AndreaBozzo/ceres-open-data-index huggingface dataset:
Data from a national survey for the amphibian chytrid fungus Batrachochytrium salamandrivorans (ver. 2.0, Nov 2024)

This dataset provides the results of a national survey of the United States for the salamander chytrid fungus Batrachochytrium salamandrivorans (Bsal) and the amphibian chytrid fungus Batrachochytrium dendrobatidis (Bd) conducted by the U.S. Geological Survey Amphibian Research and Monitoring Initiative from May 2014 to August 2017. Sites were sampled by capturing amphibians by hand or by traps or nets that were then swabbed individually using methods that prevent sample contamination. All swabs were then analyzed using a real-time TaqMan PCR for detection of B. salamandrivorans and Bd on the extracted DNA. The data consist of locality information and data on the individual sampled, as well as the result of the test for B. salamandrivorans and Bd. No cases of B. salamandrivorans were detected in this study.

Tags: amphibians, biota, united-states, usgs-5af5ef0de4b0da30c1b5f9eb, wildlife-disease
Organization: Department of the Interior
Survey data of larval fish, zooplankton, and aquatic plants collected from the St. Clair River delta, MI (2010-2011)

The St. Clair River delta, part of the St. Clair-Detroit River System (SCDRS), is the most fished coastal wetland area in the Laurentian Great Lakes and provides nursery habitat for a variety of fish species; however, few large-scale surveys of early fish life stages have been performed since the 1980s. Larval fish, zooplankton, and aquatic plants were sampled at 21 sites in delta channels and backwaters of the St. Clair-Detroit River System (SCDRS; USA/CAN) from May to July in 2010 and 2011 to characterize the habitats and resources used by larval fish in the delta. Larval fish were captured using conical nets and light traps, and diets from larval white sucker (Catostomus commersonii) were collected at three sites.

Tags: animal-and-plant-census, biota, fish, great-lakes, lake-st-clair, plants-organisms, usgs-5af5e329e4b0da30c1b5f994, zooplankton
Organization: Department of the Interior
Soil surface elevation dynamics in a mangrove-to-marsh ecotone characterized by vegetation shifts

This release consists of soil surface elevation, also called vertical land motion of the wetland (VLMw), and vertical accretion data collected over time across an environmental gradient at Ten Thousand Islands National Wildlife Refuge near Naples, Florida, USA. VLMw was measured using rod surface elevation tables, while accretion was measured using feldspar marker horizons (i.e., RSET-MH technique). Stations were located in the following wetland types: brackish marsh, salt marsh, transition marsh, and mangrove forest. Vegetation cover in the vicinity of the RSET-MH stations was described. The study spanned six years, from 2011 to 2017.

Tags: accretion, biota, elevation, estuarine-ecosystems, mangrove, naples-florida, salt-marsh, ten-thousand-islands-national-wildlife-refuge, usgs-5af5aa1ce4b0da30c1b5f4e5
Organization: Department of the Interior
Data for forecasting buffelgrass distribution with global distribution data, local data, and physiological information

This data bundle contains some of the inputs, all of the processing instructions and all outputs from two VisTrails/SAHM workflows, one creating a global habitat suitability model for buffelgrass and another creating a habitat suitability model for buffelgrass in Saguaro National Park, AZ.  The bundle documentation files are:
1) '_archive_bundle_metadata.xml' (this file) which contains FGDC metadata describing the archive bundle.
2) 'modelSelectionCV_MakeAbsPntsFilt100_2.csv' containing the field data used as inputs for the Saguaro National Park model.
2) '_archive_raster_inputs.csv' a list of the raster inputs that were used to generate these model results. These are not included in the archive bundle due to size constraints but are identified in this file as well as the metadata document.
3) '_archive_workflow_Final_model_output.vt'  where 'Final_model_output' is the name of the history node for the global model and 'SNP final model' is the name of the history node for the Saguaro National Park model being archived in this bundle. Contains a VisTrails/SAHM workflow document which contains the workflow that was used to create these outputs.
4) '_archive_workflow_Final_model_output.vt'  where Final_model_output is the name of the history node being archive in this bundle. Contains a VisTrails/SAHM workflow document which contains the workflow that was used to create these outputs.
The remaining data files are the spatial and diagnostic model outputs.

