Time scales and mechanisms of estuarine variability,a synthesis from studies of San Francisco Bay

This review of the preceding papers suggests that temporal variability in San Francisco Bay can be characterized by four time scales (hours, days-weeks, months, years) and associated with at least four mechanisms (variations in freshwater inflow, tides, wind, and exchange with coastal waters). The best understood component of temporal variability is the annual cycle, which is most obviously influenced by seasonal variations in freshwater inflow. The winter season of high river discharge is characterized by: large-scale redistribution of the salinity field (e.g. the upper estuary becomes a riverine system); enhanced density stratification and gravitational circulation with shortened residence times in the bay; decreased tissue concentrations of some contaminants (e.g. copper) in resident bivalves; increased estuarine inputs of river-borne materials such as dissolved inorganic nutrients (N, P, Si), suspended sediments, and humic materials; radical redistributions of pelagic organisms such as copepods and fish; low phutoplankton biomass and primary productivity in the upper estuary; and elimination of freshwater-intolerant species of macroalgae and benthic infauna from the upper estuary. Other mechanisms modulate this river-driven annual cycle: (1) wind speed is highly seasonal (strongest in summer) and causes seasonal variations in atmosphere-water column exchange of dissolved gases, resuspension, and the texture of surficial sediments; (2) seasonal variations in the coastal ocean (e.g. the spring-summer upwelling season) influence species composition of plankton and nutrient concentrations that are advected into the bay; and (3) the annual temperature cycle influences a few selected features (e.g. production and hatching of copepod resting eggs). Much of the interannual variability in San Francisco Bay is also correlated with freshwater inflow: wet years with persistently high river discharge are characterized by persistent winter-type conditions.Mechanisms of short-term variability are not as well understood, although some responses to storm events (pulses in residual currents from wind forcing, erosion of surficial sediments by wind waves, redistribution of fish populations) and the neap-spring tidal cycle (enhanced salinity stratification, gravitational circulation, and phytoplankton biomass during neap tides) have been quantified. In addition to these somewhat predictable features of variability are (1) largely unexplained episodic events (e.g. anomalous blooms of drift macroalgae), and (2) long-term trends directly attributable to human activities (e.g. introduction of exotic species that become permanent members of the biota).     

Seasonal cycles of zooplankton from San Francisco Bay

The two estuarine systems composing San Francisco Bay have distinct zooplankton communities and seasonal population dynamics. In the South Bay, a shallow lagoon-type estuary, the copepods Acartia spp. and Oithona davisae dominate. As in estuaries along the northeast coast of the U.S., there is a seasonal succession involving the replacement of a cold-season Acartia species (A. clausi s.l.) by a warm-season species (A. californiensis), presumably resulting from the differential production and hatching of dormant eggs. Oithona davisae is most abundant during the fall. Copepods of northern San Francisco Bay, a partially-mixed estuary of the Sacramento-San Joaquin Rivers, organize into discrete populations according to salinity distribution: Sinocalanus doerrii (a recently introduced species) at the riverine boundary, Eurytemora affinis in the oligohaline mixing zone, Acartia spp. in polyhaline waters (18–30\%), and neritic species (e.g., Paracalanus parvus) at the seaward boundary. Sinocalanus doerrii and E. affinis are present year-round. Acartia clausi s.l. is present almost year-round in the northern reach, and A. californiensis occurs only briefly there in summer-fall. The difference in succession of Acartia species between the two regions of San Francisco Bay may reflect differences in the seasonal temperature cycle (the South Bay warms earlier), and the perennial transport of A. clausi s.l. into the northern reach from the seaward boundary by nontidal advection.Large numbers (>10⁶ m^–3) of net microzooplankton (>64 µm), in cluding the rotifer Synchaeta sp. and three species of tintinnid ciliates, occur in the South Bay and in the seaward northern reach where salinity exceeds about 5–10 Maximum densities of these microzooplankton are associated with high concentrations of chlorophyll. Meroplankton (of gastropods, bivalves, barnacles, and polychaetes) constitute a large fraction of zooplankton biomass in the South Bay during winter-spring and in the northern reach during summer-fall.Seasonal cycles of zooplankton abundance appear to be constant among years (1978–1981) and are similar in the deep (>10 m) channels and lateral shoals (<3 m). The seasonal zooplankton community dynamics are discussed in relation to: (1) river discharge which alters salinity distribution and residence time of plankton; (2) temperature which induces production and hatching of dormant copepod eggs; (3) coastal hydrography which brings neritic copepods of different zoogeographic affinities into the bay; and (4) seasonal cycles of phytoplankton.     

