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At least 685 records · Page 38Linked to original sources
USGS2016

Effects of climate change on tidal marshes along a latitudinal gradient in California

Public Summary The coastal region of California supports a wealth of ecosystem services including habitat provision for wildlife and fisheries. Tidal marshes, mudflats, and shallow bays within coastal estuaries link marine, freshwater and terrestrial habitats, and provide economic and recreational benefits to local communities. Climate change effects such as sea-level rise (SLR) are altering these habitats, but we know little about how these areas will change over the next 50–100 years. Our study examined the projected effects of three recent SLR scenarios produced for the West Coast of North America on tidal marshes in California. We compiled physical and biological data, including coastal topography, tidal inundation, plant composition, and sediment accretion to project how SLR may alter these ecosystems in the future. The goal of our research was to provide results that support coastal management and conservation efforts across California. Under a low SLR scenario, all study sites remained vegetated tidal wetlands, with most sites showing little elevation and vegetation change relative to sea level. At most sites, mid SLR projections led to increases in low marsh habitat at the expense of middle and high marsh habitat. Marshes at Morro Bay and Tijuana River Estuary were the most vulnerable to mid SLR with many areas becoming intertidal mudflat. Under a high SLR scenario, most sites were projected to lose vegetated habitat, eventually converting to intertidal mudflats. Our results suggest that California marshes are vulnerable to major habitat shifts under mid or high rates of SLR, especially in the latter part of the century. Loss of vegetated tidal marshes in California due to SLR is expected to impact ecosystem services that are dependent on coastal wetlands such as wildlife habitat, carbon sequestration, improved water quality, and coastal protection from storms.

California↗
USGS2023

Integrated science strategy for assessing and monitoring water availability and migratory birds for terminal lakes across the Great Basin, United States

Executive Summary In 2022, the U.S. Geological Survey (USGS) established the Saline Lake Ecosystems Integrated Water Availability Assessment (IWAAs) to monitor and assess the hydrology of terminal lakes in the Great Basin and the migratory birds and other wildlife dependent on those habitats. Scientists from across the USGS (with specialties in water quantity, water quality, limnology, avian biology, data science, landscape ecology, and science communication) formed the Saline Lake Ecosystems IWAAs Team. The team has developed this regional strategic science plan to guide data collection and assessment activities at terminal lakes in the Great Basin. The U.S. Congress requested the USGS to establish the Saline Lake Ecosystems IWAAs in response to historically low water levels at terminal lakes and associated wetlands across the Great Basin. Not all Great Basin terminal lakes have high salinity; however, all terminal lakes occur in endorheic, closed, basins with no surface-water outflow. Low lake levels across the Great Basin are the result of increased water use for agriculture and municipalities, drought conditions, and a warming climate. Great Basin terminal lake water extents have decreased by as much as 90 percent over the last 150 years, and terminal lake wetlands have decreased in area by as much as 47 percent since 1984. Lake elevations and wetland areas are primarily supported by freshwater inputs from snowmelt feeding upgradient rivers, streams, and springs. These freshwater inputs have been severely reduced because of continued and increased surface-water diversions and surface-water capture through groundwater pumping for agriculture, mining, and public supply as well as unprecedented drought conditions and warming temperatures related to climate change. Water quality, specifically salinity, is highly variable for terminal lakes of the Great Basin, and this variability is a result of the balance between freshwater inflow and evaporation. Variability of salinity at each of the terminal lakes can be affected by lake morphology, hydrogeologic features of the basin, annual variability in weather patterns, and changes in upgradient water use. Hypersaline terminal lakes provide abundant food resources such as brine shrimp and brine flies that support nesting and migrating birds. The density and composition of invertebrates are closely tied to lake salinity. Increased salinity can exceed the tolerance of invertebrates, severely limiting their biomass. In contrast, decreased salinity can lead to altered invertebrate community composition, reducing the abundance of optimal avian prey resources. Great Basin terminal lake ecosystems, including open-water and adjacent aquatic and terrestrial environments, provide resources necessary to sustain many animal populations throughout the year. Although a variety of taxa use terminal lakes, these ecosystems are of acute importance for the millions of migratory waterbirds (for example, shorebirds, wading birds, and waterfowl) dependent on the network of terminal lakes and their associated wetlands. Migratory birds transiting the Pacific and Central Flyways use Great Basin terminal lake ecosystems throughout the year to feed, nest, and transit between wintering and breeding ranges. As such, successful conservation of birds and their habitats requires coordinated management of water and habitats across the Great Basin network of terminal lakes and wetlands. The linkages between water availability and ecosystem vulnerability of terminal lakes in the Great Basin are not well understood. The vulnerability of terminal lakes is related to the factors driving change and adaptive capacity of the lake ecosystem. Saline lake ecosystems are vulnerable when changes in water quantity affect ecosystem function. Water quantity affects salinity, which affects food webs and habitat; these linkages can be investigated with water-quality and food web monitoring. Water quantity also affects inundated habitat, which can be quantified through remote sensing. It is necessary to quantify hydroclimatic and water use controls on water availability to terminal lakes to assess the response of the ecosystems. Remotely sensed data can provide a broad-scale and long-term synoptic view of terminal lake hydrologic characteristics, but ground observations are required to interpret changes in water quality and ecological functions. Some terminal lake basins have ongoing monitoring and modeling efforts within the Great Basin (for example, Great Salt Lake, Carson River Basin), yet most monitoring locations are hydrologically upgradient and too far away from lake inflows to provide an accurate assessment of hydrological trends for the lake ecosystems. Other terminal lakes have no long-term hydrological monitoring in their respective watersheds (for example, Lake Abert). Ecological data collection in the Great Basin is also insufficient to understand how many birds exist on the landscape, how birds use the mosaic of terminal-lake habitats as an interconnected system, and how Great Basin terminal lakes are linked to the larger continental system of the Pacific and Central Flyways. Across agencies and organizations, tracking bird movement, abundance, and diversity is inconsistent, with some lakes having once- or twice-a-year bird survey efforts and a few locations having more intensive ecological data-gathering efforts (for example, Great Salt Lake, Lake Abert). Bridging hydrological and ecological information gaps will improve understanding of the trends in water supply and water quality, habitat availability and usage, and impacts on vulnerable waterbird species, all of which would be used by managers in coordinated conservation of this unique network of terminal-lake habitats. The terminal lakes of the Great Basin are part of the Basin and Range physiographic province that extends from the Colorado Plateau on the east to the Sierra Nevada on the west, and from the Snake River Plain on the north to the Garlock fault and the Mojave block on the south. The Great Basin is larger than 650,000 square kilometers and encompasses most of the State of Nevada but also extends to western Utah, eastern California, southeastern Idaho, southwestern Wyoming, and southeastern Oregon. The climate is arid to semiarid with a hydrologic regime that is snowmelt dominated, providing as much as 75 percent of total annual runoff for the region. Terminal lakes of the Great Basin occupy the lowest areas of closed (endorheic) drainage basins, such that lake levels and water quality respond rapidly to surface-water inflow. Terminal lakes provide local and regional economic value to the States in the Great Basin, including mineral extraction, aquaculture, public works, and recreational uses. As an example, assessments of Great Salt Lake’s ecological health and economic impact find hemispheric importance for the former and regional importance for the latter. Great Salt Lake creates about 7,000 jobs and $2 billion of economic output per year, most of which would be lost with further declines in lake level. The objectives of this Science Strategy are threefold: (1) to identify how changing water availability affects the quality, diversity, and abundance of habitats supporting continental waterbird populations; (2) to highlight the scientific monitoring and assessment needs of Great Basin terminal lakes; and (3) to support coordinated management and conservation actions to benefit those ecosystems, migratory birds, and other wildlife. There are long-term hydrological, ecological, and societal challenges associated with terminal lakes ecosystems in the Great Basin. This Science Strategy benefits partners by providing a conceptual model, nested at different spatial extents, that identifies key scientific information needs to inform coordinated implementation of management and conservation plans within and among hydrologic basins to address these complex challenges.

