Early Life History of Fishes in the San Francisco Estuary and Watershed

2004 ◽  
Keyword(s):  
San Francisco ◽  
Striped Bass ◽  
Open Water ◽  
Minimum Length ◽  
Ontogenetic Changes ◽  
Delta Smelt ◽  
Diel Cycles ◽  
Dorosoma Petenense ◽  
Threadfin Shad ◽  
Inland Silverside

<em>Abstract.</em>—In July 2000 and 2001, we sampled adjacent screened and unscreened agricultural irrigation diversions in the Sacramento River, California to (1) evaluate the effectiveness of a custom fish screen for excluding four open-water fishes: native delta smelt <em>Hypomesus transpacificus </em>and alien threadfin shad <em>Dorosoma petenense</em>, inland silverside <em>Menidia beryllina</em>, and striped bass <em>Morone saxatilis</em>; and (2) examine factors affecting entrainment of each species. We also compiled trawl and beach seine data from contemporaneous monitoring programs to make inferences about microhabitat use by these fishes and its implications for entrainment vulnerability. The fish screen reduced entrainment of each species by 99% or more and excluded many fish less than 25 mm, the approximate minimum length it was designed to exclude. Tidal and diel influences on entrainment through the unscreened diversion were observed, but diel cycles appeared to be more important, as most entrainment occurred at night or during crepuscular periods. Except for delta smelt, our results suggested that open-water fishes may undergo ontogenetic changes in vulnerability to unscreened irrigation diversions. Fishes entrained during daylight (threadfin shad and striped bass) averaged only 15–16 mm in length. At night, average lengths of entrained threadfin shad and inland silverside were 22–25 mm, even though larvae continued to be entrained. Similarly, a diel influence on striped bass entrainment was observed only in 2000, when individuals larger than 20 mm were consistently collected. No striped bass were collected at sizes greater than 35 mm, even though larger individuals occupied the study area. We found no evidence of size-related changes in delta smelt vulnerability to entrainment, but the monitoring data indicated that delta smelt were abundant offshore, whereas the other three species were most abundant nearshore. We think that low and inconsistent entrainment of delta smelt reflected (1) predominantly offshore habitat use by delta smelt, and (2) the relatively small hydrodynamic influence of the diversion.

Multidecadal trends for three declining fish species: habitat patterns and mechanisms in the San Francisco Estuary, California, USA

2007 ◽  
Vol 64 (4) ◽  
pp. 723-734 ◽  
Author(s):  
Frederick Feyrer ◽  
Matthew L Nobriga ◽  
Ted R Sommer
Keyword(s):  
Water Quality ◽  
San Francisco ◽  
Striped Bass ◽  
Fish Species ◽  
Habitat Suitability ◽  
Specific Conductance ◽  
San Francisco Estuary ◽  
Delta Smelt ◽  
Threadfin Shad

We examined a 36-year record of concurrent midwater trawl and water quality sampling conducted during fall to evaluate habitat trends for three declining fish species in the San Francisco Estuary, California, USA: delta smelt (Hypomesus transpacificus), striped bass (Morone saxatilis), and threadfin shad (Dorosoma petenense). Generalized additive modeling revealed that Secchi depth and specific conductance were important predictors of occurrence for delta smelt and striped bass, while specific conductance and water temperature were important for threadfin shad. Habitat suitability derived from model predictions exhibited significant long-term declines for each species; the southeastern and western regions of the estuary exhibited the most dramatic changes. Declines in habitat suitability were associated with anthropogenic modifications to the ecosystem. For delta smelt, an imperiled annual species endemic to the estuary, the combined effects of fall stock abundance and water quality predicted recruit abundance during recent years of chronically low food supply. Our results are consistent with existing evidence of a long-term decline in carrying capacity for delta smelt and striped bass and demonstrate the utility of long-term data sets for evaluating relationships between fish and their habitat.

