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Preliminary geologic framework developed for a proposed environmental monitoring study of a deep, unconventional Marcellus Shale drill site, Washington County, Pennsylvania

Background In the fall of 2011, the U.S. Geological Survey (USGS) was afforded an opportunity to participate in an environmental monitoring study of the potential impacts of a deep, unconventional Marcellus Shale hydraulic fracturing site. The drill site of the prospective case study is the “Range Resources MCC Partners L.P. Units 1-5H” location (also referred to as the “RR–MCC” drill site), located in Washington County, southwestern Pennsylvania. Specifically, the USGS was approached to provide a geologic framework that would (1) provide geologic parameters for the proposed area of a localized groundwater circulation model, and (2) provide potential information for the siting of both shallow and deep groundwater monitoring wells located near the drill pad and the deviated drill legs. The lead organization of the prospective case study of the RR–MCC drill site was the Groundwater and Ecosystems Restoration Division (GWERD) of the U.S. Environmental Protection Agency. Aside from the USGS, additional partners/participants were to include the Department of Energy, the Pennsylvania Geological Survey, the Pennsylvania Department of Environmental Protection, and the developer Range Resources LLC. During the initial cooperative phase, GWERD, with input from the participating agencies, drafted a Quality Assurance Project Plan (QAPP) that proposed much of the objectives, tasks, sampling and analytical procedures, and documentation of results. Later in 2012, the proposed cooperative agreement between the aforementioned partners and the associated land owners for a monitoring program at the drill site was not executed. Therefore, the prospective case study of the RR–MCC site was terminated and no installation of groundwater monitoring wells nor the collection of nearby soil, stream sediment, and surface-water samples were made. Prior to the completion of the QAPP and termination of the perspective case study the geologic framework was rapidly conducted and nearly completed. This was done for three principal reasons. First, there was an immediate need to know the distribution of the relatively undisturbed surface to near-surface bedrock geology and unconsolidated materials for the collection of baseline surface data prior to drill site development (drill pad access road, drill pad leveling) and later during monitoring associated with well drilling, well development, and well production. Second, it was necessary to know the bedrock geology to support the siting of: (1) multiple shallow groundwater monitoring wells (possibly as many as four) surrounding and located immediately adjacent to the drill pad, and (2) deep groundwater monitoring wells (possibly two) located at distance from the drill pad with one possibly being sited along one of the deviated production drill legs. Lastly, the framework geology would provide the lateral extent, thickness, lithology, and expected discontinuities of geologic units (to be parsed or grouped as hydrostratigraphic units) and regional structure trends as inputs into the groundwater model. This report provides the methodology of geologic data accumulation and aggregation, and its integration into a geographic information system (GIS) based program. The GIS program will allow multiple data to be exported in various formats (shapefiles [.shp], database files [.dbf], and Keyhole Markup Language files [.KML]) for use in surface and subsurface geologic site characterization, for sampling strategies, and for inputs for groundwater modeling.

Pennsylvania

Ecosystem conceptual model- Mercury

Mercury has been identified as an important contaminant in the Delta, based on elevated concentrations of methylmercury (a toxic, organic form that readily bioaccumulates) in fish and wildlife. There are health risks associated with human exposure to methylmercury by consumption of sport fish, particularly top predators such as bass species. Original mercury sources were upstream tributaries where historical mining of mercury in the Coast Ranges and gold in the Sierra Nevada and Klamath-Trinity Mountains caused contamination of water and sediment on a regional scale. Remediation of abandoned mine sites may reduce local sources in these watersheds, but much of the mercury contamination occurs in sediments stored in the riverbeds, floodplains, and the Bay- Delta, where scouring of Gold-Rush-era sediment represents an ongoing source. Conversion of inorganic mercury to toxic methylmercury occurs in anaerobic environments including some wetlands. Wetland restoration managers must be cognizant of potential effects on mercury cycling so that the problem is not exacerbated. Recent research suggests that wettingdrying cycles can contribute to mercury methylation. For example, high marshes (inundated only during the highest tides for several days per month) tend to have higher methylmercury concentrations in water, sediment, and biota compared with low marshes, which do not dry out completely during the tidal cycle. Seasonally inundated flood plains are another environment experiencing wetting and drying where methylmercury concentrations are typically elevated. Stream restoration efforts using gravel injection or other reworking of coarse sediment in most watersheds of the Central Valley involve tailings from historical gold mining that are likely to contain elevated mercury in associated fines. Habitat restoration projects, particularly those involving wetlands, may cause increases in methylmercury exposure in the watershed. This possibility should be evaluated. The DRERIP mercury conceptual model and its four submodels (1. Methylation, 2. Bioaccumulation, 3. Human Health Effects, and 4. Wildlife Heath Effects) can be used to understand the general relationships among drivers and outcomes associated with mercury cycling in the Delta. Several linkages between important drivers and outcomes have been identified as important but highly uncertain (i.e. poorly understood). For example, there may be significant wildlife health effect of mercury on mammals and reptiles in the Delta, but there is currently very little or no information about it. The characteristics of such linkages are important when prioritizing and funding restoration projects and associated monitoring in the Delta and its tributaries.

Report

Sedimentation Survey of Lago Toa Vaca, Puerto Rico, June-July 2002

The Lago Toa Vaca dam is located in the municipality of Villalba in southern Puerto Rico, and is owned and operated by the Puerto Rico Aqueduct and Sewer Authority. Construction was completed in 1972 as the first phase of a multi-purpose project that contemplated four possible diversions from other basins to mitigate the rapid storage capacity loss of Lago Guayabal, located immediately downstream of the Toa Vaca dam. The latter phases of the intra-basin diversions were cancelled, and currently, the reservoir receives runoff from only 56.8 square kilometers of its drainage area. Lago Toa Vaca reservoir when constructed was to be used for irrigation of croplands in the southern coastal plain. The reservoir had an original storage capacity of 68.94 million cubic meters. Sedimentation has reduced the storage capacity by only 7 percent between 1972 and 2002 to 64.08 million cubic meters. This represents a long-term sedimentation rate of about 162,000 cubic meters per year. Based on the 2002 sedimentation survey, Lago Toa Vaca has a sediment trapping efficiency of about 98 percent and a drainage area-normalized sedimentation rate of about 3,086 cubic meters per square kilometer per year between 1972 and 2002. At the current long-term sedimentation rate the reservoir would lose its storage capacity by the year 2400.

