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Abstract
Several pelagic fish populations in the upper San Francisco Estuary have recently declined to historically low abundances, prompting an interest in the status of their food supply. Previous studies have indicated that the primary food supply for metazoans in the Delta is phytoplankton productivity, and the long-term decrease in phytoplankton over the last few decades may very well play a role in the long-term decline of pelagic fish abundance. Regional phytoplankton biomass trends during 1996–2005, however, are positive in the Delta and neutral in Suisun Bay, the two major sub-regions of the upper estuary. The trend in Delta primary productivity is also positive. Changes in phytoplankton biomass and production during the last decade are therefore unlikely to be the cause of these more recent metazoan declines. The main source of interannual phytoplankton variability in the Delta during 1996–2005, including the upward trend, appears to have been freshwater flow variability and its effect on particle residence time. This conclusion is supported by trend analyses; the concurrence of these time trends at widely-separated stations; empirical models at the annual and monthly time scales; particle residence time estimates; and experience from other estuaries. A significant temperature increase was also noticed, at least partially independent of flow changes, but its net effect on the phytoplankton community is unknown because of differential effects on growth and loss processes. Phytoplankton biomass in Suisun Bay, in contrast to the Delta, did not increase during 1996–2005. Consistent with this observation, Suisun Bay phytoplankton exhibited relatively low responsiveness to flow variability. This behavior differs from earlier chlorophyll-flow relationships reported in the literature. The reason appears to be the invasion of Suisun Bay by a clam—Corbula amurensis—in 1986, which has since maintained the phytoplankton community mostly at low levels by vigorous filter-feeding. In the past, flows into Suisun Bay generally diluted the higher phytoplankton concentrations within the bay; now they bring in higher phytoplankton concentrations from upstream. The supply of phytoplankton carbon to Suisun Bay has always been dominated by allochthonous sources, at least for mean flow conditions. Now this dominance must be even more pronounced.
Highlights
The major resident pelagic fish species of the upper San Francisco Estuary (Figure 1) have declined to record or near-record low abundances in recent years, including the native delta and longfin smelts (Hypomesus transpacificus and Spirinchus thaleichthys) as well as the introduced striped bass (Morone saxatilis) and threadfin shad (Dorosoma petenense) (Sommer et al 2007)
Phytoplankton changes have been implicated as a causative factor in the longer-term declines of certain key zooplankton and fish species in the San Francisco Estuary
Can we find explanations of these more recent phytoplankton changes in flow rates, the physical environment, or macronutrient supply—as is the case at many, if not most, other estuaries? Phytoplankton variability in estuaries can most often be linked to the physical and chemical environment
Summary
The major resident pelagic fish species of the upper San Francisco Estuary (Figure 1) have declined to record or near-record low abundances in recent years, including the native delta and longfin smelts (Hypomesus transpacificus and Spirinchus thaleichthys) as well as the introduced striped bass (Morone saxatilis) and threadfin shad (Dorosoma petenense) (Sommer et al 2007). The decline of delta smelt in particular has resulted in a petition to change the federal listing of this endemic species from threatened to endangered, reflecting the belief that its extinction is imminent (Center for Biological Diversity et al 2006). These recent downturns have become known collectively as the pelagic organism decline, and their study has been organized under a conceptual model containing four major components (Sommer et al 2007). Phytoplankton changes have been implicated as a causative factor in the longer-term declines of certain key zooplankton and fish species in the San Francisco Estuary (Bennett and Moyle 1996; Orsi and Mecum 1996; cf. Kimmerer 2002a)
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