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USGS2004

Hydrologic variability, water chemistry, and phytoplankton biomass in a large flood plain of the Sacramento River, CA, U.S.A.

The Yolo Bypass, a large, managed floodplain that discharges to the headwaters of the San Francisco Estuary, was studied before, during, and after a single, month-long inundation by the Sacramento River in winter and spring 2000. The primary objective was to identify hydrologic conditions and other factors that enhance production of phytoplankton biomass in the floodplain waters. Recent reductions in phytoplankton have limited secondary production in the river and estuary, and increased phytoplankton biomass is a restoration objective for this system. Chlorophyll a was used as a measure of phytoplankton biomass in this study. Chlorophyll a concentrations were low (<4 μg l −1 ) during inundation by the river when flow through the floodplain was high, but concentrations rapidly increased as river inflow decreased and the floodplain drained. Therefore, hydrologic conditions in the weeks following inundation by river inflow appeared most important for producing phytoplankton biomass in the floodplain. Discharges from local streams were important sources of water to the floodplain before and after inundation by the river, and they supplied dissolved inorganic nutrients while chlorophyll a was increasing. Discharge from the floodplain was enriched in chlorophyll a relative to downstream locations in the river and estuary during the initial draining and later when local stream inflows produced brief discharge pulses. Based on the observation that phytoplankton biomass peaks during drainage events, we suggest that phytoplankton production in the floodplain and biomass transport to downstream locations would be higher in years with multiple inundation and draining sequences.

California↗

USGS2007

Sensitivity of estuarine turbidity maximum to settling velocity, tidal mixing, and sediment supply

Estuarine turbidity maximum, numerical modeling, settling velocity, stratification The spatial and temporal distribution of suspended material in an Estuarine Turbidity Maxima (ETM) is primarily controlled by particle settling velocity, tidal mixing, shear-stress thresholds for resuspension, and sediment supply. We vary these parameters in numerical experiments of an idealized two-dimensional (x-z) estuary to demonstrate their affects on the development and retention of particles in an ETM. Parameters varied are the settling velocity (0.01, 0.1, and 0.5 mm/s), tidal amplitude (0.4 m 12 hour tide and 0.3 to 0.6 m 14 day spring neap cycle), and sediment availability (spatial supply limited or unlimited; and temporal supply as a riverine pulse during spring vs. neap tide). Results identify that particles with a low settling velocity are advected out of the estuary and particles with a high settling velocity provide little material transport to an ETM. Particles with an intermediate settling velocity develop an ETM with the greatest amount of material retained. For an unlimited supply of sediment the ETM and limit of salt intrusion co-vary during the spring neap cycle. The ETM migrates landward of the salt intrusion during spring tides and seaward during neap tides. For limited sediment supply the ETM does not respond as an erodible pool of sediment that advects landward and seaward with the salt front. The ETM is maintained seaward of the salt intrusion and controlled by the locus of sediment convergence in the bed. For temporal variability of sediment supplied from a riverine pulse, the ETM traps more sediment if the pulse encounters the salt intrusion at neap tides than during spring tides. ?? 2007 Elsevier B.V. All rights reserved.

