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Biomonitoring of Environmental Status and Trends (BEST) Program: Field Procedures for Assessing the Exposure of Fish to Environmental Contaminants

This document describes procedures used to collect information, tissues, and fluids for documenting the exposure of fish to environmental contaminants. For the procedures described here, fish are captured (preferably by electrofishing) and held alive until processing (generally <1 h). Fish are weighed, measured, and examined for grossly visible external lesions and pathologies. A blood sample is collected by caudal veinipuncture using a needle and syringe. The fish is subdued and it's abdominal cavity opened. The internal organs are dissected from the fish for examination. The sex of the fish is determined by direct observation of its gonads. The liver is weighed (most species) and cut into small cubes and flash-frozen in cryogenic vials, which are stored and shipped in dry ice or liquid nitrogen. Additional liver cubes plus all grossly visible anomalies are preserved for histopathology. The gonads and spleen are weighed, and samples are preserved for histopathology. The kidneys are examined, and histopathology samples collected. A gill sample is also collected and preserved. All remaining tissues are returned to the carcass, which is wrapped in foil, labeled for chemical analysis, and chilled. Individual fish carcasses are composited by station, species, and gender; frozen; and shipped to the analytical laboratory. Procedures are also described for record keeping; processing blood to obtain serum and plasma; flash-freezing samples; cleaning equipment; and preventing the transport of living organisms among waterways. A list of necessary equipment and supplies is also provided.

Information and Technology Report↗

Genetic differentiation among lake trout strains stocked into Lake Ontario

The lake trout Salvelinus namaycush is the focus of an international effort by fishery management agencies to restore this once‐native species to Lake Ontario. Evaluation of reproductive success and comparisons among stocked lake trout strains require genetic markers. We used allozyme variation to make genetic comparisons among strains of lake trout stocked into Lake Ontario. Forty‐two proteins presumed to be encoded by 102 loci were resolved electrophoretically; 18 loci were polymorphic. Among 16 samples from five principal origins (Finger Lakes, Great Lakes basin, northern New York–Adirondack, Manitoba, and mixed origins–Lake Ontario), the average observed heterozygosity was 0.029, and the proportion of polymorphic loci was 0.125. Significant differences occurred among the 16 samples at all 18 possible locus comparisons. The average F st value was 0.14. Hierarchical analysis indicated that the variation among samples within an origin was greatest within the Great Lakes basin, which included the greatest number of samples and represented the largest geographic area. Most variation observed among samples, however, occurred among origins. The 1983 and 1984 hatchery year classes produced from the 1978 Seneca brood stock did not differ significantly. The 1981 Seneca brood stock more closely resembled the sample of wild lake trout from Seneca Lake than progeny from the 1978 brood stock. The closer affinity of the 1981 brood stock to wild Seneca lake trout may be due to the larger number of wild adults from Seneca Lake used to found these fish than was used to establish the 1978 brood stock. Siscowet (“fat”) and “lean” lake trout from Lake Superior were significantly different from each other; however, the level of variation between them was not greater than that among samples from other origins, and thus did not support recognition of siscowet lake trout as a distinct subspecies. The Jenny Lake strain possessed a genetic affinity to the siscowet sample from Lake Superior. Historical reports about the origin of this strain suggest that siscowet lake trout from northern Lake Michigan may have been used to found this strain. Therefore, the Jenny Lake strain may serve as a gene source for the establishment of the siscowet lake trout in Lake Ontario. The substantial differentiation among lake trout strains reported here supports the feasibility of using allozyme markers to identify the parental sources of naturally produced young.

Lake Ontario↗

Description of chronostratigraphic units preserved as channel deposits and geomorphic processes following a basin-scale disturbance by a wildfire in Colorado

The consequence of a 1996 wildfire disturbance and a subsequent high-intensity summer convective rain storm (about 110 millimeters per hour) was the deposition of a sediment superslug in the Spring Creek basin (26.8 square kilometers) of the Front Range Mountains in Colorado. Spring Creek is a tributary to the South Platte River upstream from Strontia Springs Reservoir, which supplies domestic water for the cities of Denver and Aurora. Changes in a superslug were monitored over the course of 18 years (1996–2014) by repeat surveys at 18 channel cross sections spaced at nearly equal intervals along a 1,500-meter study reach and by a time series of photographs of each cross section. Surveys were not repeated at regular time intervals but after major changes caused by different geomorphic processes. The focus of this long-term study was to understand the evolution and internal alluvial architecture of chronostratigraphic units (defined as the volume of sediment deposited between two successive surveys), and the preservation or storage of these units in the superslug. The data are presented as a series of 18 narratives (one for each cross section) that summarize the changes, illustrate these changes with photographs, and provide a preservation plot showing the amount of each chronostratigraphic unit still remaining in June 2014. The most significant hydrologic change after the wildfire was an exponential decrease in peak discharge of flash floods caused by summer convective rain storms. In response to these hydrologic changes, all 18 locations went through an aggradation phase, an incision phase, and finally a stabilization phase. However, the architecture of the chronostratigraphic units differs from cross section to cross section, and units are characterized by either a laminar, fragmented, or hybrid alluvial architecture. In response to the decrease in peak-flood discharge and the increase in hillslope and riparian vegetation, Spring Creek abandoned many of the nearly horizontal erosional and depositional surfaces and left a landscape consisting of a series of cut-and-fill terraces as a legacy of this wildfire disturbance.

