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USGS2012

Bathymetry and acoustic backscatter data collected in 2010 from Cat Island, Mississippi

Scientists from the U.S. Geological Survey (USGS), St. Petersburg Coastal and Marine Science Center (SPCMSC), in collaboration with the U.S. Army Corps of Engineers (USACE), conducted geophysical and sedimentological surveys around Cat Island, the westernmost island in the Mississippi-Alabama barrier island chain (fig. 1). The objectives of the study were to understand the geologic evolution of Cat Island relative to other barrier islands in the northern Gulf of Mexico and to identify relationships between the geologic history, present day morphology, and sediment distribution. This report contains data from the bathymetry and side-scan sonar portion of the study collected during two geophysical cruises. Interferometric swath bathymetry and side-scan sonar data were collected aboard the RV G.K. Gilbert September 7-15, 2010. Single-beam bathymetry was collected in shallow water around the island (< 2 meter (m)) from the RV Streeterville from September 28 to October 2, 2010, to cover the data gap between the landward limit of the previous cruise and the shoreline. This report serves as an archive of processed interferometric swath and single-beam bathymetry and side scan sonar data. GIS data products include a 50-m cell size interpolated gridded bathymetry surface, trackline maps, and an acoustic side-scan sonar image. Additional files include error analysis maps, Field Activity Collection System (FACS) logs, and formal Federal Geographic Data Committee (FDGC) metadata.

Alabama;Mississippi↗

USGS2002

Revised Protocols for Sampling Algal, Invertebrate, and Fish Communities as Part of the National Water-Quality Assessment Program

Algal, invertebrate, and fish communities are characterized as part of ecological studies in the U.S. Geological Survey.s National Water-Quality Assessment Program. Information from these ecological studies, together with chemical and physical data, provide an integrated assessment of water quality at local, regional, and national scales. Analysis and interpretation of water-quality data at these various geographic scales require accurate and consistent application of sampling protocols and sample-processing procedures. This report revises and unifies into a single document the algal, invertebrate, and fish community sampling protocols used in the National Water-Quality Assessment Program.

Open-File Report↗

USGS2010

Mineral and Vegetation Maps of the Bodie Hills, Sweetwater Mountains, and Wassuk Range, California/Nevada, Generated from ASTER Satellite Data

Multispectral remote sensing data acquired by the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) were analyzed to identify and map minerals, vegetation groups, and volatiles (water and snow) in support of geologic studies of the Bodie Hills, Sweetwater Mountains, and Wassuk Range, California/Nevada. Digital mineral and vegetation mapping results are presented in both portable document format (PDF) and ERDAS Imagine format (.img). The ERDAS-format files are suitable for integration with other geospatial data in Geographic Information Systems (GIS) such as ArcGIS. The ERDAS files showing occurrence of 1) iron-bearing minerals, vegetation, and water, and 2) clay, sulfate, mica, carbonate, Mg-OH, and hydrous quartz minerals have been attributed according to identified material, so that the material detected in a pixel can be queried with the interactive attribute identification tools of GIS and image processing software packages (for example, the Identify Tool of ArcMap and the Inquire Cursor Tool of ERDAS Imagine). All raster data have been orthorectified to the Universal Transverse Mercator (UTM) projection using a projective transform with ground-control points selected from orthorectified Landsat Thematic Mapper data and a digital elevation model from the U.S. Geological Survey (USGS) National Elevation Dataset (1/3 arc second, 10 m resolution). Metadata compliant with Federal Geographic Data Committee (FGDC) standards for all ERDAS-format files have been included, and contain important information regarding geographic coordinate systems, attributes, and cross-references. Documentation regarding spectral analysis methodologies employed to make the maps is included in these cross-references.

