Losses of Sacramento River Chinook Salmon and Delta Smelt to Entrainment in Water Diversions in the Sacramento-San Joaquin Delta

University of California, Davis (UC Davis) | June 30th, 2008

Pumping at the water export facilities in the southern Sacramento-San Joaquin Delta kills fish at and near the associated fish-salvage facilities. Correlative analyses of

Pumping at the water export facilities in the southern Sacramento-San Joaquin Delta kills fish at and near the associated fish-salvage facilities. Correlative analyses of salvage counts with population indices have failed to provide quantitative estimates of the magnitude of this mortality. I estimated the proportional losses of Sacramento River Chinook salmon (Oncorhynchus tshawytscha) and delta smelt (Hypomesus transpacificus) to place these losses in a population context. The estimate for salmon was based on recoveries of tagged smolts released in the upper Sacramento River basin, and recovered at the fish-salvage facilities in the south Delta and in a trawling program in the western Delta. The proportion of fish salvaged increased with export flow, with a mean value around 10% at the highest export flows recorded. Mortality was around 10% if pre-salvage losses were about 80%, but this value is nearly unconstrained. Losses of adult delta smelt in winter and young delta smelt in spring were estimated from salvage data (adults) corrected for estimated pre-salvage survival, or from trawl data in the southern Delta (young). These losses were divided by population size and accumulated over the respective seasons. Losses of adult delta smelt were 1–50% (median 15%) although the highest value may have been biased upward. Daily losses of larvae and juveniles were 0–8%, and seasonal losses accumulated were 0–25% (median 13%). The effect of these losses on population abundance was obscured by subsequent 50-fold variability in survival from summer to fall.

Lower Mill Creek Watershed Conjunctive Use Project: Tehama County, California

California Department of Water Resources (DWR) | November 18th, 2008

In 1920, the Tehama County Superior Court of the State of California adjudicated entitlements to all Mill Creek flow below 203 cubic feet per second (cfs). As such, water

In 1920, the Tehama County Superior Court of the State of California adjudicated entitlements to all Mill Creek flow below 203 cubic feet per second (cfs). As such, water right holders on Mill Creek legally divert a significant portion of the surface water flow for agricultural beneficial use. During certain times of the year, especially during dry or critically dry years, the agricultural demand for surface water can reduce Mill Creek flow and expose in-stream barriers to fish migration. Fishery experts recognize Mill Creek as a high priority stream for the protection and enhancement of Chinook salmon spawning habitat. Mill Creek surface water diverters currently participate in a long-term cooperative management plan to help provide sufficient flow for fish migration while also maintaining irrigation supplies and the recognition of surface water rights. As part of these efforts, Mill Creek water users participate in water lease and groundwater exchange programs designed to increase in-stream flow during critical spring and fall fish migration periods. Along with other entities, the Department of Water Resources (DWR) plans to establish methods of monitoring and studying fish passage, assessing agricultural water use efficiency, and examining the potential for additional use of groundwater as opposed to use of surface water diversions in the Lower Mill Creek watershed. This report provides a background of the geology and hydrogeology in the Lower Mill Creek watershed area, a detailed discussion of the groundwater resources, and an overview of the potential for conjunctive use of surface water and groundwater resources. It also provides recommendations for additional groundwater monitoring and potentially favorable locations for production well installation associated with possible future conjunctive use programs.

Managing California’s Freshwater Ecosystems: Lessons from the 2012-16 Drought

Public Policy Institute of California (PPIC) | November 16th, 2017

The 2012–16 drought caused unprecedented stress to California’s ecosystems and pushed many native species to the brink of extinction. It also tested the laws, policie