Colorado↗

Water quality in the New River from Calexico to the Salton Sea, Imperial County, California

The New River enters the United States at Calexico, Calif., after it crosses the international boundary. Water-quality data from routine collection indicated that the New River was degraded by high organic and bacterial content. Intensive sampling for chemical and physical constituents and properties of the river was done May 9-13, 1977, to quantify the chemical composition of the water and to identify water-quality problems. Concentrations of total organic carbon in the New River at Calexico ranged from 80 to 161 milligrams per liter and dissolved organic carbon ranged from 34 to 42 milligrams per liter; the maximum chemical oxygen demand was 510 milligrams per liter. Intensive sampling for chemical and biological characteristics was done in the New River from May 1977 to June 1978 to determine the occurrence of the organic material and its effects on downstream water quality. Dissolved-oxygen concentration was measured along longitudinal profiles of the river from Calexico to the Salton Sea. A dissolved-oxygen sag downstream from the Calexico gage varied seasonally. The sag extended farther downstream and had lower concentrations of dissolved oxygen during the summer months than during the winter months. The sag of zero dissolved-oxygen concentration extended 26 miles in July 1977. In December 1976, the sag extended 20 miles but the minimum dissolved-oxygen concentration was 2.5 milligrams per liter. The greatest diel (24-hour) variation in dissolved-oxygen concentration occurred in the reach from the Calexico gage to Lyons Crossing, 8.8 miles downstream. High concentrations of organic material were detected as far as Highway 80, 19.5 miles downstream from the international boundary. Biological samples analyzed for benthic invertebrates showed that water at the Calexico and Lyons Crossing sites, nearest the international boundary, was of such poor quality that very few bottom-dwelling organisms could survive. Although the water was of poor quality at Keystone Road, 36 miles downstream, it was able to support a benthic community. The April sample had more than 9,150 organisms on a multiplate sampler, 8,770 of which were of one species. Farther downstream at the Westmorland gage, the water quality, as indicated by the number and diversity of organisms, had improved over that at the Keystone site. The Alamo River at its outlet to the Salton Sea--the control site--had the greatest diversity of all the study sites. This diversity, when compared with the diversity at the Westmorland gage, indicated that the effects of the degraded water quality observed at the New River at Calexico are detected as far as 62 miles downstream. Standard bacteria indicator tests indicate that fecal contamination exists in the New River. Counts of fecal coliform bacteria ranged from 180,000 to 2,800,000 colonies per 100 milliliters for the 20-mile reach from Calexico to Highway 80, and fecal streptococcal bacteria ranged from 5,000 to 240,000 colonies per 100 milliliters.

California↗

Potential health impacts of burning coal beds and waste banks

Uncontrolled release of pollutants from burning coal beds and waste banks presents potential environmental and human health hazards. On a global scale, the emissions of large volumes of greenhouse gases from burning coal beds may contribute to climate change that alters ecosystems and patterns of disease occurrence. On regional and local scales, the emissions from burning coal beds and waste banks of acidic gases, particulates, organic compounds, and trace elements can contribute to a range of respiratory and other human health problems. Although there are few published reports of health problems caused by these emissions, the potential for problems can be significant. In India, large numbers of people have been displaced from their homes because of health problems caused by emissions from burning coal beds. Volatile elements such as arsenic, fluorine, mercury, and selenium are commonly enriched in coal deposits. Burning coal beds can volatilize these elements, which then can be inhaled, or adsorbed on crops and foods, taken up by livestock or bioaccumulated in birds and fish. Some of these elements can condense on dust particles that can be inhaled or ingested. In addition, selenium, arsenic, lead, tin, bismuth, fluorine, and other elements condense where the hot gaseous emissions come in contact with ambient air, forming mats of concentrated efflorescent minerals on the surface of the ground. These mats can be leached by rainwater and washed into local water bodies providing other potential routes of exposure. Although there are little data linking burning coal beds and waste banks to known health problems, a possibly analogous situation exists in rural China where mineralized coal burned in a residential environment has caused widespread and severe health problems such as fluorosis and arseniasis. ?? 2004 Elsevier B.V. All rights reserved.