Scientific Investigations Report

Microbiological quality of water from noncommunity supply wells in carbonate and crystalline aquifers of Pennsylvania

Samples were collected from 59 noncommunity water supplies in the Commonwealth of Pennsylvania from September 2000 to January 2001 and analyzed for pathogens and microbiological indicator organisms. The pathogens sampled were culturable viruses and Helicobacter pylori (H. pylori). The indicator organisms sampled were total coliform, Escherichia coli ( E. coli ), Clostridium perfringens ( C. perfringens ), somatic coliphage, male- specific coliphage, and enterococcus. The two primary areas sampled for the project completed by the U.S. Geological Survey, in cooperation with the Pennsylvania Department of Environmental Protection (PaDEP), were carbonate aquifers and crystalline aquifers. The results of all sampling showed culturable viruses were detected in 8 percent of the wells, H. pyloriin 7 percent of the wells, E. coli in 12 percent of the wells, total coliform in 46 percent of the wells, C. perfringens in 15 percent of the wells, somatic coliphage in 8 percent of the wells, male-specific coliphage in 5 percent of the wells, and enterococcus in 14 percent of the wells. Carbonate aquifers tended to have higher detection rates for the pathogens and indicators sampled than the crystalline aquifers. Detections of the pathogens and indicator organisms were not related statistically to the amounts of urban, agricultural, or forested area in a 1,500-foot radius around the sampled well. Somatic and male-specific coliphage showed the best relation to occurrence of culturable viruses. Culturable viruses and H. pylori were detected in wells in which no indicator organisms were present; therefore, none of the indicator organisms sampled provide complete assurance of pathogenfree water. The best predictive tool for virus screening was a combination of indicator organisms.

Water-Resources Investigations Report

Simulation of daily streamflow for 12 river basins in western Iowa using the Precipitation-Runoff Modeling System

The U.S. Geological Survey, in cooperation with the Iowa Department of Natural Resources, constructed Precipitation-Runoff Modeling System models to estimate daily streamflow for 12 river basins in western Iowa that drain into the Missouri River. The Precipitation-Runoff Modeling System is a deterministic, distributed-parameter, physical-process-based modeling system developed to evaluate the response of streamflow and general drainage basin hydrology to various combinations of climate and land use. Calibration periods for each basin varied depending on the period of record available for daily mean streamflow measurements at U.S. Geological Survey streamflow-gaging stations. A geographic information system tool was used to delineate each basin and estimate initial values for model parameters based on basin physical and geographical features. A U.S. Geological Survey automatic calibration tool that uses a shuffled complex evolution algorithm was used for initial calibration, and then manual modifications were made to parameter values to complete the calibration of each basin model. The main objective of the calibration was to match daily discharge values of simulated streamflow to measured daily discharge values. The Precipitation-Runoff Modeling System model was calibrated at 42 sites located in the 12 river basins in western Iowa. The accuracy of the simulated daily streamflow values at the 42 calibration sites varied by river and by site. The models were satisfactory at 36 of the sites based on statistical results. Unsatisfactory performance at the six other sites can be attributed to several factors: (1) low flow, no flow, and flashy flow conditions in headwater subbasins having a small drainage area; (2) poor representation of the groundwater and storage components of flow within a basin; (3) lack of accounting for basin withdrawals and water use; and (4) limited availability and accuracy of meteorological input data. The Precipitation-Runoff Modeling System models of 12 river basins in western Iowa will provide water-resource managers with a consistent and documented method for estimating streamflow at ungaged sites and aid in environmental studies, hydraulic design, water management, and water-quality projects.

Iowa

Regional Fluid Flow and Basin Modeling in Northern Alaska

The foothills of the Brooks Range contain an enormous accumulation of zinc (Zn) in the form of zinc sulfide and barium (Ba) in the form of barite in Carboniferous shale, chert, and mudstone. Most of the resources and reserves of Zn occur in the Red Dog deposit and others in the Red Dog district; these resources and reserves surpass those of most deposits worldwide in terms of size and grade. In addition to zinc and lead sulfides (which contain silver, Ag) and barite, correlative strata host phosphate deposits. Furthermore, prolific hydrocarbon source rocks of Carboniferous and Triassic to Early Jurassic age generated considerable amounts of petroleum that may have contributed to the world-class petroleum resources of the North Slope. Deposits of Zn-Pb-Ag or barite as large as those in the Brooks Range are very rare on a global basis and, accordingly, multiple coincident favorable factors must be invoked to explain their origins. To improve our understanding of these factors and to contribute to more effective assessments of resources in sedimentary basins of northern Alaska and throughout the world, the Mineral Resources Program and the Energy Resources Program of the U.S. Geological Survey (USGS) initiated a project that was aimed at understanding the petroleum maturation and mineralization history of parts of the Brooks Range that were previously poorly characterized. The project, titled “Regional Fluid Flow and Basin Modeling in Northern Alaska,” was undertaken in collaboration with industry, academia, and other government agencies. This Circular contains papers that describe the results of the recently completed project. The studies that are highlighted in these papers have led to a better understanding of the following: The complex sedimentary facies relationships and depositional settings and the geochemistry of the sedimentary rocks that host the deposits (sections 2 and 3). The factors responsible for formation of the barite and zinc deposits (sections 4 and 5). The geochemical indicators or exploration tools that might be used to locate other large deposits of similar character in the Red Dog district and elsewhere (section 6). The isotopic compositions of barite and sulfide deposits (sections 7 and 8) The distribution and nature of phosphate and metalliferous oil shale localities (sections 9 and 10). The architecture, kinematics, and timing of the complex thrust systems that disrupted and redistributed the Carboniferous and younger rocks; these studies are necessary in order to make a realistic palinspastic reconstruction of the basin (sections 11 and 12). The nature and extent of the petroleum system sourced from Mississippian rocks (section 13).

