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USGS1984

Chemical determination of particulate nitrogen in San Francisco Bay. Nitrogen: chlorophyll a rations in plankton

Particulate nitrogen (PN) and chlorophyll a (Chl a ) were measured in the northern reach of San Francisco Bay throughout 1980. The PN values were calculated as the differences between unfiltered and filtered (0·4 μm) samples analyzed using the UV-catalyzed peroxide digestion method. The Chl a values were measured spectrophotometrically, with corrections made for phaeopigments. The plot of all PNChla data was found to be non-linear, and the concentration of suspended particulate matter (SPM) was found to be the best selector for linear subsets of the data. The best-fit slopes of PNChla plots, as determined by linear regression (model II), were interpreted to be the N: Chl a ratios of phytoplankton. The Y -intercepts of the regression lines were considered to represent easily-oxidizable detrital nitrogen (EDN). In clear water ( < 10 mg l −1 SPM), the N: Chl a ratio was 1·07 μg-at N per μg Chl a . It decreased to 0·60 in the 10–18 mg l −1 range and averaged 0·31 in the remaining four ranges (18–35, 35–65, 65–155, and 155–470 mg l −1 ). The EDN values were less than 1 μg-at N l −1 in the clear water and increased monotonically to almost 12 μg-at N l −1 in the highest SPM range. The N: Chl a ratios for the four highest SPM ranges agree well with data for phytoplankton in light-limited cultures. In these ranges, phytoplankton-N averaged only 20% of the PN, while EDN averaged 39% and refractory-N 41%.

California↗

USGS2002

Estuaries as nurseries for the jacks Caranx ignobilis and Caranx melampygus (Carangidae) in Hawaii

Estuaries provide juvenile nursery habitat for many species of fish that inhabit marine environments as adults. In Hawaii, some juvenile Caranx ignobilis and Caranx melampygus occupy estuaries opportunistically before moving to nearshore ocean habitats. This study examined the extent and nature of estuarine habitat available in the lower Hanalei River of Kauai, the relative abundance and distribution of jacks in the estuary, and their diets. Salinity measurements indicated that the upstream extent of saltwater ranged from the mouth to nearly 5 km upriver and was strongly influenced by the variable river discharge. Juvenile jacks between 80 and 310 mm FL were observed on underwater transects over the full range of mixohaline conditions. Hand-operated seine collections produced overall catch rates of ???0.64 fish/haul for each of these species. The two jacks ate much the same spectrum of food items. C. ignobilis was somewhat more piscivorous than C. melampygus, as determined by measures of frequency of predation and number and bulk of prey. Data for length at age, incorporating daily otolith increment counts from these estuarine juveniles and previous counts from non-estuarine specimens, were fitted to a lifetime von Bertalanffy growth model. The results greatly extended the age range of the model and suggested that growth rates were not much different between estuarine and non-estuarine fish. ?? 2002 Elsevier Science Ltd. All rights reserved.

Estuarine, Coastal and Shelf Science↗

USGS2003

Tidal truncation and barotropic convergence in a channel network tidally driven from opposing entrances

Residual circulation patterns in a channel network that is tidally driven from entrances on opposite sides are controlled by the temporal phasing and spatial asymmetry of the two forcing tides. The Napa/Sonoma Marsh Complex in San Francisco Bay, CA, is such a system. A sill on the west entrance to the system prevents a complete tidal range at spring tides that results in tidal truncation of water levels. Tidal truncation does not occur on the east side but asymmetries develop due to friction and off-channel wetland storage. The east and west asymmetric tides meet in the middle to produce a barotropic convergence zone that controls the transport of water and sediment. During spring tides, tidally averaged water-surface elevations are higher on the truncated west side. This creates tidally averaged fluxes of water and sediment to the east. During neap tides, the water levels are not truncated and the propagation speed of the tides controls residual circulation, creating a tidally averaged flux in the opposite direction. ?? 2003 Elsevier Science B.V. All rights reserved.