Trophic ecology of two non-native hydrozoan medusae in the upper San Francisco Estuary

2011 ◽  
Vol 62 (8) ◽  
pp. 952 ◽  
Author(s):  
Alpa P. Wintzer ◽  
Mariah H. Meek ◽  
Peter B. Moyle
Keyword(s):  
San Francisco ◽  
Trophic Ecology ◽  
Fish Larvae ◽  
San Francisco Estuary ◽  
Ecological Interactions ◽  
Calanoid Copepods ◽  
Dorosoma Petenense ◽  
Gut Fullness ◽  
Threadfin Shad ◽  
Temporal Overlap

Blooms of some gelatinous zooplankton are increasing worldwide, often disrupting foodwebs. Invasions of non-native jellyfish are a growing problem in many estuaries, including the San Francisco Estuary, where at least two species of Ponto-Caspian hydrozoans, Maeotias marginata Modeer, 1791 and Moerisia sp., are abundant. The present study investigated their trophic ecology, testing the following hypotheses: (1) diets over the bloom and at the diel scale are comprised of a variety of prey items; (2) hydrozoans are generalist feeders; (3) hydrozoans feed on the larvae of declining fish species; and (4) the potential for prey competition exists between the hydrozoans and two declining planktivorous fishes, striped bass (Morone saxatilis) and threadfin shad (Dorosoma petenense). Both hydrozoans ate a variety of crustaceans, most notably calanoid copepods, which were found in greater proportion in the guts than in the environment. The only fish larvae consumed were gobies. Density of Moerisia sp., was negatively correlated with gut fullness for both fishes, and diet overlap was high between shad and hydrozoans, but low for bass. Because of strong spatial and temporal overlap between hydrozoans and shad, competition for zooplankton may be occurring. These hydrozoans have invaded other systems, and should be monitored to assess potential ecological interactions in these locations.

scholarly journals Determining the Exposure Pathway and Impacts of Microcystis on Threadfin Shad, Dorosoma petenense , in San Francisco Estuary

2020 ◽  
Vol 39 (4) ◽  
pp. 787-798
Author(s):  
Shawn Acuña ◽  
Dolores Baxa ◽  
Peggy Lehman ◽  
Foo‐Ching Teh ◽  
Dong‐Fang Deng ◽  
...  
Keyword(s):  
San Francisco ◽  
San Francisco Estuary ◽  
Exposure Pathway ◽  
Dorosoma Petenense ◽  
Threadfin Shad

scholarly journals Examining Retention-at-Length of Pelagic Fishes Caught in the Fall Midwater Trawl Survey

2020 ◽  
Vol 19 (2) ◽  
Author(s):  
Lara Mitchell ◽  
◽  
Randall Baxter ◽  
Keyword(s):  
Striped Bass ◽  
Fish Species ◽  
Body Shape ◽  
American Shad ◽  
Trawl Survey ◽  
Retention Data ◽  
Delta Smelt ◽  
Midwater Trawl ◽  
Selectivity Curve ◽  
Threadfin Shad

The Fall Midwater Trawl Survey has provided data on aquatic organisms in the San Francisco Estuary for over five decades. In 2014–2015, a study was conducted to investigate and quantify the efficiency of this trawl for catching the endangered fish species Delta Smelt (Hypomesus transpacificus). In an analysis based on that study, we calculated retention probability—the probability that a Delta Smelt is retained in the cod end of the trawl—as a function of fish length and fit a selectivity curve reflecting the relationship between size and retention. Here we return to the same gear efficiency study and further utilize the data set by (1) fitting selectivity curves for three additional pelagic fish species: Threadfin Shad (Dorosoma petenense), American Shad (Alosa sapidissima), and Mississippi Silverside (Menidia beryllina), (2) refitting the selectivity curve for Delta Smelt to incorporate between-haul variability, and (3) calculating the lengths of 50% and 95% retention in order to characterize and compare the resulting selectivity curves. We also present retention data on age-0 Striped Bass (Morone saxatilis), all of which were retained in the cod end. We found that Threadfin Shad, American Shad, and Delta Smelt are 95% retained at 45, 49, and 61 mm fork length, respectively. Because data were limited for Mississippi Silverside, American Shad, and age-0 Striped Bass, we used body shape, in conjunction with retention data, to develop hypotheses about selectivity based on whether each species’ body shape resembles that of Threadfin Shad, which are more deep-bodied and laterally compressed, or Delta Smelt, which are more fusiform. We also found that retention-at-length was more variable for Delta Smelt than for Threadfin Shad, potentially because length is a good predictor of retention in deep-bodied, laterally compressed fish whereas maximum girth is a better predictor of retention in fusiform fish.

