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Report of the workshop on evidence-based design of national wildlife health programs

Summary This report summarizes a Wildlife Disease Association sponsored workshop held in 2016. The overall objective of the workshop was to use available evidence and selected subject matter expertise to define the essential functions of a National Wildlife Health Program and the resources needed to deliver a robust and reliable program, including the basic infrastructure, workforce, data and information systems, governance, organizational capacity, and essential features, such as wildlife disease surveillance, diagnostic services, and epidemiological investigation. This workshop also provided the means to begin the process of defining the essential attributes of a national wildlife health program that could be scalable and adaptable to each nation’s needs.

Open-File Report↗

Oregon OCS seafloor mapping: Selected lease blocks relevant to renewable energy

In 2014 the U.S. Geological Survey (USGS) and the Bureau of Ocean Energy Management (BOEM) entered into Intra-agency agreement M13PG00037 to map an area of the Oregon Outer Continental Shelf (OCS) off of Coos Bay, Oregon, under consideration for development of a floating wind energy farm. The BOEM requires seafloor mapping and site characterization studies in order to evaluate the impact of seafloor and sub-seafloor conditions on the installation, operation, and structural integrity of proposed renewable energy projects, as well as to assess the potential effects of construction and operations on archaeological resources. The mission of the USGS is to provide geologic, topographic, and hydrologic information that contributes to the wise management of the Nation's natural resources and that promotes the health, safety, and well being of the people. This information consists of maps, databases, and descriptions and analyses of the water, energy, and mineral resources, land surface, underlying geologic structure, and dynamic processes of the earth. For the Oregon OCS study, the USGS acquired multibeam echo sounder and seafloor video data surrounding the proposed development site, which is 95 km2 in area and 15 miles offshore from Coos Bay. The development site had been surveyed by Solmar Hydro Inc. in 2013 under a contract with WindFloat Pacific. The USGS subsequently produced a bathymetry digital elevation model and a backscatter intensity grid that were merged with existing data collected by the contractor. The merged grids were published along with visual observations of benthic geo-habitat from the video data in an associated USGS data release (Cochrane and others, 2015). This report includes the results of analysis of the video data conducted by Oregon State University and the geo-habitat interpretation of the multibeam echo sounder (MBES) data conducted by the USGS. MBES data was published in Cochrane and others (2015). Interpretive data associated with this publication is published in Cochrane (2017). All the data is provided as geographic information system (GIS) files that contain both Esri ArcGIS geotiffs or shapefiles. For those who do not own the full suite of Esri GIS and mapping software, the data can be read using Esri ArcReader, a free viewer that is available at http://www.esri.com/software/arcgis/arcreader/index.html (last accessed August 29, 2016). Web services, which consist of standard implementations of ArcGIS representational state transfer (REST) Service and Open Geospatial Consortium (OGC) GIS web map service (WMS), also are available for all published GIS data. Web services were created using an ArcGIS service definition file, resulting in data layers that are symbolized as shown on the associated report figures. Both the ArcGIS REST Service and OGC WMS Service include all the individual GIS layers. Data layers are bundled together in a map-area web service; however, each layer can be symbolized and accessed individually after the web service is ingested into a desktop application or web map. Web services enable users to download and view data, as well as to easily add data to their own workflows, using any browser-enabled, standalone or mobile device. Though the surficial substrate is dominated by combinations of mud and sand substrate, a diverse assortment of geomorphologic features are related to geologic processes—one anticlinal ridge where bedrock is exposed, a slump and associated scarps, and pockmarks. Pockmarks are seen in the form of fields of small pockmarks, a lineation of large pockmarks with methanogenic carbonates, and areas of large pockmarks that have merged into larger variously shaped depressions. The slump appears to have originated at the pockmark lineation. Video-supervised numerical analysis of the MBES backscatter intensity data and vector ruggedness derived from the MBES bathymetry data was used to produce a substrate model called a seafloor character raster for the study area. The seafloor character raster consists of three substrate classes: soft-flat areas, hard-flat areas, and hard-rugged areas. A Coastal and Marine Ecological Classification Standard (CMECS) geoform and substrate map was also produced using depth, slope, and benthic position index classes to delineate geoform boundaries. Seven geoforms were identified in this process, including ridges, slump scars, slump deposits, basins, and pockmarks. Statistical analysis of the video data for correlations between substrate, depth, and invertebrate assemblages resulted in the identification of seven biomes: three hard-bottom biomes and four softbottom biomes. A similar analysis of vertebrate observations produces a similar set of biomes. The biome between-group dissimilarity was very high or high. Invertebrates alone represent most of the structure of the whole benthic community into different assemblages. A biotope map was generated using the seafloor character raster and the substrate and depth values of the biomes. Hard substrate biotopes were small in size and were located primarily on the ridge and in pockmarks along the pockmark lineation. The soft-bottom bitopes consisted of large contiguous areas delimited by isobaths.

