Use of the SmeltCam as an Efficient Fish-Sampling Alternative Within the San Francisco Estuary

University of California, Davis (UC Davis) | June 1st, 2021

Resource managers often rely on long-term monitoring surveys to detect trends in biological data. However, no survey gear is 100% efficient, and many sources of bias can

Resource managers often rely on long-term monitoring surveys to detect trends in biological data. However, no survey gear is 100% efficient, and many sources of bias can be responsible for detecting or not detecting biological trends. The SmeltCam is an imaging apparatus developed as a potential sampling alternative to long-term trawling gear surveys within the San Francisco Estuary, California, to reduce handling stress on sensitive species like the Delta Smelt (Hypomesus transpacificus). Although believed to be a reliable alternative to closed cod-end trawling surveys, no formal test of sampling efficiency has been implemented using the SmeltCam. We used a paired deployment of the SmeltCam and a conventional closed cod-end trawl within the Napa River and San Pablo Bay, a Bayesian binomial N-mixture model, and data simulations to determine the sampling efficiency of both deployed gear types to capture a Delta Smelt surrogate (Northern Anchovy, Engraulis mordax) and to test potential bias in our modeling framework. We found that retention efficiency—a component of detection efficiency that estimates the probability a fish is retained by the gear, conditional on gear contact—was slightly higher using the SmeltCam (mean = 0.58) than the conventional trawl (mean = 0.47, Probability SmeltCam retention efficiency > trawl retention efficiency = 94%). We also found turbidity did not affect the SmeltCam’s retention efficiency, although total fish density during an individual tow improved the trawl’s retention efficiency. Simulations also showed the binomial model was accurate when model assumptions were met. Collectively, our results suggest the SmeltCam to be a reliable alternative to sampling with conventional trawling gear, but future tests are needed to confirm whether the SmeltCam is as reliable when applied to taxa other than Northern Anchovy over a greater range of conditions.

USGS Science at Work in the Delta Estuary

U.S. Geological Survey (USGS) | November 19th, 2013

The San Francisco Bay and Sacramento-San Joaquin Delta form one of the largest estuaries in the United States. The “Bay-Delta” system provides water to more than 25 m

The San Francisco Bay and Sacramento-San Joaquin Delta form one of the largest estuaries in the United States. The “Bay-Delta” system provides water to more than 25 million California residents and vast farmlands, as well as key habitat for birds, fish, and other wildlife. To help ensure the health of this crucial estuary, the U.S. Geological Survey, in close cooperation with partner agencies and organizations, is providing science essential to addressing societal issues associated with water quantity and quality, sediment transportation, environmental contamination, animal health and status, habitat restoration, hazards, ground subsidence, and climate change.

Using the Distinct Population Segment concept to protect fishes with low levels of genomic differentiation: conservation of an endemic minnow (Hitch, Lavinia exilicauda)

American Fisheries Society (AFS) | December 23rd, 2018

In the United States, the Endangered Species Act (ESA) of 1973 was enacted to conserve species that are endangered or threatened throughout all or a portion of their rang

In the United States, the Endangered Species Act (ESA) of 1973 was enacted to conserve species that are endangered or threatened throughout all or a portion of their range. The definition of “species” includes subspecies and distinct population segments (DPSs). Among freshwater fishes, the use of DPS designations has largely been restricted to salmonids, although the DPS concept is increasingly applied to other fishes as well. As more taxa approach threatened status, the difficult question becomes what to do when genetic evidence does not strongly support formal taxonomic designations (full species or subspecies). We examine the potential application of the DPS concept to protect fishes by using the example of the Hitch Lavinia exilicauda, a cyprinid fish that is endemic to California. The Hitch is divided into three formally described, geographically separate subspecies (the Sacramento, Monterey, and Clear Lake Hitches). However, genomic studies (i.e., restriction site‐associated DNA sequencing), presented here with three independent analyses using a large data set, only weakly supported subspecies designations. Results suggested population structure but not subspecies structure. Nevertheless, conventional taxonomic methods, strong contemporary isolation, the importance of protecting genetic diversity, and high cultural value still qualify all three designated subspecies for DPS status and demonstrate how taxa such as the Clear Lake Hitch can warrant protection under the ESA.