International Journal of Coal Geology↗

Snow-depth and water-equivalent data for the Fairbanks area, Alaska, spring 1995

Snow depths at 34 sites and snow-water equivalents at 13 sites in the Fairbanks area were monitored during the 1995 snowmelt period (March 30 to April 26) in the spring of 1995. The U.S. Geological Survey conducted this study in cooperation with the Fairbanks International Airport, the University of Alaska Fairbanks, the Alaska Department of Natural Resources-Division of Mining and Water Management, the U.S Army, Alaska, and the U.S. Army Corps of Engineers-Alaska District. These data were collected to provide information about potential recharge of the ground-and surface-water systems during the snowmelt period in the Fairbanks area. This information is needed by companion geohydrologic studies of areas with known or suspected contaminants in the subsurface. Data-collection sites selected had open, boggy, wooded, or brushy vegetation cover and had different slope aspects. The deepest snow at any site, 27.1 inches, was recorded on April 1, 1995; the shallowest snow measured that day was 19.1 inches. The snow-water equivalents at these two sites were 5.9 inches and 4.5 inches, respectively. Snow depths and water equivalents were comparatively greater at open and bog sites than at wooded or brushy sites. Snow depths and water equivalents at all sites decreased throughout the measuring period. The decrease was more rapid at open and boggy sites than at wooded and brushy sites. Snow had completely disappeared from all sites by April 26, 1995.

Open-File Report↗

Assessment of a claimed ultra-low frequency electromagnetic (ULFEM) earthquake precursor

The rate of occurrence of anomalous ultra-low frequency electromagnetic (ULFEM) pulses has been claimed to have increased days to weeks prior to the M5.4 2007 and M4.0 2010 Alum Rock earthquakes. We re-examine the previously reported ultra-low frequency (ULF: 0.01–10 Hz) magnetic data recorded at a QuakeFinder site located 9 km from the earthquake hypocentre, and compare to data from a nearby Stanford-USGS site located 42 km from the hypocentre, to analyse the characteristics of the pulses and assess their origin. Using pulse definitions and pulse-counting algorithms analogous to those previously reported, we corroborate the increase in pulse counts before the 2007 Alum Rock earthquake at the QuakeFinder station, but we note that the number of pulses depends on chosen temporal and amplitude detection thresholds. These thresholds are arbitrary because we lack a clear physical model or basis for their selection. We do not see the same increase in pulse counts before the 2010 Alum Rock earthquake at the QuakeFinder or Stanford-USGS stations. In addition, the majority of pulses in the QuakeFinder data and Stanford-USGS data do not match temporally, indicating the pulses lack a common origin and are not from lightning or solar-driven ionospheric/magnetospheric disturbances. Our assessment of the temporal distribution of pulse counts shows pulse counts increase during peak human activity hours, suggesting these pulses result from local cultural noise and are not tectonic in origin. The many unknowns about the character and even existence of precursory earthquake pulses means that standard numerical and statistical tests cannot easily be applied. Yet here we show that exhaustive investigation of many different aspects of ULFEM signals can be used to properly characterize their origin.

California↗

Evaluation of portable Raman spectroscopic analysis for source-rock thermal maturity assessments on bulk crushed rock

This study presents a simplified method and empirical relationships for determining organic matter thermal maturity using a portable Raman system equipped with a 785 nm laser, for analysis of crushed, whole-rock samples. Suites of rocks represented by shale and coal samples with various mineralogical composition, thermal maturity, and total organic carbon (TOC) were used to test the method and build correlations between Raman band separation (RBS) values and traditional thermal maturity indicators, organic matter reflectance (Ro), and programmed temperature pyrolysis (Tmax) values. A set of disparate shale samples, where both vitrinite and solid bitumen reflectance values were reported, have Ro values that range from 0.40 to 4.62%. Above 3.35% Ro, the corresponding RBS values plateau at ∼290 cm−1, thus correlations were evaluated with a linear regression (R2 = 0.96) between 0.40 and 3.35% Ro. Shale samples with Ro < 2% and Tmax < 551 were also used to correlate Tmax and RBS, yielding a linear correlation with an R2 of 0.94. For the coal data set, Ro values range from 1.21 to 4.08% and correlated RBS values plateau at ∼250 cm−1 above Ro = 3.0%, suggesting its correlative application below this maturity level. Several sample preparation methods were tested on cuttings material and standard deviation values for RBS were minimized by washing, drying, and hand crushing the material to pass through a 40-mesh sieve, although less preparation can still yield reliable results. The high degrees of correlation between whole-rock RBS data and two thermal maturity indicators demonstrate the utility of this approach for generating source rock thermal maturity data from minimally processed, whole-rock samples which could easily be applied in field or laboratory settings.