Interannual variability in dissolved inorganic nutrients in northern San Francisco Bay estuary

Nearly two decades of seasonal dissolved inorganic nutrient-salinity distributions in northern San Francisco Bay estuary (1960–1980) illustrate interannual variations in effects of river flow (a nutrient source) and phytoplankton productivity (a nutrient sink). During winter, nutrient sources dominate the nutrient-salinity distribution patterns (nutrients are at or exceed conservative mixing concentrations). During summer, however, the sources and sinks are in close competition. In summers of wet years, the effects of increased river flow often dominate the nutrient distributions (nutrients are at or less than conservative mixing concentrations), whereas in summers of dry years, phytoplankton productivity dominates (the very dry years 1976–1977 were an exception for reasons not yet clearly known). Such source/sink effects also vary with chemical species. During summer the control of phytoplankton on nutrient distributions is apparently strongest for ammonium, less so for nitrate and silica, and is the least for phosphate. Furthermore, the strength of the silica sink (diatom productivity) is at a maximum at intermediate river flows. This relation, which is in agreement with other studies based on phytoplankton abundance and enumeration, is significant to the extent that diatoms are an important food source for herbivores.The balance or lack of balance between nutrient sources and sinks varies from one estuary to another just as it can from one year to another within the same estuary. At one extreme, in some estuaries river flow dominates the estuarine dissolved inorganic nutrient distributions throughout most of the year. At the other extreme, phytoplankton productivity dominates. In northern San Francisco Bay, for example, the phytoplankton nutrient sink is not as strong as in less turbid estuaries. In this estuary, however, river effects, which produce or are associated with near-conservative nutrient distributions, are strong even at flows less than mean-annual flow. Thus, northern San Francisco Bay appears to be an estuary in between the two extremes and is shifted closer to one extreme or the other depending on interannual variations in river flow.     

Environmental setting of San Francisco Bay

San Francisco Bay, the largest bay on the California coast, is a broad, shallow, turbid estuary comprising two geographically and hydrologically distinct subestuaries: the northern reach lying between the connection to the Pacific Ocean at the Golden Gate and the confluence of the Sacramento-San Joaquin River system, and the southern reach (herein called South Bay) between the Golden Gate and the southern terminus of the bay. The northern reach is a partially mixed estuary dominated by seasonally varying river inflow, and the South Bay is a tidally oscillating lagoon-type estuary. Freshwater inflows, highest during winter, generate strong estuarine circulation and largely determine water residence times. They also bring large volumes of dissolved and particulate materials to the estuary. Tidal currents, generated by mixed semidiurnal and diurnal tides, mix the water column and, together with river inflow and basin geometry, determine circulation patterns. Winds, which are strongest during summer and during winter storms, exert stress on the bay's water surface, thereby creating large waves that resuspend sediment from the shallow bay bottom and, together with the tidal currents, contribute markedly to the transport of water masses throughout the shallow estuary.     

Gas exchange in San Francisco Bay

Gas exchange across the air-water interface is one of the most important processes controlling the concentrations of dissolved gases in estuarine systems. A brief review of principles and equations to predict gas exchange indicates that both current shear and wind shear are possible sources of turbulence for controlling gas exchange rates in estuaries. Rates of exchange determined by constructing a mass balance for radon-222 indicate that wind shear is dominant in San Francisco Bay. Because many estuaries have wind shear and current speeds comparable to this system, this conclusion may be true for other systems as well. A compilation of gas exchange rates measured in San Francisco Bay with those for other wind-dominated systems updates previous compilations and yields an equation for predicting gas exchange: K _l = 34.6 R _v (D_m20)^1/2 (U₁₀)^1.5 where R is the ratio of the kinematic viscosity of pure water at 20° C to the kinematic viscosity of water at the measured temperature and salinity, D_m20 is the molecular diffusivity of the gas of interest at 20°C in cm² s^–1, U₁₀ is the wind speed at 10 meters above the surface in m s^–1, and K_L is the liquid phase gas transfer coefficient in m d^–1. This relationship fits the available field data within 20% for wind speeds between 3 and 12 m s^–1. It is used to show that the residence time of dissolved oxygen in San Francisco Bay should range from 2 days during windy summer periods to as much as 15 days during calm winter periods. Because these times are short compared to time constants for other processes controlling oxygen distribution in this system, dissolved oxygen concentrations in San Francisco Bay are usually near atmospheric equilibrium. Other systems, such as Chesapeake Bay, may differ. There, despite ample air-water gas exchange rates, some bottom waters become anoxic during summer months due to slow vertical mixing.     