California, Idaho, Nevada, Oregon, Utah, Wyoming↗
USGS2006

Environmental aspects of produced-water salt releases in onshore and coastal petroleum-producing areas of the conterminous U.S. - a bibliography

Environmental effects associated with the production of oil and gas have been reported since the first oil wells were drilled in the Appalachian Basin in Pennsylvania and Kentucky in the early to mid-1800s. The most significant of these effects are the degradation of soils, ground water, surface water, and ecosystems they support by releases of suspended and dissolved hydrocarbons and co-produced saline water. Produced water salts are less likely than hydrocarbons to be adsorbed by mineral phases in the soil and sediment and are not subject to degradation by biologic processes. Sodium is a major dissolved constituent in most produced waters and it causes substantial degradation of soils through altering of clays and soil textures and subsequent erosion. Produced water salts seem to have the most wide-ranging effects on soils, water quality, and ecosystems. Trace elements, including boron, lithium, bromine, fluorine, and radium, also occur in elevated concentrations in some produced waters. Many trace elements are phytotoxic and are adsorbed and may remain in soils after the saline water has been flushed away. Radium-bearing scale and sludge found in oilfield equipment and discarded on soils pose additional hazards to human health and ecosystems. This bibliography includes studies from across the oil- and natural-gas-producing areas of the conterminous United States that were published in the last 80 yrs. The studies describe the effects of produced water salts on soils, water quality, and ecosystems. Also included are reports that describe (1) the inorganic chemistry of produced waters included in studies of formation waters for various purposes, (2) other sources of salt affecting water quality that may be mistaken for produced water effects, (3) geochemical and geophysical techniques that allow discrimination of salt sources, (4) remediation technologies designed to repair damage caused to soils and ground water by produced water salts, and (5) contamination by naturally occurring radioactive materials (NORM)at oilfield sites.