International Journal of Coal Geology↗

Future wave and wind projections for United States and United-States-affiliated Pacific Islands

Changes in future wave climates in the tropical Pacific Ocean from global climate change are not well understood. Spatially and temporally varying waves dominate coastal morphology and ecosystem structure of the islands throughout the tropical Pacific. Waves also impact coastal infrastructure, natural and cultural resources, and coastal-related economic activities of the islands. Wave heights, periods, and directions were forecast through the year 2100 using wind parameter outputs from four atmosphere-ocean global climate models from the Coupled Model Inter-Comparison Project, Phase 5, for Representative Concentration Pathways (RCP) scenarios 4.5 and 8.5 that correspond to moderately mitigated and unmitigated greenhouse gas emissions, respectively. Wind fields from the global climate models were used to drive a global WAVEWATCH-III wave model and generate hourly time-series of bulk wave parameters for 25 islands in the mid to western tropical Pacific for the years 1976&ndash;2005 (historical), 2026&ndash;2045 (mid-century projection), and 2085&ndash;2100 (end-of-century projection). Although the results show some spatial heterogeneity, overall the December-February extreme significant wave heights, defined as the mean of the top 5 percent of significant wave height time-series data modeled within a specific period, increase from present to mid-century and then decrease toward the end of the century; June-August extreme wave heights increase throughout the century within the Central region of the study area; and September-November wave heights decrease strongly throughout the 21st century, displaying the largest and most widespread decreases of any season. Peak wave periods increase east of the International Date Line during the December-February and June-August seasons under RCP4.5. Under the RCP8.5 scenario, wave periods decrease west of the International Date Line during December-February but increase in the eastern half of the study area. Otherwise, wave periods decrease throughout the study area during other seasons. Extreme wave directions in equatorial Micronesia during June-August undergo an approximate 30&deg; clockwise rotation from primarily west to northwest. September-November RCP4.5 extreme mean wave directions rotate counterclockwise by approximately 30 to 45&deg; in equatorial Micronesia; September-November RCP8.5 extreme mean wave directions within equatorial Micronesia rotate clockwise by approximately 20 to 30&deg;. Extreme wind speeds decreased within both scenarios, with the largest decreases occurring in the September-November season. Extreme wind directions under RCP4.5 rotated clockwise by more than 60&deg; in equatorial Micronesia during the September-November season and by approximately 30&deg; during June-August. RCP8.5 extreme wind directions rotated counterclockwise during September-November within the same region by 30 to 50&deg; and clockwise by 30 to 40&deg; at one island. The spatial patterns and trends are similar between the two different greenhouse gas emission scenarios, with the magnitude and extent of the trends generally greater for the higher (RCP8.5) scenario.

Micronesia, Pacific Ocean↗

A two-dimensional hydrodynamic model of the St. Clair-Detroit River waterway in the Great Lakes basin

The St. Clair-Detroit River waterway connects Lake Huron with Lake Erie in the Great Lakes basin to form part of the international boundary between the United States and Canada. A two-dimensional hydrodynamic model is developed to compute flow velocities and water levels as part of a source water assessment of public water intakes. The model, which uses the generalized finite-element code RMA2, discretizes the waterway into a mesh formed by 13,783 quadratic elements defined by 42,936 nodes. Seven steady-state scenarios are used to calibrate the model by adjusting parameters associated with channel roughness in 25 material zones. An inverse modeling code is used to systematically adjust model parameters and to determine their associated uncertainty by use of nonlinear regression. Calibration results show close agreement between simulated and expected flows in major channels and water levels at gaging stations. Sensitivity analyses describe the amount of information available to estimate individual model parameters, and quantify the utility of flow measurements at selected cross sections and water-level measurements at gaging stations. Further data collection, model calibration analysis, and grid refinements are planned to assess and enhance two-dimensional flow simulation capabilities describing the horizontal flow distributions in St. Clair and Detroit Rivers and circulation patterns in Lake St. Clair.

St. Clair-Detroit River waterway↗

Hawaii and Landsat

Hawaii stands apart from the rest of the United States, literally and figuratively. The nearest of the eight islands that make up the Hawaiian archipelago is 2,000 miles from the U.S. mainland. Like every bit of land mass within the State, it emerged from the Pacific Ocean after thousands of years of undersea volcanic activity. Kona International Airport, on the “Big Island” of Hawai‘i, was built atop 220-year-old lava flows from the Hualālai volcano. The volcanic soils and tropical vegetation that stretch across Hawaii’s postcard-perfect peaks and valleys, as well as the trade winds that blow precipitation northeast across the islands and the warm Kona winds that move in from the south, are among the factors that make the study of the State’s landscapes distinct from the rest of the Nation. Six active volcanoes continue to alter the land surface. Some of them, like the constantly erupting Kīlauea or Mauna Loa, the world’s largest active volcano, can threaten human life and property. Man-made changes to the islands, such as the long-term agricultural production of sugar cane or pineapple, along with the introduction of non-native species, have also affected the health of the State’s ecosystems. Landsat satellites, with 50 years of repeat Earth observations and decades of data from infrared and thermal instruments capable of tracking lava flows, can offer unique opportunities for the study of Hawaii’s ever-changing landscapes. Here are a few examples of how Landsat benefits the State.