Circular

Archiving California’s historical duck nesting data

The U.S. Geological Survey (USGS), in partnership with the California Waterfowl Association (CWA) and other organizations, have compiled large datasets on the nesting ecology and management of dabbling ducks and associated upland nesting birds (Northern Harriers [ Circus cyaneus ], Short-eared Owls [ Asio flammeus ], Ring-necked Pheasants [ Phasianus colchicus ], and American Bitterns [ Botaurus lentiginosus ]) throughout California on Federal Refuges, State Wildlife Areas, and private lands, some participating in State and Federal habitat programs. These datasets encompass several long-term monitoring programs at multiple sites throughout California, and include data from more than 26,000 nests and span nearly 30 years. These historical datasets represent some of the longest term datasets on nesting ducks in North America, if not the world. They are extremely valuable for ongoing waterfowl management and habitat conservation efforts in California, as well as throughout the world. However, without organization and electronic access, these data are an untapped resource and are not being used to the full extent possible. Prior to this project, these datasets were scattered among various agencies and organizations, and original paper nest cards were being stored in cardboard boxes in attics and storage containers that were not suitable for long-term archival storage. In addition, most of these data had not been entered into a computerized database and thus were at high risk for permanent data loss. To protect this irreplaceable dataset, we submitted a series of proposals to obtain funds to complete this data archival project over the past 5 years. The Central Valley Joint Venture, USGS Data Rescue Program, and USGS Ecosystems Mission Area funded this data archival project. In addition, we leveraged other USGS projects on nesting shorebirds, songbirds, and seabirds to use further resources to more fully develop the nest database structure for use on nesting waterfowl. Specifically, this large dataset on ducks was archived by USGS, but the dataset is owned and managed by a consortium of organizations. Therefore, any access and use of this data must occur through the principal investigators, who contributed data and resources to this archival project, as detailed in section, “Data Availability.” With the conclusion of this project, most duck nest data have been entered, but all nest-captured hen data and other breeding waterfowl data that were outside the scope of this project have still not been entered and electronically archived. Maintaining an up-to-date archive will require additional resources to archive and enter the new duck nest data each year in an iterative process. Further, data proofing should be conducted whenever possible, and also should be considered an iterative process as there was sometimes missing data that could not be filled in without more direct knowledge of specific projects. Despite these disclaimers, this duck data archive represents a massive and useful dataset to inform future research and management questions.

California

Substrate Enhancement Pilot Project—Monitoring summary and evaluation, Kootenai River, Idaho, 2012–22

To assess changes in substrate conditions and the efficacy of artificially placed substrates at select sites on the Kootenai River near Bonners Ferry, Idaho, the U.S. Geological Survey, in cooperation with the Kootenai Tribe of Idaho, completed repeat bathymetric, velocimetric, and underwater videography surveys. Collectively, three project sites throughout the Kootenai River make up the Substrate Enhancement Pilot Project (SEPP), an effort intended to improve spawning and egg incubation viability at locations identified to be aquatic habitat limited for the endangered Kootenai River white sturgeon (Acipenser transmontanus). Following the placement of coarse substrates at each site, bathymetric, velocimetric, and underwater videography data were collected from 2012 to 2022 to assess the role of deposition and erosion on maintaining suitable white sturgeon spawning and incubation substrates. Minimal erosion and deposition occurred at all Substrate Enhancement Pilot Project sites, according to interannual and intra-annual net volumetric changes between bathymetric surveys. Depending on the timing of bathymetric surveys relative to the annual peak streamflow conditions, isolated locations of deposition or erosion were observed at each site and the potential for deposition or erosion was supported by measured mean depth-averaged velocities. This study concluded that variability of deposition and scour were common at each site throughout the monitoring period and may be attributed to fluctuations in streamflow. Repeat bathymetric, underwater videography, and velocity mapping surveys were used to verify the interstitial spaces and surfaces of substrates at each SEPP site remained free of fine sediments for intervals longer than a year but were susceptible to deposition between high streamflow events.

Idaho

Environmental systems and management activities on the Kennedy Space Center, Merritt Island, Florida: results of a modeling workshop