Open-File Report↗
USGS2012

Toxicity, sublethal effects, and potential modes of action of select fungicides on freshwater fish and invertebrates

Despite decades of agricultural and urban use of fungicides and widespread detection of these pesticides in surface waters, relatively few data are available on the effects of fungicides on fish and invertebrates in the aquatic environment. Nine fungicides are reviewed in this report: azoxystrobin, boscalid, chlorothalonil, fludioxonil, myclobutanil, fenarimol, pyraclostrobin, pyrimethanil, and zoxamide. These fungicides were identified as emerging chemicals of concern because of their high or increasing global use rates, detection frequency in surface waters, or likely persistence in the environment. A review of the literature revealed significant sublethal effects of fungicides on fish, aquatic invertebrates, and ecosystems, including zooplankton and fish reproduction, fish immune function, zooplankton community composition, metabolic enzymes, and ecosystem processes, such as leaf decomposition in streams, among other biological effects. Some of these effects can occur at fungicide concentrations well below single-species acute lethality values (48- or 96-hour concentration that effects a response in 50 percent of the organisms, that is, effective concentration killing 50 percent of the organisms in 48 or 96 hours) and chronic sublethal values (for example, 21-day no observed adverse effects concentration), indicating that single-species toxicity values may dramatically underestimate the toxic potency of some fungicides. Fungicide modes of toxic action in fungi can sometimes reflect the biochemical and (or) physiological effects of fungicides observed in vertebrates and invertebrates; however, far more studies are needed to explore the potential to predict effects in nontarget organisms based on specific fungicide modes of toxic action. Fungicides can also have additive and (or) synergistic effects when used with other fungicides and insecticides, highlighting the need to study pesticide mixtures that occur in surface waters. For fungicides that partition to organic matter in sediment and soils, it is particularly important to determine their effects on freshwater mussels and other freshwater benthic invertebrates in contact with sediments, as available toxicity studies with pelagic species, mainly Daphnia magna , may not be representative of these benthic organisms. Finally, there is a critical need for studies of the chronic effects of fungicides on reproduction, immunocompetence, and ecosystem function; sublethal endpoints with population and community-level relevance.

Open-File Report↗
USGS2015

Marshes to mudflats—Effects of sea-level rise on tidal marshes along a latitudinal gradient in the Pacific Northwest

Summary In the Pacific Northwest, coastal wetlands support a wealth of ecosystem services including habitat provision for wildlife and fisheries and flood protection. The tidal marshes, mudflats, and shallow bays of coastal estuaries link marine, freshwater, and terrestrial habitats, and provide economic and recreational benefits to local communities. Climate change effects such as sea-level rise are altering these habitats, but we know little about how these areas will change over the next 50–100 years. Our study examined the effects of sea-level rise on nine tidal marshes in Washington and Oregon between 2012 and 2015, with the goal of providing scientific data to support future coastal planning and conservation. We compiled physical and biological data, including coastal topography, tidal inundation, vegetation structure, as well as recent and historical sediment accretion rates, to assess and model how sea-level rise may alter these ecosystems in the future. Multiple factors, including initial elevation, marsh productivity, sediment availability, and rates of sea-level rise, affected marsh persistence. Under a low sea-level rise scenario, all marshes remained vegetated with little change in the present configuration of communities of marsh plants or gradually increased proportions of middle-, high-, or transition-elevation zones of marsh vegetation. However, at most sites, mid sea-level rise projections led to loss of habitat of middle and high marshes and a gain of low marshes. Under a high sea-level rise scenario, marshes at most sites eventually converted to intertidal mudflats. Two sites (Grays Harbor and Willapa) seemed to have the most resilience to a high rate of rise in sea-level, persisting as low marsh until at least 2110. Our main model finding is that most tidal marsh study sites are resilient to sea-level rise over the next 50–70 years, but that sea-level rise will eventually outpace marsh accretion and drown most habitats of high and middle marshes by 2110.

California, Oregon, Washington↗
USGS2025

Rapid structured decision making for Hypomesus transpacificus (delta smelt) summer–fall freshwater outflow management

Managers of the Central Valley Project (CVP) and State Water Projects (SWP) in California are confronted with difficult tradeoffs between water uses and associated values affected by water management decisions. These decisions involve altering the timing and magnitude of water releases from dams and reservoirs, which can affect habitats for economically important and Federally and State-listed endangered fish species, water deliveries for agriculture or municipalities, and water quality. In this report, we describe the results of a rapid structured decision-making process used to assist management agencies in evaluating tradeoffs while gathering input from cooperating agencies, rightsholders, or interested parties (hereafter participants) through facilitated workshops in spring 2025. Consideration of alternative water management actions was initiated by the continued decline of Hypomesus transpacificus (delta smelt) populations and the issuance of a new biological opinion for the CVP and SWP long-term operations on the effects on delta smelt and other Endangered Species Act-listed species in November 2024. An Executive Order was also issued in January 2025, directing the Bureau of Reclamation to maximize water deliveries. Participants, led by the U.S. Geological Survey and cooperating agencies, identified 8 fundamental values (hereafter objectives) and 11 alternative water management scenarios (or “alternative management actions” based on the PrOACT model). Using multicriteria decision analysis, we evaluated performance (or “consequences” based on a consequence table analysis) and analyzed tradeoffs of alternative water management actions to the fundamental objectives. We ranked the alternative water management actions based on four participants’ objective weights and composite utility scores calculated using a linear value function. The three highest ranking alternative water management actions had the poorest performance for delta smelt but performed best for CVP and SWP water exports and objectives related to coldwater pool operations for salmonids. An optimum strategy that could prevent the extinction of delta smelt was not determined for this study. However, insights gained from our rapid decision analysis suggested nonflow scenarios could benefit the delta smelt population, including in drier years, and could be considered to avoid curtailment of water exports.