Hawaii↗

Visualization of a drifting buoy deployment on Lake St. Clair within the Great Lakes Waterway from August 12-15, 2002

Lake St. Clair is a 430 square mile lake between the state of Michigan and the province of Ontario, which forms part of the international boundary between the United States and Canada in the Great Lakes Basin. Lake St. Clair receives most of its inflow from Lake Huron through St. Clair River, which has an average flow of 182,000 cubic feet per second. The lake discharges to Detroit River, where it flows 32 miles to Lake Erie. Twelve drifting buoys were deployed on Lake St. Clair for 74 hours between August 12-15, 2002 to help investigate flow circulation patterns as part of a source water assessment study of the susceptibility of public water intakes. The buoys contained global positioning system (GPS) receivers to track their movements. Buoys were released in a transect between tethered buoys marking an 800-foot wide navigational channel in the north-central part of the lake just downstream of St. Clair River, and about 15.5 miles northeast of Detroit River. In addition, an acoustic Doppler current profiler (ADCP) was used to measure velocity profiles in a grid of 41 points that spanned the area through which the buoys drifted. Computer animations, which can be viewed through the Internet, were developed to help visualize the results of the buoy deployments and ADCP measurements.

Lake St. Clair↗

Transboundary movement of airborne pollutants — A methodology for integrating spaceborne images and ground based data

The availability of relevant and accurate environmental information is essential for environmental policy-makers. Recent improvements in satellite remote sensing technologies, groundbased monitors, and data access have resulted in the ability to observe and assess major atmospheric and ecological events around the world on a timely basis Each of these monitoring technologies reveals different and useful information, yet rarely are the resulting data sets used together in an integrated manner. The U.S. Environmental Protection Agency (EPA) and the United Nations Environment Programme (UNEP) Global Resource Information Database (GRID) office in Sioux Falls identified an environmental issue of global interest as a test case for applying an integrated approach: the transboundary movement of atmospheric pollutants. Transboundary movement of atmospheric pollutants has ramifications for human and environmental health, as well as economic impacts. As a result, it is the focus of many bilateral, regional, and international policy efforts. A central question with atmospheric pollutant transport is how to monitor pollutant movement and how to merge different monitoring datasets into useful information. Highly visible regional plumes of dust, smoke, and urban haze can be seen with satellite sensors, while ground-based monitoring of air pollutants such as fine particulates, SO2 , and toxics occurs at the local level. Integration of these two kinds of measurements allows the user to remotely observe large environmental effects in many areas of the world, while obtaining more detailed information from ground-based monitors. Hence, the combination of satellite-based sensor data and ground-based monitoring data promotes greater understanding of the movement of pollutants than either data set alone. Combined data sets are important for use by both scientists and international policy-makers. A standard methodology did not exist to guide and encourage integrated use of satellite images and ground-based data to monitor and understand major pollution events, such as air pollution. Thus, a small team was assembled to develop a methodology for the integration of satellite images and ground-based data. First, we conducted a literature and project review covering past and current integrated remote and ground-based data projects, a literature search of published work, and a search of data sets and technologies that could be used in a combined form. Second, based on this search and documentation, a general methodology was developed for using integrated spaceborne and ground-based data sets, intended as a guide for general scientists and policy-makers. Third, we found an existing project that was willing to be a pilot for testing the methodology: a U.S. EPANOAA project that was using aerial and ground-based sampling to learn more about the airborne sources of mercury deposition in the Florida Everglades. This document presents the results of the literature and project review, the complete methodology, and the outcome of the Florida Everglades pilot project.

Report↗

Discovery and analysis of time delay sources in the USGS personal computer data collection platform (PCDCP) system

Intermagnet is an international oversight group which exists to establish a global network for geomagnetic observatories. This group establishes data standards and standard operating procedures for members and prospective members. Intermagnet has proposed a new One-Second Data Standard, for that emerging geomagnetic product. The standard specifies that all data collected must have a time stamp accuracy of ±10 milliseconds of the top-of-the-second Coordinated Universal Time. Therefore, the U.S. Geological Survey Geomagnetism Program has designed and executed several tests on its current data collection system, the Personal Computer Data Collection Platform. Tests are designed to measure the time shifts introduced by individual components within the data collection system, as well as to measure the time shift introduced by the entire Personal Computer Data Collection Platform. Additional testing designed for Intermagnet will be used to validate further such measurements. Current results of the measurements showed a 5.0–19.9 millisecond lag for the vertical channel (Z) of the Personal Computer Data Collection Platform and a 13.0–25.8 millisecond lag for horizontal channels (H and D) of the collection system. These measurements represent a dynamically changing delay introduced within the U.S. Geological Survey Personal Computer Data Collection Platform.

