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At least 793 records · Page 44Linked to original sources

USGS2006

Hydrogeologic setting and ground water flow beneath a section of Indian River Bay, Delaware

The small bays along the Atlantic coast of the Delmarva Peninsula (Delaware, Maryland, and Virginia) are a valuable natural resource, and an asset for commerce and recreation. These coastal bays also are vulnerable to eutrophication from the input of excess nutrients derived from agriculture and other human activities in the watersheds. Ground water discharge may be an appreciable source of fresh water and a transport pathway for nutrients entering the bays. This paper presents results from an investigation of the physical properties of the surficial aquifer and the processes associated with ground water flow beneath Indian River Bay, Delaware. A key aspect of the project was the deployment of a new technology, streaming horizontal resistivity, to map the subsurface distribution of fresh and saline ground water beneath the bay. The resistivity profiles showed complex patterns of ground water flow, modes of mixing, and submarine ground water discharge. Cores, gamma and electromagnetic-induction logs, and in situ ground water samples collected during a coring operation in Indian River Bay verified the interpretation of the resistivity profiles. The shore-parallel resistivity lines show subsurface zones of fresh ground water alternating with zones dominated by the flow of salt water from the estuary down into the aquifer. Advective flow produces plumes of fresh ground water 400 to 600 m wide and 20 m thick that may extend more than 1 km beneath the estuary. Zones of dispersive mixing between fresh and saline ground water develop on the upper, lower, and lateral boundaries of the the plume. the plumes generally underlie small incised valleys that can be traced landward to stream draining the upland. The incised valleys are filled with 1 to 2 m of silt and peat that act as a semiconfining layer to restrict the downward flow of salt water from the estuary. Active circulation of both the fresh and saline ground water masses beneath the bay is inferred from the geophysical results and supported by geochemical data.

Delaware↗

USGS2017

Life history and status of Shortnose Sturgeon (Acipenser brevirostrum LeSueur, 1818)

Shortnose Sturgeon = SNS (Acipenser brevirostrum) is a small diadromous species with most populations living in large Atlantic coast rivers and estuaries of North America from New Brunswick, Canada, to GA, USA. There are no naturally landlocked populations, so all populations require access to fresh water and salt water to complete a natural life cycle. The species is amphidromous with use of fresh water and salt water (the estuary) varied across the species range, a pattern that may reflect whether freshwater or saltwater habitats provide optimal foraging and growth conditions. Migration is a dominant behavior during life history, beginning when fish are hatchling free embryos (southern SNS) or larvae (northeastern and far northern SNS). Migration continues by juveniles and nonspawning adult life stages on an individual time schedule with fish moving between natal river and estuary to forage or seek refuge, and by spawning adults migrating to and from riverine spawning grounds. Coastal movements by adults throughout the range (but particularly in the Gulf of Maine = GOM and among southern rivers) suggest widespread foraging, refuge use, and widespread colonization of new rivers. Colonization may also be occurring in the Potomac River, MD–VA–DC (midAtlantic region). Genetic studies (mtDNA and nDNA) identified distinct individual river populations of SNS, and recent rangewide nDNA studies identified five distinct evolutionary lineages of SNS in the USA: a northern metapopulation in GOM rivers; the Connecticut River; the Hudson River; a Delaware River–Chesapeake Bay metapopulation; and a large southern metapopulation (SC rivers to Altamaha River, GA). The Saint John River, NB, Canada, in the Bay of Fundy (north of the GOM), is the sixth distinct genetic lineage within SNS. Life history information from telemetry tracking supports the genetic information documenting extensive movement of adults among rivers within the three metapopulations. However, individual river populations with spawning adults are still the best basal unit for management and recovery planning. The focus on individual river populations should be complemented with attention to migratory processes and corridors that foster metapopulation level risks and benefits. The species may be extirpated at the center of the range, i.e., the midAtlantic region (Chesapeake Bay, MD–VA, and probably, NC), but large rivers in VA, including the James and Potomac rivers, need study. The largest SNS populations in GOM and northeastern rivers, like the Kennebec, Hudson, and Delaware rivers, typically have tens of thousands of adults. This contrasts with southern rivers, where rivers typically have much fewer (<2500) adults, except for the Altamaha River (>6000 adults). River damming in the 19th and 20th Centuries extirpated some populations, and also, created two dysfunctional segmented populations: the Connecticut River SNS in CT–MA and the SanteeCooper rivers–Lake Marion SNS in SC. The major anthropogenic impact on SNS in marine waters is fisheries bycatch. The major impacts that determine annual recruitment success occur in freshwater firstly, where adult spawning migrations and spawning are blocked or spawning success is affected by river regulation and secondly, where poor survival of early life stages is caused by river dredging, pollution, and unregulated impingement/entrainment in water withdrawal facilities. Climate warming has the potential to reduce abundance or eliminate SNS in many rivers, particularly in the South. In 1998, the National Marine Fisheries Service (NMFS) recommended management of 19 rivers as distinct population segments (DPSs) based on strong fidelity to natal rivers. A Biological Assessment completed in 2010 reaffirmed this approach. NMFS has not formally listed DPSs under the ESA and the species remains listed as endangered rangewide in the USA.