In the early 1960's, the National Aeronautics and Space Administration (NASA) began purchasing 140,000 acres on Merritt Island, Florida, in order to develop a center for space exploration. Most of this land was acquired to provide a safety and security buffer around NASA facilities. NASA, as the managing agency for the Kennedy Space Center (KSC), is responsible for preventing or controlling environmental pollution from the Federal facilities and activities at the Space Center and is committed to use all practicable means to protect and enhance the quality of the surrounding environment. The Merritt Island National Wildlife Refuge was established in 1963 when management authority for undeveloped lands at KSC was transferred to the U.S. Fish and Wildlife Service. In addition to manage for 11 Federally-listed threatened and endangered species and other resident and migratory fish and wildlife populations, the Refuge has comanagement responsibility for 19,000 acres of mosquito control impoundments and 2,500 acres of citrus groves. The Canaveral National Seashore was developed in 1975 when management of a portion of the coastal lands was transferred from NASA to the National Park Service. This multiagency jurisdiction on Merritt Island has resulted in a complex management environment. The modeling workshop described in this report was conducted May 21-25, 1984, at the Kennedy Space Center to: (1) enhance communication among the agencies with management responsibilities on Merritt Island; (2) integrate available information concerning the development, management, and ecology of Merritt Island; and (3) identify key research and monitoring needs associated with the management and use of the island's resources. The workshop was structured around the formulation of a model that would simulate primary management and use activities on Merritt Island and their effects on upland, impoundment, and estuarine vegetation and associated wildlife. The simulation model is composed of four connected submodels. The Uplands submodel calculates changes in acres and structural components of vegetation communities resulting from succession, fire, facilities development, and shuttle launch depositions, as well as the quantity and quality of surface runoff and aquifer input to an impoundment and an estuary. The Impoundment submodel next determines water quality and quantity and changes in vegetation resulting from water level manipulation and prescribed burning. The Estuary submodel than determines water quality parameters and acres of seagrass beds. Finally, the Wildlife submodel calculates habitat suitability indices for key species of interest, based on vegetation conditions in the uplands and impoundments and on several hydrologic parameters. The model represents a hypothetical management unit with 2,500 acres of uplands, a 600-acre impoundment, and a 1,500-acre section of estuary. Two management scenarios were run to analyze model behavior. The scenarios differ in the frequency of shuttle launches and prescribed burning, the extent of facilities development, the amount of land disposed waste material applied, and the nature and timing of impoundment water level control. Early in a model development project, the process of building the model is usually of greater benefit than the model itself. The model building process stimulates interaction among agencies, assists in integrating existing information, and helps identify research needs. These benefits usually accrue even in the absence of real predictive power in the resulting model. Open communication occurs among the Federal, State, and local agencies involved with activities on Merritt Island and the agencies have a cooperative working relationship. The workshop provided an opportunity for all of these agencies to meet at one time and have focused discussions on the key environmental and multiagency resource management issues. The workshop framework helped to integrate information and assumptions from a number of disciplines and agencies. This integration occurred in the computer simulation model and among workshop participants as submodel linkages were developed and scenario results discussed. A number of research needs were identified at the workshop during the model building and testing exercises and associated discussions. These needs were based on the informed judgement of researchers and managers familiar with Merritt Island or similar areas, rather than on a comprehensive literature review of sensitivity analysis of the preliminary model developed at the workshop. Some of the needs can be addressed by interpreting the results of completed studies from similar geographic areas as they relate to Merritt Island, while other will require additional research studies on Merritt Island. Major research needs associated with the Upland submodel include behavior of the near-surface aquifer, factors limiting slash pine regeneration, frequency and effects of natural fire on various cover types, cumulative effects of shuttle launches, and fate in upland soils of nitrogen and phosphorous from land applied waste material. Key Impoundment submodel needs include documentation of vegetation changes in response to altered water depth, salinity, and nutrient concentrations and better specification of the functional characteristics of impoundments as chemical filters. Important information gaps identified in the Estuary submodel include a more complete analysis of factors contributing to phytoplankton abundance, evaluation of sources of turbidity other than phytoplankton, and identification and quantification of factors limiting seagrass distribution. Primary research needs associated with the Wildlife submodel include a survey of breeding habitat, production data, and harvest data for mottled ducks; data on the emigration and immigration of juvenile mullet (and other transient fish) in the impoundment; the contribution of various seagrasses to habitat requirements of sea trout; and the effects of dissolved oxygen on survival of juvenile sea trout. Ideally, the modeling workshop process is iterative in nature. Periods between workshops are used for research, data collection, and model refinement. Each workshop integrates information collected since the last workshop and produces a more credible model that is more useful in evaluating management alternatives. Participants felt that continued application of this process would help provide ongoing integration and communication among agencies and would allow each agency's planning and management activities to be viewed within the context of an overall assessment.

Report

Geophysical identification of potential groundwater – surface water interactions in the Bonita Peak Mining District, San Juan County, Colorado

This report includes the results and interpretation of geophysical investigations to aid in the location, identification, and conceptual site model (CSM) development of the near surface groundwater and surface water hydrology of the Upper Cement Creek and California Gulch of the Animas Rivers within the Bonita Peak Mining Districts (BPMD). Mine influenced water (MIW) from numerous mine adits within the BPMD has altered the geochemistry and ecology of these ground and surface waters. Many studies of varying scales have investigated the geology, hydrogeology, geochemistry, and aqueous chemistry of these adits and impacted areas. Field investigations using non-invasive geophysical methods were conducted in the summer of 2019 to aid in identifying potential groundwater inputs to these streams and further the CSM of the near surface within and along these streams. Two field deployments were completed in August and September of 2019. In August 2019, Phase 1 was completed using multifrequency electromagnetic induction (EMI) and thermal infrared imaging (TIR) to measure the bulk electrical conductivity, magnetic susceptibility, and the temperature response at known and suspected groundwater seeps into the Upper Cement Creek and California Gulch stretches of these alpine streams. Results and interpretation from Phase 1 were used to co-locate stretches of these streams for further detailed fiber optic distributed temperature system (FODTS) monitoring of the temperature dynamics for submeter identification of potential groundwater seeps during Phase 2. Phase 2 included additional EMI measurements, FODTS measurements, and repeated some Phase 1 measurements for improved data quality. All these data were used for the combined qualitative interpretation identifying seep locations. The data from both Phase 1 and Phase 2 are available in the USGS data release at: https://www.sciencebase.gov/catalog/item/5f18a30082cef313ed84879b. These data include detailed near-surface electrical conductivity and magnetic susceptibility mapping, discrete TIR imaging, and several kilometers of FODTS data. These data were georeferenced and used to identify potential groundwater seeps into these streams. The results indicate a complex near surface geophysical and hydrogeologic regime. Seeps are classified and spatially correlated to the EMI, TIR, and geochemical sampling results. This report is a thorough compilation of the geophysical field efforts in the summer of 2019, the data processing, and interpretations of these data. These data alone should not be used for final interpretations of the complex hydrogeology within these alpine systems. Rather, these data should be combined with other known data from various investigations to further refine the CSM and guide decisions for future investigations, watershed protective measures, and other site decisions. Geographical information system (GIS) layers of these results are available to project managers for such integration and combined interpretations.