The distribution and temporal dynamics of the estuarine macroalgal community of San Francisco Bay

Long-term sampling of intertidal macroalgae along permanently marked transects within San Francisco Bay has shown a marked decline in overall species number along the estuarine gradient from the ocean to the river, presumably as a result of decreasing salinity and a progressive lack of hard substrata in the upstream direction. Green algae penetrated further landward than either brown or red species. Seasonally, macroalgal species diversity is lowest during the winter-spring months when salinity, temperature, and irradiance are at yearly minima. Macroalgal abundance as measured by percent cover was maximum during the late spring near the mouth of the estuary and during late summer towards the head. The seasonal increase in algal abundance is related to increasing salinity, temperature, and light availability to the bottom. The summer increase in irradiance is due to the longer photoperiod, increased frequency of day-time low tides, and reduced levels of suspended sediments. The aperiodic occurrence of algal blooms in San Pablo Bay may be caused by a combination of physical factors which are ultimately associated with the river inflow. A hypothesis based on interannual differences in river inflow and the contribution of phytoplankton to nutrient cycles in the benthos is presented to explain the occurrence of nuisance algal blooms.     

Benthic fluxes in San Francisco Bay

Measurements of benthic fluxes have been made on four occasions between February 1980 and February 1981 at a channel station and a shoal station in South San Francisco Bay, using in situ flux chambers. On each occasion replicate measurements of easily measured substances such as radon, oxygen, ammonia, and silica showed a variability (±1) of 30% or more over distances of a few meters to tens of meters, presumably due to spatial heterogeneity in the benthic community. Fluxes of radon were greater at the shoal station than at the channel station because of greater macrofaunal irrigation at the former, but showed little seasonal variability at either station. At both stations fluxes of oxygen, carbon dioxide, ammonia, and silica were largest following the spring bloom. Fluxes measured during different seasons ranged over factors of 2–3, 3, 4–5, and 3–10 (respectively), due to variations in phytoplankton productivity and temperature. Fluxes of oxygen and carbon dioxide were greater at the shoal station than at the channel station because the net phytoplankton productivity is greater there and the organic matter produced must be rapidly incorporated in the sediment column. Fluxes of silica were greater at the shoal station, probably because of the greater irrigation rates there. N + N (nitrate + nitrite) fluxes were variable in magnitude and in sign. Phosphate fluxes were too small to measure accurately. Alkalinity fluxes were similar at the two stations and are attributed primarily to carbonate dissolution at the shoal station and to sulfate reduction at the channel station. The estimated average fluxes into South Bay, based on results from these two stations over the course of a year, are (in mmol m^–2 d^–1): O₂ = –27 ± 6; TCO₂ = 23 ± 6; Alkalinity = 9 ± 2; N + N = –0.3 ± 0.5; NH₃ = 1.4 ± 0.2; PO₄ = 0.1 ± 0.4; Si = 5.6 ± 1.1. These fluxes are comparable in magnitude to those in other temperate estuaries with similar productivity, although the seasonal variability is smaller, probably because the annual temperature range in San Francisco Bay is smaller.Budgets constructed for South San Francisco Bay show that large fractions of the net annual productivity of carbon (about 90%) and silica (about 65%) are recycled by the benthos. Substantial rates of simultaneous nitrification and denitrification must occur in shoal areas, apparently resulting in conversion to N₂ of 55% of the particulate nitrogen reaching the sediments. In shoal areas, benthic fluxes can replace the water column standing stocks of ammonia in 2–6 days and silica in 17–34 days, indicating the importance of benthic fluxes in the maintenance of productivity.Pore water profiles of nutrients and Rn-222 show that macrofaunal irrigation is extremely important in transport of silica, ammonia, and alkalinity. Calculations of benthic fluxes from these profiles are less accurate, but yield results consistent with chamber measurements and indicate that most of the NH₃, SiO₂, and alkalinity fluxes are sustained by reactions occurring throughout the upper 20–40 cm of the sediment column. In contrast, O₂, CO₂, and N + N fluxes must be dominated by reactions occurring within the upper one cm of the sediment-water interface. While most data support the statements made above, a few flux measurements are contradictory and demonstrate the complexity of benthic exchange.     