Journal of Applied Ichthyology↗

USGS2024

Dams facilitate predation during Atlantic salmon (Salmo salar) smolt migration

Diadromous fish populations have incurred precipitous declines across the globe. Among many stressors, these species are threatened by anthropogenic barriers that impede movement, alter riverine habitat, and augment predator communities. In this study, we used acoustic transmitters ( n = 220) with predation and temperature sensors to characterize Atlantic salmon ( Salmo salar ) smolt predation risk in the Penobscot River, Maine, USA. Across two seasons, we documented 79 predation events through a 170 km migratory pathway, which included three hydropower projects and a large estuary. We detected tagged smolts that were predated by fish ( n = 42), marine mammals ( n = 28), and birds ( n = 9). Using a multistate mark-recapture framework, we estimated that 46% of smolts were predated during downstream migration, which accounted for at least 55% of all mortality. Relative predation risk was greatest through impoundments and the lower estuary, where on average, predation rates were 4.8-fold and 9.0-fold greater than free-flowing reaches, respectively. These results suggest that predation pressure on Atlantic salmon smolts is exacerbated by hydropower projects and that predation in the lower estuary may be greater than expected.

Maine↗

USGS2003

Late-Holocene climate andecosystem history from Chesapeake Bay sediment cores, USA

Palaeoclimate records from late-Holocene sediments in Chesapeake Bay, the largest estuary in the USA, provide evidence that both decadal to centennial climate variability and European colonization had severe impacts on the watershed and estuary. Using pollen and dinoflagellate cysts as proxies for mid-Atlantic regional precipitation, estuarine salinity and dissolved oxygen (DO) during the last 2300 years, we identified four dry intervals, centred on AD 50 (P1/D1), AD 1000 (P2/D2), AD 1400 (P3) and AD 1600 (P4). Two centennial-scale events, P1/D1 and P2/D2, altered forest composition and led to increased salinity and DO levels in the estuary. Intervals P3 and P4 lasted several decades, leading to decreased production of pine pollen. Periods of dry mid-Atlantic climate correspond to 'megadroughts' identified from tree-ring records in the southeastern and central USA. The observed mid-Atlantic climate variability may be explained by changes in atmospheric circulation resulting in longer-term, perhaps amplified, intervals of meridional flow. After European colonization in the early seventeenth century, forest clearance for agriculture, timber and urbanization altered estuarine water quality, with dinoflagellate assemblages indicating reduced DO and increased turbidity.

Holocene↗

USGS2023

Climatic drivers of estuarine sediment dynamics

Estuarine sediment dynamics are controlled by myriad physical processes that operate across broad spatiotemporal scales. On the smallest scales, interactions between turbulence and individual particles control mobilization and settling, while interactions across larger scales between freshwater and marine inflow can control decadal timescale geomorphic change. Climate change, through the combined effects of sea-level rise, precipitation intensity, atmospheric variability, and anthropogenic intervention will affect sediment dynamics, geomorphology, and ultimately estuarine function. Therefore, it is imperative to understand the influence of these effects on sediment dynamics to assess the future evolution of estuaries. In this chapter we address the basic tidal, non-tidal, and geologic timescale concepts of estuarine sediment transport, then we illustrate how these concepts may be affected by future climate change. While sea-level rise alone will tend to favor sediment trapping and landward movement of estuaries, human influences within the watershed and estuary, including shoreline stabilization and dredging, may be of similar magnitude. The overarching goal of this chapter is to provide the reader with a basic framework of estuarine sediment transport so they can apply these general concepts to a specific system, under a predicted future state of climate, and develop testable hypotheses on future estuarine geomorphology and function.