Open-File Report↗

Using object-based image analysis to conduct high-resolution conifer extraction at regional spatial scales

The distribution and abundance of pinyon ( Pinus monophylla ) and juniper ( Juniperus osteosperma, J. occidentalis ) trees (hereinafter, "pinyon-juniper") in sagebrush ( Artemisia spp.) ecosystems of the Great Basin in the Western United States has increased substantially since the late 1800s. Distributional expansion and infill of pinyon-juniper into sagebrush ecosystems threatens the ecological function and economic viability of these ecosystems within the Great Basin, and is now a major contemporary challenge facing land and wildlife managers. Particularly, pinyon-juniper encroachment into intact sagebrush ecosystems has been identified as a primary threat facing populations of greater sage-grouse ( Centrocercus urophasianus ; hereinafter, "sage-grouse"), which is a sagebrush obligate species. Even seemingly innocuous scatterings of isolated pinyon-juniper in an otherwise intact sagebrush landscape can negatively affect survival and reproduction of sage-grouse. Therefore, accurate and high-resolution maps of pinyon-juniper distribution and abundance (indexed by canopy cover) across broad geographic extents would help guide land management decisions that better target areas for pinyon-juniper removal projects (for example, fuel reduction, habitat improvement for sage-grouse, and other sagebrush species) and facilitate science that further quantifies ecological effects of pinyon-juniper encroachment on sage-grouse populations and sagebrush ecosystem processes . Hence, we mapped pinyon-juniper (referred to as conifers for actual mapping) at a 1 × 1-meter (m) high resolution across the entire range of previously mapped sage-grouse habitat in Nevada and northeastern California. We used digital orthophoto quad tiles from National Agriculture Imagery Program (2010, 2013) as base imagery, and then classified conifers using automated feature extraction methodology with the program Feature Analyst ™ . This method relies on machine learning algorithms that extract features from imagery based on their spectral and spatial signatures. We classified conifers in 6,230 tiles and then tested for errors of omission and commission using confusion matrices. Accuracy ranged from 79.1 to 96.8, with an overall accuracy of 84.3 percent across all mapped areas. An estimated accuracy coefficient (kappa) indicated substantial to nearly perfect agreement, which varied across mapped areas. For this mapping process across the entire mapping extent, four sets of products are available at https://doi.org/10.5066/F7348HVC , including (1) a shapefile representing accuracy results linked to mapping subunits; (2) binary rasters representing conifer presence or absence at a 1 × 1 m resolution; (3) a 30 × 30 m resolution raster representing percentages of conifer canopy cover within each cell from 0 to 100; and (4) 1 × 1 m resolution canopy cover classification rasters derived from a 50-m-radius moving window analysis. The latter two products can be reclassified in a geographic information system (GIS) into user-specified bins to meet different objectives, which include approximations for phases of encroachment. These products complement, and in some cases improve upon, existing conifer maps in the Western United States, and will help facilitate sage-grouse habitat management and sagebrush ecosystem restoration.

California, Nevada↗

Compilation of streamflow statistics calculated from daily mean streamflow data collected during water years 1901–2015 for selected U.S. Geological Survey streamgages

Streamflow statistics are needed by decision makers for many planning, management, and design activities. The U.S. Geological Survey (USGS) StreamStats Web application provides convenient access to streamflow statistics for many streamgages by accessing the underlying StreamStatsDB database. In 2016, non-interpretive streamflow statistics were compiled for streamgages located throughout the Nation and stored in StreamStatsDB for use with StreamStats and other applications. Two previously published USGS computer programs that were designed to help calculate streamflow statistics were updated to better support StreamStats as part of this effort. These programs are named “GNWISQ” (Get National Water Information System Streamflow (Q) files), updated to version 1.1.1, and “QSTATS” (Streamflow (Q) Statistics), updated to version 1.1.2. Statistics for 20,438 streamgages that had 1 or more complete years of record during water years 1901 through 2015 were calculated from daily mean streamflow data; 19,415 of these streamgages were within the conterminous United States. About 89 percent of the 20,438 streamgages had 3 or more years of record, and about 65 percent had 10 or more years of record. Drainage areas of the 20,438 streamgages ranged from 0.01 to 1,144,500 square miles. The magnitude of annual average streamflow yields (streamflow per square mile) for these streamgages varied by almost six orders of magnitude, from 0.000029 to 34 cubic feet per second per square mile. About 64 percent of these streamgages did not have any zero-flow days during their available period of record. The 18,122 streamgages with 3 or more years of record were included in the StreamStatsDB compilation so they would be available via the StreamStats interface for user-selected streamgages. All the statistics are available in a USGS ScienceBase data release.