Utah's Land, Water and Air 2022 Report to the Governor

Utah State University | November 30th, 2022

Utah's Land, Water and Air 2023 Report to the Governor and Legislature

Utah State University | October 19th, 2023

This report serves as a 2023 snapshot of key issues and concerns with Utah’s shared resources. It highlights gathered data that is available to provide context to thes

This report serves as a 2023 snapshot of key issues and concerns with Utah’s shared resources. It highlights gathered data that is available to provide context to these issues, as well as identifies areas where more study is needed. Addressing these challenges will enable Utah policymakers to make informed decisions for the future. Under the authorship of 43 researchers and experts and the general guidance of 49 advisory committee members, the report outlines 32 issues and trends to pay attention to in the coming months and years.

Valuing the benefits of forest restoration on enhancing hydropower and water supply in California's Sierra Nevada

Science of the Total Environment (Elsevier) | March 15th, 2023

Forest restoration through mechanical thinning, prescribed burning, and other management actions is vital to improving forest resilience to fire and drought across the We

Forest restoration through mechanical thinning, prescribed burning, and other management actions is vital to improving forest resilience to fire and drought across the Western United States, and yields benefits that can be monetized, including improvements in water supply and hydropower. Using California's Sierra Nevada as a study area, we assess the water and energy benefits of forest-restoration projects. By using a scalable top-down approach to track annual evapotranspiration following forest disturbance, coupled with hydropower simulations that include energy-price information, and marginal prices for water sales, we project the potential economic benefits of hydropower and water sales accruing to water-rights holders. The results found that water-related benefits from strategically planned fuels-reduction treatments now being carried out can be sufficient to offset costs of management actions aimed at forest restoration, especially in the face of climate change. Our findings justified investments in restoring forests and reinforce the central role of water and hydropower providers in partnerships for management of source-water watersheds. Results also highlighted the importance of accurate, scalable data and tools from the hydrology and water-resources community.

Vegetation Responses to 2012–2016 Drought in Northern and Southern California

American Geophysical Union (AGU) | March 7th, 2019

In this study, we investigated California vegetation responses to the recent prolonged 2012–2016 drought, which was potentially the driest 4‐year span in the last 1,2

In this study, we investigated California vegetation responses to the recent prolonged 2012–2016 drought, which was potentially the driest 4‐year span in the last 1,200 years. The overall vegetation of the state has been presumed to be severely affected. However, Normalized Difference Vegetation Index (NDVI) satellite data related to vegetation greenness show that the large‐scale drought impacts on observable vegetation health were principally focused in Southern California regions, where the vegetation communities experienced striking declines in greenness. By contrast, some areas of Northern California have demonstrated significant NDVI increase and this difference in NDVI trends is evident over the past 19 years. The distinct vegetation behavior in Northern and Southern California seems to be related to a climatic dipole in the western United States, which is influenced by the large‐scale ocean‐atmosphere interactions. Some climate models predict an extension of such a dipole with greater precipitation in Northern California and less in Southern California by the end of the 21st century. Increased water demand in the south could intensify statewide intersectoral and interregional water competition in the future. However, increasing drought damage to wildlands and their terrestrial ecosystems in the south will not be relieved by any type of traditional water reallocation and irrigation effort.

Ventura County: Environmental Stakeholder Representation in Groundwater Sustainability Agencies

Nature Conservancy | January 1st, 2016

The Sustainable Groundwater Management Act (SGMA) requires the preparation of groundwater sustainability plans (GSPs) for nine groundwater basins in Ventura Cou

The Sustainable Groundwater Management Act (SGMA) requires the preparation of groundwater sustainability plans (GSPs) for nine groundwater basins in Ventura County. The groundwater sustainability agencies (GSAs) that will prepare these plans consist of government agency and stakeholder representatives. Notably, in Ventura County, each basin is including specific representation of environmental interests in the GSP development process. The Fox Canyon Groundwater Management Agency (Fox Canyon) has included an environmental representative on its advisory committee and the other GSAs have included an environmental representative on their governing boards. The purpose of this organizational structure is to ensure that the groundwater needs of environmental uses are represented in the planning process.