Book chapter↗

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↗

USGS2016

Coupled downscaled climate models and ecophysiological metrics forecast habitat compression for an endangered estuarine fish

Climate change is driving rapid changes in environmental conditions and affecting population and species’ persistence across spatial and temporal scales. Integrating climate change assessments into biological resource management, such as conserving endangered species, is a substantial challenge, partly due to a mismatch between global climate forecasts and local or regional conservation planning. Here, we demonstrate how outputs of global climate change models can be downscaled to the watershed scale, and then coupled with ecophysiological metrics to assess climate change effects on organisms of conservation concern. We employed models to estimate future water temperatures (2010–2099) under several climate change scenarios within the large heterogeneous San Francisco Estuary. We then assessed the warming effects on the endangered, endemic Delta Smelt, Hypomesus transpacificus , by integrating localized projected water temperatures with thermal sensitivity metrics (tolerance, spawning and maturation windows, and sublethal stress thresholds) across life stages. Lethal temperatures occurred under several scenarios, but sublethal effects resulting from chronic stressful temperatures were more common across the estuary (median >60 days above threshold for >50% locations by the end of the century). Behavioral avoidance of such stressful temperatures would make a large portion of the potential range of Delta Smelt unavailable during the summer and fall. Since Delta Smelt are not likely to migrate to other estuaries, these changes are likely to result in substantial habitat compression. Additionally, the Delta Smelt maturation window was shortened by 18–85 days, revealing cumulative effects of stressful summer and fall temperatures with early initiation of spring spawning that may negatively impact fitness. Our findings highlight the value of integrating sublethal thresholds, life history, and in situ thermal heterogeneity into global change impact assessments. As downscaled climate models are becoming widely available, we conclude that similar assessments at management-relevant scales will improve the scientific basis for resource management decisions.

California↗

USGS1999

Reintroduction of lake sturgeon in the St. Louis River, western Lake Superior

Lake sturgeon Acipenser fulvescens declined in abundance in Lake Superior's St. Louis River during the late 1800s and were eliminated from the river during the early 1900s because of the combined effects of exploitation, pollution, and habitat alteration. Since then, exploitation in the river and in Lake Superior has been reduced. Furthermore, water quality in the St. Louis River has improved, and its upper-estuary spawning habitat has remained relatively unchanged and adequate. Lake sturgeon have been stocked annually in the St. Louis River since 1983; from 1983 to 1994 stockings included 736,000 fry, 128,000 fingerlings, and 500 yearlings of the Lake Winnebago strain. Relative abundance, distribution, and growth were determined by sampling marked fish in the St. Louis River estuary and western Lake Superior with graded-mesh gill nets and bottom trawls. During 1983–1998, 644 lake sturgeon were caught in 15,486 m of gill net, and 196 were caught in 1,200 trawl tows. Lake sturgeon were sampled most frequently near channelized portions of the St. Louis River and stayed in the estuary up to 5 years before entering Lake Superior. Lake sturgeon were not captured in western Lake Superior prior to stocking, but abundance increased dramatically after 1985. Of 582 lake sturgeon sampled along the Wisconsin shore of Lake Superior from 1985 through 1998 (347,000 m of gill nets), 93% were captured in less than 30 m of water. A total of 93 lake sturgeon were reported from assessment netting conducted along the Minnesota shore of Lake Superior from 1992 through 1997. The current range of stocked lake sturgeon extends from the St. Louis River 145 km east to the apostle Islands in Wisconsin and 110 km northeast to Little Marais in Minnesota. Increases in lake sturgeon abundance were directly attributed to the stocking program. We recommend stocking a minimum of 20 year-classes and the use of a Lake Superior egg source, if possible. Final evaluation of the project will be detection of tagged lake sturgeon successfully spawning at historical spawning areas.