Scientific Investigations Map↗

USGS1980

An analysis of the magnitude and frequency of floods on Oahu, Hawaii

An analysis of available peak-flow data for the island of Oahu, Hawaii, was made by using multiple regression techniques which related flood-frequency data to basin and climatic characteristics for 74 gaging stations on Oahu. In the analysis, several different groupings of stations were investigated, including divisions by geographic location and size of drainage area. The grouping consisting of two leeward divisions and one windward division produced the best results. Drainage basins ranged in area from 0.03 to 45.7 square miles. Equations relating flood magnitudes of selected frequencies to basin characteristics were developed for the three divisions of Oahu. These equations can be used to estimate the magnitude and frequency of floods for any site, gaged or ungaged, for any desired recurrence interval from 2 to 100 years. Data on basin characteristics, flood magnitudes for various recurrence intervals from individual station-frequency curves, and computed flood magnitudes by use of the regression equation are tabulated to provide the needed data. (USGS)

Hawaii↗

USGS2008

GAP Analysis Bulletin Number 15

The Mission of the Gap Analysis Project (GAP) <http://gapanalysis.nbii.gov> is to promote conservation by providing broad geographic information on biological diversity to resource managers, planners, and policy makers who can use the information to make informed decisions. As part of the National Biological Information Infrastructure (NBII) <http://www.nbii.gov>?a collaborative program to provide increased access to data and information on the nation?s biological resources--GAP data and analytical tools have been used in hundreds of applications: from basic research to comprehensive state wildlife plans; from educational projects in schools to ecoregional assessments of biodiversity. The challenge: keeping common species common means protecting them BEFORE they become threatened. To do this on a state or regional basis requires key information such as land cover descriptions, predicted distribution maps for native animals, and an assessment of the level of protection currently given to those plants and animals. GAP works cooperatively with Federal, state, and local natural resource professionals and academics to provide this kind of information. GAP activities focus on the creation of state and regional databases and maps that depict patterns of land management, land cover, and biodiversity. These data can be used to identify ?gaps? in conservation--instances where an animal or plant community is not adequately represented on the existing network of conservation lands. GAP is administered through the U.S. Geological Survey. Through building partnerships among disparate groups, GAP hopes to foster the kind of collaboration that is needed to address conservation issues on a broad scale. For more information, contact: John Mosesso National GAP Director 703-648-4079 Kevin Gergely National GAP Operations Manager 208-885-3565

GAP Bulletin↗

USGS2024

Asynchronous movement patterns between breeding and stopover locations in a long-distance migratory songbird

The species-specific migratory patterns and strategies of many songbirds remain unknown or understudied, as research in animal ecology is biased toward the breeding period, with the fewest studies on the migratory period across taxa. Identifying large-scale spatiotemporal migratory patterns is challenging, as individuals within a species may vary in their migratory behavior and strategies. The Yellow Warbler ( Setophaga petechia ) is a Nearctic-Neotropical migrant that is relatively well studied during the breeding season, but its species-wide migratory patterns remain understudied. Our aim in studying Yellow Warbler movement ecology was to characterize temporal migration patterns during fall migration. We sought to determine the temporal migration pattern among breeding locations, as determined by the hydrogen stable isotope values in feather samples collected at disjunct (~2000 km) stopover sites in the Gulf of Maine (n = 50) and the Gulf of Mexico (n = 150). We used a similarity matrix to group individuals into a geographic cluster by breeding location, which was then used as the response variable in a modeling analysis. Our results provide evidence that Yellow Warblers exhibit an asynchronous, type 1 temporal migration pattern with southern breeding populations initiating migration prior to northern populations. Using hydrogen isotopes, we identified the temporal migration patterns between geographic clusters, representing an individual’s breeding location, and stopover sites along the Gulf of Maine and Gulf of Mexico, which fills a gap in understanding Yellow Warbler migration ecology.

Avian Conservation and Ecology↗

USGS2024

Temperature impacts on dengue incidence are nonlinear and mediated by climatic and socioeconomic factors: A meta-analysis

Temperature can influence mosquito-borne diseases like dengue. These effects are expected to vary geographically and over time in both magnitude and direction and may interact with other environmental variables, making it difficult to anticipate changes in response to climate change. Here, we investigate global variation in temperature–dengue relationship by analyzing published correlations between temperature and dengue and matching them with remotely sensed climatic and socioeconomic data. We found that the correlation between temperature and dengue was most positive at intermediate (near 24°C) temperatures, as predicted from an independent mechanistic model. Positive temperature–dengue associations were strongest when temperature variation and population density were high and decreased with infection burden and rainfall mean and variation, suggesting alternative limiting factors on transmission. Our results show that while climate effects on diseases are context-dependent they are also predictable from the thermal biology of transmission and its environmental and social mediators.