Viability assessment for Pacific salmon and steelhead listed under the Endangered Species Act

National Marine Fisheries Service (NMFS) | July 25th, 2016

The Endangered Species Act (ESA) requires that the National Marine Fisheries Service (NMFS) review the status of listed species under its authority at least every five ye

The Endangered Species Act (ESA) requires that the National Marine Fisheries Service (NMFS) review the status of listed species under its authority at least every five years and determine whether any species should be removed from the list or have its listing status changed. Assessments of the viability of ESA-listed Pacific salmonids were conducted by the Southwest Fisheries Science Center and the Northwest Fisheries Science Center. The information from these assessments is incorporated into the West Coast Region’s status review, and the NMFS West Coast Region will make final determinations about any proposed changes in listing status, taking into account not only biological information (viability assessments) but also threats to the species and ongoing or planned protective efforts. This report from the Southwest Fisheries Science Center covers 10 ESA-listed Evolutionarily Significant Units (ESUs) and Distinct Population Segments (DPSs) that lie wholly or partially in California. In this review, we consider 1) new information relevant to the delineation of ESU/DPS boundaries, and 2) new information on status and trends in abundance, productivity, spatial structure and diversity specifically addressed by viability criteria previously developed by Technical Recovery Teams (TRTs). These viability assessments summarize current information (through the 2014–2015 spawning year where available) with respect to the viability criteria developed by the TRTs.  Consequently, the current assessments consider not only changes in populations that have occurred since the 2010 assessments but also the status of populations and ESUs/DPSs in relation to the viability criteria developed by the TRTs. For eight of the ESUs/DPSs (Southern Oregon/Northern California Coho Salmon, Central California Coast Coho Salmon, California Coastal Chinook Salmon, Northern California Steelhead, Central California Coast Steelhead, South-central California Steelhead, Southern California Steelhead, and California Central Valley Steelhead) the new information suggests that there has been no change in extinction risk since 2010 viability assessments. For two ESUs (Central Valley Spring-run Chinook Salmon, and Sacramento River Winter-run Chinook Salmon) the new information suggests a change in extinction risk. The viability of Central Valley Spring-run Chinook salmon appears to have improved since the 2010 assessment, but this ESU is far from being viable and is still facing relatively high extinction risk. The viability of Sacramento River Winter-run Chinook Salmon has been reduced and the ESU faces greater extinction risk since the 2010 assessment.

Visual, spectral, and microchemical quantification of crystalline anomalies in otoliths of wild and cultured delta smelt

Nature Portfolio (Springer Nature) | December 1st, 2022

Developmental abnormalities in otoliths can impact growth and survival in teleost fishes. Here, we quantified the frequency and severity of developmental anomalies in oto

Developmental abnormalities in otoliths can impact growth and survival in teleost fishes. Here, we quantified the frequency and severity of developmental anomalies in otoliths of delta smelt (Hypomesus transpacificus), a critically endangered estuarine fish that is endemic to the San Francisco Estuary. Left–right asymmetry and anomalous crystalline polymorphs (i.e., vaterite) were quantified and compared between wild and cultured populations using digital image analysis. Visual estimates of vaterite were validated using X-ray diffraction, Raman spectroscopy, laser ablation ICPMS, and electron probe microanalysis. Results indicated that cultured delta smelt were 80 times more likely to contain a vateritic otolith and 18 times more likely to contain relatively large (≥ 15%) amounts of vaterite. Similarly, cultured fish exhibited 30% greater asymmetry than wild fish. These results indicate that cultured delta smelt exhibit a significantly higher frequency of vestibular abnormalities which are known to reduce fitness and survival. Such hatchery effects on otolith development could have important implications for captive culture practices and the supplementation of wild fish populations with cultured individuals.