North American Journal of Fisheries Management↗

USGS2009

Vegetation effects on fish distribution in impounded salt marshes

We compared the density and biomass of resident fish in vegetated and unvegetated flooded habitats of impounded salt marshes in the northern Indian River Lagoon (IRL) Estuary of east-central Florida. A 1 -m 2 throw trap was used to sample fish in randomly located, paired sample plots ( n = 198 pairs) over 5 seasons in 7 impoundments. We collected a total of 15 fish taxa, and 88% of the fishes we identified from the samples belonged to three species: Cyprinodon variegatus (Sheepshead Minnow), Gambusia holbrooki (Eastern Mosquitofish), and Poecilia latipinna (Sailfin Molly). Vegetated habitat usually had higher density and biomass of fish. Mean fish density (and 95% confidence interval) for vegetated and unvegetated sites were 8.2 (6.7–9.9) and 2.0 (1.6–2.4) individuals m -2 , respectively; mean biomass (and 95%) confidence interval) for vegetated and unvegetated sites were 3.0 (2.5–3.7) and 1.1 (0.9–1.4) g m -2 , respectively. We confirmed previous findings that impounded salt marshes of the northern IRL Estuary produce a high standing stock of resident fishes. Seasonal patterns of abundance were consistent with fish moving between vegetated and unvegetated habitat as water levels changed in the estuary. Differences in density, mean size, and species composition of resident fishes between vegetated and unvegetated habitats have important implications for movement of biomass and nutrients out of salt marsh by piscivores (e.g., wading birds and fishes) via a trophic relay.

Florida↗

USGS2009

Sediment characterization and dynamics in Lake Pontchartrain, Louisiana

Lake Pontchartrain in southeastern Louisiana is the largest of several shallow estuaries that together cover over 15,000 km 2 . Wetlands, forests, and large urban areas surround the lake. Primary transport mechanisms of sediments to Lake Pontchartrain include urban runoff, major diversions of the Mississippi River, discharge from streams along the north and west shores, and tidal circulation. Sediments deposited in Lake Pontchartrain are subjected to resuspension and mixing by natural and human activities. Bioturbation and water turbulence throughout the lake are the major mixing agents, and mechanical shell dredging has reworked much of the lake bottom over the last century. Sediment characterization through direct sampling and geophysical surveys indicates that these processes continually rework the top meter of sediment. The lake receives discharge from roadways and industrial and agricultural sources. Contaminants from these sources accumulate in the lake sediments and are an important contributor to the degradation of the estuary. Decline in populations of various benthic organisms, such as shrimp and clams, has been documented in the lake. To characterize the health of this important estuary, the U.S. Geological Survey (USGS) conducted a comprehensive evaluation of the geology, geomorphology, coastal processes, and environmental condition of the Pontchartrain Basin from 1994 to 1997. This report presents an assessment of sediment distribution and quality using a multidisciplinary approach to characterize the influence of various physical and chemical parameters: nearsurface stratigraphy, major trace metal concentrations (Cu, Pb, Zn, and Ni), and short-lived radionuclides ( 210 Pb, 7 Be, and 137 Cs). The results are compared with water-circulation patterns to determine high-resolution sedimentation patterns in the lake. The data show a significant increase in trace metals in the top 1 m of lake sediments. Above this horizon, pollen analysis indicates a correlation with land clearing in the area, a proxy for increasing human development of the surrounding landscape and an increase in surface run-off. The data also show that the top meter of sediment undergoes frequent resuspension during high-energy circulation events and via circulation gyres in the lake. This regular turnover does not allow stratification of recently deposited sediments, restricting the sequestration of contaminated material that enters the lake.

Louisiana↗

USGS2005

Water resources and the urban environment, lower Charles River watershed, Massachusetts, 1630-2005