California↗

USGS2003

Differential rates of vertical accretion and elevation change among aerial root types in Micronesian mangrove forests

Root systems in mangrove swamps have captured the attention of scientists for decades. Among the postulated roles of root structures include a contribution to the geomorphological stability of mangrove soils through sediment trapping and binding. In this study, we used feldspar marker horizons and sediment pins to investigate the influence of three different functional root types - prop roots in Rhizophora spp., root knees in Bruguiera gymnorrhiza, and pneumatophores in Sonneratia alba - on vertical accretion and elevation change in three mangrove forests in the Federated States of Micronesia. Prop roots facilitated vertical accretion (11.0 mm year-1) more than pneumatophores or bare soil controls (mean, 8.3 mm year-1). Sediment elevation, on the other hand, increased at an average rate of only 1.3 mm year-1 across all root types, with rate differences by root type, ranging from -0.2 to 3.4 mm year-1, being detected within river basins. This investigation demonstrates that prop roots can assist in the settling of suspended sediments from estuarine waters, yet prop root structures are not as successful as pneumatophores in maintaining sediment elevation over 2.5 years. As root densities increase over time, an increase in turbulence-induced erosion and in shallow subsidence as organic peat layers form is expected in Micronesian mangrove forests. ?? 2003 Elsevier Science B.V. All rights reserved.

Estuarine, Coastal and Shelf Science↗

USGS2021

Mangroves and people: Impacts and interactions

Mangroves have long been associated with human populations, as coastal communities rely on the various ecosystem services that mangroves provide. However, human degradation and destruction of mangrove forests is common, despite and because of our reliance on them as valuable ecosystems. Mangrove research and management must elucidate and reconcile these conflicts to maintain mangrove forests and the services that humans depend on. To better understand the complex dynamics, interactions and relationships that exist between mangroves and coastal communities, the 5th Mangrove Macrobenthos and Management (MMM5) conference was held in Singapore in July 2019, with the theme “ Mangroves and People: Impacts and Interactions”. This theme was chosen because Southeast Asia is the epicentre of ongoing mangrove loss, and a large number of coastal communities in the region rely on the ecosystem services that mangroves provide. The 32 papers published in this Special Issue represent the breadth of mangrove research presented at MMM5, including topics in faunal biology, ecosystem ecology, genetics, physical geography, biogeochemistry, remote sensing and the social sciences. The articles are characterized under the following topics: 1) mangrove ecosystem functioning; 2) range expansion of mangroves; 3) ecosystem services of mangroves; 4) anthropogenic and natural threats to mangroves; and 5) the management and social-ecology of mangroves. This Special Issue highlights the current state of the art of mangrove research and application, and describes a number of emerging new ideas and research opportunities that will continue to advance mangrove ecosystem science into the future.

Estuarine, Coastal and Shelf Science↗

USGS2021

Scientific contributions of the Mangrove Macrobenthos and Management (MMM) conference series, 2000-2019

The conservation of mangrove forests has become an important international policy priority in recent decades, and is mirrored by a large increase in research interest. Multiple disciplines now use mangroves as a study system, from molecular biology to social science. The variety of research conducted in mangroves is exemplified by the Mangrove Macrobenthos & Management (MMM) conference series, the world's largest gathering of researchers and practitioners dedicated to the science and conservation of the mangrove ecosystem. Established in 2000, MMM is a useful barometer with which to identify and measure research trends over the last 20 years. This study describes the history of the MMM conference series, and analyses the research presented in this series as a potential proxy of how the broader mangrove research field has changed through time. Presentations in early MMM conferences were dominated by macrobenthos studies, reflective of the origins of MMM as a forum specifically for mangrove macrobenthos research. However, later conferences have come to reflect the broader interests of the mangrove research field, and have tracked the emergence of blue carbon and other ecosystem services. Mangrove forests continue to be a rich and diverse ecosystem of study, and future MMM conferences will continue to provide a platform for impactful research and management.

