal mapping of aquatic vegetation considering the logistical challenges of airborne imagery acquisition and the phenology of the species being mapped. The project will also contrast the pros and cons of the 3 proposed scenarios in the IEP monitoring framework: 1) two hyperspectral acquisitions a year (2019; “best case” scenario), 2) one acquisition a year (2020, “moderate” scenario) and 3) satellite
    data based monitoring (the Sentinel-2 study, “bare bones” scenario). The second objective of the project is to determine if the new treatment framework (new herbicide formulations and application schedules) is effective in controlling the old (Brazilian waterweed, water hyacinth) and newly added target weed species (water primrose, alligator weed) in the Delta ecosystem. 

    Science topics Brazilian waterweed, Invasive and non native species, Remote sensing, Water hyacinth
    Updated February 27, 2025
  • Title

    Earth Observations to Combat Invasive Aquatic Vegetation

    Lead University of California - Merced [UC Merced]
    Description

    Invasive aquatic vegetation (IAV) is a threat to aquatic ecosystems worldwide, leading to a major loss of biodiversity and extensive damages and costs to human uses of those ecosystems. The Sacramento-San Joaquin River Delta (the “Delta”) is the hub of California’s water system, supporting over 35 million water users and a $54 billion agricultural industry. The Delta reform act mandates management decisions meet both water supply needs while maintaining the ecological function of the system. The Delta is a global biodiversity hotspot, and the focal point of $750-$950 million in restoration. It has also been called one of the most invaded estuaries in the world. Over the past 15 years, submerged and floating IAV have more than doubled in extent, threatening water supply and ecosystem health of the Delta. There is mounting evidence that herbicide treatments are not effective, and that water management actions, and wetland restoration may be having huge impacts on IAV. This presents both a risk to increasing IAV, but also an opportunity to prevent and even  effectively combat IAV through considered water management actions and better restoration planning, meeting the state’s co-equal goals of water security and Delta ecosystem conservation.

    This project will meet the needs of multiple state agencies by advancing operational Earth observation-based monitoring program for community-level submerged aquatic vegetation (SAV) and genus-level floating aquatic vegetation (FAV) and modeling tools to enable the Delta management community to assess the effect of previous management actions on IAV and forecast the effects of future actions to inform multi-agency decision making. Specifically, this work will 1) Operationalize IAV class mapping using Sentinel-2 satellite imagery, 2) Finalize and validate species distribution Models (SDM) for SAV community and FAV at genus-level to assess the impacts of previous water actions on IAV and predict IAV distribution in future scenarios, 3) Co-design IAV-based performance metrics to inform future actions.

    The proposed project fills a critical data gap in monitoring for state and federal agencies and stakeholders by implementing the first sustainable mapping effort for IAV. Monthly and seasonal estimates of SAV and FAV coverage will enable the Delta Stewardship Council to improve their performance metrics for evaluation of the Delta Plan and will help the Interagency Ecological Program assess whether management is meeting the co-equal goals for the Delta. Species distribution models will enable Department of Water Resources to evaluate how previous restoration flow actions have affected the spread and persistence of IAV and incorporate what they learn into future Structured Decision Making to better account for negative consequences of IAV when setting future restoration targets and implementing actions.

    Science topics Aquatic vegetation, Emergent macrophytes, Floating aquatic vegetation, Habitat restoration, Invasive and non native species, Monitoring methods and techniques, Other species, Remote sensing, Saltwater and freshwater marshes, SAV and FAV, Submerged aquatic vegetation, Tidal wetlands, Water hyacinth, Wetland mapping, Wetlands
    Updated December 11, 2025
  • Title

    Ecosystem Engineering Impacts of Water Primrose in the Delta

    Lead University of California - Merced [UC Merced]
    Description

    Water primrose (Ludwigia spp.) is a highly invasive, non-native floating macrophyte in the Delta. In recent years, water primrose has extended its niche into marsh habitat, causing extensive mortality of marsh macrophytes including tules and cattails. The goal of this project is to determine whether the growth strategy of water primrose, its allelopathic properties, or factors related to plant community structure are the cause of marsh loss following water primrose invasion in the Delta. Part of this study will identify and map the marshes most vulnerable to loss and quantify the spatial trajectory of marsh loss during the past 15 years. The ultimate benefit will be an improved understanding of the water primrose invasion processes in the Delta, which can be used to prioritize herbicide treatment of this highly invasive plant in marshes most vulnerable to invasion and with the highest habitat value.

    Objectives:

    1. Determine which water primrose functional traits are the likely cause of marsh loss in the Delta.
    2. Determine the effect(s) of community structure on water primrose invasion success and occurrence of marsh loss.
    3. Quantify the amount and spatial trajectory of marsh loss due to primrose invasion from 2004 - 2019.
    4. Identify and map the marshes that are most vulnerable to loss due to water primrose invasion in the Delta.
    5. Disseminate findings to relevant state agencies and additional stakeholders to ensure habitat restoration success and sustainability, and to focus resources on controlling water primrose in marshes most vulnerable to loss and of highest habitat value.

     

    Science topics Aquatic vegetation, Emergent macrophytes, Environmental drivers, Floating aquatic vegetation, Habitat, Habitat restoration, Intertidal and transition zones, Invasive and non native species, Landscape change, Landscape metrics, Remote sensing, Residence time, Resilience, Restoration, SAV and FAV, Submerged aquatic vegetation, Tidal wetlands, Wetlands
    Updated December 11, 2025