Proceedings in Marine Science↗

USGS2023

Coastal vegetation responses to large dam removal on the Elwha River

Introduction: Large dam removals provide a restoration opportunity for shrinking coastal wetland habitats. Dam removal can increase sediment delivery to sediment-starved river deltas and estuaries by restoring natural sediment transport and mobilizing reservoir-impounded sediment. However, rapid mobilization of massive quantities of sediment stored behind large dams also constitutes a major ecological perturbation. Information is lacking on coastal habitat responses to sediment pulses of this magnitude. Methods: Removal of two large dams along the Elwha River (Washington, USA) in 2011–2014 released ~20.5 Mt of impounded sediment, ~5.4 Mt of which were deposited in the delta and estuary (hereafter, delta). We used time series of aerial imagery, digital elevation models, and vegetation field sampling to examine plant community responses to this sediment pulse across seven years during and after dam removal. Results: Between 2011 and 2018, the Elwha River delta increased by ~26.8 ha. Vegetation colonized ~16.4 ha of new surfaces, with mixed pioneer vegetation on supratidal beach, river bars, and river mouth bars and emergent marsh vegetation in intertidal aquatic habitats. Colonization occurred on surfaces that were higher and more stable in elevation and farther from the shoreline. Compared to established delta plant communities, vegetation on new surfaces had lower cover of dominant species and functional groups, with very low woody cover, and lower graminoid cover than dunegrass and emergent marsh communities. Over time following surface stabilization, however, vegetation on new surfaces increased in species richness, cover, and similarity to established communities. By 2018, ~1.0 ha of vegetation on new surfaces had developed into dunegrass or willow–alder communities and ~5.9 ha had developed into emergent marsh. At the same time, dam removal had few discernible effects on established delta plant communities. Discussion: Together, these results suggest that rapid sediment mobilization during large dam removal has potential to expand coastal wetland habitat without negatively affecting established plant communities. However, as sediment loads declined in 2016–2018, new delta surfaces decreased by ~4.5 ha, and ~1.6 ha of new vegetation reverted to no vegetation. Long-term persistence of the expanded coastal habitat will depend on ongoing erosional and depositional processes under the restored natural sediment regime.

Washington↗

USGS2017

A history of the 2014 Minute 319 environmental pulse flow asdocumented by field measurements and satellite imagery

As provided in Minute 319 of the U.S.-Mexico Water Treaty of 1944, a pulse flow of approximately 132 million cubic meters (mcm) was released to the riparian corridor of the Colorado River Delta over an eight-week period that began March 23, 2014 and ended May 18, 2014. Peak flows were released in the early part of the pulse to simulate a spring flood, with approximately 101.7 mcm released at Morelos Dam on the U.S.-Mexico border. The remainder of the pulse flow water was released to the riparian corridor via Mexicali Valley irrigation spillway canals, with 20.9 mcm released at Km 27 Spillway (41 km below Morelos Dam) and 9.3 mcm released at Km 18 Spillway (78 km below Morelos Dam). We used sequential satellite images, overflights, ground observations, water discharge measurements, and automated temperature, river stage and water quality loggers to document and describe the progression of pulse flow water through the study area. The rate of advance of the wetted front was slowed by infiltration and high channel roughness as the pulse flow crossed more than 40 km of dry channel which was disconnected from underlying groundwater and partially overgrown with salt cedar. High lag time and significant attenuation of flow resulted in a changing hydrograph as the pulse flow progressed to the downstream delivery points; two peak flows occurred in some lower reaches. The pulse flow advanced more than 120 km downstream from Morelos Dam to reach the Colorado River estuary at the northern end of the Gulf of California.

Ecological Engineering↗

USGS2011

Nekton community response to a large-scale Mississippi River discharge: Examining spatial and temporal response to river management

Freshwater flow is generally held to be one of the most influential factors affecting community structure and production in estuaries. In coastal Louisiana, the Caernarvon Freshwater Diversion (CFD) is managed to control freshwater discharge from the Mississippi River into Breton Sound basin. Operational since 1991, CFD has undergone several changes in management strategy including pulsed spring flooding, which was introduced in 2001. We used a 20-yr time series of fisheries-independent data to investigate how variation in freshwater inflow (i.e., pre- and post-CFD, and pre and post spring pulsing management) influences the downstream nekton community (abundance, diversity, and assemblage). Analyses of long-term data demonstrated that while there were effects from the CFD, they largely involved subtle changes in community structure. Spatially, effects were largely limited to the sites immediately downstream of the diversion and extended only occasionally to more down-estuary sites. Temporally, effects were 1) immediate (detected during spring diversion events) or 2) delayed (detected several months post-diversion). Analysis of river management found that pulsed spring-time inflow resulted in more significant changes in nekton assemblages, likely due to higher discharge rates that 1) increased marsh flooding, thus increasing marsh habitat accessibility for small resident marsh species, and 2) reduced salinity, possibly causing displacement of marine pelagic species down estuary.