PLOS Climate↗

USGS2006

River size and fish assemblages in southwestern South Dakota

We studied relations between river size, fish species diversity, and fish species composition along four major rivers in the Great Plains of southwestern South Dakota to assess patterns of species diversity and composition. We expected diversity to increase with river size and fish composition to change via species addition downstream. Previous surveys of 52 sampling stations provided fish assemblage data, and we used the Geographic Information System (GIS) to determine watershed area by station. Watershed area did not predict species richness or species diversity (Fisher's ??), so species richness of 12 ?? 3.5 SD species and Fisher's ?? of 2.3 ?? 0.87 SD characterized species diversity in the study area. Cluster analysis of faunal similarity (S??rensen's Index) among the 52 sampling stations identified two geographically distinct faunal divisions, so species composition was variable within the study area, but changed via species replacements among faunas rather than species additions downstream. Nonnative species were a minor component of all faunas. Uniform species diversity may be a recent phenomenon caused by impacts of Missouri River dams on native large-river fishes and the unsuitability of rivers in the Great Plains for nonnative species. Variation in faunal composition may also be recent because it was affected by dams. ?? Copyright by the Center for Great Plains Studies, University of Nebraska-Lincoln.

Great Plains Research↗

USGS2005

Geographic variation in survival and migratory tendency among North American Common Mergansers

Movement ecology and demographic parameters for the Common Merganser ( Mergus merganser americanus ) in North America are poorly known. We used band-recovery data from five locations across North America spanning the years 1938–1998 to examine migratory patterns and estimate survival rates. We examined competing time-invariant, age-graduated models with program MARK to study sources of variation in survival and reporting probability. We considered age, sex, geographic location, and the use of nasal saddles on hatching year birds at one location as possible sources of variation. Year-of-banding was included as a covariate in a post-hoc analysis. We found that migratory tendency, defined as the average distance between banding and recovery locations, varied geographically. Similarly, all models accounting for the majority of variation in recovery and survival probabilities included location of banding. Models that included age and sex received less support, but we lacked sufficient data to adequately assess these parameters. Model-averaged estimates of annual survival ranged from 0.21 in Michigan to 0.82 in Oklahoma. Heterogeneity in migration tendency and survival suggests that demographic patterns may vary across geographic scales, with implications for the population dynamics of this species.

Journal of Field Ornithology↗

USGS2021

Using fecal DNA and closed-capture models to estimate feral horse population size

Accurate population estimates provide the foundation for managing feral horses ( Equus caballus ferus ) across the western United States. Certain feral horse populations are protected by the Wild and Free-Roaming Horses and Burros Act of 1971 and managed by the Bureau of Land Management (BLM) or the United States Forest Service on designated herd management areas (HMAs) or wild horse territories, respectively. Horses are managed to achieve an appropriate management level (AML), which represents the number of horses determined by BLM to contribute to a thriving natural ecological balance and avoid deterioration of the range. To achieve AML for each HMA, BLM resource managers need accurate and precise population estimates. We tested the use of non-invasive fecal samples in a genetic capture-recapture framework to estimate population size in a closed horse population at the Little Book Cliffs HMA, Colorado, USA, with a known size of 153 individuals. We collected 1,957 samples over 3 independent sampling periods in 2014 and amplified them at 8 microsatellite loci. We applied mark-recapture models to determine population size using 954 samples that amplified at all 8 loci. We subsampled and reanalyzed our dataset to simulate different data collection protocols and evaluated effects on accuracy and precision of estimates using N-mixture modeling, full likelihood closed-capture modeling, and capwire single-occasion modeling that used data from all 3 sampling periods. Our model results were accurate and precise for analyses that used data from all 3 occasions; however, capwire single-occasion modeling was not accurate when we analyzed each sampling period separately. For all subsampling analysis scenarios, reducing sample size decreased precision, whether by reducing number of field staff, field days, or geographic areas surveyed on each period. Reducing spatial coverage of the survey area did not result in accurate population estimates and only marginally lowered the number of samples that would need to be collected to maintain accuracy. Because laboratory analysis contributes the greatest expense for this method ($80 U.S./sample), reducing fecal sample size is advantageous. Our results demonstrate that non-invasive sampling combined with good survey design and careful genetic and capture-recapture analyses can provide an alternative method to estimate the number of feral horses in a closed population. This method may be especially appropriate in situations where aerial inventories are not practical or accurate because of low sighting conditions. But the higher costs associated with laboratory sample analyses may reduce the method's feasibility compared to helicopter surveys.