Early Life History of Fishes in the San Francisco Estuary and Watershed

2004 ◽  
Keyword(s):  
San Francisco ◽  
Striped Bass ◽  
Vertical Migration ◽  
Early Life ◽  
Life Histories ◽  
Early Life History ◽  
Small Surface ◽  
Delta Smelt ◽  
Larval Fishes ◽  
History Of

<em>Abstract.</em>—The goal of this study was to determine if the vertical distribution of larval delta smelt <em>Hypomesus transpacificus </em>and striped bass <em>Morone saxatilis </em>was affected by tidal stage and diel period. Delta smelt and striped bass have similar early life histories in that their larvae drift downstream from freshwater spawning habitats to brackish water rearing habitats. Little is known on whether the larvae undergo a vertical migration as they move downstream. Conical plankton nets were used to collect larval fishes from the surface, middle, and bottom sections of the main channels of the Sacramento and San Joaquin rivers. Samples were collected over six paired day–night cruises. Approximately 45,000 fish were collected; 82% were striped bass and 2% were delta smelt. More delta smelt were caught at night than during the day, and more at middle depth than surface or bottom. Very few striped bass were found at surface during day; most were caught at middle depth. Both species were fairly dispersed throughout the water column at night. Although striped bass larvae appear to undergo a small surface to middepth migration, this study indicates that larval delta smelt and striped bass do not undergo a mass diel or tidal vertical migration as they drift down the Sacramento and San Joaquin rivers.

scholarly journals Estuarine-terrestrial habitat gradients enhance nursery function for resident and transient fishes in the San Francisco Estuary

2020 ◽  
Vol 637 ◽  
pp. 141-157 ◽  
Author(s):  
DD Colombano ◽  
AD Manfree ◽  
TA O’Rear ◽  
JR Durand ◽  
PB Moyle
Keyword(s):  
Life History ◽  
San Francisco ◽  
Striped Bass ◽  
Temporal Trends ◽  
Open Water ◽  
San Francisco Estuary ◽  
Ecological Resilience ◽  
Sea Levels ◽  
Spatial And Temporal Scales ◽  
Starry Flounder

Nursery functions of US West Coast drowned river valley estuaries are not well understood. Using long-term fish-monitoring data (1995-2017) in Suisun Marsh, San Francisco Estuary, California, USA, we examined spatial and temporal trends in abundance and apparent growth of fishes with diverse life-history types. Focal species were Sacramento splittail Pogonichthys macrolepidotus, striped bass Morone saxatilis, tule perch Hysterocarpus traski, and starry flounder Platichthys stellatus, which collectively represented 55% of total catch (n = 140092). We identified keystone habitat patches that functioned as nursery hotspots during the peak young-of-the-year recruitment window. Deep, flow-through sloughs close to the open estuary were important nursery habitats for the marine transient starry flounder. In contrast, splittail and striped bass mostly migrated through such corridors to rear in shallow, dead-end sloughs bisecting tidal marsh plains, managed tidal ponds, and uplands. Tule perch were concentrated in shallow, interior sloughs, reflecting their resident life-history type and adaptations to variable conditions in a small home range. Interactions among freshwater flows and stationary habitat features (e.g. channel depth, land-to-open-water ratio) were related to fish abundance; however, species and age classes differed in their relationships to these interactions, suggesting a mechanism for habitat partitioning in space and time. Overall, we inferred that habitat connectivity—longitudinal, lateral, and vertical—along the estuarine-terrestrial gradient was a driver of fish species diversity and productivity. Consideration of seascape-landscape dynamics across multiple spatial and temporal scales in estuaries should help maintain or increase fish populations and ecological resilience in the face of rising sea levels and other environmental stressors.

