Fish and Game Commission Twenty-Second Biennial Report for the Years 1910-1912

State of California | December 31st, 1912

Fish Bulletin 133. Ecological Studies of The Sacramento-San Joaquin Estuary Part 1: Zooplankton, Zoobenthos, and Fishes of San Pablo and Suisun Bays, Zooplankton and Zoobenthos of the Delta

California Department of Fish and Wildlife (CDFW) | September 9th, 1965

The Sacramento and San Joaquin Rivers have a common estuary. These two streams meet in the center of California's central valley to form the Delta (Figure 1). A hundred y

The Sacramento and San Joaquin Rivers have a common estuary. These two streams meet in the center of California's central valley to form the Delta (Figure 1). A hundred years ago the Delta was an extensive tidal marsh, but it has been almost entirely reclaimed for agriculture. The Delta now includes about 738,000 acres of land and water, 700 miles of navigable channels, and 30 large, below sea level islands. About 39,000 acres are covered by water. Some Delta channels are edged with narrow stretches of intertidal marsh but most of them have steep banks of mud or are covered with large cobbles to prevent erosion. They vary in width from a few hundred feet to a mile and are seldom more than 30 to 40 feet deep. In some areas there are small "waste" islands that flood during high tides. These waste islands and levees that surround all Delta channels are covered with an assortment of emergent aquatic plants, grasses, forbs, shrubs, and trees. Water heading toward the sea from the Delta passes through Suisun Bay, which is merely the wide combination of the Sacramento and San Joaquin Rivers below the Delta. Thirty-six percent of Suisun Bay is flooded by less than 3 feet of water at mean lower-low tide, and at this stage about 3,000 acres of intertidal zone is exposed. Richard Painter (see p. 40) has included a map of the 6-foot contour. From Suisun Bay the water flows through the 6-mile long and up to 100 feet deep Carquinez Strait into San Pablo Bay. Almost 60 percent of San Pablo Bay's 73,000 acres is less than 6 feet deep at mean lower-low tide. San Pablo Bay has a much more extensive intertidal area than Suisun Bay. San Pablo Bay water flows into San Francisco Bay and then through the narrow Golden Gate into the Pacific Ocean. The investigations reported on in this bulletin were geographically limited to the upper and middle portions of the estuary—from the Delta through San Pablo Bay. We have not investigated below San Pablo Bay. McCarty et al (1962) described south San Francisco Bay, and Storrs, Selleck, and Pearson (1964) described north San Francisco Bay. Gillian (1957) wrote an interesting and useful popular account of the entire bay.

Fish Collections and Secondary Louver Efficiency at the Tracy Fish Collection Facility: October 1993 to September 1995

U.S. Bureau of Reclamation (USBR) | May 29th, 1998

Fish die-offs are concurrent with thermal extremes in north temperate lakes

Nature Portfolio (Springer Nature) | July 8th, 2019

As environmental temperatures continue to rise and organisms experience novel and potentially lethal conditions, the possibility of increased mass mortality events for an

As environmental temperatures continue to rise and organisms experience novel and potentially lethal conditions, the possibility of increased mass mortality events for animal populations appears likely. Yet, due to die-off rarity and unpredictability, there have been few large-scale attempts to quantify the relationship between mass die-offs and local environmental temperatures. Here, we address this issue by analysing a database of 502 freshwater fish die-offs combined with lake-specific temperature profiles simulated for north temperate lake ecosystems. Die-offs driven by extreme summer conditions occurred disproportionately in lakes with warmer average surface temperatures and during periods of extreme heat. In contrast, we observed no relationships between current thermal extremes and die-offs attributed to infectious disease or winter environmental conditions. We forecast fish die-offs driven by summer environmental conditions to double by mid-century for north temperate lakes (2041–2059) and to increase more than fourfold by late century (2081–2099), particularly at southern latitudes. These results expose a direct link between novel temperature regimes and the increased probability of catastrophic ecological events in freshwater ecosystems.

Fish-Habitat Relationships Along the Estuarine Gradient of the Sacramento-San Joaquin Delta, California: Implications for Habitat Restoration

Estuaries and Coasts (Springer) | June 6th, 2018

Estuaries are highly variable environments where fish are subjected to a diverse suite of habitat features (e.g., water quality gradients, physical structure) that filt

Estuaries are highly variable environments where fish are subjected to a diverse suite of habitat features (e.g., water quality gradients, physical structure) that filter local assemblages from a broader, regional species pool. Tidal, climatological, and oceanographic phenomena drive water quality gradients and, ultimately, expose individuals to other habitat features (e.g., stationary physical or biological elements, such as bathymetry or vegetation). Relationships between fish abundances, water quality gradients, and other habitat features in the Sacramento-San Joaquin Delta were examined as a case example to learn how habitat features serve as filters to structure local assemblages in large river-dominated estuaries. Fish communities were sampled in four tidal lakes along the estuarine gradient during summer-fall 2010 and 2011 and relationships with habitat features explored using ordination and generalized linear mixed models (GLMMs). Based on ordination results, landscape-level gradients in salinity, turbidity, and elevation were associated with distinct fish assemblages among tidal lakes. Native fishes were associated with increased salinity and turbidity, and decreased elevation. Within tidal lakes, GLMM results demonstrated that submersed aquatic vegetation density was the dominant driver of individual fish species densities. Both native and non-native species were associated with submersed aquatic vegetation, although native and non-native fish populations only minimally overlapped. These results help to provide a framework for predicting fish species assemblages in novel or changing habitats as they indicate that species assemblages are driven by a combination of location within the estuarine gradient and site-specific habitat features.

