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Central Valley Flood Protection Plan Appendix K. Synthesis of Fish Migration Improvement Opportunities in the Central Valley Flood System

California Department of Water Resources (DWR) | July 14th, 2016

Summary

Many instream structures in the Central Valley adversely affect native anadromous fish migration. These structures, often referred to as fish passage barriers, reduce or

Many instream structures in the Central Valley adversely affect native anadromous fish migration. These structures, often referred to as fish passage barriers, reduce or eliminate longitudinal habitat connectivity; prevent or limit access to critical spawning, rearing, and refuge habitat; create migration delays; and create lethal or sublethal conditions for native anadromous species (California Department of Water Resources [DWR] 2012a, 2014; National Marine Fisheries Service [NMFS] 2014). Fish passage barriers associated with the Central Valley flood system trigger compliance requirements under the federal and California Endangered Species Acts; necessitate recurring fish rescues; and impel additional permitting requirements, such as long-term mitigation (NMFS 2009; Vogel 2011; DWR 2012b; Johnson and Vincik 2012; Cannon 2013; Heise 2013; Hendrick and Swart 2013). Identification of migration impediments and associated improvement opportunities in the flood system is needed for integrated flood management planning. Fish migration improvements can be integrated into flood risk reduction projects1 to yield cost efficiencies in the project planning and implementation phases, and they may result in long-term economic and environmental benefits (DWR 2014). Two documents, the Fish Passage Assessment (Attachment 9C of the Central Valley Flood Protection Plan [CVFPP]) and the Draft Central Valley Flood System Fish Migration Improvement Opportunities (FMIO) report have been prepared to assist in identifying and prioritizing fish migration improvement opportunities in the flood system.

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Central Valley Project Improvement Act Implementation Plan For Fish Programs

U.S. Bureau of Reclamation (USBR) | July 20th, 2015

Summary

The purpose of this Plan is to describe the approach for prioritizing and implementing the anadromous fish-related provisions under the CVPIA over the next 5-10 years. Th

The purpose of this Plan is to describe the approach for prioritizing and implementing the anadromous fish-related provisions under the CVPIA over the next 5-10 years. This Plan will build upon the Final Restoration Plan (FRP, USFWS 2001) to integrate a decision-making framework across all programs with the goal of making all reasonable efforts to at least double natural production of anadromous fish in California’s Central Valley on a long-term, sustainable basis. The Plan develops an annual process for setting priorities and funding projects across CVPIA fish-related provisions and watersheds in the Central Valley. The new process uses an Adaptive Resource Management (ARM) approach with support from Decision-Support Models (DSMs) to prioritize implementation of management actions that have the highest probability of achieving biological objectives for wild populations of native anadromous fish. The ARM approach will also guide plans for monitoring and research by synthesizing existing monitoring data, annually updating DSMs using new information, and estimating the value of new information to the decision making process.

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Changes in abundance and distribution of native and alien fishes of Suisun Marsh

American Fisheries Society (AFS) | July 29th, 1994

Summary

Overall fish abundance, abundance of introduced, native, and seasonal fish groups, and species diversity declined over a 14‐year period in Suisun Marsh, a portion of th

Overall fish abundance, abundance of introduced, native, and seasonal fish groups, and species diversity declined over a 14‐year period in Suisun Marsh, a portion of the San Francisco Bay estuary, and were associated with decreases in freshwater outflow and increases in salinity. Fish groups showed different patterns of abundance; large fluctuations in introduced and seasonal fish groups contrasted with a steady decline in native fish. Native species were found more often in small, dead‐end sloughs, seasonal species were found in larger sloughs, and introduced species were found in both habitats. Fish assemblage structure was less predictable than in an earlier (and shorter) study of the same community. Mixed groups of native and introduced species with similar freshwater and seasonal needs reflected effects of drought and increasing water diversions from the estuary. Chameleon goby Tridentiger trigonocephalus and yellowfin goby Acanthogobius flavimanus, two introduced species, fluctuated greatly in abundance in recent years, whereas other species declined steadily. Changes in fish abundance in the marsh reflect estuary‐wide changes and suggest that environmental disturbances coupled with introduced species are altering fish communities and hastening native fish declines.