Open-File Report↗

Digital representation of exposures of Precambrian bedrock in parts of Dickinson and Iron Counties, Michigan, and Florence and Marinette Counties, Wisconsin

The U.S. Geological Survey (USGS) conducted a program of bedrock geologic mapping in much of the central and western Upper Peninsula of Michigan from the 1940s until the late 1990s. Geologic studies in this region are hampered by a scarcity of bedrock exposures because of a nearly continuous blanket of unconsolidated sediments resulting from glaciation of the region during the Pleistocene ice ages. The USGS mapping, done largely at a scale of 1:24,000, routinely recorded the location and extent of exposed bedrock to provide both an indication of where direct observations were made and a guide for future investigations to expedite location of observable rock exposures. The locations of outcrops were generally shown as colored or patterned overlays on printed geologic maps. Although those maps have been scanned and are available as Portable Document Format (PDF) files, no further digital portrayal of the outcrops had been done. We have conducted a prototype study of digitizing and improving locational accuracy of the outcrop locations in parts of Dickinson County, Michigan, to form a data layer that can be used with other data layers in geographic information system applications.

Michigan, Wisconsin↗

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↗

Implementation of MOVE.1, censored MOVE.1, and piecewise MOVE.1 low-flow regressions with applications at partial-record streamgaging stations in New Jersey

The U.S. Geological Survey (USGS) uses Maintenance of Variance Extension Type 1 (MOVE.1) regression to transfer streamflows measured at long-term continuous-record streamgaging stations to partial-record (PR) streamgaging stations where intermittent base-flow measurements are available. MOVE.1 regression is used widely throughout the hydrologic community to extend historic low flows and low-flow statistics at continuous-record streamgaging stations to streamgaging stations that have access to only a partial record of low flows. The method correlates base-flow measurements at PR streamgaging stations with daily mean streamflows measured at index stations that exhibit similar streamflow characteristics. Following changes in the computing platform for storing, processing, retrieving, and publishing National Water Information System (NWIS) hydrologic data, legacy Statistical Analysis System (SAS) code developed by the USGS to implement the MOVE.1 regression was no longer suitable for reading and processing NWIS streamflow data. To migrate the MOVE.1 program so that it could continue to read streamflow data using the new hydrologic data platform, the SAS code was re-written in R, an open source programming language and software environment for statistical computing and graphics supported by the R Foundation for Statistical Computing. The work described in this report was performed in a study conducted by USGS in cooperation with the New Jersey Department of Environmental Protection. During migration from SAS to R, graphical and tabular output generated by the R script was compared to output produced by the legacy SAS code to ensure that equations used to perform the MOVE.1 regression remained the same. An option to perform censored MOVE.1 regression was added to extend the MOVE.1 methodology to cases where one or more measured continuous-record or PR streamgaging station flows are zero valued. In addition to permitting censored regression, the new R script includes an option to perform piecewise MOVE.1 regression when the relation between PR station and index station low flows varies significantly across the range of index station streamflows. Together with traditional MOVE.1 regression, censored, and piecewise MOVE.1 regression methods implemented by the R script offer less biased estimates than ordinary least squares regression for the annual 7-day 10-year and other low-flow statistics at PR stations for a range of base-flow conditions. The R script is used to implement the MOVE.1 regression methods across a variety of computing platforms.

New Jersey↗

Procedures for using the Horiba Scientific Aqualog ® fluorometer to measure absorbance and fluorescence from dissolved organic matter