Colorado↗

USGS2013

Methods for estimating annual exceedance-probability discharges for streams in Iowa, based on data through water year 2010

A statewide study was performed to develop regional regression equations for estimating selected annual exceedance-probability statistics for ungaged stream sites in Iowa. The study area comprises streamgages located within Iowa and 50 miles beyond the State’s borders. Annual exceedance-probability estimates were computed for 518 streamgages by using the expected moments algorithm to fit a Pearson Type III distribution to the logarithms of annual peak discharges for each streamgage using annual peak-discharge data through 2010. The estimation of the selected statistics included a Bayesian weighted least-squares/generalized least-squares regression analysis to update regional skew coefficients for the 518 streamgages. Low-outlier and historic information were incorporated into the annual exceedance-probability analyses, and a generalized Grubbs-Beck test was used to detect multiple potentially influential low flows. Also, geographic information system software was used to measure 59 selected basin characteristics for each streamgage. Regional regression analysis, using generalized least-squares regression, was used to develop a set of equations for each flood region in Iowa for estimating discharges for ungaged stream sites with 50-, 20-, 10-, 4-, 2-, 1-, 0.5-, and 0.2-percent annual exceedance probabilities, which are equivalent to annual flood-frequency recurrence intervals of 2, 5, 10, 25, 50, 100, 200, and 500 years, respectively. A total of 394 streamgages were included in the development of regional regression equations for three flood regions (regions 1, 2, and 3) that were defined for Iowa based on landform regions and soil regions. Average standard errors of prediction range from 31.8 to 45.2 percent for flood region 1, 19.4 to 46.8 percent for flood region 2, and 26.5 to 43.1 percent for flood region 3. The pseudo coefficients of determination for the generalized least-squares equations range from 90.8 to 96.2 percent for flood region 1, 91.5 to 97.9 percent for flood region 2, and 92.4 to 96.0 percent for flood region 3. The regression equations are applicable only to stream sites in Iowa with flows not significantly affected by regulation, diversion, channelization, backwater, or urbanization and with basin characteristics within the range of those used to develop the equations. These regression equations will be implemented within the U.S. Geological Survey StreamStats Web-based geographic information system tool. StreamStats allows users to click on any ungaged site on a river and compute estimates of the eight selected statistics; in addition, 90-percent prediction intervals and the measured basin characteristics for the ungaged sites also are provided by the Web-based tool. StreamStats also allows users to click on any streamgage in Iowa and estimates computed for these eight selected statistics are provided for the streamgage.

Iowa↗

USGS2021

GIS object data properties

Data properties are characteristics of GIS attribute systems and values whose design and format impacts analytical and computational processing. Geospatial data are expressed at conceptual, logical, and physical levels of database abstraction intended to represent geographical information. The appropriate design of attribute systems and selection of properties should be logically consistent and support appropriate scales of measurement for representation and analysis. Geospatial concepts such as object-field views and dimensional space for relating objects and qualities form data models based on a geographic matrix and feature geometry. Three GIS approaches and their attribute system design are described: tessellations, vectors, and graphs.

Book chapter↗

USGS2015

Mapping geoelectric fields during magnetic storms: Synthetic analysis of empirical United States impedances