Breton Sound↗

USGS2010

Potential mitigation approach to minimize salinity intrusion in the Lower Savannah River Estuary due to reduced controlled releases from Lake Thurmond

The Savannah River originates at the confluence of the Seneca and Tugaloo Rivers, near Hartwell, Ga. and forms the State boundary between South Carolina and Georgia. The J. Strom Thurmond Dam and Lake, located 187 miles upstream from the coast, is responsible for most of the flow regulation that affects the Savannah River from Augusta to the coast. The Savannah Harbor experiences semi-diurnal tides of two high and two low tides in a 24.8-hour period with pronounced differences in tidal range between neap and spring tides occurring on a 14-day and 28-day lunar cycle. The Savannah National Wildlife Refuge is located in the Savannah River Estuary. The tidal freshwater marsh is an essential part of the 28,000-acre refuge and is home to a diverse variety of wildlife and plant communities. The Southeastern U.S. experienced severe drought conditions in 2008 and if the conditions had persisted in Georgia and South Carolina, Thurmond Lake could have reached an emergency operation level where outflow from the lake is equal to the inflow to the lake. To decrease the effect of the reduced releases on downstream resources, a stepped approach was proposed to reduce the flow in increments of 500 cubic feet per second (ft 3 /s) intervals. Reduced flows from 3,600 ft 3 /s to 3,100 ft 3 /s and 2,600 ft 3 /s were simulated with two previously developed models of the Lower Savannah River Estuary to evaluate the potential effects on salinity intrusion. The end of the previous drought (2002) was selected as the baseline condition for the simulations with the model. Salinity intrusion coincided with the 28-day cycle semidiurnal tidal cycles. The results show a difference between the model simulations of how the salinity will respond to the decreased flows. The Model-to-Marsh Decision Support System (M2MDSS) salinity response shows a large increase in the magnitude (> 6.0 practical salinity units, psu) and duration (3-4 days) of the salinity intrusion with extended periods (21 days) of tidal freshwater remaining in the system. The Environmental Fluid Dynamic Code (EFDC) model predicts increases in the magnitude of the salinity intrusion but only to 2 and 3 psu and the intrusion duration greater than a week. A potential mitigation to the increased salinity intrusion predicted by the M2MDSS would be to time pulses of increase flows to reduce the magnitude of the intrusion. Seven-day streamflow pulses of 4,500 ft 3 /s were inserted into the constant 3,100 ft 3 /s streamflow condition. The streamflow pulses did substantially decrease the magnitude and duration of the salinity intrusion. The result of the streamflow pulse scenario demonstrates how alternative release patterns from Lake Thurmond could be utilized to mitigate potential salinity changes in the Lower Savannah River Estuary.

Georgia, South Carolina↗

USGS2008

Temporal downscaling of decadal sediment load estimates to a daily interval for use in hindcast simulations

In this study we used hydrologic proxies to develop a daily sediment load time-series, which agrees with decadal sediment load estimates, when integrated. Hindcast simulations of bathymetric change in estuaries require daily sediment loads from major tributary rivers, to capture the episodic delivery of sediment during multi-day freshwater flow pulses. Two independent decadal sediment load estimates are available for the Sacramento/San Joaquin River Delta, California prior to 1959, but they must be downscaled to a daily interval for use in hindcast models. Daily flow and sediment load data to the Delta are available after 1930 and 1959, respectively, but bathymetric change simulations for San Francisco Bay prior to this require a method to generate daily sediment load estimates into the Delta. We used two historical proxies, monthly rainfall and unimpaired flow magnitudes, to generate monthly unimpaired flows to the Sacramento/San Joaquin Delta for the 1851-1929 period. This step generated the shape of the monthly hydrograph. These historical monthly flows were compared to unimpaired monthly flows from the modern era (1967-1987), and a least-squares metric selected a modern water year analogue for each historical water year. The daily hydrograph for the modern analogue was then assigned to the historical year and scaled to match the flow volume estimated by dendrochronology methods, providing the correct total flow for the year. We applied a sediment rating curve to this time-series of daily flows, to generate daily sediment loads for 1851-1958. The rating curve was calibrated with the two independent decadal sediment load estimates, over two distinct periods. This novel technique retained the timing and magnitude of freshwater flows and sediment loads, without damping variability or net sediment loads to San Francisco Bay. The time-series represents the hydraulic mining period with sustained periods of increased sediment loads, and a dramatic decrease after 1910, corresponding to a reduction in available mining debris. The analogue selection procedure also permits exploration of the morphological hydrograph concept, where a limited set of hydrographs is used to simulate the same bathymetric change as the actual set of hydrographs. The final daily sediment load time-series and morphological hydrograph concept will be applied as landward boundary conditions for hindcasting simulations of bathymetric change in San Francisco Bay.