Advances in spectroscopic techniques have led to an increase in the use of optical measurements (absorbance and fluorescence) to assess dissolved organic matter composition and infer sources and processing. Although optical measurements are easy to make, they can be affected by many variables rendering them less comparable, including by inconsistencies in sample collection (for example, filter pore size, preservation), the application of corrections for interferences (for example, inner-filtering corrections), differences in holding times, and instrument drift (for example, lamp intensity). A documented, standardized procedure to address these variables ensures that the optical (absorbance and fluorescence) measurements collected by U.S. Geological Survey researchers are useful and widely comparable. Rigorous and quantifiable quality assurance and quality control are essential for making these data comparable, particularly because there is no published guideline for the measurement of dissolved organic matter absorbance and fluorescence, and especially because there is no National Institute of Standards and Technology standard for dissolved organic matter. Validation and quality-control samples are analyzed on a monthly basis to determine laboratory and instrument precision and daily (that is, each day samples are run) to ensure repeatability. Data are not considered acceptable unless they meet laboratory criteria: All standards should be within 10 percent of the target value, laboratory replicates should be within 5 percent relative percent difference, and laboratory blanks (that is, laboratory reagent-grade water) should be less than one-tenth of the long-term method detection limit. Finally, for data to be useful, they must be accessible to users in a format that can be easily analyzed and interpreted. The Organic Matter Research Laboratory staff has developed a processing routine that extracts a subset of the data, which is made available to the public through the USGS National Water Quality Information System ( http://nwis.waterdata.usgs.gov/usa/nwis/qwdata ), and organizes the full datasets (that is, complete absorbance spectra and fluorescence excitation-emission matrices) in different forms that allow for these data to be analyzed using multi-parameter and multi-way statistical approaches.

Open-File Report↗

Offshore shallow structure and sediment distribution, Point Sur to Point Arguello, central California

This publication consists of three map sheets that display shallow geologic structure, along with sediment distribution and thickness, for an about 225-km-long offshore section of the central California coast between Point Sur and Point Arguello. Each map sheet includes three maps, at scales of either 1:150,000 or 1:200,000, as well as a set of figures that contain representative high-resolution seismic-reflection profiles. The maps and seismic-reflection surveys cover most of the continental shelf in this region. In addition, the maps show the locations of the shelf break and the 3-nautical-mile limit of California’s State Waters. The seismic-reflection data, which are the primary dataset used to develop the maps, were collected to support the California Seafloor Mapping Program and U.S. Geological Survey Offshore Geologic Hazards projects. In addition to the three map sheets, this publication includes geographic information system data files of interpreted faults, folds, sediment thicknesses, and depths-to-base of sediment. The faults and folds shown on the maps have been locally simplified as appropriate for the map scales. The right-lateral San Gregorio–Hosgri Fault (SGHF) is the most significant structure in the map area. On a regional scale, the SGHF is part of a 400-km-long, right-lateral fault system that extends northwestward from Point Arguello to the area offshore of San Francisco, where it merges with the San Andreas Fault. From north to south in this part of central California, the SGHF lies offshore between the south flank of Point Sur and the north flank of Point Piedras Blancas, then comes onshore at Point Piedras Blancas, before heading offshore again between the south flank of Point Piedras Blancas and Point Arguello. Cumulative fault offset along the SGHF is as much as 150 to 160 km, decreasing to the south by transferring slip on to northwest-striking faults that converge with the SGHF both onland and offshore from the east. In the map area, the offshore-converging faults include the Los Osos Fault, the Shoreline–Point Buchon Fault, the Casmalia Fault, and the Lions Head Fault. Quaternary sediments and bedrock underlie the shelf. On the seismic-reflection profiles, we divide Quaternary shelf sediments into two units. Characterizing the younger, upper unit is a focus of this publication. This unit is inferred to have been deposited on the shelf in the last about 21,000 years during the sea-level rise that followed the last major lowstand and the Last Glacial Maximum (LGM). This upper unit overlies a transgressive surface of erosion, a commonly angular, wave-cut unconformity, and is generally characterized by low-amplitude, continuous to moderately continuous, diffuse, subparallel, generally flat reflections. Maps in this publication show both the thickness of this upper sediment unit and the depth to the base of the sediment unit. Within the map region, 11 different “domains” of post-LGM shelf sediment are delineated on the basis of sediment thickness and coastal geomorphology. Maximum sediment thickness is in the southern part of the region, offshore of the mouths of the Santa Ynez and Santa Maria Rivers. Minimum sediment thickness is found offshore of prominent rocky points, including Point Buchon and Piedras Blancas. Mean sediment thickness for the entire shelf in the map area between Point Sur and Point Arguello is 12.2 m, and total sediment volume is 24.7 million cubic meters.