Tags: biota, buffelgrass, cenchrus-ciliaris, habitat-suitability, saguaro-national-park, saguaro-national-park-az, sahm, software-for-assisted-habitat-modeling, species-distribution-modeling, usgs-5af5a803e4b0da30c1b5f4e0, vistrails
Organization: Department of the Interior
Data release for the potential role of very high-resolution imagery to characterise lake, wetland and stream systems across the Prairie Pothole Region, United States

Aquatic features critical to watershed hydrology range widely in size from narrow, shallow streams to large, deep lakes. In this study we evaluated wetland, lake, and river systems across the Prairie Pothole Region to explore where pan-sharpened high-resolution (PSHR) imagery, relative to Landsat imagery, could provide additional data on surface water distribution and movement, missed by Landsat. We used the monthly Global Surface Water (GSW) Landsat product as well as surface water derived from Landsat imagery using a matched filtering algorithm (MF Landsat) to help consider how including partially inundated Landsat pixels as water influenced our findings. The PSHR outputs (and MF Landsat) were able to identify ~60-90% more surface water interactions between waterbodies, relative to the GSW Landsat product. However, regardless of Landsat source, by documenting many smaller (&lt;0.2 ha), inundated wetlands, the PSHR outputs modified our interpretation of wetland size distribution across the Prairie Pothole Region.

Tags: geoeye-1, lakes, landsat-5, landsat-7, landsat-8, nebraska, north-dakota, prairie-pothole-region, quickbird-2, rivers, south-dakota, surface-water, usgs-5af4b91ee4b0da30c1b44f2b, wetlands, worldview-2
Organization: Department of the Interior
Generalized regions of the Mississippi Alluvial Plain

As part of the U.S. Geological Survey (USGS) Water Availability and Use Science Program study of the Mississippi Alluvial Plain (MAP), a shapefile representing seven generalized regions of the MAP extent as defined by Painter and Westerman (2018) was compiled. The generalized regions provide a framework for analysis, visualization, and regional comparisons of local data within the MAP.  Regions north of the Red River were based on those described by Ackerman (1996). The Grand Prairie region includes the area north and east of the Arkansas River and south and west of the White River within the MAP.  The Cache region includes the area north and east of the White River and the area generally west of Crowley’s Ridge, which lies outside of the MAP extent (Painter and Westerman, 2018), bisects the northern part of the MAP, and has elevations 100 to 250 feet (ft) higher than the MAP (Ackerman, 1996). The Delta region, which is roughly equivalent to the Yazoo River drainage, lies predominately in Mississippi and covers much of the area east of the Mississippi River within the MAP. The Boeuf region covers the area north of the Red River and the Little Old River - Mississippi River confluence, the area south of the Arkansas River, and the area west of the Delta region within the MAP. The St. Francis region lies generally east of Crowley’s Ridge and north of the Delta region in parts of Tennessee, Kentucky, Illinois, Missouri, and Arkansas. The regions south of the Red River and the Little Old River – Mississippi River confluence were based primarily on depositional environment (Saucier, 1994). The Atchafalaya region contains the Atchafalaya River. The Deltaic and Chenier Plains region lies south of the Atchafalaya region and covers the southernmost part of the MAP. In order to keep the regions contiguous, some relatively small parts of the Deltaic and Chenier Plains as defined by Saucier (1994) were included within the boundary of the Atchafalaya region defined for this study, and vice-versa. 
References
Ackerman, D.J., 1996, Hydrology of the Mississippi River Valley alluvial aquifer, South-Central United States: U.S. Geological Survey Professional Paper 1416-D, 56 p., 8 pls. in pocket.
Painter, J.A., and Westerman, D.A., 2018, Mississippi Alluvial Plain extent, November 2017: U.S. Geological Survey data release, https://doi.org/10.5066/F70R9NMJ.
Saucier, R.T., 1994, Geomorphology and Quaternary geologic history of the Lower Mississippi Valley: U.S. Army Engineer Waterways Experiment Station, Vicksburg, MS, Vols. I and II, 398 p., 28 pls.