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Chinook salmon and green sturgeon migrate through San Francisco Estuary despite large distortions in the local magnetic field produced by bridges

PLOS | June 2nd, 2017

Summary

Empirical evidence exists that some marine animals perceive and orient to local distortions in the earth’s main static geomagnetic field. The magnetic fields produced b

Empirical evidence exists that some marine animals perceive and orient to local distortions in the earth’s main static geomagnetic field. The magnetic fields produced by undersea electric power cables that carry electricity from hydrokinetic energy sources to shore-based power stations may produce similar local distortions in the earth’s main field. Concerns exist that animals migrating along the continental shelves might orient to the magnetic field from the cables, and move either inshore or offshore away from their normal path. We have studied the effect of the Trans Bay Cable (TBC), an 85-km long, high voltage, direct current (DC) transmission line leading underwater from Pittsburg, CA to San Francisco, CA, on fishes migrating through the San Francisco Estuary. These included Chinook salmon smolts (Oncorhynchus tshawytscha) that migrate downstream through the San Francisco Estuary to the Pacific Ocean and adult green sturgeon (Acipenser medirostris), which migrate upstream from the ocean through the estuary to their spawning habitat in the upper Sacramento River and return to the ocean after spawning occurs. Based on a detailed gradiometer survey, we found that the distortions in the earth’s main field produced by bridges across the estuary were much greater than those from the Trans Bay Cable. The former anomalies exceeded the latter by an order of magnitude or more. Significant numbers of tagged Chinook salmon smolts migrated past bridges, which produced strong magnetic anomalies, to the Golden Gate Bridge, where they were recorded by dual arrays of acoustic tag-detecting monitors moored in lines across the mouth of the bay. In addition, adult green sturgeon successfully swam upstream and downstream through the estuary on the way to and from their spawning grounds. Hence, the large anomalies produced by the bridges do not appear to present a strong barrier to the natural seasonal movement patterns of salmonid smolts and adult green sturgeon.

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Classifying California’s stream thermal regimes for cold-water conservation

PLOS | August 20th, 2021

Summary

Stream temperature science and management is rapidly shifting from single-metric driven approaches to multi-metric, thermal regime characterizations of streamscapes. Giv

Stream temperature science and management is rapidly shifting from single-metric driven approaches to multi-metric, thermal regime characterizations of streamscapes. Given considerable investments in recovery of cold-water fisheries (e.g., Pacific salmon and other declining native species), understanding where cold water is likely to persist, and how coldwater thermal regimes vary, is critical for conservation. California’s unique position at the southern end of cold-water ecosystems in the northern hemisphere, variable geography and hydrology, and extensive flow regulation requires a systematic approach to thermal regime classification. We used publicly available, long-term (> 8 years) stream temperature data from 77 sites across California to model their thermal regimes, calculate three temperature metrics, and use the metrics to classify each regime with an agglomerative nesting algorithm. Then, we assessed the variation in each class and considered underlying physical or anthropogenic factors that could explain differences between classes. Finally, we considered how different classes might fit existing criteria for cool- or cold-water thermal regimes, and how those differences complicate efforts to manage stream temperature through regulation. Our results demonstrate that cool- and cold-water thermal regimes vary spatially across California. Several salient findings emerge from this study. Groundwater-dominated streams are a ubiquitous, but as yet, poorly explored class of thermal regimes. Further, flow regulation below dams imposes serial discontinuities, including artificial thermal regimes on downstream ecosystems. Finally, and contrary to what is often assumed, California reservoirs do not contain sufficient cold-water storage to replicate desirable, reach-scale thermal regimes. While barriers to cold-water conservation are considerable and the trajectory of cold-water species towards extinction is dire, protecting reaches that demonstrate resilience to climate warming remains worthwhile.