Scientific Investigations Report↗

Evaluation of the Bushy Park Reservoir three-dimensional hydrodynamic and water-quality model, South Carolina, 2012–15

The Bushy Park Reservoir is a relatively shallow impoundment in southeastern South Carolina. The reservoir, located under a semi-tropical climate, is the principal water supply for the city of Charleston, South Carolina, and the surrounding areas including the Bushy Park Industrial Complex. Although there was an adequate supply of freshwater in the reservoir in 2022, water-quality concerns are present over taste-and-odor and saltwater-intrusion issues. From 2013 to 2015, the U.S. Geological Survey (USGS), in cooperation with the Charleston Water System, engaged in a multi-year study of the hydrology and hydrodynamics of Bushy Park Reservoir to better understand factors affecting water-quality conditions in the reservoir. As part of this study, Charleston Water System worked with Tetra Tech, Inc., a consulting and engineering firm, to develop a Bushy Park Reservoir hydrodynamic and water-quality modeling framework, built upon earlier efforts by both Tetra Tech and the U.S. Army Corps of Engineers. At the completion of the new modeling framework, the USGS was requested to evaluate the calibrated hydrodynamic and water-quality model. The Bushy Park Reservoir Environmental Fluid Dynamics Code (EFDC) model was calibrated for the time period from January 1, 2012, to December 31, 2015. The general modeling approach for the newly revised modeling framework, as briefly detailed in this report, was developed with EFDC. The EFDC is a grid-based modeling package that can simulate three-dimensional flow, transport, and water quality in surface-water systems. This report evaluated the capacity of Tetra Tech’s Bushy Park EFDC model to simulate water discharge, water circulation, surface elevations, temperature, salinity, and other water-quality parameters. The USGS model review focused specifically on the following criteria: (1) determine if the model, with additional effort, could be developed into an adequate planning tool for Bushy Park Reservoir; (2) assess the capacity of the model to specifically address water-quality issues in the reservoir related to taste-and-odor and saltwater intrusions; and, (3) evaluate three preliminary water-management scenarios related to reduced water withdrawals in the reservoir and the effect on saltwater intrusion. Overall, the model was able to simulate discharge, flow velocity, and water-surface elevations with generally good agreement between the simulated and measured values. Specifically, the model was able to demonstrate good agreement for discharge at two USGS continuous discharge locations (USGS station 02172002; USGS station 02172040), with Wilmott index of agreements of 0.86 and 0.75, respectively. A total of seven USGS streamgages, located on the West Branch of the Cooper River, Durham Canal, and the Cooper River, were available for water-surface elevations, with index of agreements ranging from 0.74 to 0.99. However, model-simulated water-surface elevation ranges were appreciably high (compared to measured ranges) for two locations near Pinopolis Dam, farthest upstream on the West Branch of the Cooper River. This result may indicate that too much simulated tidal energy propagated through the model domain. For water temperature, 16 calibration stations were available for at least part of the 4-year simulation. The index of agreement range for temperature comparisons was from 0.95 to 1.00, indicating excellent agreement between the measured and simulated results. One of the primary future applications for the Bushy Park Reservoir EFDC model is to determine the extent of saltwater intrusions. A wide range in the salinity prediction quality was simulated with the model. The prediction quality ranged from an index of agreement of 0.15 at Cooper River approximately 2.75 miles southeast of the Tee, South Carolina, to 0.92 at West Branch Cooper River near Moncks Corner, South Carolina. Although the model did not accurately simulate some of the larger salinity deviations resulting during individual hydrologic events, the seasonal salinity trends were adequately simulated with the model during the study period (2012–15). Therefore, it may be difficult to simulate extreme hydrologic events, such as during large storms, where high salinity water is exchanged with Bushy Park Reservoir. There was agreement in model simulation with the measured data either on the quantitative index of agreement values or qualitative agreement in the seasonal salinity data trends. For water quality, the index of agreement values were generally low for total nitrogen, ammonia, nitrate, total Kjeldahl nitrogen, total phosphorus, and orthophosphate. Although general trends were adequately simulated at specific stations, particularly for Bushy Park Reservoir, the model-simulated fit was low across all the constituents described above with index of agreements usually below 0.50. A limitation for simulating nutrient concentrations across the model domain was the lack of characterization for the constituents directly entering Bushy Park Reservoir, or the lack of data directly attributed to the boundary condition (for example, the Cooper River). The other two calibrated water-quality constituents (besides the nutrients mentioned above) were dissolved oxygen and chlorophyll a . Dissolved oxygen varied from index of agreement values from 0.58 to 0.94 for 11 stations, generally indicating agreement with the available measured data. Chlorophyll a , calibrated for seven stations, had a wider range from 0.11 to 0.74 for the index of agreement. With the current modeling framework, taste-and-odor events, related to cyanobacterial blooms, cannot be directly simulated. However, indirect estimates of cyanobacteria concentrations may be obtained by using the chlorophyll a model outputs, which represent total phytoplankton biomass, and the phytoplankton biovolume data by group (diatoms, green algae, cyanobacteria and others) collected from 2012 to 2015. For the Bushy Park Reservoir modeling framework to be used directly for taste-and-odor issues, cyanobacteria must be simulated and calibrated based on observations of cyanobacteria biomass concentrations. In addition to the cyanobacteria sampling conducted within the reservoir between 2012 and 2015, the new model calibration would also require new algae biomass data-collection efforts to characterize the external sources of cyanobacteria entering the Bushy Park Reservoir from tributaries, as well as the internal cycling, production, and decay of cyanobacteria in the hydrologic system. Further improvements to the EFDC model would include expanding the collection of boundary condition datasets, such as water-quality monitoring to determine improved nutrient loads into the model domain. Along with improved water-quality monitoring for the major boundary conditions, continuous discharge, for both Foster Creek and the Back River, would further constrain the flow balance and the loads into Bushy Park Reservoir. In addition to better boundary-condition characterization, it is important to better characterize possible shortcomings specifically to the model domain, such as the grid resolution, bathymetry, and numerical hydrodynamic errors. Further consideration of the model may involve a sensitivity analysis to determine if errors in the simulation outputs, such as discharge, water-surface elevations, and salinity, were more likely caused by poor boundary condition characterization or, specifically, the model setup. Three model scenarios were run with the revised Bushy Park Reservoir model: (1) reduced withdrawals from one of the large intake-discharge locations for Bushy Park Reservoir, the Williams Station; (2) elevated (above background levels) ocean water level causing saltwater intrusion from the ocean through Durham Canal into Bushy Park Reservoir; and (3) overtopping of the Back River Dam at the southernmost end of Bushy Park Reservoir. For the reduced withdrawals scenarios, the largest shift in flow resulted near the Williams Station intake, with the next largest flow change at the southern end of Bushy Park Reservoir, and a net increase in flow out of the Bushy Park Reservoir to the Cooper River by way of the Durham Canal. The effect resulting from scenario 3 on water quality and salinity was small, with larger increases for dissolved oxygen than other constituents at several monitoring stations. For the two scenarios related to saltwater intrusion (including dam overtopping), the changes in salinity generally were found to dissipate in the following 2 weeks and generally back to baseline salinity conditions within 3 months. This result did vary depending on the severity of the storm or length of the dam overtopping event.

