scholarly journals Feeding habits and novel prey of larval fishes in the northern San Francisco Estuary

2021 ◽  
Author(s):  
Michelle J. Jungbluth ◽  
Jillian Burns ◽  
Lenny Grimaldo ◽  
Anne Slaughter ◽  
Aspen Katla ◽  
...  
Keyword(s):  
San Francisco ◽  
Feeding Habits ◽  
San Francisco Estuary ◽  
Larval Fishes

scholarly journals Feeding habits and novel prey of larval fishes in the northern San Francisco Estuary

2020 ◽  
Author(s):  
Michelle J. Jungbluth ◽  
Jillian Burns ◽  
Lenny Grimaldo ◽  
Anne Slaughter ◽  
Aspen Katla ◽  
...  
Keyword(s):  
San Francisco ◽  
Feeding Habits ◽  
Food Limitation ◽  
Alpha Diversity ◽  
Larval Survival ◽  
San Francisco Estuary ◽  
Feeding Strategies ◽  
Larval Fishes ◽  
Dna Metabarcoding ◽  
Longfin Smelt

AbstractFood limitation can dampen survival and growth of fish during early development. To investigate prey diversity important to the planktivorous larval longfin smelt (Spirinchus thaleichthys) and Pacific herring (Clupea pallasii) from the San Francisco Estuary, we used DNA metabarcoding analysis of the cytochrome oxidase I gene on the guts of these fishes and on environmental zooplankton samples. Differential abundance analysis suggested that both species consumed the most abundant zooplankton at a lower rate than their availability in the environment. Both fish consumed the prey that were commonly available and relatively abundant. Prey taxa substantially overlapped between the two species (Schoener’s index = 0.66), and alpha diversity analysis suggested high variability in the content of individual guts. Abundant prey taxa in both fish species included the copepods Eurytemora carolleeae, Acanthocyclops americanus, and A. robustus; the Acanthocyclops spp. are difficult to identify morphologically. A few uncommon prey in the diets hint at variable feeding strategies, such as herring (presumably egg) DNA in the longfin smelt diets, which suggests feeding near substrates. Herring consumed the small (<0.5 mm) copepod Limnoithona tetraspina more frequently (30%) than did smelt (2%), possibly indicating differences in foraging behavior or sensory abilities. Among the unexpected prey found in the diets was the cnidarian Hydra oligactis, the polychaete Dasybranchus sp., and a newly identified species Mesocyclops pehpeiensis. “Unknown” DNA was in 56% of longfin smelt diets and 57% of herring diets, and made up 17% and 21% of the relative read abundance in the two species, respectively. Our results suggest that these two fishes, which overlap in nursery habitat, also largely overlap in food resources necessary for larval survival.

scholarly journals Supporting Restoration Decisions through Integration of Tree-Ring and Modeling Data: Reconstructing Flow and Salinity in the San Francisco Estuary over the Past Millennium

Water ◽  
2021 ◽  
Vol 13 (15) ◽  
pp. 2139
Author(s):  
Paul H. Hutton ◽  
David M. Meko ◽  
Sujoy B. Roy
Keyword(s):  
San Francisco ◽  
Tree Ring ◽  
San Francisco Estuary ◽  
Salinity Intrusion ◽  
Estuarine Ecosystem ◽  
Freshwater Flow ◽  
The Past ◽  
Decadal Scale ◽  
Tree Ring Data ◽  
Past Millennium