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Compliance with D-1641 San Joaquin River October Flow Requirements

California State Water Resources Control Board (SWRCB) | October 9th, 2023

Summary

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CVFPP Conservation Strategy Appendix H. Central Valley Chinook Salmon Rearing Habitat Required to Satisfy the Anadromous Fish Restoration Program Doubling Goal

California Department of Water Resources (DWR) | July 14th, 2016

Summary

NewFields and Cramer Fish Sciences, in collaboration with the California Department of Water Resources FloodSAFE Environmental Stewardship and Statewide Resources

NewFields and Cramer Fish Sciences, in collaboration with the California Department of Water Resources FloodSAFE Environmental Stewardship and Statewide Resources Office Conservation Strategy team, applied best available tools and data to estimate the area of suitable juvenile salmonid rearing habitat required in each of the Conservation Planning Areas (CPAs) to achieve the Anadromous Fish Restoration Program (AFRP) “doubling goal” for Chinook salmon populations. The AFRP goal was used to align the Conservation Strategy objectives with existing,longstanding efforts by partner resource management agencies. Historical and existing suitable rearing habitat area for juvenile salmonids was estimated with the Estimated Annual Habitat approach that uses measured hydrology and modeled hydraulic relationships between river flow and inundation area to calculate areas of inundation with timing, duration, and frequency suitable for juvenile California Chinook salmon rearing. The rearing habitat required to support the doubling goal populations was estimated using the Emigrating Salmonid Habitat Estimation model. The details of the approach and the full range of calculated results are presented in the following sections and appendices.

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CVPIA 10 Years of Progress

U.S. Bureau of Reclamation (USBR) | June 27th, 2015

Summary

In 1992, Congress passed the Central Valley Project Improvement Act (Act, or CVPIA), which amended previous authorizations of the California Central Valley Project (CVP)

In 1992, Congress passed the Central Valley Project Improvement Act (Act, or CVPIA), which amended previous authorizations of the California Central Valley Project (CVP) to include fish and wildlife protection, restoration, enhancement, and mitigation as project purposes having equal priority with power generation, and irrigation and domestic water uses. Congress directed the Secretary of the Interior, through the Bureau of Reclamation (Reclamation) and the U.S. Fish and Wildlife Service (Service), to operate the CVP consistent with the purposes of the Act, to meet the Federal trust responsibilities to protect the fishery resources of affected Federally recognized Indian tribes, and to achieve a reasonable balance among competing demands for use of CVP water. For the past 10 years, Reclamation and the Service, working together to implement the CVPIA, have embarked on one of the Nation’s largest fish and wildlife restoration efforts. Reclamation and the Service have developed programs to improve environmental conditions and modify operations, management, and physical facilities, and thus, the associated environmental conditions of the CVP to comply with the purposes and goals of the Act. All of the Act’s restoration measures are planned and implemented by Reclamation and the Service and coordinated with the State of California, CALFED, and other partners. In the following pages, you will find a summary of the protection, restoration, enhancement, and mitigation measures that have been implemented as of the end of fiscal year 2002, demonstrating the contributions Reclamation and the Service have made to the Central Valley. As you read the summary, it should become clear that progress is being made in unprecedented programs, and advancements have been made in resolving complicated watershed issues throughout the Central Valley. Yet much work lies ahead.

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Decoupling outmigration from marine survival indicates outsized influence of streamflow on cohort success for California’s Chinook salmon populations

Canadian Journal of Fisheries and Aquatic Sciences (Canadian Science Publishing) | October 17th, 2018

Summary

Historically, marine survival estimates for salmon have been confounded with freshwater seaward migration (outmigration) survival. Telemetry studies have revealed low and

Historically, marine survival estimates for salmon have been confounded with freshwater seaward migration (outmigration) survival. Telemetry studies have revealed low and variable survival during outmigration, suggesting marine mortality may not be the primary source of variability in cohort size as previously believed. Using a novel combination of tagging technologies, survival during these two life stages was decoupled over 5 years for Sacramento River Chinook salmon (Oncorhynchus tshawytscha). Outmigration survival ranged from 2.6% to 17%, and marine survival ranged from 4.2% to 22.8%. Influential environmental drivers in both life stages were also compared with smolt-to-adult ratios (SAR) for three Chinook salmon populations over 20 years. Streamflow during outmigration had higher correlation with SAR (r2 > 0.34) than two marine productivity indices (r2 < 0.08). The few SAR estimates that were poorly predicted by flow occurred during years with the lowest marine productivity, suggesting most interannual SAR fluctuations are explained by outmigration survival, but abnormally poor marine conditions also reduce SAR. The outsized influence of flow on SAR provides managers with a powerful mitigation tool in a watershed where flow is tightly regulated.