Open-File Report↗
USGS1996

Water-quality assessment of the Albemarle-Pamlico drainage basin, North Carolina and Virginia; trace elements in Asiatic clam (Corbicula fluminea) soft tissues and redbreast sunfish (Lepomis auritus) livers, 1992-93

The analysis of potential contaminants in biological tissues is an important part of many water-quality assessment programs, including the National Water-Quality Assessment (NAWQA) Program. Tissue analyses often are used to provide information about (1) direct threats to ecosystem integrity, and (2) the occurrence and distribution of potential contaminants in the environment. During 1992-93, trace elements in Asiatic clam (Corbicula fluminea) soft tissues and redbreast sunfish (Lepomis auritus) livers were analyzed to obtain information about the occurrence and distribution of trace element contaminants in the Albemarle-Pamlico Drainage Basin of North Carolina and Virginia. The investigation was conducted as part of the NAWQA Program. All but 3 of the 22 trace elements that were analyzed were detected. Although all 10 of the U.S. Environmental Protection Agency (U.S. EPA) priority pollutants were detected in the tissues sampled, they were present in relatively low concentrations. Concentrations of U.S. EPA priority pollutants in Asiatic clams collected in the Albemarle-Pamlico Drainage Basin are similar to concentrations observed in other NAWQA study units in the southeastern United States. Mercury (a U.S. EPA priority pollutant) was widely detected, being present in 29 of 30 tissue samples, but concentrations did not exceed the FDA action level for mercury of a risk-based screening value for the general public. Mercury concentrations in Asiatic clams were similar to concentrations in other NAWQA study areas in the Southeast.

North Carolina, Virginia↗
USGS2015

California State Waters Map Series — Offshore of Fort Ross, California

Introduction In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within the 3-nautical-mile limit of California’s State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow subsurface geology. The Offshore of Fort Ross map area is located in northern California, on the Pacific coast of Sonoma County, about 90 km north of San Francisco and 60 km south of Point Arena. The onshore part of the map area is largely undeveloped, used primarily for grazing and recreation; the small town of Jenner (population, 136), located at the mouth of the Russian River, is the largest cultural center. The coast and shoreline are rugged and scenic, characterized by rocky promontories, kelp-rich coves, and nearshore rocks and sea stacks. U.S. Highway 1 extends along the coast through the map area, crossing the Russian River and passing through Sonoma Coast State Park and Fort Ross State Historic Park. The Offshore of Fort Ross map area is cut by the northwest-striking San Andreas Fault, the right-lateral transform boundary between the North American and Pacific plates. The fault intersects the shoreline a few kilometers south of Fort Ross at Timber Gulch, and it juxtaposes Jurassic, Cretaceous, Paleocene, and Eocene rocks of the Franciscan Complex to the northeast and Tertiary sedimentary rocks to the southwest. In this area, the San Andreas Fault has an estimated slip rate of 17 to 24 mm/yr. The devastating great 1906 California earthquake (M7.8) is thought to have nucleated on the San Andreas Fault offshore of San Francisco, about 90 km to the south, with the rupture extending northward through the Offshore of Fort Ross map area to the south flank of Cape Mendocino. Approximately 3.6 m of lateral offset occurred at Timber Gulch during this event. The San Andreas Fault has an important influence on coastal geomorphology. The coastline in the northern part of the map area, southwest of the onshore San Andreas Fault, is characterized by steep shoreline bluffs and as many as four uplifted, relatively flat marine terraces that range in elevation from about 15 to 100 m. Northeast of the San Andreas Fault, about 12 km of coastline is marked by steep, landslide-prone cliffs that commonly are 200 to 300 m high. The mouth of the Russian River and its estuary cut through the steep coastal topography in the southern part of the Offshore of Fort Ross map area. The Russian River drains a large watershed (3,470 km 2 ), and it has an annual discharge of about 2 km 3 (1,600,000 acre-feet) and an annual sediment load of about 900,000 metric tons. The map area is part of the Russian River littoral cell, in which the predominant longshore drift is to the south. Small pocket beaches are most common along the shoreline, but longer linear beaches are present near the mouth of the Russian River. The seafloor in the north half of the map area is characterized by rocky outcrops of Tertiary sedimentary rocks. The rugged nearshore zone and the inner shelf area (to water depths of about 50 m) typically slopes gently seaward, whereas the smooth midshelf area within California’s State Waters (about 50 to 85 m deep) is relatively flat. In contrast, the nearshore to midshelf area in the south half of the map area, which lies directly offshore of the mouth of the Russian River, has a more uniform, relatively flat slope. Shallow-marine and shelf sediments were deposited in the last about 21,000 years during the sea-level rise that followed the Last Glacial Maximum (LGM). Sea level was about 125 m lower than present during the LGM, at which time the entire Offshore of Fort Ross map area was emergent and the shoreline was about 20 km west of its present location. Circulation over the continental shelf in the map area (and in the broader northern California region) is dominated by the southward-flowing California Current, the eastern limb of the North Pacific Gyre. Associated upwelling brings cool, nutrient-rich waters to the surface, resulting in high biological productivity. The current flow generally is southeastward during the spring and summer; however, during the fall and winter, the otherwise persistent northwest winds are sometimes weak or absent, causing the California Current to move farther offshore and the Davidson Current, a weaker, northward-flowing countercurrent, to become active. Throughout the year, this part of the northern California coast is exposed to four wave climate regimes: the north Pacific swell, the southern swell, northwest wind waves, and local wind waves. The north Pacific swell dominates in winter months (typically November through March). During summer months, the largest waves come from the southern swell, generated by storms in the south Pacific and offshore of Central America. Northwest wind waves affect the coast throughout the year, whereas local wind waves are most common from October to April. Potential marine benthic habitat types in the Offshore of Fort Ross map area include unconsolidated continental-shelf sediments, mixed continental-shelf substrate, and hard continental-shelf substrate. Rocky shelf outcrops and rubble are considered the primary habitat type for rockfish and lingcod, both of which are recreationally and commercially important species.