Estuarine, Coastal and Shelf Science↗

USGS1993

Tidal, Residual, Intertidal Mudflat (TRIM) Model and its Applications to San Francisco Bay, California

A numerical model using a semi-implicit finite-difference method for solving the two-dimensional shallow-water equations is presented. The gradient of the water surface elevation in the momentum equations and the velocity divergence in the continuity equation are finite-differenced implicitly, the remaining terms are finite-differenced explicitly. The convective terms are treated using an Eulerian-Lagrangian method. The combination of the semi-implicit finite-difference solution for the gravity wave propagation, and the Eulerian-Lagrangian treatment of the convective terms renders the numerical model unconditionally stable. When the baroclinic forcing is included, a salt transport equation is coupled to the momentum equations, and the numerical method is subject to a weak stability condition. The method of solution and the properties of the numerical model are given. This numerical model is particularly suitable for applications to coastal plain estuaries and tidal embayments in which tidal currents are dominant, and tidally generated residual currents are important. The model is applied to San Francisco Bay, California where extensive historical tides and current-meter data are available. The model calibration is considered by comparing time-series of the field data and of the model results. Alternatively, and perhaps more meaningfully, the model is calibrated by comparing the harmonic constants of tides and tidal currents derived from field data with those derived from the model. The model is further verified by comparing the model results with an independent data set representing the wet season. The strengths and the weaknesses of the model are assessed based on the results of model calibration and verification. Using the model results, the properties of tides and tidal currents in San Francisco Bay are characterized and discussed. Furthermore, using the numerical model, estimates of San Francisco Bay's volume, surface area, mean water depth, tidal prisms, and tidal excursions at spring and neap tides are computed. Additional applications of the model reveal, qualitatively the spatial distribution of residual variables.

Califoronia↗

USGS1994

Seagrasses, dredging and light in Laguna Madre, Texas, U.S.A.

Light reduction resulting from maintenance dredging was the suspected cause of large-scale loss of seagrass cover in deep parts of Laguna Madre between surveys conducted in 1965 and 1974. Additional changes to 1988, together with an analysis of dredging frequency and intensity for different parts of the laguna, were consistent with this interpretation. Intensive monitoring of the underwater light regime and compilation of detailed environmental data for 3 months before and 15 months after a dredging project in 1988 revealed reduced light attributable to dredging in four of eight subdivisions of the study area, including the most extensive seagrass meadow in the study area. Dredging effects were strongest close to disposal areas used during this project but still were detectable on transects >1·2 km from the nearest dredge disposal area. In the subdivision of the study area where most of the dredge disposal occurred, light attenuation was increased throughout the 15 months of observation after dredging. In the seagrass meadow and the transition zone at the outer edge of the meadow, effects were evident up to 10 months after dredging. Resuspension and dispersion events caused by wind-generated waves are responsible for the propagation of dredge-related turbidity over space and time in this system.

Texas↗

USGS1995

Modeling photosynthetically active radiation in water of Tampa Bay, Florida, with emphasis on the geometry of incident irradiance

A model is developed that uses a simplified geometric description of incident direct solar beam and diffuse skylight. The model incorporates effects of solar elevation angle and cloudiness on the amount of in-air photosynthetically active radiation (PAR) that passes through the air-water interface and on K0 in waters of relatively low turbidity. The value of K0 was estimated to vary as much as 41% on a clear summer day due to changes in solar elevation angle. The model was used to make estimates of the depth to which sea-grasses might receive adequate light for survival for a range of values of K0. -from Authors

Estuarine, Coastal and Shelf Science↗

USGS1995

Sediment resuspension mechanisms in Old Tampa Bay, Florida

The mechanisms that resuspend bottom sediments in Old Tampa Bay, a shallow, microtidal, subtropical estuary in west-central Florida, were determined by analysing data collected during several periods from 1988 to 1990. Hydrodynamic and suspended-solids concentration data were collected at a relatively deep (4 m) site where a permanent platform was built and at a relatively shallow (1·5 m) site where a submersible instrument package was deployed. Bottom sediments were non-cohesive silts and fine sands. The primary sediment resuspension mechanism at both sites was wind waves, which were generated by strong and sustained winds associated with winter storms and tropical storms. At the platform, waves were depth-transitional, and estimated bottom shear stresses were most sensitive to wave period and water depth. Concentrations of suspended solids at this site corresponded well with wave motion, and non-linear wave-current interaction was small. At the shallow-water site, concentrations of suspended solids were elevated during periods of strong north-easterly winds and large bottom orbital velocities. At both sites, wind direction was an important factor in determining the occurrence and magnitude of sediment resuspension. Resuspended sediments settled within several hours as storm intensity diminished. Winds and waves generated by thunderstorms were more transient than those generated by winter storms and tropical storms. Based on the data collected during this study, thunderstorms are less likely to resuspend bottom sediment than winter storms and tropical storms. Maximum tidal currents at the study sites are usually less than 15 cm s −1 and did not increase observed concentrations of suspended solids.