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Delta Operations for Salmonids and Sturgeon (DOSS) Technical Working Group

Delta Stewardship Council (Delta Council) | November 1st, 2018

Summary

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Fremont Valley 6-046
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Imperial Valley 7-030
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Ivanpah Valley 6-030
Jacumba Valley 7-047
Johnson Valley - Soggy Lake 7-018.01
Johnson Valley - Upper Johnson Valley 7-018.02
Joshua Tree 7-062
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Kelso Valley 6-031
Lanfair Valley 7-001
Langford Valley - Irwin 6036.02
Langford Valley - Langford Well Lake 6-036.01
Langford Valley 6-036.02
Las Posas Valley 4-008
Lavic Valley 7-014
Leach Valley 6-027
Lockwood Valley 4-017
Long Valley 6-011
Los Osos Valley - Los Osos 3-008.01
Los Osos Valley - Warden Creek 3-008.02
Lost Horse Valley 7-051
Lower Kingston Valley 6-021
Lower Mojave River Valley 6-040
Lucerne Valley 7-019
Malibu Valley 4-022
Means Valley 7-017
Mesquite Valley 6-029
Middle Amargosa Valley - 6-020
Middle Mojave River Valley 6-041
Mission Valley 9-014
Modoc) 5-004
Morongo Valley 7-020
Morro Valley 3-041
Napa-Sonoma Valley - Napa-Sonoma Lowlands 2-002.03
Needles Valley 7-044
Ocotillo-Clark Valley 7-025
Ogilby Valley 7-035
Ojai Valley 4-002
Orocopia Valley - 7-031
Owens Valley - Fish Slough 6-012.02
Owens Valley 6-012.01
Owl Lake Valley 6-088
Pahrump Valley 6-028
Palo Verde Mesa 7-039
Palo Verde Valley 7-038
Pamo Valley 9-024
Panamint Valley 6-058
Peach Tree Valley 3-032
Petaluma Valley 2-001
Pilot Knob Valley 6-051
Pinto Valley 7-006
Pipes Canyon Fault Valley 7-049
Pittsburgh Plain 2-004
Piute Valley 7-045
Pleasant Valley 4-006
Potrero Valley 9-029
Poway Valley 9-013
Raymond 4-023
Red Pass Valley 6-024
Redding Area - Anderson 5-006.03
Redding Area - Bowman 5-006.01
Redding Area - Enterprise 5-006.04
Redding Area - Millville 5-006.05
Redding Area - South Battle Creek 5-006.06
Rice Valley 7-004
Riggs Valley 6-023
Russell Valley 4-020
Sacramento Valley - Antelope 5-021.54
Sacramento Valley - Bend 5-021.53
Sacramento Valley - Butte 5-021.70
Sacramento Valley - Colusa 5-021.52
Sacramento Valley - Corning 5-021.51
Sacramento Valley - Los Molinos 5-021.56
Sacramento Valley - North American (5-021.64)
Sacramento Valley - North Yuba 5-021.60
Sacramento Valley - Red Bluff 5-021.50
Sacramento Valley - Solano 5-021.66
Sacramento Valley - South American 5-021.65
Sacramento Valley - South Yuba 5-021.61
Sacramento Valley - Sutter 5-021.62
Sacramento Valley - Vina 5-021.57
Sacramento Valley - Wyandotte Creek 5-021.69
Sacramento Valley - Yolo 5021.67
Salinas Valley - 180/400 Foot Aquifer 3-004.01
Salinas Valley - Atascadero Area 3-004.11
Salinas Valley - East Side Aquifer 3-004.02
Salinas Valley - Forebay Aquifer 3-004.04
Salinas Valley - Langley Area 3-004.09
Salinas Valley - Monterey 3-004.10
Salinas Valley - Paso Robles Area 3-004.06
Salinas Valley - Upper Valley Aquifer 3-004.05
Saline Valley 6-017
Salt Wells Valley 6-053
San Antonio Creek Valley 3-014
