AndreaBozzo/ceres-open-data-index huggingface dataset:
Tools for use in Oregon with the Stochastic Empirical Loading Dilution Model created for U.S. Geological Survey Scientific Investigations Report 2019-5053, 116 p., https://doi.org/10.3133/sir5053

A series of tools (spreadsheets, a database and a document) to be used in conjunction with the SELDM simulations used in the publication: Stonewall, A.J., and Granato, G.E., 2018, Assessing potential effects of highway and urban runoff on receiving streams in total maximum daily load watersheds in Oregon using the Stochastic Empirical Loading and Dilution Model: U.S. Geological Survey Scientific Investigations Report 2019-5053, 116 p., https://doi.org/10.3133/sir20195053

Tags: bear-creek, biota, copper, mill-creek, oregon, phosphorus, sediment-transport, suspended-material-water, usgs-5cfabedde4b0bb6e113637f8
Organization: Department of the Interior
Geochemistry of fine-grained sediment in Bellingham Bay, Nooksack River, and small creeks from June 2017 to September 2019

Elemental compositions are reported for the fine fraction of surface sediments from Bellingham Bay (June 2017 and March 2019) and in the fine fraction of streambank sediment from the Nooksack River (September 2017, March 2019, September 2019), Squalicum Creek (March and September 2019), Whatcom Creek (March and September 2019), and Padden Creek (March and September 2019). Major oxide percentages are reported in Nooksack River fine sediment collected in September 2017. Ancillary data for sediment collected during 2017 and 2019 from Bellingham Bay, Nooksack River, and small creeks include: percent weights of gravel, sand, and fines; total organic carbon content (TOC); carbonate content (CaCO3); ratios of stable carbon 13/12 (d13C) and nitrogen 15/14 (d15N) isotopes and total carbon to total nitrogen (C:N); and short-lived cosmogenic radionuclide activities (Beryllium-7, Cesium-137, and excess Lead-210).

Tags: bellingham-bay, chuckanut-bay, cmhrp, coastal-and-marine-hazards-and-resources-program, environment, geochemistry, geoscientificinformation, grab-sampling, mass-spectroscopy, mercury-analysis, mount-baker, nooksack-river, pacific-coastal-and-marine-science-center, padden-creek, pcmsc, radiometric-dating, rare-earth-elements, samish-bay, sediment-geochemistry, squalicum-creek, stable-isotope-analysis, substrate, table-mountain, toxic-trace-element-contamination, u-s-geological-survey, usgs, usgs-5cfa8fbbe4b0bb6e1136370c, whatcom-creek
Organization: Department of the Interior
Mangrove Data Collected from J.N. "Ding" Darling National Wildlife Refuge, Sanibel Island, Florida, United States

Mangrove inventory data from J.N. Ding Darling National Wildlife Refuge, Sanibel Island, Florida, USA collected in 2016 and 2017. Plot data includes X and Y downed dead wood count, mangrove species information and site descriptions. Tree data includes the three species found on the refuge: Avicennia germinans (Black mangroves), Laguncularia racemosa (White mangroves) and Rhizophora mangle (Red mangroves). They were inventoried for diameter at breast height (DBH), height, and dead status.

Tags: allometry, biomass, carbon-sinks, ecosystem-management, field-inventory-and-monitoring, florida, mangroves, sanibel, united-states, usgs-5cfa89bde4b0bb6e113636ff
Organization: Department of the Interior
Perfluoroalkyl contaminant exposure in tree swallows nesting at Clarks Marsh, Oscoda, MI Dataset

A site in north eastern MI, Oscoda Township, has some of the highest recorded exposure in birds to perfluorinated substances (PFASs) in the U.S.  Some egg and plasma concentrations at that location exceeded the lowest reproductive effect threshold established for two avian laboratory species.  The objectives of this study were to determine whether there were reproductive effects or physiological responses in a model bird species, the tree swallow (Tachycineta bicolor), associated with this extremely high exposure to PFASs.  The lack of exposure above background to other contaminants at this site allowed for an assessment of PFAS effects without the complication that responses may be caused by other contaminants.  A secondary objective was to determine the distribution of PFASs in multiple tissue types to better understand and interpret residues in different tissues.  This can best be done at highly exposed locations where tissue concentrations would be expected to be above detectable levels if they are present in that tissue.  There were no demonstrable effects of PFAS exposure on reproduction nor on most physiological responses.