Early Life History of Fishes in the San Francisco Estuary and Watershed

2004 ◽  
Keyword(s):  
Life History ◽  
San Francisco ◽  
Striped Bass ◽  
Early Life ◽  
Early Life History ◽  
San Francisco Estuary ◽  
Delta Smelt ◽  
History Of ◽  
Acanthogobius Flavimanus ◽  
Longfin Smelt

<em>Abstract.</em>—We analyzed data on spring and summertime larval and juvenile fish distribution and abundance in the upper San Francisco Estuary (SFE), California between 1995 and 2001. The upper SFE includes the tidal freshwater areas of the Sacramento–San Joaquin Delta downstream to the euryhaline environment of San Pablo Bay. The sampling period included years with a variety of outflow conditions. Fifty taxa were collected using a larval tow net. Two common native species, delta smelt <em>Hypomesus transpacificus </em>and longfin smelt <em>Spirinchus thaleichthys</em>, and four common alien taxa, striped bass <em>Morone saxatilis</em>, threadfin shad <em>Dorosoma petenense</em>, gobies of the genus <em>Tridentiger</em>, and yellowfin goby <em>Acanthogobius flavimanus</em>, were selected for detailed analysis. Outflow conditions had a strong influence on the geographic distribution of most of the species, but distribution with respect to the 2 psu isohaline (X2) was not affected. The distribution patterns of delta smelt, longfin smelt, and striped bass were consistent with larvae moving from upstream freshwater spawning areas to downstream estuarine rearing areas. There were no obvious relationships of outflow with annual abundance indices. Our results support the idea of using X2 as an organizing principle in understanding the ecology of larval fishes in the upper SFE. Additional years of sampling will likely lead to additional insights into the early life history of upper SFE fishes.

scholarly journals Simulated Fishing to Untangle Catchability and Availability in Fish Abundance Monitoring

2021 ◽  
Vol 19 (3) ◽  
Author(s):  
Vanessa Tobias ◽  
Keyword(s):  
San Francisco ◽  
Water Clarity ◽  
Ecological Monitoring ◽  
Monitoring Data ◽  
Delta Smelt ◽  
Individual Based Simulation ◽  
The Relationship ◽  
True Population

In fisheries monitoring, catch is assumed to be a product of fishing intensity, catchability, and availability, where availability is defined as the number or biomass of fish present and catchability refers to the relationship between catch rate and the true population. Ecological monitoring programs use catch per unit of effort (CPUE) to standardize catch and monitor changes in fish populations; however, CPUE is proportional to the portion of the population that is vulnerable to the type of gear used in sampling, which is not necessarily the entire population. Programs often deal with this problem by assuming that catchability is constant, but if catchability is not constant, it is not possible to separate the effects of catchability and population size using monitoring data alone. This study uses individual-based simulation to separate the effects of changing environmental conditions on catchability and availability in environmental monitoring data. The simulation combines a module for sampling conditions with a module for individual fish behavior to estimate the proportion of available fish that would escape from the sample. The method is applied to the case study of the well monitored fish species Delta Smelt (Hypomesus transpacificus) in the San Francisco Estuary, where it has been hypothesized that changing water clarity may affect catchability for long-term monitoring studies. Results of this study indicate that given constraints on Delta Smelt swimming ability, it is unlikely that the apparent declines in Delta Smelt abundance are the result of changing water clarity affecting catchability.

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