Empirical impedance tensors obtained from EarthScope magnetotelluric data at sites distributed across the midwestern United States are used to examine the feasibility of mapping magnetic storm induction of geoelectric fields. With these tensors, in order to isolate the effects of Earth conductivity structure, we perform a synthetic analysis—calculating geoelectric field variations induced by a geomagnetic field that is geographically uniform but varying sinusoidally with a chosen set of oscillation frequencies that are characteristic of magnetic storm variations. For north-south oriented geomagnetic oscillations at a period of T 0 =100 s, induced geoelectric field vectors show substantial geographically distributed differences in amplitude (approximately a factor of 100), direction (up to 130 ∘ ), and phase (over a quarter wavelength). These differences are the result of three-dimensional Earth conductivity structure, and they highlight a shortcoming of one-dimensional conductivity models (and other synthetic models not derived from direct geophysical measurement) that are used in the evaluation of storm time geoelectric hazards for the electric power grid industry. A hypothetical extremely intense magnetic storm having 500 nT amplitude at T 0 =100 s would induce geoelectric fields with an average amplitude across the midwestern United States of about 2.71 V/km, but with a representative site-to-site range of 0.15 V/km to 16.77 V/km. Significant improvement in the evaluation of such hazards will require detailed knowledge of the Earth's interior three-dimensional conductivity structure.

Geophysical Research Letters↗

USGS2007

Soil nematode communities are ecologically more mature beneath late- than early-successional stage biological soil crusts

Biological soil crusts are key mediators of carbon and nitrogen inputs for arid land soils and often represent a dominant portion of the soil surface cover in arid lands. Free-living soil nematode communities reflect their environment and have been used as biological indicators of soil condition. In this study, we test the hypothesis that nematode communities are successionally more mature beneath well-developed, late-successional stage crusts than immature, early-successional stage crusts. We identified and enumerated nematodes by genus from beneath early- and late-stage crusts from both the Colorado Plateau, Utah (cool, winter rain desert) and Chihuahuan Desert, New Mexico (hot, summer rain desert) at 0-10 and 10-30 cm depths. As hypothesized, nematode abundance, richness, diversity, and successional maturity were greater beneath well-developed crusts than immature crusts. The mechanism of this aboveground-belowground link between biological soil crusts and nematode community composition is likely the increased food, habitat, nutrient inputs, moisture retention, and/or environmental stability provided by late-successional crusts. Canonical correspondence analysis of nematode genera demonstrated that nematode community composition differed greatly between geographic locations that contrast in temperature, precipitation, and soil texture. We found unique assemblages of genera among combinations of location and crust type that reveal a gap in scientific knowledge regarding empirically derived characterization of dominant nematode genera in deserts soils and their functional role in a crust-associated food web. ?? 2006 Elsevier B.V. All rights reserved.

Applied Soil Ecology↗

USGS2013

Sediment transport in the San Francisco Bay Coastal System: An overview

The papers in this special issue feature state-of-the-art approaches to understanding the physical processes related to sediment transport and geomorphology of complex coastal-estuarine systems. Here we focus on the San Francisco Bay Coastal System, extending from the lower San Joaquin-Sacramento Delta, through the Bay, and along the adjacent outer Pacific Coast. San Francisco Bay is an urbanized estuary that is impacted by numerous anthropogenic activities common to many large estuaries, including a mining legacy, channel dredging, aggregate mining, reservoirs, freshwater diversion, watershed modifications, urban run-off, ship traffic, exotic species introductions, land reclamation, and wetland restoration. The Golden Gate strait is the sole inlet connecting the Bay to the Pacific Ocean, and serves as the conduit for a tidal flow of ~ 8 x 109 m 3 /day, in addition to the transport of mud, sand, biogenic material, nutrients, and pollutants. Despite this physical, biological and chemical connection, resource management and prior research have often treated the Delta, Bay and adjacent ocean as separate entities, compartmentalized by artificial geographic or political boundaries. The body of work herein presents a comprehensive analysis of system-wide behavior, extending a rich heritage of sediment transport research that dates back to the groundbreaking hydraulic mining-impact research of G.K. Gilbert in the early 20th century.

California↗

USGS2007

Using pebble lithology and roundness to interpret gravel provenance in piedmont fluvial systems of the Rocky Mountains, USA