Time scales of circulation and mixing processes of San Francisco Bay waters

Conceptual models for tidal period and low-frequency variations in sea level, currents, and mixing processes in the northern and southern reaches of San Francisco Bay describe the contrasting characteristics and dissimilar processes and rates in these embayments: The northern reach is a partially mixed estuary whereas the southern reach (South Bay) is a tidally oscillating lagoon with density-driven exchanges with the northern reach.The mixed semidiurnal tides are mixtures of progressive and standing waves. The relatively simple oscillations in South Bay are nearly standing waves, with energy propagating down the channels and dispersing into the broad shoal areas. The tides of the northern reach have the general properties of a progressive wave but are altered at the constriction of the embayments and gradually change in an upstream direction to a mixture of progressive and standing waves. The spring and neap variations of the tides are pronounced and cause fortnightly varying tidal currents that affect mixing and salinity stratification in the water column.Wind stress on the water surface, freshwater inflow, and tidal currents interacting with the complex bay configuration are the major local forcing mechanisms creating low-frequency variations in sea level and currents. These local forcing mechanisms drive the residual flows which, with tidal diffusion, control the water-replacement rates in the estuary. In the northern reach, the longitudinal density gradient drives an estuarine circulation in the channels, and the spatial variation in tidal amplitude creates a tidally-driven residual circulation. In contrast, South Bay exhibits a balance between wind-driven circulation and tidally-driven residual circulation for most of the year. During winter, however, there can be sufficient density variations to drive multilayer (2 to 3) flows in the channel of South Bay.Mixing models (that include both diffusive and dispersive processes) are based on time scales associated with salt variations at the boundaries and those associated with the local forcing mechanisms, while the spatial scales of variations are dependent upon the configuration of the embayments. In the northern reach, where the estuarine circulation is strong, the salt flux is carried by the mean advection of the mean salt field. Where large salinity gradients are present, the tidal correlation part of the salt flux is of the same order as the advective part. Our knowledge of mixing and exchange rates in South Bay is poor. As this embayment is nearly isohaline, the salt flux is dominated entirely by the mean advection of the mean salt field. During and after peaks in river discharge, water mixing becomes more dynamic, with a strong density-driven current creating a net exchange of both water mass and salt. These exchanges are stronger during neap tides.Residence times of the water masses vary seasonally and differ between reaches. In the northern reach, residence times are on the order of days for high winter river discharge and of months for summer periods. The residence times for South Bay are fairly long (on the order of several months) during summer, and typically shorter (less than a month) during winter when density-driven exchanges occur.     