California↗

USGS2002

Estimating the potential for submergence for two wetlands in the Mississippi River Delta

We used a combined field and modeling approach to estimate the potential for submergence for one rapidly deteriorating (Bayou Chitigue Marsh) and one apparently stable (Old Oyster Bayou Marsh) saltmarsh wetland in coastal Louisiana, given two eustatic sea level rise scenarios: the current rate (0.15 cm year −1 ); and the central value predicted by the Intergovernmental Panel on Climate Change (48 cm by the year 2100). We also used the model to determine what processes were most critical for maintaining and influencing salt marsh elevation including, mineral matter deposition, organic matter production, shallow subsidence (organic matter decomposition + primary sediment compaction), deep subsidence, and sediment pulsing events (e.g., hurricanes). Eight years of field measurements from feldspar marker horizons and surface elevation tables revealed that the rates of vertical accretion at the Bayou Chitigue Marsh were high (2.26 (0.09) cm yr −1 (mean ± SE)) because the marsh exists at the lower end of the tidal range. The rate of shallow subsidence was also high (2.04 (0.1) cm yr −1 ), resulting in little net elevation gain (0.22 (0.06) cm yr −1 ). In contrast, vertical accretion at the Old Oyster Bayou Marsh, which is 10 cm higher in elevation, was 0.48 (0.09) cm yr −1 . However, there was a net elevation gain of 0.36 (0.08) cm yr −1 because there was no significant shallow subsidence. When these rates of elevation gain were compared to rates of relative sea level rise (deep subsidence plus eustatic sea level rise), both sites showed a net elevation deficit although the Bayou Chitigue site was subsiding at approximately twice the rate of the Old Oyster Bayou site (1.1 cm yr −1 versus 0.49 cm yr −1 respectively). These field data were used to modify, initialize, and calibrate a previously published wetland soil development model that simulates primary production and mineral matter deposition as, feedback functions of elevation. Sensitivity analyses revealed that wetland elevation was most sensitive to changes in the rates of deep subsidence, a model forcing function that is difficult to measure in the field and for which estimates in the literature vary widely. The model also revealed that, given both the current rate of sea level rise and the central value estimate, surface elevation at both sites would fall below mean sea level over the next 100 years. Although these results were in agreement with the field study, they contradicted long term observations that the Old Oyster Bayou site has been in equilibrium with sea level for at least the past 50 years. Further simulations showed that the elevation at the Old Oyster Bayou site could keep pace with current rates of sea level rise if either a lower rate for deep subsidence was used as a forcing function, or if a periodic sediment pulsing function (e.g., from hurricanes) was programmed into the model.

Louisiana↗

USGS2004

Importance of storm events in controlling ecosystem structure and function in a Florida Gulf Coast estuary