California↗
USGS2001

Physical, Chemical, and Biological Methods and Data from the Urban Land-Use-Gradient Study, Des Plaines and Fox River Basins, Illinois, 1999-2001

Physical, chemical, and biological data were collected at 46 sites in the Fox and Des Plaines River Basins as part of the upper Illinois River Basin study of the U.S. Geological Survey?s National Water-Quality Assessment Program. The data, collected from 1999 to 2001, will be used to determine the effects of urbanization on streams in the Chicago, Illinois, metropolitan area. To examine the possible effects of urbanization on stream-water quality, the sampling sites were selected to represent a gradient of land use changing from agriculture into urban. Urban land use for the selected sites ranged from less than 1 percent urban to 92 percent urban. Data-collection methods are presented in the text portion of this report. Physical characteristics of the stream that were collected include descriptive and qualitative habitat and geomorphic measures. Water samples were analyzed for nutrients (nitrogen and phosphorus), 11 major ions, 46 wastewater indicators, pH, and specific conductance. Aquatic communities were sampled to identify and quantify populations of selected algae, benthic macroinvertebrates, and fish. There were 72 unique fish species collected at all of the sites. The number of benthic macroinvertebrate taxa collected at all the sites ranged from 15 to 48. The data and the associated data documentation are presented on a CD-ROM included with this report.

Open-File Report↗
USGS2009

Rainfall, discharge, and water-quality data during stormwater monitoring, July 1, 2008, to June 30, 2009; Halawa Stream drainage basin and the H-1 storm drain, Oahu, Hawaii

Storm runoff water-quality samples were collected as part of the State of Hawaii Department of Transportation Stormwater Monitoring Program. The program is designed to assess the effects of highway runoff and urban runoff on Halawa Stream, and to assess the effects from the H-1 storm drain on Manoa Stream. For this program, rainfall data were collected at three stations, continuous discharge data at five stations, and water-quality data at six stations, which include the five continuous discharge stations. This report summarizes rainfall, discharge, and water-quality data collected between July 1, 2008, and June 30, 2009. Within the Halawa Stream drainage area, three storms (October 25 and December 11, 2008, and February 3, 2009) were sampled during July 1, 2008, to June 30, 2009. A total of 43 environmental samples were collected during these three storms. During the storm of October 25, 2009, 31 samples were collected and analyzed individually for metals only. The other 12 samples from the other two storms were analyzed for some or all of the following analytes: total suspended solids, total dissolved solids, nutrients, chemical oxygen demand, and selected trace metals (cadmium, chromium, copper, lead, and zinc). Additionally, grab samples were analyzed for some or all of the following analytes: oil and grease, total petroleum hydrocarbons, fecal coliform, and biological oxygen demand. Some grab and composite samples were analyzed for only a partial list of these analytes, either because samples could not be delivered to the laboratory in a timely manner, or an insufficient volume of sample was collected by the automatic samplers. Two quality-assurance/quality-control samples were collected after cleaning automatic sampler lines to verify that the sampling lines were not contaminated. Four environmental samples were collected at the H-1 Storm Drain during July 1, 2008, to June 30, 2009. An oil and grease sample and a composite sample were collected during the storm on November 15, 2008, and two composite samples were collected during the January 11, 2009, storm. All samples at this site were collected using an automatic sampler. Samples were analyzed for some or all of the following analytes: total suspended solids, nutrients, oil and grease, total petroleum hydrocarbons, and selected trace metals (cadmium, chromium, copper, lead, nickel, and zinc). One qualityassurance/quality-control sample was collected after cleaning automatic sampler lines to verify that the sampling lines were not contaminated. During the storm of January 11, 2009, the two composite samples collected at H-1 Storm Drain were collected about three hours apart. Higher constituent concentrations were detected in the first 2 composite sample relative to the second composite sample, although the average discharge was higher during the period when the second sample was collected.