Florida↗

USGS1996

Marsh vertical accretion in a Southern California Estuary, U.S.A

Vertical accretion was measured between October 1992 and March 1994 in low and high saltmarsh zones in the north arm of Tijuana estuary from feldspar market horizons and soil corings. Accretion in the Spartina foliosa low marsh (2-8.5 cm) was related almost entirely to episodic storm-induced river flows between January and March 1993, with daily tidal flooding contributing little or no sediment during the subsequent 12 month period of no river flow. Accretion in the Salicornia subterminalis high marsh was low (~1-2 mm) throughout the 17-month measuring period. High water levels in the salt marsh associated with the storm flows were enhanced in early January 1993 by the monthly extreme high sea level, when the low and high marshes were flooded about 0.5 m above normal high tide levels. Storm flows in January-March 1993 mobilized about 5 million tons of sediment, of which the low salt marsh trapped an estimated 31,941 tonnes, including 971 tonnes of carbon and 77 tonnes of nitrogen. Sediment trapping by the salt marsh during episodic winter floods plays an important role in the long-term maintenance of productivity of Tijuana estuary through nutrient retention and maintenance of marsh surface elevation. The potential exists, however, for predicted accelerated rates of sea-level rise to out-pace marsh surface elevation gain during extended periods of drought (i.e. low sediment inputs) which are not uncommon for this arid region.

California↗

USGS1996

Anthropogenic sediment resuspension mechanisms in a shallow microtidal estuary

The mechanisms that resuspend bottom sediments in Hillsborough Bay, a shallow, microtidal, subtropical estuary in West-central Florida, were determined by analysing hydrodynamic and suspended-solids concentration data collected during several instrument deployments made in 1990 and 1991. Large vessels in a dredged ship channel can generate forced solitary long waves that cause large water velocities and sediment resuspension at the study sites. An experiment was conducted with a trawler that resuspended bottom sediments, and some of the resuspended sediments remained in suspension for at least 8 h. A secondary impact of vessel-generated long waves and trawling is that sediments that are resuspended and newly deposited are more susceptible to resuspension by tidal currents than undisturbed bottom sediments. Natural sediment resuspension by wind waves and tidal current is less frequent or of smaller magnitude than anthropogenic sediment resuspension. The annual mass of sediment resuspended by vessel-generated long waves is estimated to be one order of magnitude greater than the annual mass of sediment resuspended by wind waves generated by winter storms.

Estuarine, Coastal and Shelf Science↗

USGS1997

Seasonal Sea-Level Variations in San Francisco Bay in Response to Atmospheric Forcing, 1980

The seasonal response of sea level in San Francisco Bay (SFB) to atmospheric forcing during 1980 is investigated. The relations between sea-level data from the Northern Reach, Central Bay and South Bay, and forcing by local wind stresses, sea level pressure (SLP), runoff and the large scale sea level pressure field are examined in detail. The analyses show that the sea-level elevations and slopes respond to the along-shore wind stress T(V) at most times of the year, and to the cross-shore wind stress T(N) during two transition periods in spring and autumn. River runoff raises the sea-level elevation during winter. It is shown that winter precipitation in the SFB area is mainly attributed to the atmospheric circulation associated with the Alcutian Low, which transports the warm, moist air into the Bay area. A multiple linear regression model is employed to estimate the independent contributions of barometric pressure and wind stress to adjusted sea level. These calculations have a simple dynamical interpretation which confirms the importance of along-shore wind to both sea level and north-south slope within the Bay.