The Charles River, one of the Nation’s most historically significant rivers, flows through the center of the Boston metropolitan region in eastern Massachusetts. The lower Charles River, downstream of the original head of tide in Watertown, was originally a productive estuary and important source of fish and shellfish for the Native Americans of the region. This portion of the river has an exceptionally long and colorful human history. In 1615, the explorer Captain John Smith gave the river its modern name, in honor of young Prince Charles of England. In 1617–18, the Native American community of the watershed was decimated by an epidemic, after having continuously occupied the area for the previous 4,000 years. In 1630, the first large group of English settlers, led by John Winthrop, set foot on the Shawmut Peninsula at the mouth of the river, and established the town of Boston. In the 1630s, the first printing press, public park, public school, and college in the English colonies were all established on the banks of the Charles River. Almost immediately, the settlers of Boston and adjacent towns also began to modify the landscape and water resources of the watershed. Perhaps the most important type of landscape alteration in the watershed was the filling of the extensive salt marshes and tidal flats of the estuary downstream of Watertown. This landmaking activity along the lower Charles River began in the mid-1600s, and did not conclude until the 1950s. In the early 20th century, the estuary mouth was dammed, creating a freshwater basin in the lower 9.5 miles of the river. A system of parks and parkways was built along the banks of the impounded river. In addition to the mainstem river, virtually all of the remaining water resources in the watershed have also been altered. Most of the river’s tributaries, for example, were culverted, or placed into tunnels, and many of the ponds and freshwater wetlands in the watershed were filled to facilitate urban development. One additional legacy of the river’s long human history is pollution from industry and sewage. By 1875, a total of 43 mills were operating along the lower Charles River between Watertown Dam and Boston Harbor. Thousands of gallons of untreated sewage and industrial wastewater entered the river daily through gravity drains, posing a major threat to public health. Concerted efforts to address the sewage problem began in the late 1870s. By the 1960s, the water quality of the river was significantly improved, yet still not suitable for swimming, fishing, or even boating under most conditions. In 1965, the Charles River Watershed Association was organized and the call to restore the environmental quality of the river and its parklands was heard anew. Passage of the Federal Clean Water Act in 1972 and the subsequent court-ordered reconstruction of the region’s sewage-treatment infrastructure in the 1980s and 1990s (the “Boston Harbor Cleanup”) provided additional impetus to address the river’s remaining pollution problems. In 1995, the U.S. Environmental Protection Agency launched the Clean Charles 2005 Initiative, which brought together government agencies, private-sector institutions, and environmental organizations to focus on restoring the river to fishable and swimmable conditions by Earth Day 2005. This initiative has achieved substantial improvements in water quality; sewage discharges to the river, for example, have been largely eliminated. Nevertheless, it is now widely acknowledged that full attainment of water-quality standards will likely depend upon improved public understanding of the watershed, continued efforts to eliminate illicit sewage discharges to the river, and better management of the urban runoff that enters the river both directly and from its many tributary streams.

Massachusetts↗

USGS2023

Evaluating water-quality conditions in the mainstem and tidal reaches of the Merrimack River in Massachusetts, June to September 2020

In summer and early fall (June to September) 2020, water-quality data were collected at 13 stations along the mainstem of the Merrimack River and into the Merrimack River estuary. The data are allocated among three different datasets: discrete water sample data, discrete vertical profile data, and continuous data. The collective purpose of these datasets is to enable assessment of the overall water-quality conditions in the Merrimack River and estuary and to identify areas for potentially more targeted water-quality monitoring in the future. The highest concentrations of nutrients—nitrogen and phosphorus—were found at the stations downstream from wastewater treatment plants in Lowell, Lawrence, and Haverhill. Nutrient concentrations measured in the Merrimack River estuary were not as high as those measured in the Merrimack River, indicating that other processes are affecting nutrient concentrations in the system. These data were collected coincident with a severe flash drought in New England. Analysis of the vertical profile and continuous data indicated that, for intermittent periods up to 5 days, water quality in some sections of the Merrimack River may not support designated uses for the waterbody as established in the Massachusetts surface water quality standards.

Massachusetts↗

USGS2016

Sediment data collected in 2014 from Barnegat Bay, New Jersey

In response to the 2010 Governor’s Action Plan to clean up the Barnegat Bay–Little Egg Harbor (BBLEH) estuary in New Jersey, the U.S. Geological Survey (USGS) partnered with the New Jersey Department of Environmental Protection in 2011 to begin a multidisciplinary research project to understand the physical controls on water quality in the bay. Between 2011 and 2013, USGS scientists mapped the geological and morphological characteristics of the seafloor of the BBLEH estuary using a suite of geophysical tools. However, this mapping effort included only surficial characterization of bay sediments; to verify the sub-surface geophysical data, sediment cores were required. This report serves as an archive of sedimentologic data from 18 vibracores collected from Barnegat Bay between May and August of 2014 by the U.S. Department of Agriculture Natural Resources Conservation Service (NRCS) on behalf of the USGS. The vibracores were collected in conjunction with an ongoing NRCS subaqueous soil survey for the BBLEH estuary. The data presented in this report, including descriptive core logs, core photographs, processed grain-size data, and Geographic Information System (GIS) data files with accompanying formal Federal Geographic Data Committee metadata, can be viewed or downloaded from the Data Products and Downloads page.