California↗

Preliminary GIS representation of deep coal areas for carbon dioxide storage in the contiguous United States and Alaska

This report and its accompanying geospatial data outline many areas of coal in the United States beneath more than 3,000 ft of overburden. Based on depth, these areas may be targets for injection and storage of supercritical carbon dioxide. Additional areas where coal exists beneath more than 1,000 ft of overburden are also outlined; these may be targets for geologic storage of carbon dioxide in conjunction with enhanced coalbed methane production. These areas of deep coal were compiled as polygons into a shapefile for use in a geographic information system (GIS). The coal-bearing formation names, coal basin or field names, geographic provinces, coal ranks, coal geologic ages, and estimated individual coalbed thicknesses (if known) of the coal-bearing formations were included. An additional point shapefile, coal_co2_projects.shp, contains the locations of pilot projects for carbon dioxide injection into coalbeds. This report is not a comprehensive study of deep coal in the United States. Some areas of deep coal were excluded based on geologic or data-quality criteria, while others may be absent from the literature and still others may have been overlooked by the authors.

Open-File Report↗

Focus areas for data acquisition for potential domestic sources of critical minerals—Rare earth elements

Rare earth elements (REEs) are critical mineral commodities for the United States. In response to a need for information on potential domestic sources of REEs in mineral deposits, the U.S. Geological Survey (USGS) identified broad focus areas throughout the conterminous United States and Alaska as a guide for selecting new geoscience research areas. This study was done to support the USGS Earth Mapping Resources Initiative (Earth MRI). Focus areas are identified in four regions of the United States (Alaska, West, Central, and East) by mineral deposit type. The areas are described in a companion USGS data release that consists of a map in a geographic information system and accompanying tables that document the rationale for each focus area (C.L. Dicken and others, 2019, https://doi.org/10.5066/P95CHIL0 ). This open-file report describes the methodology that was used to identify focus areas and determine new data acquisition needs. Deposit types that are likely to be of interest for future exploration and development of domestic nonfuel REE resources include deposits associated with carbonatites and peralkaline rocks, iron oxide-apatite deposits, monazite-bearing placers, and REE-enriched phosphorites.

Open-File Report↗

Offshore shallow structure and sediment distribution, Punta Gorda to Point Arena, Northern California

This publication consists of two map sheets that display shallow geologic structure, along with sediment distribution and thickness, for an approximately 150-km-long offshore section of the northern California coast between Punta Gorda and Point Arena. Each map sheet includes three maps at scales of either 1:100,000 or 1:200,000, and together the sheets include 30 figures that contain representative high-resolution seismic-reflection profiles. The maps and seismic-reflection surveys cover most of the continental shelf in this region. In addition, the maps show the locations of the shelf break and the 3-nautical-mile limit of California’s State Waters. The seismic-reflection data, which are the primary dataset used to develop the maps, were collected to support the California Seafloor Mapping Program, U.S. Geological Survey Offshore Geologic Hazards projects, and National Oceanic and Atmospheric Administration’s (NOAA’s) Ocean Explorer program. In addition to the two map sheets, this publication includes geographic information system data files of faults, sediment thicknesses, and depths-to-base of sediment The map area includes the northernmost section of the right-lateral San Andreas Fault, which extends offshore from Point Arena in the south to Point Delgada in the north. The San Andreas Fault is the primary structure in the widely distributed plate boundary between the Pacific Plate and the Sierra Nevada–Great Valley Microplate, with estimates of cumulative right slip of as much as up to 450 km. South of Point Delgada, fault-related transtension has resulted in development of the Noyo Basin. North of Point Delgada, the San Andreas Fault transitions into a complex contractional zone in and (or) south of the King Range, including a possible nearshore fault that may connect with the Mattole Canyon Fault. Quaternary sediments and bedrock underlie the shelf. On the seismic-reflection profiles, we digitally traced the thickness and depth of the uppermost seismic-stratigraphic unit, which is a focus of this publication. The upper contact of this unit is the seafloor; the lower contact is a transgressive surface of erosion, a commonly angular, wave-cut unconformity characterized by an upward change to lower amplitude, more diffuse reflections. On the basis of this lower contact, this stratigraphic unit is inferred to have been deposited on the shelf in the last about 21,000 years during the sea-level rise that followed the last major lowstand and the Last Glacial Maximum (LGM). Maps in this publication show both the thickness of this upper sediment unit and the depth to the base of the sediment unit. Within the map region, five different “domains” of post-LGM shelf sediment are delineated on the basis of sediment thickness and coastal geomorphology. Maximum sediment thickness (as much as 67 m) is found in the northern part of the region, along the steep south flank of the King Range. Minimum sediment thickness (areas of exposed bedrock) is found on fault-bounded uplifts, which include Tolo bank and Punta Gorda bank. Mean sediment thickness for the entire shelf in the map area between Punta Gorda and Point Arena is 8.9 m, and total sediment volume is 12,824×10 6 m 3 .