Tags: aquifer, arkansas, arkansas-river, atchafalaya, atchafalaya-river, cache, delta, geomorphology, grand-prairie, groundwater, hydrology, illinois, inlandwaters, kentucky, little-old-river, louisiana, mississippi, mississippi-alluvial-plain, mississippi-river, missouri, red-river, st-francis, tennessee, u-s-geological-survey, usgs, usgs-5af4af97e4b0da30c1b44f05, water-availability-and-use-science-program, yazoo-river
Organization: Department of the Interior
Bathymetry of the Hong and Luoc River Junction, Red River Delta, Vietnam, 2010

The U.S. Geological Survey, in collaboration with the Water Resources University in Hanoi, Vietnam, conducted a bathymetric survey of the junction of the Hong and Luoc Rivers.  The survey was carried out in December 2010 using a boat-mounted multibeam echo sounder integrated with a global positioning system. A bathymetric map of the Hong and Luoc River junction was produced which was referenced to the datum of the Trieu Duong tide gage on the Luoc River. This data release contains the data used to produce the bathymetric map.

Tags: bathymetry, hong-river, mulitbeam-sonar, usgs-5af4aad8e4b0da30c1b44ee9, vietnam
Organization: Department of the Interior
Canine distemper virus antibody titer results for grizzly bears and wolves in the Greater Yellowstone Ecosystem 1984-2014

We investigated the dynamics of canine distemper virus (CDV) in grizzly bears (Ursus arctos) and wolves (Canis lupus) of the Greater Yellowstone Ecosystem (GYE) using serological data collected from 1984 to 2014. 565 sera samples were obtained from 425 unique grizzly bears (134 females and 291 males) from 1984 to 2014 and 319 sera samples were obtained from 285 unique wolves (130 females and 155 males) from 1996 to 2014. Here we provide the unique identifier for each individual, the species and sex, the date the individual was captured, the estimated birth year and age, and the CDV antibody titer results based upon serum neutralization assays.

Tags: biota, canine-distemper-virus, ecology, grand-teton-national-park, grizzly-bear, idaho, montana, serology, usgs-5af4a5dee4b0da30c1b44ebd, wildlife-disease, wolf, wyoming, yellowstone-national-park
Organization: Department of the Interior
Nutrient and pesticide data collected from the USGS National Water Quality Network and previous networks, 1963-2017

The National Water Quality Network (NWQN) for Rivers and Streams includes 111 surface-water river and stream sites monitored by the U.S. Geological Survey (USGS) National Water Quality Program, National Water-Quality Assessment (NAWQA) Project. The NWQN includes 20 large river coastal sites, 41 large river inland sites, 30 wadeable stream reference sites, 10 wadeable stream urban sites, and 10 wadeable stream agricultural sites. In addition to the 111 NWQN sites, 3 large inland river monitoring sites from the USGS Cooperative Water Program are also included in this annual water-quality reporting Web site to be consistent with previous USGS studies of nutrient transport in the Mississippi-Atchafalaya River Basin. This data release provides streamflow, nutrient, pesticide and sediment data collected and analyzed by NWQN and other historical water-quality networks from 1963-2017. Data from this release are presented at the USGS Tracking Water Quality page: http://cida.usgs.gov/quality/rivers/home.

Tags: nutrient-content, pesticide-and-herbicide-contamination, river-systems, sediment-transport, streamflow, usgs-5af49c2ae4b0da30c1b44e2b, water-quality
Organization: Department of the Interior
Shell Island East Barrier Island Restoration (BA-0110): 2013 habitat pre-construction classification

This data set includes mosaicked aerial photographs for the Shell Island East Barrier Island Restoration (BA-0110) project for 2013. This data is used as a basemap habitat classification. If repeated, it can also serve as a visual tool for project managers to help them identify any obvious problems or land loss within their project boundary. To better evaluate the effectiveness of restoration efforts, a habitat classification was performed on specific projects to help assess landscape changes.