The 2012–16 drought caused unprecedented stress to California’s ecosystems and pushed many native species to the brink of extinction. It also tested the laws, policies, and institutions charged with protecting the environment. Eight case studies on environmental water management during the drought reveal both strengths and weaknesses in federal, state, and local response that can inform how California addresses future droughts. Three areas of reform hold promise for improving ecosystem conditions and reducing conflict: * Improve water accounting. Drought management requires accurate and timely information about water use and availability and about likely environmental response to changes in water supply. But California’s current tracking systems are neither timely nor transparent. To address these gaps, environmental water accounting and ecosystem monitoring systems need an overhaul. * Prepare for drought. With a few significant exceptions, environmental water managers were unprepared for the environmental consequences of an extended drought, and were forced to make ad hoc decisions during a crisis. Developing watershed-level plans that set ecosystem priorities and identify trade-offs would help managers anticipate drought and drive implementation of habitat investments and water allocation. Annual watering plans that guide management under different types of water years would better engage and inform water users. * Develop ecosystem water budgets. Current methods of allocating water to support ecosystem health rely on minimum flow standards that are unevenly enforced and often insufficient during drought. Ecosystem water budgets, which allocate a portion of water to the ecosystem within watersheds, could enable more flexible and effective water management during dry times. Although state and federal agencies have important

Managing California’s Freshwater Ecosystems: Lessons from the 2012–16 Drought

Public Policy Institute of California (PPIC) | November 9th, 2017

The 2012–16 drought caused unprecedented stress to California’s ecosystems and pushed many native species to the brink of extinction. It also tested the laws, policie

The 2012–16 drought caused unprecedented stress to California’s ecosystems and pushed many native species to the brink of extinction. It also tested the laws, policies, and institutions charged with protecting the environment. Eight case studies on environmental water management during the drought reveal both strengths and weaknesses in federal, state, and local response that can inform how California addresses future droughts.

Managing diversions in unregulated streams using a modified percent-of-flow approach

Freshwater Biology (Wiley) | August 22nd, 2017

In Mediterranean-type river systems stream flows are naturally low in summer and autumn. This pattern is often exacerbated by over-exploitation of water resources during

In Mediterranean-type river systems stream flows are naturally low in summer and autumn. This pattern is often exacerbated by over-exploitation of water resources during the dry season, which has implications for managing flows for both environmental and human needs. Mediterranean systems are characterised by strong inter- and intra-annual variability with almost all precipitation occurring in winter months followed by summer droughts with little or no rainfall, and extreme year-to-year variation ranging from intense winter storms to year-round drought (Gasith & Resh, 1999; Power, Kupferberg, Cooper, & Deas, 2015; Power, Parker, & Dietrich, 2008). The seasonal pattern of precipitation in Mediterranean climatic regions results in water availability and demand being out-of-phase; precipitation and runoff occur (almost exclusively) in winter when human demands are lowest, and precipitation is virtually non-existent in summer months when human demand is greatest (Kondolf & Batalla, 2005; Merenlender & Matella, 2013). As a result, rivers in Mediterranean climates tend to have a high degree of alteration with streamsdiverted and dammed to provide scarce water for human use (Kondolf, Podolak, & Grantham, 2013; Marr et al., 2009; Moyle, 2013). While the biophysical responses to alterations of land use, vegetation and hydrology are similar in Mediterranean and other climatic regions, the magnitude of responses tends to be intensified in Mediterranean systems. For example prolonged dry season flows may result in lower dissolved oxygen, higher temperatures and concentration of contaminants among other impacts (Cooper, Lake, Sabater, Melack, & Sabo, 2013). Climate change and increasing frequency and severity of drought promise to increase the conflict between human needs and ecological needs over time (Arthington, 2012).

Managing Freshwater Discharge to the San Francisco Bay/Sacramento-San Joaquin Delta Estuary―The Scientific Basis for an Estuarine Standard

San Francisco Estuary Project | October 26th, 1992

Aquatic resources of the Sacramento-San Joaquin Delta and upper portions of San Francisco Bay have undergone significant declines over the past several decades. Species c

Aquatic resources of the Sacramento-San Joaquin Delta and upper portions of San Francisco Bay have undergone significant declines over the past several decades. Species characteristic of the Delta and rivers, such as striped bass and salmon, began to decline during the late 1970s. Prolonged drought, large diversions of fresh water, and dramatic increases in populations of introduced aquatic species during the 1980s and 1990s brought a number of indigenous aquatic species to extremely low levels. Species that spend more of their lives downstream of the Delta, including Delta smelt, longfin smelt, and many zooplankton, maintained large populations through the 1970s, but declined sharply after the mid-1980s. Declines in aquatic resources have led to curtailed fishing seasons, to petitions for endangered species status, and general concern about the health of the estuarine ecosystem.