Estuarine, Coastal and Shelf Science↗

USGS1997

The design of sampling transects for characterizing water quality in estuaries

The high spatial variability of estuaries poses a challenge for characterizing estuarine water quality. This problem was examined by conducting monthly high-resolution transects for several water quality variables (chlorophyll a , suspended particulate matter and salinity) in San Francisco Bay (California, U.S.A.). Using these data, six different ways of choosing station locations along a transect, in order to estimate mean conditions, were compared. In addition, 11 approaches to estimating the variance of the transect mean when stations are equally spaced were compared, and the relationship between variance of the estimated transect mean and number of stations was determined. The results provide guidelines for sampling along the axis of an estuary: (1) choose as many equally-spaced stations as practical; (2) estimate the variance of the mean y by var ( y )=(1/10 n 2 )Σ n j =2 ( y j − y j −1 ) 2 , where y 1 , . . ., y n are the measurements at the n stations; and (3) attain the desired precision by adjusting the number of stations according to var( y )α1/ n 2 . The inverse power of 2 in the last step is a consequence of the underlying spatial correlation structure in San Francisco Bay; more studies of spatial structure at other estuaries are needed to determine the generality of this relationship.

Estuarine, Coastal and Shelf Science↗

USGS1997

Accretion of a New England (U.S.A.) salt marsh in response to inlet migration, storms, and sea-level rise

Sediment accumulation rates were determined at several sites throughout Nauset Marsh (Massachusetts, U.S.A.), a back-barrier lagoonal system, using feldspar marker horizons to evaluate short-term rates (1 to 2 year scales) and radiometric techniques to estimate rates over longer time scales ( 137 Cs, 210 Pb, 14 C). The barrier spit fronting the Spartina -dominated study site has a complex geomorphic history of inlet migration and overwash events. This study evaluates sediment accumulation rates in relation to inlet migration, storm events and sea-level rise. The marker horizon technique displayed strong temporal and spatial variability in response to storm events and proximity to the inlet. Sediment accumulation rates of up to 24 mm year −1 were recorded in the immediate vicinity of the inlet during a period that included several major coastal storms, while feldspar sites remote from the inlet had substantially lower rates (trace accumulation to 2·2 mm year −1 ). During storm-free periods, accumulation rates did not exceed 6·7 mm year −1 , but remained quite variable among sites. Based on 137 Cs (3·8 to 4·5 mm year −1 ) and 210 Pb (2·6 to 4·2 mm year −1 ) radiometric techniques, integrating sediment accumulation over decadal time scales, the marsh appeared to be keeping pace with the relative rate of sea-level rise from 1921 to 1993 of 2·4 mm year −1 . At one site, the 210 Pb-based sedimentation rate and rate of relative sea-level rise were nearly similar and peat rhizome analysis revealed that Distichlis spicata recently replaced this once S. patens site, suggesting that this portion of Nauset Marsh may be getting wetter, thus representing an initial response to wetland submergence. Horizon markers are useful in evaluating the role of short-term events, such as storms or inlet migration, influencing marsh sedimentation processes. However, sampling methods that integrate marsh sedimentation over decadal time scales are preferable when evaluating a systems response to sea-level rise.

Massachusetts↗

USGS1998

Variations in tidal level in the Gulf of Mexico and implications for tidal wetlands

Tidal wetland environments have an ecological zonation that corresponds with tide levels, in particular with mean high water. However, mean sea level (MSL), which has shown a persistent rise in the Gulf of Mexico during this century, is the most common reference for water level change. We examine here the relationship between mean sea level and mean high water in describing water level changes in the Gulf of Mexico. The records of monthly mean water level for four stations, Galveston, Pensacola, Cedar Key and Key West, are partitioned into the annual cycle, the long-term trend, and a low-frequency (> 10 year period) fluctuation. The trend is the same for MSL and mean higher high water (MHHW) for all stations investigated except Cedar Key, Florida, where MHHW has increased more rapidly than MSL. The low-frequency fluctuations are similar between the stations and the tidal datums. MSL can predict MHHW with discrepancies of up to 5 cm owing to the lunar nodal cycle and an annual tidal signal. Low-frequency climatic fluctuations produce greater variations than the nodal cycle, but the difference in frequency can lead to interference between the two in MHHW. The combination of the two can produce sea-level rises in excess of 1 cm year-1 over several year periods, even in areas having long-term trends of 0.2 cm year-1 or less.