This work presents updated reconstructions of watershed runoff to San Francisco Estuary from tree-ring data to AD 903, coupled with models relating runoff to freshwater flow to the estuary and salinity intrusion. We characterize pre-development freshwater flow and salinity conditions in the estuary over the past millennium and compare this characterization with contemporary conditions to better understand the magnitude and seasonality of changes over this time. This work shows that the instrumented flow record spans the range of runoff patterns over the past millennium (averaged over 5, 10, 20 and 100 years), and thus serves as a reasonable basis for planning-level evaluations of historical hydrologic conditions in the estuary. Over annual timescales we show that, although median freshwater flow to the estuary has not changed significantly, it has been more variable over the past century compared to pre-development flow conditions. We further show that the contemporary period is generally associated with greater spring salinity intrusion and lesser summer–fall salinity intrusion relative to the pre-development period. Thus, salinity intrusion in summer and fall months was a common occurrence under pre-development conditions and has been moderated in the contemporary period due to the operations of upstream reservoirs, which were designed to hold winter and spring runoff for release in summer and fall. This work also confirms a dramatic decadal-scale hydrologic shift in the watershed from very wet to very dry conditions during the late 19th and early 20th centuries; while not unprecedented, these shifts have been seen only a few times in the past millennium. This shift resulted in an increase in salinity intrusion in the first three decades of the 20th century, as documented through early records. Population growth and extensive watershed modification during this period exacerbated this underlying hydrologic shift. Putting this shift in the context of other anthropogenic drivers is important in understanding the historical response of the estuary and in setting salinity targets for estuarine restoration. By characterizing the long-term behavior of San Francisco Estuary, this work supports decision-making in the State of California related to flow and salinity management for restoration of the estuarine ecosystem.

scholarly journals Managed Wetlands Can Benefit Juvenile Chinook Salmon in a Tidal Marsh

2021 ◽  
Author(s):  
Nicole M. Aha ◽  
Peter B. Moyle ◽  
Nann A. Fangue ◽  
Andrew L. Rypel ◽  
John R. Durand
Keyword(s):  
San Francisco ◽  
Growth Rates ◽  
Chinook Salmon ◽  
Oncorhynchus Tshawytscha ◽  
Nursery Habitat ◽  
San Francisco Estuary ◽  
Rice Fields ◽  
Fish Growth ◽  
Juvenile Chinook Salmon ◽  
Juvenile Chinook

AbstractLoss of estuarine and coastal habitats worldwide has reduced nursery habitat and function for diverse fishes, including juvenile Chinook salmon (Oncorhynchus tshawytscha). Underutilized off-channel habitats such as flooded rice fields and managed ponds present opportunities for improving rearing conditions and increasing habitat diversity along migratory corridors. While experiments in rice fields have shown enhanced growth rates of juvenile fishes, managed ponds are less studied. To evaluate the potential of these ponds as a nursery habitat, juvenile Chinook salmon (~ 2.8 g, 63 mm FL) were reared in cages in four contrasting locations within Suisun Marsh, a large wetland in the San Francisco Estuary. The locations included a natural tidal slough, a leveed tidal slough, and the inlet and outlet of a tidally muted managed pond established for waterfowl hunting. Fish growth rates differed significantly among locations, with the fastest growth occurring near the outlet in the managed pond. High zooplankton biomass at the managed pond outlet was the best correlate of salmon growth. Water temperatures in the managed pond were also cooler and less variable compared to sloughs, reducing thermal stress. The stress of low dissolved oxygen concentrations within the managed pond was likely mediated by high concentrations of zooplankton and favorable temperatures. Our findings suggest that muted tidal habitats in the San Francisco Estuary and elsewhere could be managed to promote growth and survival of juvenile salmon and other native fishes.

Atmospheric Concentrations and Fluxes of Organic Compounds in the Northern San Francisco Estuary

2002 ◽  
Vol 36 (22) ◽  
pp. 4741-4747 ◽  
Author(s):  
Pam Tsai ◽  
Rainer Hoenicke ◽  
Donald Yee ◽  
Holly A. Bamford ◽  
Joel E. Baker
Keyword(s):  
Organic Compounds ◽  
San Francisco ◽  
San Francisco Estuary ◽  
Atmospheric Concentrations

scholarly journals The effects of dietary Microcystis aeruginosa and microcystin on the copepods of the upper San Francisco Estuary

2010 ◽  
Vol 55 (7) ◽  
pp. 1548-1559 ◽  
Author(s):  
KEMAL A. GER ◽  
SWEE J. TEH ◽  
DOLORES V. BAXA ◽  
SARAH LESMEISTER ◽  
CHARLES R. GOLDMAN
Keyword(s):  
San Francisco ◽  
Microcystis Aeruginosa ◽  
San Francisco Estuary