New Jersey↗

USGS2006

Salinity and temperature tolerance experiments on selected Florida Bay mollusks

The ultimate goal of the Comprehensive Everglades Restoration Plan (CERP) is to restore and preserve the unique ecosystems of South Florida, including the estuaries. Understanding the effect of salinity and temperature changes, beyond typical oscillations, on the biota of South Florida's estuaries is a necessary component of achieving the goal of restoring the estuaries. The U.S. Geological Survey has been actively involved in researching the history of the South Florida Ecosystem, to provide targets, performance measures, and baseline data for restoration managers. These experiments addressed two aspects of ecosystem history research: 1) determining the utility of using molluscan shells as recorders of change in water chemistry parameters, primarily salinity, and 2) enhancing our in situ observations on modern assemblages by exceeding typically observed aquatic conditions. This set of experiments expanded our understanding of the effects of salinity, temperature and other water chemistry parameters on the reproduction, growth and overall survivability of key species of mollusks used in interpreting sediment core data. Observations on mollusks, plants and microbes made as part of these experiments have further refined our knowledge and understanding of the effects of ecosystem feedback and the role salinity and temperature play in ecosystem stability. The results have demonstrated the viability of several molluscan species as indicators of atypical salinity, and possibly temperature, modulations. For example Cerithium muscarum and Bulla striata demonstrated an ability to withstand a broad salinity and temperature range, with reproduction occurring in atypically high salinities and temperatures. These experiments also provided calibration data for the shell biogeochemistry of Chione cancellata and the possible use of this species as a water chemistry recorder. Observations made in the mesocosms, on a scale not normally observable in the field, have led to new questions about the influence of salinity on the localized ecosystem. The next phase of these experiments; to calibrate growth rate and reproductive viability in atypical salinities is currently underway.

Florida↗

USGS2010

Mercury in Sediment, Water, and Biota of Sinclair Inlet, Puget Sound, Washington, 1989-2007

Historical records of mercury contamination in dated sediment cores from Sinclair Inlet are coincidental with activities at the U.S. Navy Puget Sound Naval Shipyard; peak total mercury concentrations occurred around World War II. After World War II, better metallurgical management practices and environmental regulations reduced mercury contamination, but total mercury concentrations in surface sediment of Sinclair Inlet have decreased slowly because of the low rate of sedimentation relative to the vertical mixing within sediment. The slopes of linear regressions between the total mercury and total organic carbon concentrations of sediment offshore of Puget Sound urban areas was the best indicator of general mercury contamination above pre-industrial levels. Prior to the 2000-01 remediation, this indicator placed Sinclair Inlet in the tier of estuaries with the highest level of mercury contamination, along with Bellingham Bay in northern Puget Sound and Elliott Bay near Seattle. This indicator also suggests that the 2000/2001 remediation dredging had significant positive effect on Sinclair Inlet as a whole. In 2007, about 80 percent of the area of the Bremerton naval complex had sediment total mercury concentrations within about 0.5 milligrams per kilogram of the Sinclair Inlet regression. Three areas adjacent to the waterfront of the Bremerton naval complex have total mercury concentrations above this range and indicate a possible terrestrial source from waterfront areas of Bremerton naval complex. Total mercury concentrations in unfiltered Sinclair Inlet marine waters are about three times higher than those of central Puget Sound, but the small numbers of samples and complex physical and geochemical processes make it difficult to interpret the geographical distribution of mercury in marine waters from Sinclair Inlet. Total mercury concentrations in various biota species were compared among geographical locations and included data of composite samples, individual specimens, and caged mussels. Total mercury concentrations in muscle and liver of English sole from Sinclair Inlet ranked in the upper quarter and third, respectively, of Puget Sound locations. For other species, concentrations from Sinclair Inlet were within the mid-range of locations (for example, Chinook salmon). Total mercury concentrations of the long-lived and higher trophic rockfish in composites and individual specimens from Sinclair Inlet tended to be the highest in Puget Sound. For a given size, sand sole, graceful crab, staghorn sculpin, surf perch, and sea cucumber individuals collected from Sinclair Inlet had higher total mercury concentrations than individuals collected from non-urban estuaries. Total mercury concentrations in individual English sole and ratfish were not significantly different than in individuals of various sizes collected from either urban or non-urban estuaries in Puget Sound. Total mercury concentrations in English sole collected from Sinclair Inlet after the 2000-2001 dredging appear to have lower total mercury concentrations than those collected before (1996) the dredging project. The highest total mercury concentrations of mussels caged in 2002 were not within the Bremerton naval complex, but within the Port Orchard Marina and inner Sinclair Inlet.