Hawaii↗
USGS2022

Protocols for collecting and processing macroinvertebrates from the benthos and water column in depressional wetlands

Freshwater aquatic macroinvertebrates are key links in food webs and nutrient cycles, and thus often serve as biological indicators of ecosystem health. Macroinvertebrate investigations in research and monitoring require consistent and reliable field and laboratory procedures. Comprehensive standard operating procedures for sampling macroinvertebrates from depressional wetlands, which can range from riverine floodplain lakes to wetlands of any size and hydrologic regime, remain relatively sparse. This report provides step-by-step protocols for efficient use of time and resources while collecting and processing aquatic macroinvertebrate samples; for example, a single wetland can typically be field surveyed in less than 1 hour, and the samples can be processed in the laboratory in less than 2 hours. Samples can be collected from inside a motorboat or canoe or while wading. This procedures manual describes dip netting to collect macroinvertebrates from the wetland bottom and water column separately to facilitate investigations of habitat use by species occupying different areas of the wetland. This report also provides descriptive supplemental materials and data sheets to assist with the preparation of survey maps, the acquisition of field and laboratory equipment, and the calculation of macroinvertebrate densities from the wetland bottom and water column. These procedures can be applied to most macroinvertebrate species and communities that inhabit a variety of wetland sizes and types. Uses and applications can range from elementary and secondary environmental education to rigorous scientific evaluations of community abundance, diversity, distribution, or species-habitat relations.

Open-File Report↗
USGS2026

Evaluation and synthesis of the Yolo Bypass fish monitoring program

The Yolo Bypass is the largest functional remnant floodplain of the Sacramento River, providing benefits to aquatic taxa of the San Francisco Bay and Sacramento–San Joaquin Delta (hereafter, Bay-Delta). Because of the Yolo Bypass’s vital role in flood control and its ecological effects, the California Department of Water Resources started the Yolo Bypass Fish Monitoring Program (YBFMP) to monitor the aquatic ecology of the floodplain. Here, we present a scientific evaluation of the monitoring program to assess the efficacy and efficiency of the program in meeting its objective of collecting biological data to understand the ecological role the Yolo Bypass plays in the larger Bay-Delta. We used a multivariate assessment of floodplain flow to classify flood events (no flood, intense, early, late) and water years (low, average, high). To assess efficacy, we used a null hypothesis approach to determine if the YBFMP could distinguish variability in measured constituents (water quality and nutrient concentrations; phytoplankton, zooplankton, drift invertebrates, and fish communities; and densities of Chinook salmon [ Oncorhynchus tshawytscha ], Sacramento splittail [ Pogonichthys macrolepidotus ], and prickly sculpin [ Cottus asper ]) across different flood regime classifications. To assess efficiency, we used a data subsampling approach to quantify the amount of data needed to reach similar conclusions to analyses that used the entire dataset. Regarding efficacy, we concluded that the YBFMP is generally effective at identifying variability across various spatial and temporal scales (including flood regimes). Regarding efficiency, we concluded that reduced sampling effort would likely result in similar conclusions, enabling program managers to identify sites or periods that do not provide data essential to meeting program objectives. Our evaluation of the YBFMP indicated where data variability might limit mechanistic inference (particularly for phytoplankton and zooplankton), thus indicating that a series of targeted studies may be a prerequisite for further analysis. This evaluation has also identified areas where existing sampling may not be providing additional informational value, allowing for reallocation of effort to address management concerns.

California↗
USGS2021

Intensity of grass invasion negatively correlated with population density and age structure of an endangered dune plant across its range

Invasive species are a global threat to ecosystem biodiversity and function; non-native grass invasion has been particularly problematic in sparsely vegetated ecosystems such as open dunes. Native plant population responses to invasion, however, are infrequently translated to landscape scales, limiting the effectiveness of these data for addressing conservation issues. We quantified population density, total population size, and age class distribution of the federally-endangered plant species Antioch Dunes evening primrose ( Oenothera deltoides subsp. howellii ), at sites along a non-native grass invasion gradient in California, USA. We then scaled relationships between invasion and plant density across the species’ range using spatial models and remote sensing data. Adult and juvenile O. deltoides subsp. howellii densities were more than 10 times higher in non-invaded areas (grids with 10% total plant cover) when compared to highly-invaded areas (grids with 80% total plant cover). The ratio of O. deltoides subsp. howellii juveniles to adults decreased to less than 1 at 54% total cover, highlighting sensitivity of the regeneration niche to invasion. Spatial models mapped hotspots of O. deltoides subsp. howellii abundance and population structure across the landscape at sub-meter scales. Scaling the impacts of increasing invasion on plant species of conservation concern holds promise when coupled with remote sensing approaches, especially in naturally low-cover ecosystems where readily available metrics (e.g., Normalized Difference Vegetation Index) can be used to quantify invasion. These spatial models inform how future invasive species management may influence population size and spatial distribution of species of conservation concern.