Managing Surface Water-Groundwater to Restore Fall Flows in the Cosumnes River

American Society of Civil Engineers (ASCE) | June 15th, 2004

Declining fall flows are limiting the ability of the Cosumnes River to support large fall runs of Chinook salmon. Management scenarios linking surface water and g

Declining fall flows are limiting the ability of the Cosumnes River to support large fall runs of Chinook salmon. Management scenarios linking surface water and groundwater alternatives to provide sufficient fall flows are examined using groundwater flow and channel routing models. Results show that groundwater overdraft in the basin has converted the river to a predominantly losing stream, practically eliminating base flows. Management alternatives to increase net recharge for example, pumping reductions were examined along with surface water augmentation options. Using a minimum depth standard for fish passage, average surface water flow deficits were computed for the migration period of Chinook salmon. Groundwater deficits were evaluated by comparing simulated current groundwater conditions with conditions under various scenarios. Increases in net recharge on the order of 200 to 300 million m3/year would be required to reconnect the regional aquifer with the channel and in turn reestablish perennial base flows. Options that combine surface water augmentation with groundwater management are most likely to ensure sufficient river flows in the short term and to support long-term restoration of regional groundwater levels.

Marine heat wave and multiple stressors tip bull kelp forest to sea urchin barrens

Nature Portfolio (Springer Nature) | October 21st, 2019

Extreme climatic events have recently impacted marine ecosystems around the world, including foundation species such as corals and kelps. Here, we describe the

Extreme climatic events have recently impacted marine ecosystems around the world, including foundation species such as corals and kelps. Here, we describe the rapid climate-driven catastrophic shift in 2014 from a previously robust kelp forest to unproductive large scale urchin barrens in Northern California. Bull kelp canopy was reduced by >90% along more than 350 km of coastline. Twenty years of kelp ecosystem surveys reveal the timing and magnitude of events, including mass mortalities of sea stars (2013-), intense ocean warming (2014–2017), and sea urchin barrens (2015-). Multiple stressors led to the unprecedented and long-lasting decline of the kelp forest. Kelp deforestation triggered mass (80%) abalone mortality (2017) resulting in the closure in 2018 of the recreational abalone fishery worth an estimated $44 M and the collapse of the north coast commercial red sea urchin fishery (2015-) worth $3 M. Key questions remain such as the relative roles of ocean warming and sea star disease in the massive purple sea urchin population increase. Science and policy will need to partner to better understand drivers, build climate-resilient fisheries and kelp forest recovery strategies in order to restore essential kelp forest ecosystem services.

Marine heatwaves need clear definitions so coastal communities can adapt

Nature Portfolio (Springer Nature) | April 3rd, 2023

Mark/Recapture Experiments at Clifton Court Forebay to Estimate Pre-Screening Loss to Juvenile Fishes: 1976-1993

California Department of Fish and Wildlife (CDFW) | September 30th, 1997

From October 1976 through November 1993, the California Department of Fish and Game conducted mark/recapture experiments at Clifton Court Forebay, designed to estimate pr

From October 1976 through November 1993, the California Department of Fish and Game conducted mark/recapture experiments at Clifton Court Forebay, designed to estimate pre-screen loss to entrained juvenile fishes. Ten studies were conducted; eight evaluated losses to hatchery-reared juvenile chinook salmon, and two evaluated losses to hatchery-reared juvenile striped bass. Pre-screen loss was calculated from the proportion of marked fish released at the radial gates that were subsequently recaptured during salvage operations at Skinner Fish Facility. The proportion was adjusted for handling mortality, fish facility louver effiCiency, and any subsampling at the facility. Studies were conducted across a wide range of environmental conditions and State Water Project operations, with a wide range in the size ofexperimental fish. Pre-screen loss estimates for juvenile chinook salmon were 63-99%. Potential biases in estimates of pre-screen loss may be due to (1) the calculation for pre-screen loss, (2) underrepresentative and over-representative salvage of experimental fish at Skinner Fish Facility, and (3) the introduction of experimental fish directly into Clifton Court Forebay. A multiple-regression analysis of pre-screen loss to juvenile salmon showed that 91% of the variance in pre-screen loss can be explained by export rate, experimental fish size, and water temperature.