San Dieguito Creek 9-012
San Elijo Valley 9-023
San Felipe Valley 7-027
San Fernando Valley 4-012
San Gabriel Valley 4-013
San Jacinto 8-005
San Joaquin Valley - Chowchilla 5-022.05
San Joaquin Valley - Cosumnes (5-022.16)
San Joaquin Valley - Delta-Mendota 5-022.07
San Joaquin Valley - East Contra Costa 5-022.19
San Joaquin Valley - Eastern San Joaquin 5-022.01
San Joaquin Valley - Kaweah 5-022.11
San Joaquin Valley - Kern 5-022.14
San Joaquin Valley - Kings 5-022.08
San Joaquin Valley - Madera 5-022.06
San Joaquin Valley - Merced 5-022.04
San Joaquin Valley - Modesto 5-022.02
San Joaquin Valley - Pleasant Valley 5-022.10
San Joaquin Valley - Tracy 5-022.15
San Joaquin Valley - Tulare Lake 5-022.12
San Joaquin Valley - Tule 5-022.13
San Joaquin Valley - Turlock 5-022.03
San Joaquin Valley - Westside 5-022.09
San Joaquin Valley - White Wolf 5-022.18
San Juan Valley 9-001
San Luis Obispo Valley 3-009
San Luis Rey Valley - Lower San Luis Rey Valley 9-007.02
San Luis Rey Valley - Upper San Luis Rey Valley 9-007.01
San Marcos Area 9-032
San Mateo Valley 9-002
San Onofre Valley 9-003
San Pasqual Valley 9-010
Santa Barbara 3-017
Santa Clara River Valley - Fillmore 4-004.05
Santa Clara River Valley - Mound 4-004.03
Santa Clara River Valley - Oxnard 4-004.02
Santa Clara River Valley - Piru 4-004.06
Santa Clara River Valley - Santa Clara River Valley East 4-004.07
Santa Clara River Valley - Santa Paula 4-004.04
Santa Clara Valley - East Bay Plain 2-009.04
Santa Clara Valley - Niles Cone 2-009.01
Santa Clara Valley - San Mateo Plain 2-009.03
Santa Clara Valley - Santa Clara 2-009.02
Santa Cruz Mid-County 3-001
Santa Margarita 3-027
Santa Maria River Valley - Arroyo Grande 3-012.02
Santa Maria River Valley - Santa Maria 3-012.01
Santa Maria River Valley 3-012.02
Santa Maria Valley 9-011
Santa Rosa Valley - Santa Rosa Plain 1-055.01
Santa Ynez River Valley 3-015
Scott River Valley 1-005
Searles Valley 6-052
Seven Oaks Valley 8-008
Shasta Valley 1-004
Sierra Valley 5-012.01
Silver Lake Valley 6-034
Simi Valley 4-009
Soda Lake Valley 6-033
South San Diego River Valley 9-015
Superior Valley 6-049
Temecula Valley 9-005
Terwilliger Valley 7-026
Thousand Oaks Area 4-019
Tule Lake 1-002-01
Twentynine Palms Valley 7-010
Ukiah Valley 1-052
Upper Kingston Valley 6-022
Upper Mojave River Valley 6-042
Upper Ojai Valley 4-001
Upper Santa Ana Valley - Chino 8-002.01
Upper Santa Ana Valley - Cucamonga 8-002.02
Upper Santa Ana Valley - Rialto-Colton 8-002.04
Upper Santa Ana Valley - Riverside-Arlington 8-002.03
Upper Santa Ana Valley - San Bernardino 8-002.06
Upper Santa Ana Valley - San Timoteo 8-002.08
Upper Santa Ana Valley - Temescal 8-002.09
Upper Santa Ana Valley - Yucaipa 8-002.07
Vallecito-Carrizo Valley 7-028
Ventura River Valley - Lower Ventura River 4-003.02
Ventura River Valley - Upper Ventura River 4-003.01
Vidal Valley 7-042
Ward Valley 7-003
Warren Valley 7-012
West Salton Sea
Wingate Valley 6-019
Yuma Valley 7-036

Delta Documents Primers on Cal Water Infrastructure, Water Rights and Government

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