Time scales of change in the San Francisco Bay benthos

Results from multi-year investigations in the San Francisco Bay estuary show that large abundance fluctuations within benthic macroinvertebrate populations reflect both (1) within-year periodicity of reproduction, recruitment, and mortality that is not necessarily coincident with seasonal changes of the environment (e.g., the annual temperature cycle), and (2) aperiodic density changes (often larger than within-year fluctuations) following random perturbations of the environment.Density peaks of the small, short-lived estuarine invertebrates that comprise the vast majority of individuals in the bay's relatively homogeneous benthic community normally occur between spring and autumn depending on the species, in large part a reflection of reproductive periodicity. However, because mild winters permit reproductive activity in some of the common species throughout much of the year, other factors are important to within-year density fluctuations in the community. Seasonally predictable changes in freshwater inflow, wind and tidal mixing, microalgal biomass, and sediment erosion/deposition patterns all contribute to observed seasonal changes in abundance. For example, the commonly observed decline in abundance during winter reflects both short-lived species that die after reproducing and the stress of winter conditions (e.g., inundation by less saline, sediment-laden water and the decline in both planktonic and benthic algal biomass — a direct source of food for the shallow-water benthos). On the other hand, data from several studies suggest that observed recruitment and mortality may in fact be the migration of juveniles and adults to and from study sites. For example, the common amphipod Ampelisca abdita apparently moves from shallow to deep water, or from up-estuary to down-estuary locations, coincident with periods of high river runoff in winter. Growth of individuals within the few studied species populations is also highly seasonal, and appears to be coincident with seasonal increases in the abundance of planktonic and/or benthic microalgae.Two multi-year studies have shown that, in addition to within-year periodicity, major restructuring of the benthic community can occur as a result of anomalous (usually climate-related) perturbations of the benthic habitat. For example, during wet years freshwater-intolerant species disappear from the upper part of the estuary and from shallow areas of the bay. During a two-year drought these same species colonized the extreme upper end of the estuary in large numbers. Other aperiodic perturbations include localized instances of sediment erosion or deposition and algal mat accumulations that greatly depress abundance. Additionally, there is evidence (observations that the clam Macoma balthica establishes large populations only when the amphipod A. abdita is not abundant) that species interactions can contribute greatly to interannual variations. Thus, while community composition may change little over the long term, year-to-year predictability of species abundances is low.     

Temporal fluctuations in grain size,organic materials and iron concentrations in intertidal surface sediment of San Francisco Bay

The physical and chemical characteristics of the oxidized surface sediment in an estuary fluctuate temporally in response to physical forces and apparently-fluctuating inputs. These characteristics, which include grain size and concentrations of organic materials and iron, will influence both trace-metal geochemistry and bioavailability. Temporal trends in the abundance of fine particles, total organic carbon content (TOC), absorbance of extractable organic material (EOM), and concentration of extractable iron in the sediment of San Francisco Bay were assessed using data sets containing approximately monthly samples for periods of two to seven years. Changes in wind velocity and runoff result in monthly changes in the abundance of fine particles in the intertidal zone. Fine-grained particles are most abundant in the late fall/early winter when runoff is elevated and wind velocities are low; particles are coarser in the summer when runoff is low and wind velocities are consistently high. Throughout the bay, TOC is linearly related to fine particle abundance (r = 0.61). Temporal variability occurs in this relationship, as particles are poor in TOC relative to percent of fine particles in the early rainy season. Iron-poor particles also appear to enter the estuary during high runoff periods; while iron is enriched on particle surfaces in the summer. Concentrations of extractable iron and absorbance of EOM vary strongly from year to year. Highest absorbances of EOM occurred in the first year following the drought in 1976–77, and in 1982 and 1983 when river discharge was unusually high. Extractable-iron concentrations were also highest in 1976–77, but were very low in 1982 and 1983.     

Dietary flexibility in three representative waterbirds across salinity and depth gradients in salt ponds of San Francisco Bay

Salt evaporation ponds have existed in San Francisco Bay, California, for more than a century. In the past decade, most of the salt ponds have been retired from production and purchased for resource conservation with a focus on tidal marsh restoration. However, large numbers of waterbirds are found in salt ponds, especially during migration and wintering periods. The value of these hypersaline wetlands for waterbirds is not well understood, including how different avian foraging guilds use invertebrate prey resources at different salinities and depths. The aim of this study was to investigate the dietary flexibility of waterbirds by examining the population number and diet of three feeding guilds across a salinity and depth gradient in former salt ponds of the Napa-Sonoma Marshes. Although total invertebrate biomass and species richness were greater in low than high salinity salt ponds, waterbirds fed in ponds that ranged from low (20 g l⁻¹) to very high salinities (250 g l⁻¹). American avocets (surface sweeper) foraged in shallow areas at pond edges and consumed a wide range of prey types (8) including seeds at low salinity, but preferred brine flies at mid salinity (40–80 g l⁻¹). Western sandpipers (prober) focused on exposed edges and shoal habitats and consumed only a few prey types (2–4) at both low and mid salinities. Suitable depths for foraging were greatest for ruddy ducks (diving benthivore) that consumed a wide variety of invertebrate taxa (5) at low salinity, but focused on fewer prey (3) at mid salinity. We found few brine shrimp, common in higher salinity waters, in the digestive tracts of any of these species. Dietary flexibility allows different guilds to use ponds across a range of salinities, but their foraging extent is limited by available water depths. Guest Editors: J. John & B. Timms Salt Lake Research: Biodiversity and Conservation—Selected papers from the 9th Conference of the International Society for Salt Lake Research     