Open-File Report↗

USGS2010

Estuarine sedimentation, sediment character, and foraminiferal distribution in central San Francisco Bay, California

Central San Francisco Bay is the deepest subembayment in the San Francisco Bay estuary and hence has the largest water volume of any of the subembayments. It also has the strongest tidal currents and the coarsest sediment within the estuary. Tidal currents are strongest over the west-central part of central bay and, correspondingly, this area is dominated by sand-size sediment. Much of the area east of a line from Angel Island to Alcatraz Island is characterized by muddy sand to sandy mud, and the area to the west of this line is sandy. The sand-size sediment over west-central bay furthermore is molded by the energetic tidal currents into bedforms of varying sizes and wavelengths. Bedforms typically occur in water depths of 15-25 m. High resolution bathymetry (multibeam) from 1997 and 2008 allow for subdivision of the west-central bayfloor into four basic types based on morphologic expression: featureless, sand waves, disrupted/man-altered, and bedrock knobs. Featureless and sand-wave morphologies dominate the bayfloor of west-central bay. Disrupted bayfloor has a direct association with areas that are undergoing alteration due to human activities, such as sand-mining lease areas, dredging, and disposal of dredge spoils. Change detection analysis, comparing the 1997 and 2008 multibeam data sets, shows that significant change has occurred in west-central bay during the roughly 10 years between surveys. The surveyed area lost about 5.45 million m3 of sediment during the decade. Sand-mining lease areas within west-central bay lost 6.77 million m3 as the bayfloor deepened. Nonlease areas gained 1.32 million m3 of sediment as the bayfloor shallowed slightly outside of sand-mining lease areas. Furthermore, bedform asymmetry did not change significantly, but some bedforms did migrate some tens of meters. Gravity cores show that the area east of Angel and Alcatraz Islands is floored by clayey silts or silty sand whereas the area to the west of the islands is floored dominantly by sand- to coarse sand-sized sediment. Sandy areas also include Raccoon Strait, off Point Tiburon, and on the subtidal Alcatraz, Point Knox, and Presidio Shoals. Drab-colored silty clays are the dominant sediment observed in gravity cores from central bay. Their dominance along the length of the core suggests that silty clays have been deposited consistently over much of this subembayment for the time period covered by the recovered sediments (Woodrow and others, this report). Stratification types include weakly-defined laminae, 1-3 mm thick. Few examples of horizontal lamination in very fine sand or silt were observed. Cross lamination, including ripples, was observed in seven cores. Erosional surfaces were evident in almost every core where x-radiographs were available (they are very difficult to observe visually). Minor cut-and-fill structures also were noted in three cores and inclined strata were observed in three cores. Textural patterns in central bay indicate that silts and clays dominate the shallow water areas and margins of the bay. Sand dominates the tidal channel just east of Angel and Alcatraz Islands and to the west of the islands to the Golden Gate. The pattern of sand-sized sediment, as determined by particle-size analysis, suggests that sand movement is easterly from the west-central part of the bay. A second pattern of sand movement is to the south from the southwestern extremity of San Pablo Bay (boundary approximated by the location of the Richmond-San Rafael Bridge). Age dates for central bay sediment samples were obtained by carbon-14 radiometric age dating. Age dates were determined from shell material that was interpreted to be largely in-place (not transported). Age dates subsequently were reservoir corrected and then converted to calendar years. Sediments sampled from central bay cores range in age from 330 to 4,155 years before present. Foraminiferal distribution in the San Francisco Bay estuary is fairly well