FLOOD- MAR Using Flood Water for Managed Aquifer Recharge to Support Sustainable Water Resources

California Department of Water Resources (DWR) | June 26th, 2018

The effects of climate change are necessitating wholesale changes in how water is managed in California.  With less water storage from snowpack, California needs to leve

The effects of climate change are necessitating wholesale changes in how water is managed in California.  With less water storage from snowpack, California needs to leverage both the current water system and new opportunities to provide sustainable alternatives that can simultaneously accommodate longer and deeper droughts, and more severe, and frequent, episodic and seasonal flooding. This recent cycle of drought and flood, and the passage of the Sustainable Groundwater Management Act (SGMA), provide an enhanced opportunity to modernize State policies related to the nexus between flood management, land use, groundwater management, and ecosystem enhancement. Partnerships, among DWR; other State, federal, tribal, regional, and local entities; and university and private researchers, are actively exploring opportunities to determine how flood and groundwater management can be integrated for multiple benefits. Although integrating flood and groundwater management is not a new concept, the time is ripe to implement an expanded, large-scale integrated program. With the passage and early implementation of SGMA, in combination with climate-induced extreme events, the logic for communities to partner and integrate is evident and imperative. This partnership will help reduce the impacts of future swings between high- and low-flow periods while meeting their communities’ objectives, with the added benefits of improving floodplain ecosystems, preserving working landscapes, and engaging California’s agricultural community in needed solutions, among others. This white paper explores “Flood-MAR”, an integrated and voluntary resource management strategy that uses flood water resulting from, or in anticipation of, rainfall or snowmelt for groundwater recharge on agricultural lands and working landscapes, including but not limited to refuges, floodplains, and flood bypasses. Large-scale implementation of Flood-MAR will fundamentally change how flood and groundwater management are managed. Flood-MAR can be implemented at multiple scales, from individual landowners diverting flood water with existing infrastructure, to using extensive detention/recharge areas and modernizing flood protection infrastructure/operations. Flood-MAR’s potential and value for California is achieved by integrating Flood-MAR with other regional recharge efforts, changing management of California’s water system to better integrate surface water and groundwater, upgrading conveyance, storage, and operations, and considering Flood-MAR’s opportunities as related to water transport and transfers are some of the system integration considerations. This white paper demonstrates the need for Flood-MAR to become an important part of California’s portfolio of water resource management strategies, now and in the future, to help significantly improve water resources sustainability and climate resiliency throughout the state.  Using Flood Water for Managed Aquifer Recharge Can Provide Broad Benefits. There is a clear State interest in encouraging, and participating in, Flood-MAR projects because they can provide broad and multiple public and private benefits for Californians and the ecosystems of the state. Potential public benefits include: - Flood Risk Reduction. - Drought Preparedness. - Aquifer Replenishment. - Ecosystem Enhancement. - Subsidence Mitigation. - Water Quality Improvement. - Working Landscape Preservation and Stewardship.

Floodplain farm fields provide novel rearing habitat for Chinook salmon

PLOS | June 7th, 2016

When inundated by floodwaters, river floodplains provide critical habitat for many species of fish and wildlife, but many river valleys have been extensively leveed and f

When inundated by floodwaters, river floodplains provide critical habitat for many species of fish and wildlife, but many river valleys have been extensively leveed and floodplain wetlands drained for flood control and agriculture. In the Central Valley of California, USA, where less than 5% of floodplain wetland habitats remain, a critical conservation question is how can farmland occupying the historical floodplains be better managed to improve benefits for native fish and wildlife. In this study fields on the Sacramento River floodplain were intentionally flooded after the autumn rice harvest to determine if they could provide shallow-water rearing habitat for Sacramento River fall-run Chinook salmon (Oncorhynchus tshawytscha). Approximately 10,000 juvenile fish (ca. 48 mm, 1.1 g) were reared on two hectares for six weeks (Feb-March) between the fall harvest and spring planting. A subsample of the fish were uniquely tagged to allow tracking of individual growth rates (average 0.76 mm/day) which were among the highest recorded in fresh water in California. Zooplankton sampled from the water column of the fields were compared to fish stomach contents. The primary prey was zooplankton in the order Cladocera, commonly called water fleas. The compatibility, on the same farm fields, of summer crop production and native fish habitat during winter demonstrates that land management combining agriculture with conservation ecology may benefit recovery of native fish species, such as endangered Chinook salmon.