Seasonal and interannual variation in distribution and population abundance of the shrimp Crangon franciscorum in San Francisco Bay

Shrimp are an important component of the San Francisco Bay biota, both as predators on benthic fauna, and as a food source for predatory fish. Of three common species in the bay, Crangon franciscorum is the most abundant. The bay is predominantly a nursery area for maturing shrimp of this species. During the main reproductive period in the early spring, ovigerous females and planktonic larvae are in most years centered outside the bay in the nearshore ocean, although both are also present in the bay. Juveniles move into both the southern reach and the northern reach shortly after settling, and landward-flowing bottom currents are possibly instrumental in this migration. The seasonal cycle of shrimp abundance in the bay, dominated by this spring immigration of newly settled juveniles, is characterized by a progressive migration of the growing shrimp up the estuary coincident with upstream penetration of higher salinity water during summer. Differences in abundance and distribution between the years 1980, 1981, and 1982 suggest that the level of river discharge and accompanying salinity regime are important controlling factors in the distribution, recruitment levels, and subsequent survival and growth of C. franciscorum in the San Francisco Bay.     

Physical Evolution of Restored Breached Levee Salt Marshes in the San Francisco Bay Estuary

Since 1972 over 940 ha (2,300 ac) of leveed former salt marsh sites around San Francisco Bay have been restored to tidal action, purposely or through natural processes. The evolution of these sites can inform predictions of rates of marshplain evolution and establishment of tidal channel systems. A review of the history of 15 re‐flooded sites ranging in size from 18 to 220 ha (45 to 550 ac) and in age from 2 to 29 years indicates that marshplain vegetation with more than 50% cover was established at nine of the sites within 4 to 20 years. The remaining six sites aged 2 to approximately 20 years continue to be less than 50% vegetated. The evolution of these sites is consistent with the following simple conceptual model of the physical evolution of restored tidal marshes in subsided breached sites. Initially, deposition of estuarine sediment builds up mudflats that allow vegetation establishment once elevations are high enough for vegetation to survive. Sites that are initially lower in the tidal frame take longer to vegetate than those that are initially higher. Three factors appear to retard the time frame for vegetation establishment: limited estuarine suspended sediment supply, erosion of deposited estuarine muds by internally generated wind waves, and restricted tidal exchange. These factors affect evolution more significantly in larger sites. The comparatively short time frame for vegetation colonization and marshplain evolution experienced in earlier, smaller, and/or less subsided breached levee restorations may not necessarily be replicable by simple levee breaching on larger subsided restoration sites now being planned. Our review of the 15 sites also indicates that the formation of tidal channels within the marshes is greatly dependent on whether and how high the site was filled before breaching. Filled sites at high intertidal elevations (above approximately 0.3 m below mean higher high water) can vegetate quickly but after several decades may show little development of tidal channels.     

Distribution and abundance of fishes in the San Francisco Bay estuary between 1980 and 1982

In 1980 a long-term study of the fishery resources of the San Francisco Bay estuary was initiated in an effort to delineate the importance of freshwater inflow to fish and invertebrate abundance and distribution in the bay. An analysis of the trawl data collected between January 1980 and December 1982 illustrates the influence of the timing and magnitude of freshwater inflows on fish fistribution and abundance in this estuary from the perspective of monthly, seasonal and annual time scales. Normally found in the delta, Suisun Bay and San Pablo Bay during periods of increased salinity, pelagic species moved downstream after the two peak flows studied, while demersal species usually found in Central San Francisco Bay moved upstream. Such upstream movements may be due in part to transport by strong density-driven currents.Timing and magnitude of monthly catches of some species varied on a seasonal cycle coincident with variations of freshwater inflow. Most species, especially the marine species, showed no consistent cycle of monthly catches. In the wet years of 1980 and 1982 the distributions of freshwater, estuarine and anadromous species were extended downstream into San Pablo, Central and South San Francisco Bays and some marine species, including the flatfish, were more abundant in the upstream areas. In the dry year of 1981 when bay salinities were higher, few marine species extended their distributions upstream into San Pablo and Suisun Bays. Jacksmelt was the only fish of the 15 most abundant species with its peak abundance in 1981. Most marine species were more abundant in the San Francisco Bay estuary in the wet years.     