Colorado

Ecology of Greater Sage-Grouse in the Bi-State Planning Area Final Report, September 2007

Conservation efforts for greater sage-grouse (Centrocercus urophasianus), hereafter sage-grouse, are underway across the range of this species. Over 70 local working groups have been established and are implementing on-the-ground sage-grouse oriented conservation projects. Early on in this process, the California Department of Fish and Game (CDFG) recognized the need to join in these efforts and received funding from the U.S. Fish and Wildlife Service (USFWS) under the Candidate Species Conservation Program to help develop a species conservation plan for sage-grouse in the Mono County area. This conservation plan covers portions of Alpine, Mono, and Inyo counties in California and Douglas, Esmeralda, Lyon, and Mineral counties in Nevada. A concurrent effort underway through the Nevada Governor's Sage-grouse Conservation Team established Local Area Working Groups across Nevada and eastern California. The Mono County populations of sage-grouse were encompassed by the Bi-State Local Planning Area, which was comprised of six population management units (PMUs). The state agencies from California (CDFG) and Nevada (Nevada Department of Wildlife; NDOW) responsible for the management of sage-grouse agreed to utilize the process that had begun with the Nevada Governor's Team in order to develop local plans for conservation planning and implementation. Resources from the USFWS were applied to several objectives in support of the development of the Bi-State Local Area Sage-grouse Conservation Plan through a grant to the U.S. Geological Survey (USGS). Objectives included: (1) participate in the development of the Bi-State Conservation Plan, (2) compile and synthesize existing sage-grouse data, (3) document seasonal movements of sage-grouse, (4) identify habitats critical to sage-grouse, (5) determine survival rates and identify causal factors of mortality, (6) determine nest success and brood success of sage-grouse, and (7) identify sage-grouse lek sites. Progress reports completed in 2004 and 2005 addressed each of the specific objectives and this final report focuses on the biological information gathered in support of local conservation efforts. Participation in the development of the Bi-State Local Area Conservation Plan was accomplished on multiple scales. Beginning in the fall of 2002, USGS personnel began participating in meetings of local stakeholders involved in the development of a sage-grouse conservation plan for the Bi-State planning area. This included attendance at numerous local PMU group meetings and field trips as well as participating on the technical advisory committee (TAC) for the Bi-State group. Whenever appropriate, ongoing results and findings regarding sage-grouse ecology in the local area were incorporated into these working group meetings. In addition, the USGS partnered with CDFG to help reorganize one of the local PMU groups (South Mono) and edited that portion of the Bi-State plan. The USGS also worked closely with CDFG to draft a description of the state of knowledge for sage-grouse genetic information for inclusion in the Bi-State Conservation Plan. The first edition of the Bi-State Conservation Plan for Greater Sage-Grouse was completed in June 2004 (Bi-State Sage-grouse Conservation Team 2004). This report is organized primarily by PMU to facilitate the incorporation of these research findings into the individual PMU plans that compose the Bi-State plan. Information presented in this report was derived from over 7,000 radio-telemetry locations obtained on 145 individual sage-grouse during a three year period (2003-2005). In addition, we collected detailed vegetation measurements at over 590 habitat sampling plots within the study area including canopy cover, shrubs, forbs, and grasses diversity. Vegetation data collection focused on sage-grouse nests, and brood-use areas. Additionally we collected data at random sites to examine sage-grouse habitat relationships within the study area. The majori

Open-File Report

Emissions from coal fires and their impact on the environment

Self-ignited, naturally occurring coal fires and fires resulting from human activities persist for decades in underground coal mines, coal waste piles, and unmined coal beds. These uncontrolled coal fires occur in all coal-bearing parts of the world (Stracher, 2007) and pose multiple threats to the global environment because they emit greenhouse gases - carbon dioxide (CO 2 ), and methane (CH 4 ) - as well as mercury (Hg), carbon monoxide (CO), and other toxic substances (fig. 1). The contribution of coal fires to the global pool of atmospheric CO 2 is little known but potentially significant. For China, the world's largest coal producer, it is estimated that anywhere between 10 million and 200 million metric tons (Mt) of coal reserves (about 0.5 to 10 percent of production) is consumed annually by coal fires or made inaccessible owing to fires that hinder mining operations (Rosema and others, 1999; Voigt and others, 2004). At this proportion of production, coal amounts lost to coal fires worldwide would be two to three times that for China. Assuming this coal has mercury concentrations similar to those in U.S. coals, a preliminary estimate of annual Hg emissions from coal fires worldwide is comparable in magnitude to the 48 tons of annual Hg emissions from all U.S. coal-fired power-generating stations combined (U.S. Environmental Protection Agency, 2002). In the United States, the combined cost of coal-fire remediation projects, completed, budgeted, or projected by the U.S. Department of the Interior's Office of Surface Mining Reclamation and Enforcement (OSM), exceeds $1 billion, with about 90% of that in two States - Pennsylvania and West Virginia (Office of Surface Mining Enforcement and Reclamation, 2008; fig. 2). Altogether, 15 States have combined cumulative OSM coal-fire project costs exceeding $1 million, with the greatest overall expense occurring in States where underground coal fires are predominant over surface fires, reflecting the greater cost of extinguishing underground fires (fig. 2) (see 'Controlling Coal Fires'). In this fact sheet we review how coal fires occur, how they can be detected by airborne and remote surveys, and, most importantly, the impact coal-fire emissions may have on the environment and human health. In addition, we describe recent efforts by the U.S. Geological Survey (USGS) and collaborators to measure fluxes of CO 2 , CO, CH 4 , and Hg, using groundbased portable detectors, and combining these approaches with airborne thermal imaging and CO 2 measurements. The goal of this research is to develop approaches that can be extrapolated to large fires and to extrapolate results for individual fires in order to estimate the contribution of coal fires as a category of global emissions.

Fact Sheet

Simulation of daily streamflow for nine river basins in eastern Iowa using the Precipitation-Runoff Modeling System

The U.S. Geological Survey, in cooperation with the Iowa Department of Natural Resources, constructed Precipitation-Runoff Modeling System models to estimate daily streamflow for nine river basins in eastern Iowa that drain into the Mississippi River. The models are part of a suite of methods for estimating daily streamflow at ungaged sites. The Precipitation-Runoff Modeling System is a deterministic, distributed- parameter, physical-process-based modeling system developed to evaluate the response of streamflow and general drainage basin hydrology to various combinations of climate and land use. Calibration and validation periods used in each basin mostly were October 1, 2002, through September 30, 2012, but differed depending on the period of record available for daily mean streamflow measurements at U.S. Geological Survey streamflow-gaging stations. A geographic information system tool was used to delineate each basin and estimate values for model parameters based on basin physical and geographical features. A U.S. Geological Survey auto-calibration tool that uses a shuffled complex evolution algorithm was used for initial calibration, and then manual modifications were made to parameter values to complete the calibration of each basin model. The main objective of the calibration was to match daily discharge values of simulated streamflow to measured daily discharge values. The accuracy of Precipitation-Runoff Modeling System model streamflow estimates of nine river basins in eastern Iowa as compared to measured values at U.S. Geological Survey streamflow-gaging stations varied. The Precipitation-Runoff Modeling System models of nine river basins in eastern Iowa were satisfactory at estimating daily streamflow at 57 of the 79 calibration sites and 13 of the 14 validation sites based on statistical results. Unsatisfactory performance can be contributed to several factors: (1) low flow, no flow, and flashy flow conditions in headwater subbasins having a small drainage area; (2) poor representation of the groundwater and storage components of flow within a basin; (3) lack of accounting for basin withdrawals and water use; and (4) the availability and accuracy of meteorological input data. The Precipitation- Runoff Modeling System models of nine river basins in eastern Iowa will provide water-resource managers with a consistent and documented method for estimating streamflow at ungaged sites and aid in environmental studies, hydraulic design, water management, and water-quality projects.