Flow Recommendations to the State Water Resources Control Board

California Department of Fish and Wildlife (CDFW) | May 22nd, 2008

Pursuant to Public Resouces Code (PRC) Section 10001, in the early 1980s, the Department of Fish and Game (DFG) in coordination with all regional DFG offices, identified

Pursuant to Public Resouces Code (PRC) Section 10001, in the early 1980s, the Department of Fish and Game (DFG) in coordination with all regional DFG offices, identified 21 streams and watercourses for which minimum flow levels needed to be established in order to assure the continued viability of stream-related fish and wildlife resources. Over approximately 20 years, DFG investigated the instream flow needs of these listed streams and watercourses.  The investigations included field studies, data analyses, and consultations with local, state, and federal agencies and interested individuals and organizations.  As a result of the investigations, DFG prepared instream flow recommendations for the listed streams. The attached transmittal summarizes the flow recommendations prepared by DFG pursuant to PRC 10000.  Submission of these recommendations to the State Water Resources Control Board (SWRCB) complies with PRC Section 10002. As will be evident upon review, the attached flow recommendations are intended to supplement, but not replace, current administrative records.  The attached flow recommendations should not be implemented by the SWRCB without further investigation and consideration of supporting information that would identify constraints or limitations that qualify each recommendation. In addition, as noted on each recommendation, some studies were done many years ago using early methods.  DFG has established an administrative file in the Water Branch that contains the resource documents cited in the flow recommendations.

Flows and Fishes in the Sacramento-San Joaquin Delta

Delta Stewardship Council (Delta Council) | August 1st, 2015

Record-low counts of Delta smelt at a time of persistent drought underscore the importance and challenges of managing freshwater flows for the benefit of fishes in the Sa

Record-low counts of Delta smelt at a time of persistent drought underscore the importance and challenges of managing freshwater flows for the benefit of fishes in the Sacramento-San Joaquin Delta while also meeting human demands for water. Understanding the effects of water flows on fishes is central to understanding how the Delta ecosystem functions and is key to achieving the state’s coequal goals of “providing a more reliable water supply for California and protecting, restoring and enhancing the Delta ecosystem … in a manner that protects and enhances … the values of Delta as an evolving place”. The economic, ecological, and social costs of scientific uncertainty in water management controversies are significant - and to some degree unavoidable. Scientific findings that relate fishes and flows increasingly guide decisions on how to manage flows for the well-being of threatened or endangered species in the Delta. Many studies – and management decisions – rely on correlations between water flows and fish populations. But the decisions warrant fuller understanding of precisely how the flows affect the fishes. Knowledge of these underlying mechanisms is likely to facilitate adaptive management by clarifying uncertainty and risk, by creating specific expectations for outcomes and by strengthening testable hypotheses. This report therefore recommends, first and foremost (there are other recommendations as well), redoubling effects to identify causes and effects concerning fishes and flows in the Delta.

Focused groundwater recharge in the Amargosa Desert basin

U.S. Geological Survey (USGS) | July 1st, 2007

 The Amargosa River is an approximately 300-kilometer-long regional drainage connecting the northern highlands on the Nevada Test Site in Nye County, Nev., to the floor

 The Amargosa River is an approximately 300-kilometer-long regional drainage connecting the northern highlands on the Nevada Test Site in Nye County, Nev., to the floor of Death Valley in Inyo County, Calif. Streamflow analysis indicates that the Amargosa Desert portion of the river is dry more than 98 percent of the time. Infiltration losses during ephemeral flows of the Amargosa River and Fortymile Wash provide the main sources of ground-water recharge on the desert-basin floor. The primary use of ground water is for irrigated agriculture. The current study examined ground-water recharge from ephemeral flows in the Amargosa River by using streamflow data and environmental tracers. The USGS streamflow-gaging station at Beatty, Nev., provided high-frequency data on base flow and storm runoff entering the basin during water years 1998–2001. Discharge into the basin during the four-year period totaled 3.03 million cubic meters, three quarters of which was base flow. Streambed temperature anomalies indicated the distribution of ephemeral flows and infiltration losses within the basin. Major storms that produced regional flow during the four-year period occurred in February 1998, during a strong El Niño that more than doubled annual precipitation, and in July 1999. The study also quantified recharge beneath undisturbed native vegetation and irrigation return flow beneath irrigated fields. Vertical profiles of water potential and environmental tracers in the unsaturated zone provided estimates of recharge beneath the river channel (0.04–0.09 meter per year) and irrigated fields (0.1–0.5 meter per year). Chloride mass-balance estimates indicate that 12–15 percent of channel infiltration becomes ground-water recharge, together with 9–22 percent of infiltrated irrigation. Profiles of potential and chloride beneath the dominant desert-shrub vegetation suggest that ground-water recharge has been negligible throughout most of the basin since at least the early Holocene. Surface-based electrical-resistivity imaging provided areal extension of borehole information from sampled profiles. These images indicate narrowly focused recharge beneath the Amargosa River channel, flanked by large tracts of recharge-free basin floor.