Tags: aerial-photography, ba-110, coastal-louisiana, digital-elevation-models, doqq, ecosystem-monitoring, geographic-information-systems, gulf-of-mexico, habitats, image-collections, image-mosaics, louisiana, natural-resource-management, remote-sensing, south-louisiana, usgs-5b031f0ee4b0da30c1c1d802, wetland-ecosystems, wetland-restoration
Organization: Department of the Interior
Data for Tritium deposition in precipitation in the United States, 1953 - 2012

This data release documents three Microsoft Excel tables that contain estimates of tritium in precipitation data for the continental United States. 
Table 1 contains estimates of tritium in precipitation for precipitation stations located in the continental United States. Measured precipitation data are formatted in regular font while correlated data are italicized. Table 2 contains tritium in precipitation for ninety-six 2-degree latitude by 5-degree longitude quadrangles covering the continental U.S. Latitudes are north of the equator and longitudes are west of the prime meridian. Please see the processing steps below and the main manuscript for additional details on the results presented in this table.
Table 3 lists the correlation coefficients used to correlate tritium in precipitation data from Vienna, Austria to the station or quadrangle for dates after January 1, 1987. The coefficient of determination, also known as the R-squared values is listed for each month. Copies of each table also are provided in comma separated formats.

Tags: cycle-3, groundwater, groundwater-age, nawqa, precipitation, tracers, tritium, usgs-5af49307e4b0da30c1b44e10, water-quality
Organization: Department of the Interior
Monitoring Data for Willow Creek Lake, Nebraska, 2012–14—Microcystin

As a part of the statewide Public Beach Monitoring Program–Bacteria and Microcystin, the Lower Elkhorn Natural Resources District collected weekly samples at Willow Creek Lake to monitor microcystin concentrations. The monitoring generally followed the procedures described by Graham and others (2008) for recreational areas. Sampling occurred weekly during May through September, 2006 to 2014, though data provided in this Data Release are limited to 2012 to 2014. Grab samples were collected from the water surface by wading at the south-shore swimming beach.  In the laboratory, the samples underwent three freeze-thaw cycles to lyse the cells prior to analysis using the enzyme-linked immunosorbent assay technique to measure total microcystin (MC) concentration (Metcalf and Codd, 2003).

Tags: harmful-algal-blooms, nutrient-content-water, usgs-5af4477ce4b0da30c1b44822, willow-creek, willow-creek-lake
Organization: Department of the Interior
Data for Monitoring animal populations with cameras using open, multistate, N-mixture models

The dataset (Link Not Yet Available) accompanies manuscript: "Monitoring animal populations with cameras using open, multistate, N-mixture models" (Link Not Yet Available). It is an .rds file that includes counts of adult female and juvenile moose (Alces alces) captured on remote cameras. The file is a 4-dimensional table that includes sites (n = 225 [indexed as 257]), years (n = 6), age classes (n = 2; adult and juveniles), and surveys per year (n = 4). The data were collected by Dr. Alexej Siren and the other co-authors (see dataset authors) in Vermont and New Hampshire, USA, from 9 January 2014 – 9 August 2019.

Tags: biota, field-sampling, new-hampshire, usgs-5af433e2-d3b1-4fde-98cf-0d45eb2b62ac, vermont
Organization: Department of the Interior
Monitoring Data for Willow Creek Lake, Nebraska, 2012–14—Meteorology

A meteorological station was deployed on the dam to measure hourly relative humidity, wind speed and direction, and photosynthetically active radiation between August 3, 2012 and October 30, 2014, with air temperature and solar radiation added on April 30, 2013. Additional meteorological data were obtained from the National Climatic Data Center (2015): Precipitation data were obtained from Pierce, Nebr.; Air temperature, wind speed, and wind direction data were obtained from Norfolk, Nebr., and were used to fill gaps in measured meteorological datasets.  These gaps primarily corresponded to the period between the beginning of the furnished data (January 1, 2012) and the onset of measurements on the dam (August 3, 2012 or April 30, 2013 depending on the measurement).

Tags: meteorology, usgs-5af36d57e4b0da30c1b2badb
Organization: Department of the Interior
Monitoring Data for Willow Creek Lake, Nebraska, 2012–14—Lake Level

Daily measurements of Willow Creek Lake water storage were provided by the Nebraska Department of Natural Resources for 2012–14.  These water levels were used in conjunction with a table (provided by the Lower Elkhorn Natural Resources District) relating lake storage volume to surface area.  From these, daily estimates of surface area were derived for the lake.