California↗

Kelp forest monitoring at Naval Base Ventura County, San Nicolas Island, California: Fall 2018 and Spring 2019, fifth annual report

Introduction Kelp forests and rocky reefs are among the most recognized marine ecosystems and provide the primary habitat for several species of fishes, invertebrates, and algal assemblages (Stephens and others, 2006). In addition, kelp forests have been shown to be important carbon dioxide sinks (Wilmers and others, 2012) and are an important source of nearshore marine primary production (Duggins and others, 1989). These highly dynamic ecosystems are extremely variable, and both top-down and bottom-up ecological controls drive this rich trophic environment. Giant kelp ( Macrocystis pyrifera ) forests and the species that inhabit these ecosystems are influenced by several environmental conditions, such as wave exposure, water temperature, water clarity, bottom depth and composition, species composition, and the density of kelp and other algal assemblages (Schiel and Foster, 2015). However, in addition to “normal” variability, kelp forests can undergo extreme regime shifts from kelp canopy forested areas to barrens characterized by high densities of urchins and encrusting coralline algae (Harrold and Reed, 1985). San Nicolas Island (SNI), outermost of the California Channel Islands, is home to a diverse group of terrestrial and marine organisms and includes kelp bed and rocky reef habitats ( fig. 1 ). The SNI kelp forests not only provide food and shelter for fishes and invertebrates within the habitat, but also they support higher trophic level consumers such as marine birds and several marine mammal species including the southern sea otter ( Enhydra lutris nereis) , a major predator on sea urchins and other marine invertebrates. Owing to concern about the vulnerability of the California population, the U.S. Fish and Wildlife Service (USFWS) translocated 140 southern sea otters from the central California coast to SNI between 1987 and 1990. Although only approximately 14 translocated otters are thought to have remained at SNI (U.S. Fish and Wildlife Service, 2012), their population at the island has increased and is currently greater than 120 individuals (Hatfield and others, 2019). Sea otters are a natural part of the kelp forest ecosystem, but their presence has implications for community dynamics as they repopulate a region from which they were extirpated in the 19th century. At SNI, sea otters have been concentrated mostly around the west end of the island, with some use of the south side and very little, but expanding, use of the northeast side. An ecosystem shift from urchin dominated to kelp dominated, that occurred at a site at the west end of the island in the early 2000s, though initiated by sea urchin disease, was likely facilitated to some degree by sea otter foraging (Kenner and Tinker, 2018). These ecosystems also are the target of many fisheries, including urchin and lobster. Urchin fisheries, which target the larger red sea urchin, may release the smaller but more mobile purple sea urchin from competitive control (Dayton and others, 1998). Lobster fisheries may release purple sea urchins from predatory control (Lafferty, 2004). Owing to the distance from the mainland, however, SNI kelp forests and reefs have been somewhat protected from the degree of harvest and other anthropogenic impacts experienced by the southern California mainland. Invasive species are another issue, and there are a few invasive subtidal macroalgae of concern in southern California waters. Although the brown alga Sargassum muticum has been established at the island for decades, S. horneri has only recently been seen at SNI and, so far, the invasive kelp Undaria pinnatifida and the green alga Caulerpa taxifolia have not been observed there. Sargassum horneri , in particular, has demonstrated a capability to outcompete native kelps at some of the other Channel Islands but it is unclear what indirect effects it may have on community structure (Marks and others, 2015). Because the surrounding kelp forests fall within the management boundary of the SNI Integrated Natural Resources Management Plan (INRMP; U.S. Navy, 2015), USGS works with the Navy to provide surveys of this ecologically important ecosystem that inform natural resource managers of trends in the population abundance of particular species. In addition, long-term surveys allow for an understanding of potential changes in species diversity and community composition as a result of trophic or other interactions. The U.S. Geological Survey (USGS) implemented a kelp forest monitoring program for the U.S. Navy at San Nicolas Island in 2014, building on sites and methods established by USFWS scientists in 1980 ( appendix 1 ). This report focuses on data collected during sampling expeditions to these sites in fall 2018 (October 2–5) and spring 2019 (April 3–6). Together they will be herein referred to as year 5 because, although the trips were made in different calendar years, they were approximately 6 months apart and were conducted under the fifth year of this contract. The previous sampling year (fall 2017 and spring 2018) is referred to as year 4. The year 5 data are compared with data collected during eight trips from fall 2014 through spring 2018. Differences in counts between these expeditions can result from seasonal factors, stochastic variation, or sampling error, but temporal comparison can reveal population trends. Where appropriate, long-term data collected during the 33 years prior to the implementation of these slightly revised protocols will be presented in order to lend some context to the observations reported here. Genus and species names used in this report are those currently recognized as valid in the Integrated Taxonomic Information System (ITIS.gov). Upon first use, the name recognized as valid by the World Register of Marine Species (WoRMS; marinespecies.org) is shown in brackets if different. The exception is Sargassum horneri which does not show up in any discernable form in ITIS.gov.