From 8/95 to 2/01, we investigated the ecological effects of intra- and inter-annual variability in freshwater flow through Taylor Creek in southeastern Everglades National Park. Continuous monitoring and intensive sampling studies overlapped with an array of pulsed weather events that impacted physical, chemical, and biological attributes of this region. We quantified the effects of three events representing a range of characteristics (duration, amount of precipitation, storm intensity, wind direction) on the hydraulic connectivity, nutrient and sediment dynamics, and vegetation structure of the SE Everglades estuarine ecotone. These events included a strong winter storm in November 1996, Tropical Storm Harvey in September 1999, and Hurricane Irene in October 1999. Continuous hydrologic and daily water sample data were used to examine the effects of these events on the physical forcing and quality of water in Taylor Creek. A high resolution, flow-through sampling and mapping approach was used to characterize water quality in the adjacent bay. To understand the effects of these events on vegetation communities, we measured mangrove litter production and estimated seagrass cover in the bay at monthly intervals. We also quantified sediment deposition associated with Hurricane Irene's flood surge along the Buttonwood Ridge. These three events resulted in dramatic changes in surface water movement and chemistry in Taylor Creek and adjacent regions of Florida Bay as well as increased mangrove litterfall and flood surge scouring of seagrass beds. Up to 5 cm of bay-derived mud was deposited along the ridge adjacent to the creek in this single pulsed event. These short-term events can account for a substantial proportion of the annual flux of freshwater and materials between the mangrove zone and Florida Bay. Our findings shed light on the capacity of these storm events, especially when in succession, to have far reaching and long lasting effects on coastal ecosystems such as the estuarine ecotone of the SE Everglades.

Journal of Coastal Research↗

USGS2015

Designing a monitoring program to estimate estuarine survival of anadromous salmon smolts: simulating the effect of sample design on inference

A number of researchers have attempted to estimate salmonid smolt survival during outmigration through an estuary. However, it is currently unclear how the design of such studies influences the accuracy and precision of survival estimates. In this simulation study we consider four patterns of smolt survival probability in the estuary, and test the performance of several different sampling strategies for estimating estuarine survival assuming perfect detection. The four survival probability patterns each incorporate a systematic component (constant, linearly increasing, increasing and then decreasing, and two pulses) and a random component to reflect daily fluctuations in survival probability. Generally, spreading sampling effort (tagging) across the season resulted in more accurate estimates of survival. All sampling designs in this simulation tended to under-estimate the variation in the survival estimates because seasonal and daily variation in survival probability are not incorporated in the estimation procedure. This under-estimation results in poorer performance of estimates from larger samples. Thus, tagging more fish may not result in better estimates of survival if important components of variation are not accounted for. The results of our simulation incorporate survival probabilities and run distribution data from previous studies to help illustrate the tradeoffs among sampling strategies in terms of the number of tags needed and distribution of tagging effort. This information will assist researchers in developing improved monitoring programs and encourage discussion regarding issues that should be addressed prior to implementation of any telemetry-based monitoring plan. We believe implementation of an effective estuary survival monitoring program will strengthen the robustness of life cycle models used in recovery plans by providing missing data on where and how much mortality occurs in the riverine and estuarine portions of smolt migration. These data could result in better informed management decisions and assist in guidance for more effective estuarine restoration projects.

PLoS ONE↗

USGS2004

Spatial and temporal variability of suspended-sediment concentrations in a shallow estuarine environment

Shallow subembayments respond differently than deep channels to physical forces acting in estuaries. The U.S. Geological Survey measured suspended-sediment concentrations at five locations in Honker Bay, a shallow subembayment of San Francisco Bay, and the adjacent channel to investigate the spatial and temporal differences between deep and shallow estuarine environments. During the first freshwater pulse of the wet season, the channel tended to transport suspended sediments through the system, whereas the shallow area acted as off-channel storage where deposition would likely occur. Following the freshwater pulse, suspended-sediment concentrations were greater in Honker Bay than in the adjacent deep channel, due to the larger supply of erodible sediment on the bed. However, the tidal variability of suspended-sediment concentrations in both Honker Bay and in the adjacent channel was greater after the freshwater pulse than before. During wind events, suspended-sediment concentrations in the channel were not affected; however, wind played a crucial role in the resuspension of sediments in the shallows. Despite wind-wave sediment resuspension in Honker Bay, tidally averaged suspended-sediment flux was controlled by the flood-dominated currents.