Tags: algal-blooms, nutrient-content-water, usgs-5af362dbe4b0da30c1b2bac8, willow-creek, willow-creek-lake
Organization: Department of the Interior
Chloride in water, metals in sediment and amphibian tissues and amphibian capture information from wetlands in the Williston Basin of Montana and North Dakota, 2015-2017

The data presented includes chloride concentration and specific conductance in surface water collected from 33 wetlands in the Williston Basin of Montana and North Dakota, 2015-2017 as well as count data for three species of amphibians captured at each wetland. Data also includes concentrations of metals in bed sediment and larval amphibians collected from 32 and 12 wetlands, respectively in 2015-2016. Abundance of barred tiger salamanders (Ambystoma mavortium), boreal chorus frogs (Pseudacris maculata), northern leopard frogs (Lithobates pipiens) was estimated at 33 wetlands from 2015-2017. Surface water was collected in the summer from each wetland in 2015-2017 at the same time as the amphibian surveys and analyzed for chloride. Wetland area, wetland depth and estimate of the percent shallows was also collected as habitat covariates. Specific conductance data were collected at all wetlands in order to determine the locally derived Contamination Index (chloride concentration/specific conductance). Bed sediment was collected from several locations in 32 wetlands (3 in 2015 and 30 in 2016), homogenized and analyzed for a suite of 28 metals in 2015 and 2016. Larval amphibian tissues from the three species were also analyzed for the same suite of 28 metals in 2015 and 2016. Larval barred tiger salamanders, boreal chorus frogs and northern leopard frogs were collected in 12 wetlands (2 in 2015 and 10 in 2016) and analyzed for a suite of 26 metals. Northern leopard frogs and tiger salamander larvae were analyzed as individuals while boreal chorus frogs were composited due to their small size.

Tags: amphibians, bakken, chloride-concentration, energy-resources, metal, prairie-pothole-region, usgs-5af3450ae4b0da30c1b2ba2d, williston-basin
Organization: Department of the Interior
Monitoring Data for Willow Creek Lake, Nebraska, 2012–14—Sampling Data

Chemistry data were collected or compiled from stream water, lake water, and groundwater. Stream water samples were collected more frequently to capture the range of streamflow conditions. Discretely collected samples were analyzed for nitrogen content (total Kjeldahl nitrogen and nitrate plus nitrite nitrogen) and phosphorus (total phosphorus and phosphate as phosphorus). A subset of samples were analyzed for nitrogen and oxygen isotopes associated with nitrate and phosphate, respectively, to identify nutrient sources in Willow Creek Lake.

Tags: algal-blooms, nutrient-content-water, usgs-5af4c0d5e4b0da30c1b44f5c, willow-creek, willow-creek-lake
Organization: Department of the Interior
Water, Soil, Rock, and Sediment Geochemistry Data from the Vicinity of Yellow Pine, Idaho, 2015-2017

Water and sediment samples were collected by the U.S. Geological Survey in cooperation with the U.S. Environmental Protection Agency at or near baseflow conditions from 2015-2017 in the East Fork South Fork Salmon River watershed near Yellow Pine, Valley County, Idaho. Soil, rock and tailings samples were collected in June 2015. Sampling focused on Cinnabar Creek, which flows through the Cinnabar mine site, and Sugar Creek, with additional sites selected to place the data into a larger watershed context. Grab samples were taken of the snowpack in January 2017. The water, soil, sediment, and rock samples were as described and the results are presented as separate water and solid data sets.

Tags: abandoned-mines-and-quarries, arsenic, chemical-analysis, cinnabar-creek, east-fork-south-fork-salmon-river, geochemistry, idaho, mercury, methylmercury, mine-drainage, mineral-deposits, mining-water-use, non-point-source-pollution, soil-chemistry, sugar-creek, unconsolidated-deposits, usgs-5af33bdbe4b0da30c1b2a667, valley-county, water-chemistry, water-quality, water-sampling, yellow-pine-mine
Organization: Department of the Interior