Clast populations in piedmont fluvial systems are products of complex histories that complicate provenance interpretation. Although pebble counts of lithology are widely used, the information provided by a pebble count has been filtered by a potentially large number of processes and circumstances. Counts of pebble lithology and roundness together offer more power than lithology alone for the interpretation of provenance. In this study we analyze pebble counts of lithology and roundness in two contrasting fluvial systems of Pleistocene age to see how provenance varies with drainage size. The two systems are 1) a group of small high-gradient incised streams that formed alluvial fans and terraces and 2) a piedmont river that formed terraces in response to climate-driven cycles of aggradation and incision. We first analyze the data from these systems within their geographic and geologic context. After this is done, we employ contingency table analysis to complete the interpretation of pebble provenance. Small tributary streams that drain rugged mountains on both sides of the Santa Cruz River, southeast Arizona, deposited gravel in fan and terrace deposits of Pleistocene age. Volcanic, plutonic and, to a lesser extent, sedimentary rocks are the predominant pebble lithologies. Large contrasts in gravel lithology are evident among adjacent fans. Subangular to subrounded pebbles predominate. Contingency table analysis shows that hard volcanic rocks tend to remain angular and, even though transport distances have been short, soft tuff and sedimentary rocks tend to become rounded. The Wind River, a major piedmont stream in Wyoming, drains rugged mountains surrounding the northwest part of the Wind River basin. Under the influence of climate change and glaciation during the Pleistocene, the river deposited an extensive series of terrace gravels. In contrast to Santa Cruz tributary gravel, most of the Wind River gravel is relatively homogenous in lithology and is rounded to well-rounded. Detailed analysis reveals a multitude of sources in the headwaters and the basin itself, but lithologies from these sources are combined downstream. Well-rounded volcanic and recycled quartzite clasts were derived from the headwaters. Precambrian igneous and metamorphic clasts were brought down tributary valleys to the Wind River by glaciers, and sandstone was added where the river enters the Wind River structural basin.

Sedimentary Geology↗

USGS2019

Phylogeography and evolution of infectious hematopoietic necrosis virus in China

Infectious hematopoietic necrosis virus (IHNV) is a well-known rhabdoviral pathogen of salmonid fish. In this study, a comprehensive analysis of 40 IHNV viruses isolated from thirteen fish farms in nine geographically dispersed Chinese provinces during 2012 to 2017 is presented. Identity of nucleotide and amino acid sequences among all the complete glycoprotein (G) genes from Chinese isolates was 98.0–100% and 96.7–100%, respectively. Coalescent phylogenetic analyses revealed that all the Chinese IHN virus characterized in this study were in a monophyletic clade that had a most recent common ancestor with the J Nagano (JN) subgroup within the J genogroup of IHNV. Within the Chinese IHNV clade isolates obtained over successive years from the same salmon fish farm clustered in strongly supported subclades, suggesting maintenance and diversification of virus over time within individual farms. There was also evidence for regional virus transmission within provinces, and some cases of longer distance transmission between distant provinces, such as Gansu and Yunnan. The data demonstrated that IHNV has evolved into a new subgroup in salmon farm environments in China, and IHNV isolates are undergoing molecular evolution within fish farms. We suggest that Chinese IHNV comprises a separate JC subgroup within the J genogroup of IHNV.

Molecular Phylogenetics and Evolution↗

USGS2001

Habitat evaluation using GIS a case study applied to the San Joaquin Kit Fox

Concern over the fate of plant and animal species throughout the world has accelerated over recent decades. Habitat loss is considered the main culprit in reducing many species' abundance and range, leading to numerous efforts to plan and manage habitat preservation. Our work uses Geographic Information Systems (GIS) data and modeling to define a spatially explicit analysis of habitat value, using the San Joaquin Kit Fox (Vulpes macrotis mutica) of California (USA) as an example. Over the last 30 years, many field studies and surveys have enhanced our knowledge of the life history, behavior, and needs of the kit fox, which has been proposed as an umbrella or indicator species for grassland habitat in the San Joaquin Valley of California. There has yet been no attempt to convert much of this field knowledge into a model of spatial habitat value useful for planning purposes. This is a significant omission given the importance and visibility of the imperiled kit fox and increasing trends toward spatially explicit modeling and planning. In this paper we apply data from northern California to derive a small-cell GIS raster of habitat value for the kit fox that incorporates both intrinsic habitat quality and neighborhood context, as well the effects of barriers such as roads. Such a product is a useful basis for assessing the presence and amounts of good (and poor) quality habitat and for eventually constructing GIS representations of viable animal territories that could be included in future reserves. ?? 2001 Elsevier Science B.V.

Landscape and Urban Planning↗