California↗

USGS2013

Temporal and spatial variation in bird and human use of beaches in southern California

Southern California’s beaches can support a remarkable diversity of birds along the Pacific Flyway. We asked whether seasonal, annual, and spatial factors affect bird richness and abundance on public beaches. To do so, we conducted three years of monthly bird surveys on 12 sandy beaches in Ventura California. Across all surveys, we counted 22 shorebird species, 8 gull species, 24 other water bird species, and 24 landbird species. Sanderling, western gull, Heerman’s gull, willet, marbled godwit, and whimbrel were the most abundant members of the bird community. Beach wrack was uncommon, particularly where beaches were groomed, and did not have a large effect on bird abundance, though it was positively associated with overall bird richness. Beaches near estuaries tended to be wide, and such beaches had a higher richness and abundance of birds. Beaches with shallow slopes tended to have more gulls and shorebirds. People and (illegal) unleashed dogs were common, particularly at beaches fronted by houses. The abundance and richness of shorebirds and the richness of other waterbirds was lower where human activity was high. Bird richness and abundance was strongly affected by season, with the highest density of birds being seen during the fall shorebird migration. Gull abundance peaked earlier (August-September) than shorebird abundance (October through December). A brief pulse of shorebirds also occurred in May due to spring migration. Comparing these data with surveys in the 1990’s found no evidence for a decline in shorebirds over time, though black-bellied plover appear to still be recovering from the strong 1997-1998 ENSO. Opportunities to conserve birds on these beaches are limited, but could include enforcing leash laws and setting up human exclosures near estuary mouths.

California↗

USGS2012

Suspended-sediment flux and retention in a backwater tidal slough complex near the landward boundary of an estuary

Backwater tidal sloughs are commonly found at the landward boundary of estuaries. The Cache Slough complex is a backwater tidal region within the Upper Sacramento–San Joaquin Delta that includes two features that are relevant for resource managers: (1) relatively high abundance of the endangered fish, delta smelt ( Hypomesus transpacificus ), which prefers turbid water and (2) a recently flooded shallow island, Liberty Island, that is a prototype for habitat restoration. We characterized the turbidity around Liberty Island by measuring suspended-sediment flux at four locations from July 2008 through December 2010. An estuarine turbidity maximum in the backwater Cache Slough complex is created by tidal asymmetry, a limited tidal excursion, and wind-wave resuspension. During the study, there was a net export of sediment, though sediment accumulates within the region from landward tidal transport during the dry season. Sediment is continually resuspended by both wind waves and flood tide currents. The suspended-sediment mass oscillates within the region until winter freshwater flow pulses flush it seaward. The hydrodynamic characteristics within the backwater region such as low freshwater flow during the dry season, flood tide dominance, and a limited tidal excursion favor sediment retention.

California↗

USGS2025

Effects of flow on pesticides in water and zooplankton in the northern Sacramento-San Joaquin Delta

Zooplankton are a key food source for juvenile fishes in estuaries worldwide, including California’s Sacramento–San Joaquin Delta (hereafter Delta); both zooplankton quality and quantity are critical to ecosystem health. Zooplankton may be affected by pesticides in water and the food web, and the Delta is known to contain complex pesticide mixtures. In this study, we evaluated pesticide concentrations in water and zooplankton in the northern Delta during (1) the summer–fall of 2017, 2018, and 2019, which included periods of augmented pulse flows from agriculture tailwater, and (2) across a full seasonal cycle from May 2019 to March 2020. We quantified changes in pesticide concentration in response to environmental factors. We found that zooplankton showed more frequent detections of hydrophobic pesticides compared to more frequent detections of hydrophilic compounds in water. Pesticide concentrations were influenced by flow, pesticide application, and season, but the effects of these environmental factors differed by habitat (Sacramento River or Yolo Bypass Toe Drain). Pesticides in water responded similarly to environmental factors in the Sacramento River and Yolo Bypass, whereas pesticides in zooplankton responded differently. In water, we found more detections and higher concentrations at higher flows in the Yolo Bypass and Sacramento River, but responses to pesticide application varied by habitat. Alternatively, pesticide concentrations in zooplankton increased in the Yolo Bypass with increasing flow (correlated with flow pulses) and changed seasonally; whereas, pesticide concentrations in zooplankton in the Sacramento River decreased at higher flows, and decreased with or did not respond to higher pesticide application in the watershed. Our study suggests that augmented flows—particularly those using agricultural tailwater—may have unintended negative ecological effects that could partially offset benefits to the food web and fishes in the northern Delta, underscoring the complex interplay among factors that drive increased pesticide exposure.