California↗
USGS2024

Expanded conceptual risk framework for uranium mining in Grand Canyon watershed—Inclusion of the Havasupai Tribe perspective

In 2012, the Secretary of the U.S. Department of the Interior placed a 20-year limit on mineral extraction on Federal lands in the Grand Canyon watershed to permit further study of the environmental effects of uranium mining. Tribal concerns were also noted by the U.S. Department of the Interior and included in the rationale for the decision stating Tribal resource impacts could not be mitigated and cultural degradation may result should mining occur within sacred and traditional places of Tribal peoples. The U.S. Geological Survey previously developed a conceptual framework for a uranium mine in the region that defined contaminant sources and physical, chemical, and biological processes that affect contaminant transport to ecological receptors. However, published risk models have largely ignored exposure pathways relevant to Tribal communities in terms of traditional uses and existential values of the resources included. This report presents an updated conceptual risk framework for uranium mining that includes indigenous knowledge components informed by the Havasupai Tribe perspective. The expansion of the framework relied on connecting to the foundations of the Havasupai ceremonial wheel—food, environment, belief system, and ceremony. The framework is applied to uranium development near Red Butte, an important gathering place for multiple federally recognized Tribes including the Havasupai, Hopi, Navajo, and Zuni. Plants and animals important to the Havasupai for subsistence, ceremonial, and medicinal practices and how mining affects these practices are described. The final framework is presented in English and Havasupai to aid Tribal members in understanding how the framework relates to their community and to help preserve the language and historical cultural practices for future generations. New or expanded exposure pathways include inhalation, ingestion, and absorption from traditional food and medicines as well as ceremonial practices. The updated framework has allowed the U.S. Geological Survey to take first steps in understanding resources important to the Havasupai and to build relationships to improve co-production in our research. Ideally, the framework and other research can be used, along with indigenous knowledge, in Federal research and decision making for mining in the Grand Canyon region.

Open-File Report↗
USGS2001

Fish-community composition in Otselic River, in the vicinity of Whitney Point Lake, Broome and Cortland counties, New York, 2000

The U.S. Army Corps of Engineers, Baltimore District, has been conducting biological surveys of the inflow and outflow streams of Whitney Point Lake since the early 1980's. These surveys are made to identify possible detrimental effects as well as benefits of the reservoir and to better understand the aquatic communities in the vicinity of the lake at the present and over time. The U.S. Army Corps of Engineers and the U.S. Geological Survey jointly conducted a survey of the fish communities upstream and downstream of the reservoir in Otselic River in September 2000. The fish communities upstream and downstream were compared and any differences or similarities seen in the communities were noted. This study found the fish communities upstream and downstream of Whitney Point Lake to be in good condition, with Index of Biotic Integrity (IBI) scores 4.3 upstream and 4.5 downstream. The habitat conditions of both reaches were of suboptimal quality, with a score of 15 for both reaches as determined by use of the U.S. Environmental Protection Agency's Rapid Bioassessment Protocols, yet are capable of supporting fish communities. The Shannon Index was 3.83 upstream and 3.16 downstream of the lake, indicating that both reaches are slightly impacted by species richness and lack of individual evenness among the species. The communities also were different from each other. Only 11 of the 21 species upstream were also captured downstream. The Jaccards Coefficient and the Index of Similarity reflect this community difference with scores of 0.39 and 0.56, respectively.

Open-File Report↗
USGS2003

User's Manual for the National Water-Quality Assessment Program Invertebrate Data Analysis System (IDAS) Software: Version 3

The Invertebrate Data Analysis System (IDAS) software provides an accurate, consistent, and efficient mechanism for analyzing invertebrate data collected as part of the National Water-Quality Assessment Program and stored in the Biological Transactional Database (Bio-TDB). The IDAS software is a stand-alone program for personal computers that run Microsoft (MS) Windows?. It allows users to read data downloaded from Bio-TDB and stored either as MS Excel? or MS Access? files. The program consists of five modules. The Edit Data module allows the user to subset, combine, delete, and summarize community data. The Data Preparation module allows the user to select the type(s) of sample(s) to process, calculate densities, delete taxa based on laboratory processing notes, combine lifestages or keep them separate, select a lowest taxonomic level for analysis, delete rare taxa, and resolve taxonomic ambiguities. The Calculate Community Metrics module allows the user to calculate over 130 community metrics, including metrics based on organism tolerances and functional feeding groups. The Calculate Diversities and Similarities module allows the user to calculate nine diversity and eight similarity indices. The Data export module allows the user to export data to other software packages and produce tables of community data that can be imported into spreadsheet and word-processing programs. Though the IDAS program was developed to process invertebrate data downloaded from USGS databases, it will work with other data sets that are converted to the USGS (Bio-TDB) format. Consequently, the data manipulation, analysis, and export procedures provided by the IDAS program can be used by anyone involved in using benthic macroinvertebrates in applied or basic research.