Tags: biota, clarks-marsh-oscoda-michigan-usa, oscoda-michigan-usa, perfluorinated-chemicals, pfos, physiological-responses, reproductive-effects, tree-swallows, usgs-5cf9752ce4b049f7d17e408b, wurtsmith-airforce-base-oscoda-michigan-usa
Organization: Department of the Interior
2016 Zooplankton sampling in San Joaquin River and False River near Jersey Island in the Sacramento-San Joaquin River Delta of Contra Costa County, California, USA (ver. 2.0, April 2020)

This data set contains information on zooplankton and associated environmental parameters for sampling conducted in the San Joaquin River and False River near their confluence at Jersey Point (Contra Costa County, California), during February-March, 2016.  Macrozooplankton were sampled with vertical tows (bottom to surface) of a 50 cm-diameter conical plankton net that was 150cm long with 102µm mesh. Samples were preserved in the field in 10% formalin for laboratory processing that was conducted by a contractor (EcoAnalysts, Inc).

Tags: aquatic-biology, biota, california, california-delta, false-river, sacramento-river, san-joaquin-river, tidal-wetland, united-states, usgs-5cf95725e4b049f7d17e3fa8, zooplankton
Organization: Department of the Interior
Data on the Efficacy of Five Pulicides as Tools for Suppressing Fleas on Black-tailed Prairie Dogs, South Dakota, 2015-2017

Data on the efficacy of 5 pulicides as tools for suppressing fleas on black-tailed prairie dogs in Buffalo Gap National Grassland, South Dakota, 2015-2017. Fleas were collected from live-trapped prairie dogs on non-treated (CONTROL) sites and nearby sites treated with pulicides for flea control. Data are from 3 prairie dog colonies (South Exclosure, Cutbank, and Big Foot). We tested the following pulicides: Alpine ALPINE dust (0.25% dinotefuran wih 95% diatomaceous earth), Dusta-cide MALATHION dust (6% malathion), Sevin SEVIN dust (5% carbaryl), Tri-Die TRIDIE dust (1% pyrethrum with 40% amorphous silica and 10% piperonyl butoxide), and FIPRONIL grain (0.005% fipronil). Two sets of data are presented, each with flea counts (Fleas) from prairie dogs. Each line of data is from an individual prairie dog.
The first set of data, Shortterm BACIs 2015-17, includes data from short-term before-after-control-impact (BACI) experiments comparing the abundance of fleas on prairie dogs at non-treated and treated sites in 3 time intervals: before pulicide treatments (Before), from 1 to 30 days after the treatments (After-1), and from 31 to 91 days after the treatments (After-2).
The second set of data, Longterm BACI 2016-17, includes data from long-term BACI experiments comparing the abundance of fleas on prairie dogs at non-treated and treated sites in 3 time intervals: before pulicide treatments (June-July 2016), 11 months after the treatments (June 2017), and 12 months after the treatments (July 2017).
Funding and logistical support were provided by the U. S. Geological Survey, U. S. Forest Service, National Park Service, U. S. Fish and Wildlife Service, Colorado State University, Prairie Wildlife Research, National Fish and Wildlife Foundation, and World Wildlife Fund.

Tags: biota, black-footed-ferret, buffalo-gap-national-grassland, flea, insecticide, plague, prairie-dog, pulicide, south-dakota, usgs-5cf937c8e4b049f7d17e3e02, yersinia-pestis
Organization: Department of the Interior
Post-wildfire debris flow and rainfall data, Whitewater-Baldy complex fire, southwestern New Mexico

During the spring and early summer of 2012, approximately 1,200 square kilometers of Gila National Forest in southwestern New Mexico, including the upper portions of the Whitewater Creek watershed, were burned by the Whitewater-Baldy Complex Fire. The following September 12-17, 2013, a near-record, one-week long storm event produced widespread, historic rainfall amounts throughout the southwest U.S. in four distinct pulses. Data published here include GIS shapefiles of documented erosional features associated with the September 2013 storms and associated rainfall data.  Data files are numbered 1-9.  Shapefiles provided in this data release include: 1) polygon of the study area; 2) point locations of 688 debris-flow initiations; 3) polyline shapefiles of 310 debris-flow channels within the Whitewater Creek watershed; 4) polygon shapefiles of areas experiencing erosion by rilling; 5) polyline shapefiles of field-surveyed features including 3 debris flows and 2 rill-area transects; and 6) point shapefile of debris-flow cross-sectional survey locations.  Tabulated data provided in this data release include: 7) debris-flow channel cross-sectional survey data; 8) topographic transect data for areas experiencing erosion by rilling; and 9) rainfall data for the period beginning 00:00  2013-09-12 through 23:51 MST of 2013-09-17 for USGS rain gages 09442980 - Mineral Creek Near Glenwood, NM and 09443800 - Whitewater Creek at Catwalk NRT, Near Glenwood, NM.