California↗

USGS2026

The contribution of a surge event to infilling in a barrier-enclosed estuary: Insights from field observations

Many estuaries worldwide face increasing sediment loading caused by catchment land use change and intensification, creating subsequent adverse effects on estuarine ecosystems. Extreme weather events can disproportionately alter sediment pathways and loading. Although storm-driven sediment exchange has been widely examined at open coasts and inlets, key transport mechanisms within constricted, sheltered estuaries remain understudied. This study presents an observational dataset capturing the impact of a 99th percentile water-level event (based on 20 years of records) on sediment transport pathways in a sheltered, barrier-enclosed estuary. This event, driven by a 3-day storm surge (>0.5 m) combined with a spring tide, was recorded during a 3-week field campaign. Sediment transport pathways and riverine contributions were analysed, and observations revealed substantial changes in suspended sediment concentrations increasing from 18 mg/l to 70 mg/l during the event. The elevated water levels and resulting pressure gradient at the constricted study site entrance caused by the storm surge increased local flood dominance. Combined with higher flow velocities and resuspension, the storm led to a sixfold increase in sediment import at the estuary entrance and a 600-fold increase in sediment flux to the upper estuary. The decoupling of peak suspended sediment concentrations from streamflow indicates that the resuspension of estuarine legacy sediment, rather than catchment inputs, dominated the system's response. These findings challenge assumptions about estuarine sediment budgets and emphasise that incorporating high water-level surge events into models can enhance the prediction of long-term estuarine evolution. Given projected increases in storm frequency under climate change, understanding these episodic but highly consequential sediment pulses can support the assessment of wetland resilience and inform estuarine management strategies.

Whangateau Estuary↗

USGS1981

Diel oxygen variations in the Rhode River Estuary, Maryland, 1970-1978

Since April 1970 the U.S. Geological Survey has operated an estuarine water quality monitor in the upper reach of Rhode River, a small embayment on the northwestern shore of Chesapeake Bay. This report analyzes variations in diel oxygen over the period April 1970 through January 1979. The diel oxygen range is used as an indicator of open-water metabolism. Polygons of temperature versus salinity portray the monthly variations of the two dominant environmental factors which influence biological metabolism and reveal effects of events such as a cool versus a warm spring or salinity reduction due to tropical storm freshwater runoff. Seasonally the average daily oxygen pulse range increased from a winter low of 1.6 mg/L to summer high of 5.3 mg/L. Annually highest daily ranges occurred the summer of 1972 when nutrient laden runoff from tropical storm Agnes stimulated open-water metabolism to produce an average diel range of 6.3 mg/L. Spearman 's ranked correlation coefficients were used to compare seasonal and annual variations in temperature and salinity versus diel oxygen range. There was high agreement between annual variations in spring temperatures and diel oxygen ranges and an inverse correlation between summer and autumn salinity and diel oxygen range. (USGS)