California↗

GIS-based identification of areas that have resource potential for sediment-hosted Pb-Zn deposits in Alaska

A state-wide Geographic Information System analysis was conducted to assess prospectivity for lead (Pb) and zinc (Zn) in sediment-hosted deposits in Alaska. The datasets that were utilized include publicly available geospatial datasets of lithologic, geochemical, and mineral occurrence data. Key characteristics of Pb-Zn deposits were identified in available datasets and scored with respect to relative importance. To evaluate resource potential, drainage basins of the smallest size were chosen, each of which covers approximately 100 square kilometers (km 2 ). Drainage basins are the most logical and efficient unit for evaluation because the most regionally robust dataset comes from stream sediment geochemistry. Sediment-hosted Pb-Zn deposits in Alaska include those contained in carbonate rocks (similar to Mississippi Valley Type or MVT deposits) and those contained in clastic-dominated (CD) sequences (CD Pb-Zn), historically referred to as SEDEX (sedimentary exhalative). The latter include the deposits currently being mined in the Red Dog district in the western Brooks Range. Host rocks for the two subtypes are distinct: carbonate versus fine-grained clastic rocks for CD Pb-Zn deposits. However, there are exceptions: some CD Pb-Zn deposits are hosted in carbonate layers within a thick clastic-dominated rock sequence. The statewide geologic map database contains units that commonly include mixed carbonate-clastic sequences that cannot be subdivided. The most significant difference between the two deposit types is their respective depositional environments and tectonic settings, but at the reconnaissance level of mapping in most areas of the state, these distinctions are not possible. Furthermore, nearly all critical geochemical parameters (silver [Ag], barium [Ba], Pb, Zn) are common to both types, and therefore it was not possible to do separate assessments for carbonate-hosted and CD Pb-Zn deposits. Areas identified that have moderate to high potential for sediment-hosted Pb-Zn deposits include the (1) western and central Brooks Range, referred to in this report as the Brooks Range zinc belt; (2) Seward Peninsula (and adjacent St. Lawrence Island); (3) Farewell terrane in Interior Alaska; (4) two spatially distinct belts in east-central Alaska; and (5) the central Alaska Range. All areas contain some known deposits, and that provides credibility to the scoring process. Some hydrologic unit codes (HUCs) that have high potential for sediment-hosted Pb-Zn deposits are located adjacent to areas of known deposits and indicate the potential for expansion of known Pb-Zn districts. There are a few areas that have high potential but contain no known sediment hosted Pb-Zn occurrences, prospects, or deposits. In such areas, future investigations could be focused on better defining and constraining prospectivity with additional data.

Alaska↗

Field methods, quality-assurance, and data management plan for water-quality activities and water-level measurements, Idaho National Laboratory, Idaho

Introduction Water-quality activities and water-level measurements conducted by the U.S. Geological Survey (USGS) Idaho National Laboratory (INL) Project Office coincide with the USGS mission of appraising the quantity and quality of the Nation’s water resources. The activities are conducted in cooperation with the U.S. Department of Energy’s (DOE) Idaho Operations Office. Results of water-quality and hydraulic head investigations are presented in various USGS publications or in refereed scientific journals, and the data are stored in the National Water Information System (NWIS) database. The results of the studies are used by researchers, regulatory and managerial agencies, and civic groups. In its broadest sense, “quality assurance” refers to doing the job right the first time. It includes the functions of planning for products, review and acceptance of the products, and an audit designed to evaluate the system that produces the products. Quality control and quality assurance differ in that quality control ensures that things are done correctly given the “state-of-the-art” technology, and quality assurance ensures that quality control is maintained within specified limits.

