Rapid decline of California’s native inland fishes: a status assessment

University of California, Davis (UC Davis) | November 1st, 2010

Degradation of freshwater ecosystems is a global crisis best understood through intensive study of well-studied regional faunas. A quantitative protocol was used

Degradation of freshwater ecosystems is a global crisis best understood through intensive study of well-studied regional faunas. A quantitative protocol was used to determine conservation status of all 129 freshwater fishes native to California. Seven (5%) are extinct; 34 (26%) qualified for listing as endangered or threatened species; 32 (25%) were rated as imperiled, qualifying as California Species of Special Concern, with potential for listing; 34 (26%) rated being on a watch list and 22 (17%) were found to be relatively secure. Of 31 species officially listed under federal and state endangered species acts, 17 (55%) clearly qualified for listing under our criteria and 12 (39%) were rated as species of special concern. Conversely, of 34 extant species with the lowest ratings under our criteria, only 17 (50%) were officially listed. Climate change, area occupied and anthropogenic threats had the largest negative impact on status. Of the 15 categories of anthropogenic threats analyzed, those most likely to diminish status were alien species, agriculture and dams. Overall, 83% of California’s freshwater fishes are extinct, endangered, or in decline, a 16% increase since 1995 and a 21% increase since 1989. The decline seen in California’s inland fishes is probably typical of declines in areas that are less well documented, indicating a strong need for better methods of conservation of freshwater ecosystems.

Recent declines in salmon body size impact ecosystems and fisheries

Nature Portfolio (Springer Nature) | August 19th, 2020

Declines in animal body sizes are widely reported and likely impact ecological interactions and ecosystem services. For harvested species subject to multiple stressors, l

Declines in animal body sizes are widely reported and likely impact ecological interactions and ecosystem services. For harvested species subject to multiple stressors, limited understanding of the causes and consequences of size declines impedes prediction, prevention, and mitigation. We highlight widespread declines in Pacific salmon size based on 60 years of measurements from 12.5 million fish across Alaska, the last largely pristine North American salmon-producing region. Declines in salmon size, primarily resulting from shifting age structure, are associated with climate and competition at sea. Compared to salmon maturing before 1990, the reduced size of adult salmon after 2010 has potentially resulted in substantial losses to ecosystems and people; for Chinook salmon we estimated average per-fish reductions in egg production (−16%), nutrient transport (−28%), fisheries value (−21%), and meals for rural people (−26%). Downsizing of organisms is a global concern, and current trends may pose substantial risks for nature and people.

Recovery plan for Central Valley winter-run chinook salmon, spring-run chinook salmon, and steelhead

National Marine Fisheries Service (NMFS) | July 7th, 2014

Recovery is the process by which listed species and their ecosystems are restored and their future is safeguarded to the point that protections under the Endangered Speci

Recovery is the process by which listed species and their ecosystems are restored and their future is safeguarded to the point that protections under the Endangered Species Act (ESA) are no longer needed. The goal of this Recovery Plan is to recover the endangered Sacramento River winter-run Chinook salmon Evolutionarily Significant Unit (ESU), the threatened Central Valley spring-run Chinook salmon ESU, and the threatened California Central Valley steelhead Distinct Population Segment (DPS). Recovering these species and the Central Valley, San Francisco Bay-Delta Estuary, and Pacific Ocean ecosystems that support them will be challenging and will require shifts in societal values. Californians must work together towards a conservation ethic and practice that ensures wild salmon and steelhead are an important part of coastal California and Central Valley culture for many generations to come.