Maryland↗

USGS1996

The long-term salinity field in San Francisco Bay

Data are presented on long-term salinity behaviour in San Francisco Bay, California. A two-level, width averaged model of the tidally averaged salinity and circulation has been written in order to interpret the long-term (days to decades) salinity variability. The model has been used to simulate daily averaged salinity in the upper and lower levels of a 51 segment discretization of the Bay over the 22-yr period 1967-1988. Monthly averaged surface salinity from observations and monthly-averaged simulated salinity are in reasonable agreement. Good agreement is obtained from comparison with daily averaged salinity measured in the upper reaches of North Bay. The salinity variability is driven primarily by freshwater inflow with relatively minor oceanic influence. All stations exhibit a marked seasonal cycle in accordance with the Mediterranean climate, as well as a rich spectrum of variability due to extreme inflow events and extended periods of drought. Monthly averaged salinity intrusion positions have a pronounced seasonal variability and show an approximately linear response to the logarithm of monthly averaged Delta inflow. Although few observed data are available for studies of long-term salinity stratification, modelled stratification is found to be strongly dependent on freshwater inflow; the nature of that dependence varies throughout the Bay. Near the Golden Gate, stratification tends to increase up to very high inflows. In the central reaches of North Bay, modelled stratification maximizes as a function of inflow and further inflow reduces stratification. Near the head of North Bay, lowest summer inflows are associated with the greatest modelled stratification. Observations from the central reaches of North Bay show marked spring-neap variations in stratification and gravitational circulation, both being stronger at neap tides. This spring-neap variation is simulated by the model. A feature of the modelled stratification is a hysteresis in which, for a given spring-neap tidal range and fairly steady inflows, the stratification is higher progressing from neaps to springs than from springs to neaps. The simulated responses of the Bay to perturbations in coastal sea salinity and Delta inflow have been used to further delineate the time-scales of salinity variability. Simulations have been performed about low inflow, steady-state conditions for both salinity and Delta inflow perturbations. For salinity perturbations a small, sinusoidal salinity signal with a period of 1 yr has been applied at the coastal boundary as well as a pulse of salinity with a duration of one day. For Delta inflow perturbations a small, sinusoidally varying inflow signal with a period of 1 yr has been superimposed on an otherwise constant Delta inflow, as well as a pulse of inflow with a duration of one day. Perturbations is coastal salinity dissipate as they move through the Bay. Seasonal perturbations require about 40-45 days to propagate from the coastal ocean to the Delta and to the head of South Bay. The response times of the model to perturbations in freshwater inflow are faster than this in North Bay and comparable in South Bay. In North Bay, time-scales are consistent with advection due to lower level, up-estuary transport of coastal salinity perturbations; for inflow perturbations, faster response times arise from both upper level, down-estuary advection and much faster, down-estuary migration of isohalines in response to inflow volume continuity. In South Bay, the dominant time-scales are governed by tidal dispersion.

Continental Shelf Research↗

USGS2009

A Tidally Averaged Sediment-Transport Model for San Francisco Bay, California

A tidally averaged sediment-transport model of San Francisco Bay was incorporated into a tidally averaged salinity box model previously developed and calibrated using salinity, a conservative tracer (Uncles and Peterson, 1995; Knowles, 1996). The Bay is represented in the model by 50 segments composed of two layers: one representing the channel (>5-meter depth) and the other the shallows (0- to 5-meter depth). Calculations are made using a daily time step and simulations can be made on the decadal time scale. The sediment-transport model includes an erosion-deposition algorithm, a bed-sediment algorithm, and sediment boundary conditions. Erosion and deposition of bed sediments are calculated explicitly, and suspended sediment is transported by implicitly solving the advection-dispersion equation. The bed-sediment model simulates the increase in bed strength with depth, owing to consolidation of fine sediments that make up San Francisco Bay mud. The model is calibrated to either net sedimentation calculated from bathymetric-change data or measured suspended-sediment concentration. Specified boundary conditions are the tributary fluxes of suspended sediment and suspended-sediment concentration in the Pacific Ocean. Results of model calibration and validation show that the model simulates the trends in suspended-sediment concentration associated with tidal fluctuations, residual velocity, and wind stress well, although the spring neap tidal suspended-sediment concentration variability was consistently underestimated. Model validation also showed poor simulation of seasonal sediment pulses from the Sacramento-San Joaquin River Delta at Point San Pablo because the pulses enter the Bay over only a few days and the fate of the pulses is determined by intra-tidal deposition and resuspension that are not included in this tidally averaged model. The model was calibrated to net-basin sedimentation to calculate budgets of sediment and sediment-associated contaminants. While simulated net sedimentation in the four basins that comprise San Francisco Bay was correct, the simulations incorrectly eroded shallows while channels deposited because model surface-layer boxes span both shallows and channels, and neglect lateral variability of suspended-sediment concentration. Validation with recent (1983-2005) net sedimentation in South San Francisco Bay was poor, perhaps owing to poorly quantified sediment supply, and to invasive species that altered erosion and deposition processes. This demonstrates that deterministically predicting future sedimentation is difficult in this or any estuary for which boundary conditions are not stationary. The model would best be used as a tool for developing past and present sediment budgets, and for creating scenarios of future sedimentation that are compared to one another rather than considered a deterministic prediction.

Scientific Investigations Report↗