Idaho↗

GIS-based identification of areas that have resource potential for lode gold in Alaska

Several comprehensive, data-driven geographic information system (GIS) analyses were conducted to assess prospectivity for lode gold in Alaska. These analyses use available geospatial datasets of lithologic, geochemical, mineral occurrence, and geophysical data to build models for recognizing different types of gold deposits within physiographic units defined by stream drainage basins that are approximately 100 square kilometers in area. The analytical methods successfully delineated areas in the State that contain known lode gold deposits and occurrences, providing some measure of confidence in their ability to predict gold prospectivity in areas of unknown lode gold potential. The results of our analyses indicate high prospectivity in a few areas scattered around the State that are not known to contain lode gold deposits. In addition to assessing the potential for lode gold deposits in Alaska, we designed analyses to distinguish different lode gold deposit types, including orogenic, reduced-intrusion-related, epithermal, and gold-bearing porphyry. These can primarily be differentiated using their unique trace element geochemical fingerprints and elemental enrichments, which reflect the characteristics of the geologic environment and chemistry of the ore-forming fluids. We identified multiple parameters that would discriminate the different types of gold deposits, but owing to the limits of available data, the compositional similarity of ore-forming fluids among some types of lode gold deposits, and overlapping geologic environments, distinguishing deposit types at the state scale in Alaska remains problematic. These limitations resulted in overlapping areas of prospectivity for different deposit types, highlighting the challenges for targeted gold exploration in Alaska. Adjustment of some scoring parameters and recharacterization at smaller scales to highlight individual mineral systems for application of prospectivity analyses may be helpful at a district scale. At a regional scale, the aerial overlap of individual deposit type analyses reinforces confidence in prospectivity for a lode gold resource in a drainage basin. Our analysis for undivided lode gold deposits will be the most practical analysis for landuse decisions in which delineation of areas that have confident potential for gold deposits in general is the primary goal. Data-driven GIS analysis for lode gold potential in Alaska, although limited by the size and uneven coverage of available datasets, objectively indicates prospectivity in areas where exposure is good as well as in areas under cover. The results of our analyses show medium to high prospectivity in areas that surround known deposits, indicating an overall expansion of areas that have the potential to contain gold deposits. Exploration in these areas may help improve the balance between the volume of gold produced in placer districts statewide and the relatively low volume of identified lode resources that contribute to these placer deposits. The results of our analyses can help focus future investigations in areas that show prospectivity but are not known to contain gold deposits, as well as in areas where data are lacking and the geology is poorly understood, and acquisition of additional data may help better define and constrain gold prospectivity.

Alaska↗

Groundwater-level monitoring from January 17 to March 3, 2022, Hālawa area, O‘ahu, Hawai‘i

A reported fuel release in November 2021 at the Red Hill Bulk Fuel Storage Facility within the naval reservation at Red Hill led to the shutdown of several production wells in the Hālawa area, O‘ahu, Hawai‘i. Red Hill Shaft—one of the high-capacity production wells that shut down—was reactivated on January 29, 2022. Submersible pressure transducers were deployed at 20 wells in the Hālawa area to measure groundwater levels and evaluate the regional groundwater-level response to the resumption of groundwater withdrawals from Red Hill Shaft. Groundwater levels measured in wells from January 17 to March 3, 2022, ranged between 16 and 20 feet at all sites and generally between 17 and 19 feet at most sites. Average groundwater-level decreases measured in wells 10 days after the January 29, 2022, resumption of withdrawal from Red Hill Shaft ranged from about 0.1 to 0.4 foot. In general, greatest decreases in groundwater levels occurred in wells closest to Red Hill Shaft. The groundwater-level data contain uncertainty because of several potential sources of error associated with (1) the accuracy of the measuring tapes and submersible pressure transducers used, (2) the accuracy of the measuring-point altitude at the top of each well, (3) the stability of the submersible pressure transducers’ suspension depth in each well, (4) well plumbness and alignment, and (5) human error. Because of the potential sources of error, comparability of groundwater-level data may be affected. Some sources of uncertainty, including the accuracy of measuring-point altitudes, can be addressed and lead to improved accuracy and comparability of groundwater levels. Data collected for this study are available in the U.S. Geological Survey National Water Information System database.

Hawaii↗

Geospatial standard operating procedures of the Chesapeake Bay Program

Introduction The Chesapeake Bay Program (CBP) has operated a geographic information system (GIS) program since the early 1990s to address the established and growing need for and use of geospatial data, maps, and analysis within the CBP Partnership. This report is intended to detail the standard operating procedures of the CBP GIS program and address the quality assurance, quality control, and other technical activities that CBP will implement to ensure the commitment of the CBP GIS Team to performance standards (U.S. Environmental Protection Agency, 2003). The report is intended as an update to the 2011 Quality Assurance Project Plan (QAPP). For specialized tasks or analytical projects beyond the scope of this QAPP, a separate specialized QAPP with details on quality control, assurance procedures, and the geospatial methods associated with all aspects of the project may be required.

Open-File Report↗