Tags: biota, erosion, fires, landslides, usgs-5cf81a44e4b07f02a70465b2
Organization: Department of the Interior
TIMA-X bright phase analysis of platinum-group minerals in selected samples from the Chrome and Iron Mountain areas of the Stillwater Complex, Montana

Sulfide- and chromite-bearing samples of the Basal and Ultramafic series of the Stillwater Complex are known to contain elevated concentrations of platinum-group elements (PGE). Thin sections were prepared from drill core and surface samples from the Chrome and Iron Mountain areas. Core samples are from exploration drilling programs by AMAX in the 1960s and 1970s and Beartooth Platinum in 2004-2007. The degree to which PGE occur in the rocks as discrete platinum-group minerals was investigated using a TESCAN Integrated Mineral Analyser (TIMA-X) based on a TESCAN MIRA 3 field-emission scanning electron microscope coupled with an EDAX energy-dispersive spectrometer. TIMA-X combines backscattered electron (BSE) imaging and energy-dispersive spectroscopy (EDS) to identify minerals. Thin sections were first analyzed using Bright Phase Search mode which performs a rapid search for the specific particles of interest (platinum-group minerals). Due to their high average atomic number, platinum-group, gold, and silver minerals appear very bright in BSE mode. Once the minerals were located on thin sections, the spots associated with the bright phases were reoccupied so that energy-dispersive spectra could be acquired for the platinum-group minerals and the other minerals surrounding them. 
Each Portable Document Format (PDF) file in this data release (EDAX Chrome-Iron Mountain EDS pdf reports.zip) consists of an annotated BSE image of an identified area of interest and energy-dispersive spectra of the platinum-group minerals and surrounding minerals (usually sulfides and/or chromite). Separate high-resolution BSE images of each identified area of interest are provided in Tagged Image File Format (TIF) format in a separate zip folder (TESCAN MIRA 3 Chrome-Iron Mountain BSE images.zip).
An accompanying comma-separated values (CSV) file is provided that lists the samples that were analyzed, drill hole identification number and depth (if applicable), and latitude/longitude location information. The sample names can be correlated to the pdf and tif file names. Any use of trade, product, or firm names is for descriptive purposes only and does not imply endorsement by the U.S. Government.

Tags: chrome-mountain, montana, palladium, platinum, stillwater, sweet-grass, ultramafic-intrusive-rock, usgs-5cf814a5e4b07f02a704659c
Organization: Department of the Interior
Minisparker seismic-reflection data from field activity L-1-06-SF collected offshore Bolinas to San Francisco, California from 2006-09-25 to 2006-10-03

High-resolution single-channel minisparker seismic-reflection data were collected by the U.S. Geological Survey in September and October 2006 offshore Bolinas to San Francisco, California. Data were collected aboard the R/V Lakota, during field activity L-1-06-SF. Minisparker data were collected using a SIG 2-mille minisparker sound source combined with a single-channel streamer, and recorded with a Triton SB-Logger.

Tags: bathymetry-and-elevation, bolinas, cmhrp, coastal-and-marine-hazards-and-resources-program, elevation, geoscientificinformation, geospatial-datasets, golden-gate, marine-geophysics, north-pacific-ocean, ocean-beach, oceans, pacific-coastal-and-marine-science-center, pacific-ocean, pcmsc, san-francisco, seismic-reflection-profiling, state-of-california, sub-bottom-profiling, u-s-geological-survey, usgs, usgs-5cf804f3e4b07f02a7046555
Organization: Department of the Interior
Chirp seismic-reflection data from field activity L-1-06-SF collected offshore Bolinas to San Francisco, California on 2006-09-30

High-resolution Chirp seismic-reflection data were collected by the U.S. Geological Survey in September 2006 offshore San Francisco, California. Data were collected aboard the R/V Lakota, during field activity L-1-06-SF. Chirp data were collected using an EdgeTech 512 chirp subbottom profiler and recorded with a Triton SB-Logger.