Trophic structure and avian communities across a salinity gradient in evaporation ponds of the San Francisco Bay estuary

Commercial salt evaporation ponds comprise a large proportion of baylands adjacent to the San Francisco Bay, a highly urbanized estuary. In the past two centuries, more than 79% of the historic tidal wetlands in this estuary have been lost. Resource management agencies have acquired more than 10 000 ha of commercial salt ponds with plans to undertake one of the largest wetland restoration projects in North America. However, these plans have created debate about the ecological importance of salt ponds for migratory bird communities in western North America. Salt ponds are unique mesohaline (5–18 g l⁻¹) to hyperhaline (> 40 g l⁻¹) wetlands, but little is known of their ecological structure or value. Thus, we studied decommissioned salt ponds in the North Bay of the San Francisco Bay estuary from January 1999 through November 2001. We measured water quality parameters (salinity, DO, pH, temperature), nutrient concentrations, primary productivity, zooplankton, macroinvertebrates, fish, and birds across a range of salinities from 24 to 264 g l⁻¹. Our studies documented how unique limnological characteristics of salt ponds were related to nutrient levels, primary productivity rates, invertebrate biomass and taxa richness, prey fish, and avian predator numbers. Salt ponds were shown to have unique trophic and physical attributes that supported large numbers of migratory birds. Therefore, managers should carefully weigh the benefits of increasing habitat for native tidal marsh species with the costs of losing these unique hypersaline systems.     

Temporal fluctuations of silver,copper and zinc in the bivalve Macoma balthica at five stations in South San Francisco Bay

Concentrations of Cu, Ag and Zn were measured in the soft tissues of the estuarine bivalve Macoma balthica in South San Francisco Bay at near-monthly intervals for periods of two to three years at four stations, and eight years at a metal-enriched station. The amplitude and frequency of fluctuations differed among stations and among metals. Fluctuations were greatest at stations with the greatest metal enrichment and with the least dilution and flushing of wastes. A consistent seasonal pattern of fluctuation in Cu and Ag concentrations was evident in M. balthica at the metal-enriched station. These seasonal changes in tissue metal concentrations appeared to be affected by metal inputs, hydrologic processes that may affect both metal concentrations and bioavailability, and seasonal changes in the weight of the bivalve. The contributions of each of these interacting factors could not be determined quantitatively. At the metal-enriched station significant variation in the amplitude of seasonal fluctuations was also evident from year to year. Interpretation of metal concentrations in bivalves from estuaries will require careful consideration of the processes which affect metal dynamics in these complex environments.     

Insect Conservation in an Urban Biodiversity Hotspot: The San Francisco Bay Area

The San Francisco Bay Area hosts a diverse insect fauna and a dense cluster of urban areas. The high diversity of insects in the Bay Area arises for three primary reasons: its location in the California biotic province, the diverse local environment and the entomologist-area effect. The juxtaposition of high insect diversity and an area intensively used by humans led to the first recorded extinction as well as the first efforts to conserve insects in the United States. Habitat loss due to urbanization, agriculture, and invasive species is largely responsible for local extinctions and reduction in abundance of the remaining species. Invasive species such as the Argentine ant and pathogens causing mortality of oaks and pines are poised to have substantial impacts on the insect fauna of the Bay Area in the near future. Understanding which taxa can or cannot persist in remnant habitat patches within an urban or agricultural matrix, and what management practices would encourage persistence should be a focus of future research. Assessments of population status should be focused on insects at risk of extinction because of their restricted geographic ranges, low vagility, interactions with invasive species, or known reduction in their habitat. Assessments that combine examinations of museum collections, literature, and field surveys might enable determination of the status of many species within the Bay Area. Such an approach might better define the scope and magnitude of the problem of conserving insects in an increasingly urbanized region.     