Iowa

Field Manual of Wildlife Diseases

Welcome to a new version of the “Field Manual of Wildlife Diseases.” Unlike the previous printed versions of this publication, this new version is being developed as a “living“ electronic publication. Content will periodically be added and (or) updated as warranted, and it will always be reviewed by scientific experts (“peer reviewed”) before it is released. Thus, this publication will never be completed, and readers should download revised versions of specific chapters, glossaries, and the appendixes whenever they visit the publication Web site. The purpose of this manual is to provide information that will enhance the ecological understanding and comfort level of nonspecialists so that they can address various aspects of wildlife disease within the context of wildlife conservation and management. Other readers, from students to science professionals, may also find the information presented to be of interest and value. Constructive suggestions from readers will help guide adjustments as this project progresses. We begin this new manual with introductory contextual and historical background about the convergence of wildlife disease with wildlife management as a wildlife conservation concern (section A, chap. 1). The remainder of the publication is focused on pragmatic information and considerations for addressing various aspects of wildlife disease. Section B focuses on concepts associated with disease surveillance and response to outbreaks, and section C deals with specific techniques for disease surveillance and investigation. Section D, “Diseases of Wild Birds,” and others that follow will address diseases of concern in various species groups. Electronic links facilitate timely access to a wide variety of supplemental information and processes relevant to content in this new version of the “Field Manual of Wildlife Diseases.”

Techniques and Methods

Channel change and sediment transport in the Puyallup River watershed through 2022

The Puyallup River drains a 990 square mile watershed in western Washington, with headwaters on the glacier-covered flanks of Mount Rainier. Major tributaries include the White, Carbon, and Mowich Rivers. In the levee-confined reaches of the lower watershed, loss of flood conveyance due to sand and gravel deposition has been a chronic issue. Over much of the 20th century, flood conveyance was maintained through sediment removal, but this practice ended in the late 1990s. Flood hazard management activities since the 1990s have primarily involved levee removal or setback projects. Assessments of 1984-2009 repeat cross sections suggested that sediment deposition rates were particularly high in reaches with recent levee setbacks. However, there have been no assessments of recent deposition rates since the 2009 surveys. There are also concerns that intensifying flood hydrology or increased sediment delivery from Mount Rainier may exacerbate deposition. However, assessment of those risks has been hindered by limited understanding of watershed-scale sediment delivery and routing, particularly for coarse sand and gravel. The U.S. Geological Survey, in cooperation with Pierce County, initiated this study to improve understanding of sediment deposition in the lower Puyallup River watershed. This work is primarily based on differencing of multiple aerial lidar datasets collected during 2002–2022, supplemented by early 1990 photogrammetric elevation datasets, geomorphic assessments of streamgage data, historical topographic surveys from 1907, and previously collected sediment transport measurements. Analyses cover the Puyallup, Carbon, and Mowich Rivers, but do not include the White River. During 2004–2020, repeat aerial lidar indicates that 1.3 ± 0.3 million yd3 of sediment accumulated in the lower 20 valley miles (VMs) of the Puyallup River, averaging 80,000 ± 20,000 cubic yards per year (yd3/yr). Deposition was observed during both 2004–11 and 2011–20 lidar differencing intervals. This continued a long-term depositional trend that extends back to at least 1977. From 2004 to 2011, deposition rates along the Soldiers Home levee setback reach, the only setback project downstream of VM 20 completed prior to 2011, were approximately four times higher than in adjacent unmodified reaches. From 2011 to 2020, two additional setback projects were completed; volumetric deposition rates over all three setback reaches were similar to adjacent unmodified reaches, suggesting elevated setback deposition in the 2004–11 interval may have been influenced by an extreme flood in November 2006. These levee setback projects increased the local cross-sectional area of the floodway, used as a rough proxy for relative flood conveyance, by 50 to 200 percent above 2004 conditions. If deposition continued at recent rates, cross-sectional area over the levee setback reaches would be reduced back to 2004 values by 2050-90. Deposition also occurred over the lower six VMs of the Carbon River during 2004–20, though volumes (0.15 ± 0.09 million yd3) were an order of magnitude lower than along the Puyallup River. Relatively lower deposition rates in the Carbon River are most likely the combined result of modestly lower incoming sediment loads, modestly steeper channel slope, and the additional sediment transport capacity provided by two large non-glacial tributaries that enter the Carbon River near VM 5. Upstream of the depositional reaches described above, 2002–22 sediment storage trends along the Puyallup, Carbon, and Mowich Rivers were predominately negative (net erosion) up to the Mount Rainier National Park boundary. Net erosion was the result of bank and bluff erosion exceeding deposition across wetted channel and bare gravel areas, as opposed to uniform vertical downcutting. Net erosion along these river valleys delivered 3.4 ± 0.6 million yd3 to the river system, equivalent to 190,000 ± 35,000 yd3/yr. Most of that volume was supplied by erosion of relatively low (4–10 ft) surfaces along the Puyallup and Mowich Rivers and tall (300 ft) glacial bluffs along the lower Carbon River. Substantial aggradation from 1984 to 2009 reported by Czuba and others (2010) along reaches of the Puyallup River (VM 19–22) where levee confinement has recently been removed was most likely an artifact of methodologic bias. The Puyallup, Mowich, and Carbon Rivers drain five distinct glaciated watersheds on the flanks of Mount Rainier, four of which were assessed in this study. All four watersheds were impacted by an extreme November 2006 rainstorm. Between 2002 and 2008, debris flows occurred in all four headwater areas, collectively eroding at least 2.1 million yd3 of sediment. These debris flows formed distinct deposits one to two miles downstream of source areas, depositing 30-50 percent of the material eroded upstream. From 2008 to 2022, no headwater debris flows were observed and overall rates of geomorphic change in the headwaters were low. Rivers eroded into debris flow deposits emplaced over the 2002–08 interval, but re-deposited equivalent volumes of material within a half mile downstream. Stage-discharge relations at five streamgages on upland rivers draining Mount Rainier show either net channel incision or dynamic variability with no long-term trend over the past 60–100 years. Observations of pervasive river valley erosion and stable or incising trends at long-term streamgages in the upper watershed do not support prior claims of widespread and accelerating aggradation of upland rivers draining Mount Rainier. Erosion and deposition volumes estimated in this report were combined with sediment transport estimates from limited suspended sediment and bedload measurements, estimates of sub-glacial erosion rates, and sediment delivery from non-glacial tributaries to construct watershed-scale sediment budgets for the Puyallup River watershed. During 2004–20, the estimated sediment load entering the depositional lowlands was well balanced by estimated inputs from, in order of relative magnitude, subglacial erosion (33–60 percent of total sediment load), erosion along the major river valleys (25–45 percent), erosion in recently deglaciated headwater areas (7–17 percent) and non-glacial tributaries (3–9 percent). These results are specific to the study period and represent total sediment loads, most of which is fine material carried in suspension. The relative sourcing of sand and gravel may be different than implied by this sediment budget. Downstream of VM 12, comparison of 1907 and 2009 channel surveys show net lowering of the channel thalweg of 4–12 ft. A long-term gage near VM 22 shows lowering of 4–5 ft through the 1960s. Lowering at both locations was inferred to be a channel response to the substantial straightening, and so steepening, of the river during major phases of levee construction through the early and mid-20th century. Application of a simple empirical bedload-discharge power-law relation to an ensemble of model-estimated daily mean discharge records in the lower Puyallup River between 1977 and 2100 projects that annual bedload transport capacity in the lower Puyallup River will increase by 20–60 percent by the middle of the 21st century. Actual changes in bedload transport and deposition rates will depend on concurrent changes in sediment supply and local hydraulics governing deposition. This report presents several key conclusions. First, the persistence and spatial patterns of sand and gravel deposition along the lower Puyallup River support prior claims that deposition is fundamentally caused by decreases in channel slope moving downstream. Given this underlying cause and the abundance of sand and gravel available to be transported downstream, deposition is likely to continue for the foreseeable future. Second, despite continued sediment deposition, recent levee setback projects in the lower Puyallup River will likely provide several decades of flood conveyance benefits relative to a no-action alternative. Third, while the rivers linking Mount Rainier to the Puget Sound lowlands have often been discussed as conduits that either pass or accumulate sediment from Mount Rainier, observations from 2002–22 show these river valleys acting as substantial sediment sources, delivering three times more sediment than recently deglaciated headwater areas on Mount Rainier. While the persistence and underlying cause of recent river valley erosion remain unknown, sediment storage dynamics along these river valleys are likely to be a major control on sand and gravel delivery to the lower watershed.