Open-File Report↗
USGS2022

Modeling and estimating co-occurrence between the invasive Shiny Cowbird and its Puerto Rican hosts

Invasive species threaten island biodiversity globally. For example, the Shiny Cowbird ( Molothrus bonariensis ) parasitizes many of Puerto Rico’s endemic species, particularly in the open forests in the island’s southwest. Less is known, however, about cowbird parasitism in the agro-ecological highlands, which contain a patchwork of forests, shaded-coffee plantations, and coffee farms without shade. In this paper, we estimated co-occurrence rates, a potential indicator of parasitism rates, between the cowbird and four host species across these three land uses, hypothesizing that cowbirds would most likely co-occur with their hosts in shaded-coffee farms. We also hypothesized that the presence of host species would increase the probability of cowbird occurrence. To investigate these hypotheses, we developed three Bayesian hierarchical occupancy models: one where the hosts and parasite occurred independently, one that used the latent host species richness as a predictor of cowbird occurrence, and one that used each latent host occurrence state as predictors. These methods addressed observation errors and appropriately propagated error to our predictions of co-occurrence rates. We selected the best performing model using WAIC, then used it to predict co-occurrence rates. While there was some evidence that host species richness increased the probability of cowbirds, the parsimonious model assumed no interaction. With this model, we found that cowbirds were more likely to overlap with certain hosts in shaded-coffee plantations. This may suggest increased parasitism at these plantations, potentially presenting challenges for managers who advocate for shade restoration to gain ecological services such as biodiversity conservation.

Biological Invasions↗
USGS2005

GIS compilation of data collected from the Pulley Ridge Deep Coral Reef region

Pulley Ridge is a chain of drowned barrier islands that extends almost 200 km in 60-90 m water depths (Fig. 1). This drowned ridge is located on the Florida Platform in the southeastern Gulf of Mexico about 250 km west of Cape Sable, Florida (Jarrett and others, 2005). These islands formed during the early Holocene marine transgression approximately 12,000 - 14,000 years before present, and were then submerged by sea level rise and preserved near the outer edge of the Florida Platform. The southern portion of Pulley Ridge is the focus of this study. This area hosts zooxanthellate scleractinian corals, green, red and brown macro algae, and a mix of deep and typically shallow-water tropical fishes. This largely photosynthetic community is unique in that it thrives with less than 5% of the light typically associated with shallow-water reefs with similar fauna. Several factors help to account for the existence of this unique deep-water community. First, the underlying drowned barrier islands provide both elevated topography and lithified substrate for the establishment of the hardbottom community. Second, the region is commonly bathed by the Loop Current, which brings relatively clear and warm water to this area. Third, the ridge's position on the continental shelf places it within the thermocline which provides nutrients to the reef during upwelling (Halley and others, 2003). The USGS has made two proposals to resource managers for the designation of marine protected areas based on the geophysical and photographic data in this report. The proposals describe areas that may require some regulatory protection of marine life utilizing the sea floor (Fig. 1). The first proposal is that the area of greatest hermatypic coral cover (Fig. 1) is considered for future management actions and designated a Habitat Area of Particular Concern (HAPC) by the Gulf of Mexico Fishery Management Council. HAPCs are identified on the basis of habitat level considerations: The importance of the ecological function provided by the habitat. The extent to which the habitat is sensitive to human-induced environmental degradation. Whether and to what extent development activities are or will be stressing the habitat. The rarity of the habitat type. The second proposed area is for Coral Essential Fish Habitat (CEFH, Fig. 1). CEFHs are defined as "those waters and substrate necessary to corals for spawning, breeding, feeding, or growth to maturity." The following definitions are provided for clarification: waters is defined as "aquatic areas and their associated physical, chemical, and biological properties that are used by corals" substrate means "sediment, hard bottom, structures underlying the waters, and associated biological communities" necessary means "the habitat required to support a sustainable population and the managed species' contribution to a healthy ecosystem" spawning,breeding, feeding, or growth to maturity covers the full life cycle of a species. The CEFH shown in Figure 1 is the greatest coral cover in the region as determined by the bottom photo and video transects acquired during this study. This report presents the geophysical and photographic data that were collected to describe the surficial and shallow subsurface geologic framework of the area where these deep-water corals are known to occur. The data types include multibeam bathymetry, sidescan-sonar imagery, images of high-resolution seismic-reflection profiles, and bottom photographs. In addition, the tracklines for the seismic data, locations of bottom photographs and camera drifts, and tracklines along which submersible and remotely operated vehicle (ROV) observations were made are contained in the GIS files accompanying this report. Unfortunately, video footage from the camera drifts, submersible, and ROV cruises is not available on this DVD due to the quantity of data. The bottom photograph data set has been previously published (Cross and others, 2004), however it is included in this publication in an effort to integrate the varying data sets in one location. This integration is accomplished through the GIS data included on this DVD.

Florida↗