Recovery Plan for Sacramento-San Joaquin Delta native fishes

U.S. Fish and Wildlife Service (FWS) | November 26th, 1996

Eight fish species are included in the Sacramento-San Joaquin Delta Native Fishes Recovery Plan. The delta smelt is listed as a threatened species. The Sacramento splitta

Eight fish species are included in the Sacramento-San Joaquin Delta Native Fishes Recovery Plan. The delta smelt is listed as a threatened species. The Sacramento splittail (splittail) was proposed as a threatened species on January 6, 1994. This recovery plan will recommend restoration criteria for the splittail that would be appropriate recovery criteria should the species be listed. Longfin smelt, green sturgeon, spring-run, late fall-run, and San Joaquin fall-run chinook salmon are species of concern for which restoration criteria are recommended. Information is also included on Sacramento perch, a species believed to be extirpated from the Delta at this time. Habitat Requirements and Limiting Factors: The eight species included in this recovery plan depend on the Sacramento-San Joaquin Delta for a significant segment of their life history. Threats to the Delta ecosystem and these species include loss of habitat due to increased freshwater exports resulting in increased salinity, loss of shallow-water habitat due to dredging, diking and filling, introduced aquatic species that have disrupted the food chain, and entrainment (movement offish by currents produced by diversions) in State, Federal and private water diversion. State and Federal water projects have also changed the pattern and timing of flows through the Delta. The salmon races are affected by sport and commercial harvest as well as by interactions with hatchery stocks. Recovery and Restoration Objective: Delisting of delta smelt. Restoration of splittail, longfin smelt, green sturgeon, spring-run, late fall-run, San Joaquin fall-run chinook salmon, and Sacramento perch. Recovery and Restoration Criteria: Recovery criteria are quantifiable and species specific and can be used to (1) monitor effectiveness of recovery actions, (2) determine when a species has recovered to a secure level (stabilized), and (3) determine when a species qualifies for delisting. In many cases, criteria are based on two independent measures: population abundance and geographic distribution. For each species a historic base period was established using available data to characterize abundance and distribution during a pre-decline period. The time period over which abundance and distribution criteria must be met was set at five generations. For five of the eight species there is an additional requirement of meeting the criteria through a minimum number of years of stressful environmental conditions. Action Needed: 1. Enhance and restore aquatic and wetland habitat in the Sacramento-San Joaquin River estuary. 2. Reduce effects of commercial and recreational harvest. 3. Reduce effects of introduced aquatic species on Delta native fishes. 4. Change and improve enforcement ofregulatory mechanisms. 5. Conduct monitoring and research on fish biology and management requirements. 6. Assess recovery management actions and re-assess prioritization of actions. 7. Increase public awareness of importance of Delta native fishes.

Relationship of Delta Cross Channel Gate Operations to Loss of Juvenile Winter-run Chinook Salmon at the CVP/SWP Delta Facilities

California Department of Fish and Wildlife (CDFW) | July 1st, 2003

Winter-run Chinook salmon are distinguishable from the three other Chinook runs in the Sacramento River system by the timing of their upstream migration and spawning. Due

Winter-run Chinook salmon are distinguishable from the three other Chinook runs in the Sacramento River system by the timing of their upstream migration and spawning. Due to precipitous decline in the population from the late 1960’s through the late 1980’s, NOAA Fisheries listed the run as “threatened” in August 1989, and subsequently reclassified the run as “endangered” in 1992. The state of California listed the run as endangered in 1989.  Many factors contributed to the decline in the winter-run Chinook population. Among these factors, operation of the federal Central Valley Project and State Water Project has had continuing impacts on winter-run Chinook. Of particular concern have been the direct entrainment losses of juvenile winter-run Chinook at the project export facilities in the Delta. 