EarthArXiv

Biological and habitat assessment of the Lower Rouge River, Michigan 2018

A key component of evaluating the success of habitat remediation projects is determining preremediation conditions, biotic and abiotic, to establish a baseline and compare with postproject conditions. The Rouge River, Michigan, is a Great Lakes Area of Concern with a listed Beneficial Use Impairment related to loss of fish and wildlife habitat. A biological and habitat assessment was completed in the lower Rouge River, focused along a nearly 7-kilometer stretch of river that includes a concrete channel anticipated to be removed by 2022, to determine prerestoration conditions. Surveys documented the presence and quality of physical habitat, presence of herpetofauna, and quantified macroinvertebrate and fish assemblages at 12 sites (3 upstream from the concrete channel, 6 within the concrete channel, and 3 downstream from the concrete channel). Macroinvertebrate assemblages were dominated by Chironomidae and Oligochaeta for June and September. The electrofishing catch per unit effort was driven by Notropis atherinoides (emerald shiner) catches in June and emerald shiner and Dorosoma cepedianum (gizzard shad) catches in September. Graptemys geographica (northern map turtle) was the most common reptile observed throughout the lower Rouge River. No submergent macrophytes were discovered, and riparian vegetation was sparse in the concrete channel section. No sites scored “excellent” (total score greater than 154), upstream control sites scored “good” for overall qualitative habitat assessments (total score 105–154), and all concrete channel and downstream control sites were ranked as “marginal” (total score 56–104) or “poor” habitat (total score 0–55). Results from this assessment can be used to compare with postremediation projects in the lower Rouge River.

Michigan

Preliminary assessment of bioengineered fringing shoreline reefs in Grand Isle and Breton Sound, Louisiana