South Carolina↗

Physical subdivision and description of the water-bearing sediments of the Santa Clara Valley, California

A thick Quaternary alluvial section fills a sedimentary basin beneath the Santa Clara Valley, California, located within the San Andreas Fault system at the south end of San Francisco Bay. This section consists of an upper sequence about 1,000 feet thick containing eight sedimentary cycles and a lower fine-grained unit as thick as several hundred feet. Together these constitute the Quaternary Santa Clara Basin. The section overlies an irregular unconformity with more than 1,200 feet of relief cut into the underlying bedrock. This stratigraphy is determined through study of new wells and seismic reflection profiles, together with a sample of the many thousands of water wells in the valley. It represents a major change and improvement in understanding of the basin, particularly with regard to the upper cyclic sequence, which forms a large groundwater system that is an important resource in the San Francisco Bay region. Each of the eight sedimentary cycles consists of a coarse-grained bottom interval overlain by a fine-grained top, with the coarse bottom forming a permeable sheet that is more or less continuous around the basin and the fine top forming a similarly extensive, relatively impermeable confining layer. This stratigraphic organization contrasts with most previous views, which have considered the coarse sediment in the basin to occur as scattered, discrete lenses and (or) sinuous channel sands, all embedded in a predominantly fine-grained section. Temperature logs in several wells demonstrate that the fine cycle tops do limit vertical movement of groundwater, although this may not be the case where those tops are thin to perhaps locally absent around parts of the basin margin. Age control has been obtained from previous work, in which the sedimentary cycles were correlated with the marine oxygen isotope record and the ages of two deeper Quaternary unconformities were estimated, and from detailed paleomagnetic study of cores from the new wells by E.A. Mankinen. Despite careful search of the cores, very few fossils were found, and none that are helpful in subdividing the section. No tephra (volcanic ash) was recovered, and the few carbon samples found and dated radiometrically are limited to the upper 120 feet of the section. The upper cyclic section ranges in age from 0 to somewhat older than 718 thousand years (ka), and the lower fine-grained section lies between unconformities with estimated ages of 950 and 1500 ka. Reflections in the seismic profiles indicate that layering in the basin is subparallel to the ground surface, and this fact, together with the continuous stratigraphic detail provided by geophysical logs of the new wells, allows the confident interwell correlation required to delineate the sedimentary cycles. The sequence of layers within any one cycle tends to persist laterally between the wells in the dataset, which are spaced 1 to 3 km apart, with most changes occurring gradually. The eight cycles, in contrast, tend to differ from each other in the details of their internal organization. Maps and cross sections show the elevations of cycle boundaries and the underlying bedrock surface, the varying thicknesses of the cycles and of their fine tops and coarse bottoms, and the aggregate thickness of coarse layers in those bottom intervals. Coarse sediment is more abundant toward some parts of the basin margin and in the southern part of the basin. Cycle boundary surfaces are relatively smooth, and their shapes are consistent with having been intercycle topographic surfaces. The underlying bedrock surface has a relief of more than 1,200 feet and deepens toward the center of the basin and the west edge of the fault-bounded Evergreen Basin, which is concealed beneath the east side of the Quaternary basin. The absence of consistent abrupt changes in thicknesses or boundary elevations across the basin or in cross section indicates that the interior of the basin is largely unfaulted, with the Silver Creek strand of the San Andreas system at the west edge of the Evergreen Basin being the sole exception. The east and west margins of the Santa Clara Basin, in contrast, are marked by reverse and thrust fault systems.