Estuarine, Coastal and Shelf Science↗

USGS1999

Fishes in mangrove prop-root habitats of northeastern Florida Bay: Distinct assemblages across an estuarine gradient

Seasonal changes in freshwater inflow and other environmental conditions may induce changes in density and species composition of mangrove fishes along estuarine gradients. Fishes within mangrove habitats in a subtropical estuary were sampled monthly from May 1989 to May 1990, using block nets with rotenone and visual censuses. At 18 stations, temperature ranged from 22 to 34°C, depth from 10 to 104cm and underwater visibility from 1 to 13m. Salinity ranged from 0 to 60 upstream, and 35 to 54 mid- and downstream. A total of 573191 individuals (76 species) was observed or collected, with an average density of 6·5 fish m −2 . Engraulidae, Atherinidae, Poeciliidae and Cyprinodontidae numerically dominated the assemblage. Distinct assemblages occurred up-, mid- and downstream and maintained coherent groups in these gradient positions over the seasons. Residents totalled 94·5% of the individuals, estuarine transients comprised 5·1% and occasional marine visitors were less than 0·4%. Densities of resident fishes peaked in winter as temperatures and water levels fell, uncorrelated with changes in salinity. These observations suggest that mangrove habitats may sustain diverse and abundant fish communities dominated by euryhaline residents. Although estuarine transients were consistently rare in upstream sub-basins, downstream were found numerous sub-adults of species occurring as adults on nearby reefs (Lutjanidae, Haemulidae). Thus, reef-associated estuarine transients may be abundant in mangrove habitats having near-marine salinities. Contrary to expectations, mangrove habitats in northeastern Florida bay did not function as a nursery as defined under the nursery-ground paradigm: young-of-the-year juveniles of estuarine transient species did not seek low salinity sub-basins. However, northeastern Florida Bay may not be representative of most mangrove estuaries as the area: (1) is without lunar tides and related circulation; (2) has low and variable amounts of submersed vegetation; and (3) experiences severe hypersaline conditions.

Estuarine, Coastal and Shelf Science↗

USGS2000

Predicting the physical effects of relocating Boston's sewage outfall

Boston is scheduled to cease discharge of sewage effluent in Boston Harbor in Spring 2000 and begin discharge at a site 14 km offshore in Massachusetts Bay in a water depth of about 30 m. The effects of this outfall relocation on effluent dilution, salinity and circulation are predicted with a three-dimensional hydrodynamic model. The simulations predict that the new bay outfall will greatly decrease effluent concentrations in Boston Harbor (relative to the harbour outfall) and will not significantly change mean effluent concentrations over most of Massachusetts Bay. With the harbour outfall, previous observations and these simulations show that effluent concentrations exceed 0??5% throughout the harbour, with a harbour wide average of 1-2%. With the bay outfall, effluent concentrations exceed 0??5% only within a few km of the new outfall, and harbour concentrations drop to 0??1-0??2%, a 10-fold reduction. During unstratified winter conditions, the local increase in effluent concentration at the bay outfall site is predicted to exist throughout the water column. During stratified summer conditions, however, effluent released at the sea bed rises and is trapped beneath the pycnocline. The local increase in effluent concentration is limited to the lower layer, and as a result, surface layer effluent concentrations in the vicinity of the new outfall site are predicted to decrease (relative to the harbour outfall) during the summer. Slight changes are predicted for the salinity and circulation fields. Removing the fresh water associated with the effluent discharge in Boston Harbor is predicted to increase the mean salinity of the harbour by 0??5 and decrease the mean salinity by 0??10-0??15 within 2-3 km of the outfall. Relative to the existing mean flow, the buoyant discharge at the new outfall is predicted to generate density-driven mean currents of 2-4 cm s-1 that spiral out in a clockwise motion at the surface during winter and at the pycnocline (15-20 m depth) during summer. Compensating counterclockwise currents are predicted to spiral in toward the source at the bottom. Because the scale of the residual current structure induced by the new discharge is comparable to or smaller than typical subtidal water parcel excursions, Lagrangian trajectories will not follow the Eulerian residual flow. Thus, mean currents measured from moorings within 5 km of the bay outfall site will be more useful for model comparison than to indicate net transport pathways.

Massachusetts↗