Carbon-Isotope, Diatom, and Pollen Evidence for Late Holocene Salinity Change in a Brackish Marsh in the San Francisco Estuary

2001 ◽  
Vol 55 (1) ◽  
pp. 66-76 ◽  
Author(s):  
Roger Byrne ◽  
B. Lynn Ingram ◽  
Scott Starratt ◽  
Frances Malamud-Roam ◽  
Joshua N. Collins ◽  
...  
Keyword(s):  
San Francisco ◽  
High Salinity ◽  
Carbon Isotopic Composition ◽  
Brackish Marsh ◽  
San Francisco Estuary ◽  
Freshwater Inflow ◽  
Water Diversion ◽  
Freshwater Flow ◽  
Low Salinity ◽  
Carbon Isotopic

AbstractAnalysis of diatoms, pollen, and the carbon-isotopic composition of a sediment core from a brackish marsh in the northern part of the San Francisco Estuary has provided a paleosalinity record that covers the past 3000 yr. Changes in marsh composition and diatom frequencies are assumed to represent variations in freshwater inflow to the estuary. Three periods of relatively high salinity (low freshwater inflow) are indicated, 3000 to 2500 cal yr B.P., 1700 to 730 cal yr B.P., and ca. A.D. 1930 to the present. The most recent period of high salinity is primarily due to upstream storage and water diversion within the Sacramento–San Joaquin watershed, although drought may also have been a factor. The two earlier high-salinity periods are likely the result of reduced precipitation. Low salinity (high freshwater flow) is indicated for the period 750 cal yr B.P. to A.D. 1930.

scholarly journals Tidal Asymmetry in Ocean-Boundary Flux and In-Estuary Trapping of Suspended Sediment Following Watershed Storms: San Francisco Estuary, California, USA

2021 ◽  
Author(s):  
Maureen A. Downing-Kunz ◽  
Paul A. Work ◽  
David H. Schoellhamer
Keyword(s):  
Suspended Sediment ◽  
San Francisco ◽  
Sediment Resuspension ◽  
San Francisco Estuary ◽  
Sediment Flux ◽  
Golden Gate ◽  
Storm Events ◽  
Suspended Sediment Flux ◽  
Field Campaigns ◽  
Ocean Boundary

AbstractSuspended-sediment flux at the ocean boundary of the San Francisco Estuary—the Golden Gate—was measured over a tidal cycle following peak watershed runoff from storms to the estuary in two successive years to investigate sediment transport through the estuary. Observations were repeated during low-runoff conditions, for a total of three field campaigns. Boat-based measurements of velocity and acoustic backscatter were used to calculate water and suspended-sediment flux at a location 1 km landward of the Golden Gate. Suspended-sediment concentration (SSC) and salinity data from up-estuary sensors were used to track watershed-sourced sediment plumes through the estuary. Estimates of suspended-sediment load from the watershed and net suspended-sediment flux for one up-estuary subembayment were used to infer in-estuary trapping of sediment. For both post-storm field campaigns, observations at the ocean boundary were conducted on the receding limb of the watershed hydrograph. At the ocean boundary, peak instantaneous suspended-sediment flux was tidally asymmetric and was greater on flood tides than on ebb tides for all three field campaigns, due to higher average SSC in the cross-section on flood tides. Shear-induced sediment resuspension was greater on flood tides and suggests the presence of an erodible pool outside the estuary. The storms in 2016 led to less export of discharge and sediment from the watershed and greater sediment trapping within one up-estuary subembayment compared to that observed in 2017. Results suggest that substantial trapping of watershed sediments occurred during both storm events, likely due to the formation of estuarine turbidity maxima (ETM) at different locations in the estuary. ETM locations were forced nearer the ocean boundary in 2017. Additional measurements and modeling are required to quantify the long-term sediment flux at the Golden Gate.

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