Tags: bathymetry-and-elevation, cmhrp, coastal-and-marine-hazards-and-resources-program, elevation, geoscientificinformation, geospatial-datasets, golden-gate, marine-geophysics, north-pacific-ocean, ocean-beach, oceans, pacific-coastal-and-marine-science-center, pacific-ocean, pcmsc, san-francisco, seismic-reflection-profiling, state-of-california, sub-bottom-profiling, u-s-geological-survey, usgs, usgs-5cf804c0e4b07f02a7046551
Organization: Department of the Interior
North American Breeding Bird Survey Dataset 1966 - 2016, version 2016.0

The 1966-2016 North American Breeding Bird Survey (BBS) dataset contains avian point count data for more than 700 North American bird taxa (species, races, and unidentified species groupings). These data are collected annually during the breeding season, primarily in June, along thousands of randomly established roadside survey routes in the United States and Canada. Routes are roughly 24.5 miles (39.2 km) long with counting locations placed at approximately half-mile (800-m) intervals, for a total of 50 stops. At each stop, a citizen scientist highly skilled in avian identification conducts a 3-minute point count, recording every bird seen or heard within a quarter-mile (400-m) radius. Surveys begin 30 minutes before local sunrise and take approximately 5 hours to complete. Routes are sampled once per year, with the total number of routes sampled per year growing over time; just over 500 routes were sampled in 1966, while in recent decades approximately 3000 routes have been sampled annually. In addition to avian count data, this dataset also contains survey date, survey start and end times, start and end weather conditions, a unique observer identification number, route identification information, and route location information including country, state, and BCR, as well as geographic coordinates of route start point, and an indicator of run data quality.

Tags: avian-point-counts, biodiversity, birds, canada, north-america, population-distribution, population-trends, relative-abundance, united-states, united-states-of-america, usgs-5cf7d4d5e4b07f02a7046479
Organization: Department of the Interior
Microbial and chemical contaminant occurrence and concentration in groundwater and surface water proximal to large-scale poultry facilities and poultry litter, 2016

Chemical and biological results, quality assurance and quality control, and method information from groundwater, surface water, and litter samples, collected from nine locations in Iowa and one in Wisconsin in 2016. Thirteen groundwater,  nine surface water, four poultry litter, and four QA/QC samples were collected. Samples were analyzed at U.S. Geological Survey laboratories; bacteria, pathogens, and antibiotic resistance genes at the Michigan Bacteriological Research Laboratory, F+ specific coliphage at the St. Petersburg Coastal and Marine Science Center, hormones and antibiotics at the Organic Geochemistry Research Laboratory, nutrients at the National Water Quality Laboratory, total estrogenicity at Fish Health Laboratory.

Tags: antibiotic-resistant-bacteria, antibiotic-resistant-genes, antibiotics, biota, groundwater, hormones, iowa, nutrients, pathogen-genes, poultry-litter, surface-water, united-states, usgs-5cf7ccb6e4b07f02a7046469, wisconsin
Organization: Department of the Interior
Characteristics of Bacteria and Water Quality along the Buffalo National River 2017-2018

A National Park Service Partnership Program project was conducted in 2017 - 2019 on water quality parameters up-stream and downstream of a confined animal feeding operation on a Buffalo National River tributary (Big Creek).  Monthly, over a period of 20 months, patterns of nutrients in water (nitrogen and phosphorus), periphyton (chlorophyll a and algal assemblages), and bacterial responses (viable bacterial densities, total bacterial counts, and live bacterial metabolic activity) were measured at six sites along Buffalo National River.  Heterotrophic bacteria were concentrated from the water samples. The metabolic activity of heterotrophic bacteria was determined by fluorescent staining of enzyme (esterase) activity then analysis by flow cytometry; live cells were cultured and counted from Luria agar; and total bacterial counts were done by flow cytometry using preserved samples.  Water quality parameters are published in National Water Information System (NWIS; https://waterdata.usgs.gov/nwis). A laboratory study tested if organic wastewater contaminant compounds in classes previously identified in the watershed would influence bacterial metabolic activity.