Response to the Delta Science Program and Independent Review Panel Report from the 2015 Annual Review of the Long-term Operation Biological Opinions (2015 Annual Review) (January 29, 2016)

Delta Stewardship Council (Delta Council) | January 29th, 2016

Restoration pulse flows from a California dam temporarily increase drifting invertebrate biomass concentration

Journal of Environmental Management (Elsevier) | November 9th, 2022

The decline of Pacific salmon (Oncorhynchus spp.) populations over the last few decades has stimulated major restoration efforts across the Pacific Northwest to improve t

The decline of Pacific salmon (Oncorhynchus spp.) populations over the last few decades has stimulated major restoration efforts across the Pacific Northwest to improve the status of these iconic fishes. The leading factors contributing to the decline of Pacific salmon include watershed degradation and water diversions, which result in part from widespread dam construction across the United States (Moyle, 1994). Early river restoration actions primarily focused on physical habitat alterations (e.g., in-stream habitat improvement, fish passage; Barinaga, 1996; Bernhardt et al., 2005), while more recent work has centered around restoring natural processes (Johnson et al., 2019). Since socioeconomic and political complications are typically too great for dam removal projects to be feasible, reconciliation ecology, which encourages the accommodation of both human and wildlife needs in a human-dominated landscape, can be a more effective approach to restoration (Rosenzweig, 2003; Moyle et al., 2017). Rather than the elusive goal of returning rivers to a natural flow regime, the aim can be to attain functional environmental flows to support beneficial flow-ecology relationships (Poff et al., 2017). Dams can be operated to reduce some of their detrimental effects by releasing flows that improve downstream habitat through the preservation of key hydrologic signals upon which biophysical processes and native biological communities depend (Yarnell et al., 2020). Four functional flow components were identified for Mediterranean montane streams: wet-season initiation flows, peak magnitude flows, spring recession flows, and dry-season low flows; see Yarnell et al. (2015) for a description about the importance of each key functional component. Several studies have identified the need to further assess linkages between streamflow, invertebrate prey availability, and drift-foraging dynamics for consideration in future restoration plans for juvenile salmonids (Weber et al., 2014; Naman et al., 2016; Lusardi et al., 2018). The focus of this study is to assess the impact of dam-release flows imitating one of those functional flow components, peak magnitude flows, on invertebrate drift as a food resource for juvenile salmonids.

Restoring the Heart of a Healthy Estuary: A Review of Restoration in the Sacramento–San Joaquin Delta and Suisun Marsh

Publisher not available | December 19th, 2025

The restoration of native species-dominated ecosystems is critical for improving ecosystem health and meeting policy goals in the Sacramento–San Joaquin Delta and Suisu

The restoration of native species-dominated ecosystems is critical for improving ecosystem health and meeting policy goals in the Sacramento–San Joaquin Delta and Suisun Marsh (upper San Francisco Estuary, collectively), one of the largest estuarine systems in North America. To accomplish large-scale restoration in this heavily altered system, a variety of projects, programs, and motivations inform restoration planning and implementation. Chapter 4 of the Delta Plan synthesizes restoration goals across these efforts to produce comprehensive ecosystem restoration targets of between 60,000 and 80,000 acres across seven ecosystem types by 2050, but a comprehensive review of restoration progress and planning to date is needed. To fill this gap, this paper analyzes the current state of ecosystem restoration in the upper San Francisco Estuary in the context of the Delta Plan targets. We review current scientific and management literature and implementation approaches, and synthesize acreage totals across completed, in-progress, and planned projects for four ecosystem types where substantial development of restoration in the system has occurred: tidal wetland, non-tidal wetland, riparian, and floodplain. We find that tidal wetland restoration has progressed more rapidly than other ecosystem types, motivated by mitigation requirements related to the federal Endangered Species Act. Across all ecosystem types, we identify both promising progress and clear needs for accelerated planning and implementation of restoration projects to meet Delta Plan 2050 targets, and discuss ongoing needs related to science, funding, and implementation.

Review of 2018 Ocean Salmon Fisheries Stock Assessment and Fishery Evaluation Document for the Pacific Coast Salmon Fishery Management Plan

Pacific Fishery Management Council | February 11th, 2019

Review of CDFW Recommendations for the 2022 Readoption of Drought Emergency Regulations on the Scott River and Recommendations for Future Management During Extreme Drought Conditions

Siskiyou Farm Bureau | August 31st, 2022