大亚湾浮游植物群落特征

于2002年冬、春、夏和秋季对大亚湾浮游植物进行采样调查,分析了浮游植物的种类组成、丰度、优势种、多样性及群落结构的季节变化特征和平面分布特征。并讨论了浮游植物与营养盐、水温及环流等环境因子之间的关系。2002年大亚湾浮游植物共鉴定出48属114种(包括变型和变种),丰度范围在5.79×104~5.37×106cells/m3之间,平均值为1.14×106cells/m3。其中硅藻共37属84种,其种数和细胞丰度都占绝对优势,平均丰度为1.08×106cells/m3,其次为甲藻,9属23种,平均丰度为9.91×104cells/m3。此外还鉴定出蓝藻和金藻。大亚湾浮游植物丰度变化呈单一周期型,春夏季高,秋冬季节低。虽然硅藻的丰度占优势,但秋季硅藻丰度降低(占总丰度75.8%)使甲藻和蓝藻所占比例上升。研究得出春夏季大亚湾浮游植物主要以沿岸暖水性种类为主,秋季和冬季除沿岸暖水种之外,广布种和大洋种也较多,尤其在冬季后者占优势。大亚湾浮游植物优势种类多,不同季节既有交叉又有演替。与以往调查资料相比,部分优势种发生变化,优势程度顺序和细胞丰度发生了一定改变,个体较大的细胞丰度优势逐渐增加。另外,受季风、潮流、地理位置及人类活动影响,大亚湾浮游植物丰度和群落结构有一定的季节和平面分布特征。大亚湾浮游植物的多样性在夏季偏低,尤其在大亚湾核电站和大鹏澳养殖区附近表现明显。大亚湾浮游植物的丰度、种数、优势种演替及群落结构等其它群落特征与营养盐尤其是氮、磷和N/P、水温、环流等环境因子密切相关。     

Avian communities in baylands and artificial salt evaporation ponds of the San Francisco Bay estuary

San Francisco Bay wetlands, seasonal and tidal marshes between the historic low and high tide lines, are now highly fragmented because of development during the past 150 years. Artificial salt pond systems in the Bay are hypersaline and typically support simple assemblages of algae and invertebrates. In order to establish the value of salt ponds for migratory waterbirds, we used datasets to conduct a meta-analysis of avian communities in the baylands and salt ponds of San Pablo Bay. Fifty-three species of waterbirds in the salt ponds represented six foraging guilds: surface feeders, shallow probers, deep probers, dabblers, diving benthivores and piscivores. The total number of species and the Shannon-Weiner diversity index was higher in baylands than in salt ponds during all four seasons. However, overall bird density (number/ha) was higher in salt ponds compared with baylands in the winter and spring, primarily because of large concentrations of benthivores. Cessation of salt production in 1993 and subsequent reduction in water depth resulted in a decline of some diving duck populations that used the salt ponds.     

Assessing Toxicant Effects in a Complex Estuary: A Case Study of Effects of Silver on Reproduction in the Bivalve,Potamocorbula amurensis,in San Francisco Bay

Contaminant exposures in natural systems can be highly variable. This variability is superimposed upon cyclic variability in biological processes. Together, these factors can confound determination of contaminant effects. Long term, multidisciplined studies with high frequency sampling can be effective in overcoming such obstacles. While studying trace metal contamination in the tissues of the clam, Potamocorbula amurensis, in the northern reach of San Francisco Bay, an episode of high Ag concentrations was identified (maximum of 5.5?µg g^?1) at two mid-estuary sites. High concentrations were not seen in clams up-estuary (maximum of 1.92?µg g^?1) from these sites and were reduced down-estuary (maximum of 2.67?µg g^?1). Silver is not common naturally in the environment, so its elevated presence is usually indicative of anthropogenic influences such as municipal and industrial discharge. Monthly sampling of reproductive status of clams characterized the reproductive cycle and differences in the patterns of reproductive activity that corresponded to changes in Ag tissue concentrations. The proportion of reproductive clams was less than 60% during periods when tissue concentrations were high (generally >2?µg g^?1). When tissue concentrations of Ag decreased (≤1?µg g^?1), the proportion of reproductive clams was 80 to 100%. A comparison between the annual proportion of reproductive clams and annual Ag tissue concentrations showed a significant negative correlation. No other measured environmental variables were correlated with reproductive impairment. The weight-of-evidence approach strongly supports a cause and effect relationship between Ag contamination and reduced reproductive activity in P. amurensis.