Tags: bacteria, environment, pesticide-and-herbicide-contamination, upper-arkansas, usgs-5cf7c68ae4b07f02a704645a, waste-treatment-and-disposal, water-quality
Organization: Department of the Interior
Data points, corresponding to the bathymetric survey of Lago Guayabal, Puerto Rico, December 2017

This dataset is a point shapefile containing water-depth points collected during a sedimention survey of Lago Guayabal conducted during the period December 11- December 14, 2017 by the Puerto Rico office of the Caribbean-Florida Water Science Center of the U.S. Geological Survey (USGS).  The goals of the survey were to determine reservoir infill sedimentation rates, generate a bathymetric map of the reservoir, and create a stage-volume relation. More than 270,000 water-depth points were surveyed along 60 navigation lines used in previous sedimentation surveys (Soler-Lopez, 2003, 2007, 2008).   All water-depth data were collected using a Teledyne-Odom Echotrac CVM depth sounder coupled to a Global Positioning System (GPS). Esri ArcGIS software, version 10.5 (Environmental Systems Research Institute, 2017), was used to edit the depth data and create a triangulated irregular network (TIN) model, from which bathymetric contours and a stage-volume relation were generated.

Tags: bathymetry, bathymetry-and-elevation, gnis-1611313, juana-diaz, lago-guayabal, puerto-rico, usgs-5cf7aee1e4b07f02a704642c, villalba-county
Organization: Department of the Interior
Bathymetric contours of Lago Guayabal, Puerto Rico, December 2017

This dataset is a polyline shapefile containing bathymetric contours, at 1-meter intervals, of Lago Guayabal, Villalba, Puerto Rico. The contours were generated from bathymetric data collected during a sedimentation survey conducted during the period December 11- December 14, 2017 by the Puerto Rico office of the Caribbean-Florida Water Science Center of the U.S. Geological Survey (USGS).  The goals of the survey were to determine reservoir infill sedimentation rates, generate a bathymetric map of the reservoir, and create a stage-volume relation.  Field techniques used during the survey were similar to those outlined by Soler-López (2008) and Wilson and Richards (2006). More than 270,000 water-depth points were surveyed along 60 navigation lines  used in previous sedimentation surveys (Soler-López, 2003, 2008). All water-depth data were collected using a Teledyne-Odom Echotrac CVM depth sounder coupled to a Global Positioning System (GPS). Esri ArcGIS, version 10.5 (reference similar to that in metadata for point shapefile), was used to edit the depth data and create a triangulated irregular network (TIN) model, from which bathymetric contours and a stage-volume relation were generated . 
References: 
Soler-López, L.R., 2003, Sedimentation History of Lago Guayabal, Puerto Rico, 1913-2001: U.S. Geological Survey Water-Resources Investigations Report 03-4198, 28 p, 2 pls.
Soler-López, L.R., 2008, Comparison of Storage Capacity and Sedimentation Trends of Lago Guayabal, Puerto Rico, December 2001 and October 2006: U.S. Geological Survey Scientific Investigation Map 2008-3016, 1 sheet 
Wilson, G.L., and Richards, J.M., 2006, Procedural Documentation and Accuracy Assessment of Bathymetric Map and Area/Capacity Tables for Small Reservoirs, U.S. Geological Survey-Scientific Investigation Report 2006-5208, 24 p. plus oversize figs,https://pubs.usgs.gov/sir/2006/5208/pdf/SIR-06-5208.pdf.

Tags: bathymetry, bathymetry-and-elevation, contouring, geographic-names-informaion-system, gnis-id-1611313, juana-diaz-county, lago-guayabal, puerto-rico, small-scale-datasets-contours, usgs-5cf7ae77e4b07f02a7046429, villalba-county
Organization: Department of the Interior
Histopathology of American kestrels (Falco sparverius) exposed to brodifacoum

This dataset describes histopathological changes in liver, kidney, heart, skeletal muscle and intestine of captive American kestrels exposed to the second-generation anticoagulant rodenticide brodifacoum (BROD). The goal of the study was to determine the toxic range of brodifacoum by feeding birds a diet containing 0.3, 1.0, or 3.0 ug BROD/g wet weight.  Birds were necropsied and examined grossly for hemorrhages or anemia, and liver, kidney, heart, pectoral muscle, and intestine was collected for histopathological evaluation. Tissues were scanned at least 100x magnification and all lesions, including hemorrhage, inflammation, and degenerative changes, were described and assigned a morphologic diagnosis with severity, chronicity, and distribution as appropriate.

Tags: american-kestrel, anticoagulant-rodenticide, biota, brodifacoum, usgs-5d279019e4b0941bde650f17, usgs-national-wildlife-health-center, usgs-patuxent-wildlife-research-center
Organization: Department of the Interior