Open-File Report↗

USGS2011

Simulated changes in salinity in the York and Chickahominy Rivers from projected sea-level rise in Chesapeake Bay

As a result of climate change and variability, sea level is rising throughout the world, but the rate along the east coast of the United States is higher than the global mean rate. The U.S. Geological Survey, in cooperation with the City of Newport News, Virginia, conducted a study to evaluate the effects of possible future sea-level rise on the salinity front in two tributaries to Chesapeake Bay, the York River, and the Chickahominy/James River estuaries. Numerical modeling was used to represent sea-level rise and the resulting hydrologic effects. Estuarine models for the two tributaries were developed and model simulations were made by use of the Three-Dimensional Hydrodynamic-Eutrophication Model (HEM-3D), developed by the Virginia Institute of Marine Science. HEM-3D was used to simulate tides, tidal currents, and salinity for Chesapeake Bay, the York River and the Chickahominy/James River. The three sea-level rise scenarios that were evaluated showed an increase of 30, 50, and 100 centimeters (cm). Model results for both estuaries indicated that high freshwater river flow was effective in pushing the salinity back toward Chesapeake Bay. Model results indicated that increases in mean salinity will greatly alter the existing water-quality gradients between brackish water and freshwater. This will be particularly important for the freshwater part of the Chickahominy River, where a drinking-water-supply intake for the City of Newport News is located. Significant changes in the salinity gradients for the York River and Chickahominy/James River estuaries were predicted for the three sea-level rise scenarios. When a 50-cm sea-level rise scenario on the York River during a typical year (2005) was used, the model simulation showed a salinity of 15 parts per thousand (ppt) at river kilometer (km) 39. During a dry year (2002), the same salinity (15 ppt) was simulated at river km 45, which means that saltwater was shown to migrate 6 km farther upstream during a dry year than a typical year. The same was true of the Chickahominy River for a 50-cm sea-level rise scenario but to a greater extent; a salinity of 4 ppt was simulated at river km 13 during a typical year and at river km 28 during a dry year, indicating that saltwater migrated 15 km farther upstream during a dry year. Near a drinking-water intake on the Chickahominy River, for a dry year, salinity is predicted to more than double for all three sea-level rise scenarios, relative to a typical year. During a typical year at this location, salinity is predicted to increase to 0.006, 0.07, and more than 2 ppt for the 30-, 50-, and 100-cm rise scenarios, respectively.

Virginia↗

USGS2012

Assessment of photographs from wildlife monitoring cameras in Drakes Estero, Point Reyes National Seashore, California

Between 2007 and 2010, National Park Service (NPS) staff at the Point Reyes National Seashore, California, collected over 300,000 photographic images of Drakes Estero from remotely operated wildlife monitoring cameras. The purpose of the systems was to obtain photographic data to help understand possible relationships between anthropogenic activities and Pacific harbor seal ( Phoca vitulina richardsi ) behavior and distribution. The value of the NPS photographs for use in assessing the frequency and impacts of seal disturbance and displacement in Drakes Estero has been debated. In September 2011, the NPS determined that the photographs did not provide meaningful information for development of a Draft Environmental Impact Statement (DEIS) for the Drakes Bay Oyster Company Special Use Permit. Limitations of the photographs included lack of study design, poor photographic quality, inadequate field of view, incomplete estuary coverage, camera obstructions, and weather limitations. The Marine Mammal Commission (MMC) reviewed the scientific data underpinning the Drakes Bay Oyster Company DEIS in November 2011 and recommended further analysis of the NPS photographs for use in characterizing rates and consequences of seal disturbance (Marine Mammal Commission, 2011). In response to that recommendation, the NPS asked the U.S. Geological Survey (USGS) to conduct an independent review of the photographs and render an opinion on the utility of the remote camera data for informing the environmental impact analyses included in the DEIS. In consultation with the NPS, we selected the 2008 photographic dataset for detailed evaluation because it covers a full harbor seal breeding season (March 1 to June 30), provides two fields of view (two cameras were deployed), and represents a time period when cameras were most consistently deployed and maintained. The NPS requested that the photographs be evaluated in absence of other data or information pertaining to seal and human activity in the estuary and that we focus on the extent to which the photographs could be used in understanding the relationship between human activity (including commercial oyster production) and harbor seal disturbance and distribution in the estuary.

California↗