Restoration of three-dimensional shell habitats in coastal Louisiana presents a valuable and potentially self-sustaining approach to providing shoreline protection and critical nekton habitat and may contribute to water quality maintenance. The use of what has been called “living shorelines” is particularly promising because in addition to the hypothesized shoreline protection services, it is predicted that, if built and located in viable sites, these living shorelines may ultimately contribute to water quality maintenance through filtration of bivalves and may enhance nekton habitat. This approach, however, has not been tested extensively in different shallow water estuarine settings; understanding under what conditions a living shoreline must have to support a sustainable oyster population, and where these reefs may provide valuable shoreline protection, is key to ensuring that this approach provides an effective tool for coastal restoration. This project gathered preliminary data on the sustainability and shoreline stabilization of three large bioengineered fringing reefs located in Grand Isle, Lake Eloi, and Lake Fortuna, Louisiana. We collected preconstruction and postconstruction physiochemical and biological data by using a before-after-control-impact approach to evaluate the effectiveness of these living shoreline structures on reducing marsh erosion, enabling reef sustainability, and providing other ecosystem benefits. Although this project was originally designed to compare reef performance and impacts across three different locations over 2 years, delays in construction because of the Deepwater Horizon oil spill resulted in reefs being built from 12 to 18 months later than anticipated. As a result, monitoring postconstruction was severely limited. One reef, Grand Isle, was completed in March 2011 and monitored up to 18 months postcreation, whereas Lake Eloi and Lake Fortuna reefs were not completed until January 2012, and only 8 months of postconstruction data are available. Data for the latter two sites thus reflect only the 2012 spring/summer seasons, which were further impacted by a direct hit by Hurricane Isaac in August 2012, which resulted in shoreward movement of approximately 14 percent of the bioengineered structures at Lake Fortuna. Given the shortened monitoring timeframe and significant differences in construction schedules, we were not able to provide a full postconstruction assessment of the sites or a full comparison of site success based on local site characteristics. Because many of the impacts that were identified for monitoring reflect long-term processes, results and data presented should be interpreted cautiously. Sustainable oyster reefs require recruitment, growth, and survival at a rate that keeps pace with mortality and shell disarticulation. Although one site failed to recruit (establishment plus survival > 50 millimeters [mm]) over two spawning seasons, two sites only had 6 months postconstruction data available for assessment. Although there are good data on the requirements for oyster growth, there is limited explicit information on the site-specific water quality, hydrodynamic, and biological interaction effects that may determine successful reef establishment. Furthermore, interannual variability can significantly affect reef establishment, and our shortened timeframe of sampling (less than one spawning season for two of the reefs; two spawning seasons for one reef), combined with a lack of prerestoration monitoring data, limit our ability to draw any conclusions about long-term reef sustainability. Bioengineered reefs are thought to provide some benefits to shoreline stabilization through their structure by immediately attenuating wave energies and directly reducing erosion rates at shorelines sheltered by the reefs but also by increasing sediment deposition behind the reefs. Preliminary data indicate differences in reef impact by site; given the short timeframe of postconstruction data at two of the sites, and differences in reef placement between sites, however, it is difficult to draw any conclusions. Longer-term data collection and further analyses comparing reef placement; local wind, wave energy, sediment transport processes; and local bathymetry may help in parameterizing sites where fringing reefs may be most beneficial for shoreline protection. In addition to basic reef sustainability and shoreline stabilization, we measured both water quality parameters and nekton abundances around the newly created reefs and adjacent reference sites. Within the timeframe of monitoring, no effect of reefs on water quality was detected at any site. Given that water quality effects are hypothesized to result from the filtration activities of bivalves, and reefs either failed to recruit (settlement plus survival to > 50 mm) or successfully recruited but only had a couple months of growth prior to this report, it was not expected that an effect would be detectable in this timeframe. Nekton such as blue crab, gulf menhaden, and anchovies were found to be more abundant on the reefs; larger, more transient species were not found to be affected by reef presence. Future work examining smaller organisms and juveniles, including more explicit studies examining why and how these organisms preferentially use oyster reefs, would be useful in the design of other bioengineered reefs and help in understanding the role of the reefs in supporting the nekton community. It is clear from the initial work that ensuring correct site selection by better understanding what local site factors influence oyster populations is key to establishing successful living shoreline reefs. Ultimately, the success of the reefs in providing any ecosystem service relies on their ability to build a viable oyster population that is self-sustaining over the long term. As many of the ecosystem processes hypothesized to result from reefs develop over the long term (4–6 years), some level of monitoring over the next few years is highly recommended in order to accurately assess the long term viability of the reefs, their provision of ecosystem services, and to provide better guidance for future projects.

Louisiana

Simulation of the probabilistic plume extent for a potential replacement wastewater-infiltration lagoon, and probabilistic contributing areas for supply wells for the Town of Lac du Flambeau, Vilas County, Wisconsin

An existing two-dimensional, steady-state groundwater-flow model of the shallow groundwater-flow system of the Lac du Flambeau Reservation in Vilas County, Wisconsin, originally developed by the U.S. Geological Survey, was used to simulate the potential for wastewater from a proposed relocation of a wastewater lagoon to contaminate the Lac du Flambeau Band of Lake Superior Chippewa’s drinking-water-supply wells. This simulation was completed by the U.S. Geological Survey in cooperation with the Lac du Flambeau Band of Lake Superior Chippewa and Indian Health Service. The simulated scenarios consisted of removing wastewater infiltration from existing lagoons and re-applying that infiltration at the proposed location. Two analyses were performed for the scenarios. First, the probable extent of the plume discharging from the proposed infiltration lagoons was mapped with a Monte Carlo algorithm that used uncertainty identified during the calibration process to simulate thousands of possible outcomes. Second, the Monte Carlo method was again used to simulate a probabilistic contributing area for the Tribe’s nearby “Main Pumphouse” supply wells. The purpose of the simulations was to evaluate the potential for infiltrated wastewater to be captured by the public-supply wells. Most features of the previously developed model remained unchanged, including calibrated parameters such as hydraulic conductivity and recharge. Thus, the same covariance distributions that were generated during calibration of the regional model (Juckem and others, 2014) remained unchanged and were used to inform the Monte Carlo simulations for the scenario simulations described in this report. The reader is encouraged to read the full report by Juckem and others (available at https://doi.org/10.3133/sir20145020 ) for a detailed description of the model design and calibration, as well as a description of the Monte Carlo method, its limitations, and the original results. Results for these new scenarios indicate that the probabilistic plume extent for the proposed infiltration lagoons does not reach the Main Pumphouse wells using pumping rates and wastewater volumes estimated for 2010. Similarly, the contributing area for the Main Pumphouse wells does not capture water from within the proposed infiltration lagoon footprint. However, at higher pumping rates and wastewater volumes, as projected by the Tribe for about 2035, the contributing area for the Main Pumphouse wells do include particles that originated within the proposed lagoon footprint, albeit at low probabilities. That is, for a few of the thousands of simulations that represented a range of calibration-informed parameter covariances, some amount of infiltrated wastewater was captured by the Main Pumphouse wells under projected 2035 conditions.

Wisconsin