California↗

Characteristics of Fault Zones in Volcanic Rocks Near Yucca Flat, Nevada Test Site, Nevada

During 2005 and 2006, the USGS conducted geological studies of fault zones at surface outcrops at the Nevada Test Site. The objectives of these studies were to characterize fault geometry, identify the presence of fault splays, and understand the width and internal architecture of fault zones. Geologic investigations were conducted at surface exposures in upland areas adjacent to Yucca Flat, a basin in the northeastern part of the Nevada Test Site; these data serve as control points for the interpretation of the subsurface data collected at Yucca Flat by other USGS scientists. Fault zones in volcanic rocks near Yucca Flat differ in character and width as a result of differences in the degree of welding and alteration of the protolith, and amount of fault offset. Fault-related damage zones tend to scale with fault offset; damage zones associated with large-offset faults (>100 m) are many tens of meters wide, whereas damage zones associated with smaller-offset faults are generally a only a meter or two wide. Zeolitically-altered tuff develops moderate-sized damage zones whereas vitric nonwelded, bedded and airfall tuff have very minor damage zones, often consisting of the fault zone itself as a deformation band, with minor fault effect to the surrounding rock mass. These differences in fault geometry and fault zone architecture in surface analog sites can serve as a guide toward interpretation of high-resolution subsurface geophysical results from Yucca Flat.

Open-File Report↗

Geochemical correlation and 40Ar/39Ar dating of the Kern River ash bed and related tephra layers: Implications for the stratigraphy of petroleum-bearing formations in the San Joaquin Valley, California

The Kern River ash (KRA) bed is a prominent tephra layer separating the K and G sands in the upper part of the Kern River Formation, a major petroleum-bearing formation in the southern San Joaquin Valley (SSJV) of California. The minimum age of the Kern River Formation was based on the tentative major-element correlation with the Bishop Tuff, a 0.759??0.002 Ma volcanic tephra layer erupted from the Long Valley Caldera. We report a 6.12??0.05 Ma 40Ar/39Ar date for the KRA, updated major-element correlations, trace-element correlations of the KRA and geochemically similar tephra, and a 6.0??0.2 Ma 40Ar/39Ar age for a tephra layer from the Volcano Hills/Silver Peak eruptive center in Nevada. Both major and trace-element correlations show that despite the similarity to the Bishop Tuff, the KRA correlates most closely with tephra from the Volcano Hills/Silver Peak eruptive center. This geochemical correlation is supported by the radiometric dates which are consistent with a correlation of the KRA to the Volcano Hills/Silver Peak center but not to the Bishop Tuff. The 6.12??0.05 Ma age for the KRA and the 6.0??0.2 Ma age for the tephra layer from the Volcano Hills/Silver Peak eruptive center suggest that the upper age of the Kern River Formation is over 5 Ma older than previously thought. Re-interpreted stratigraphy of the SSJV based on the new, significantly older age for the Kern River Formation opens up new opportunities for petroleum exploration in the SSJV and places better constraints on the tectonostratigraphic development of the SSJV. ?? 2007 Elsevier Ltd and INQUA.

Quaternary International↗