AndreaBozzo/ceres-open-data-index huggingface dataset:
Expanded shifted ratings and estimated provisional streamflow for streamgages in the Potomac River Basin in Virginia, water years 1991 through 2013

Estimated provisional streamflow values (Messinger and Burgholzer, 2017) for streamgages in Potomac River Basin and the shifted, expanded ratings that were used to develop them are included in this dataset.  This file contains source data, daily streamflow records and selected ratings that had been saved in the National Water Information Service database for water years 1991-2013. Microsoft Excel formulas that were used to compute the estimated provisional streamflow (AltFlow) tables are included, and may be used to extend the AltFlow record following the procedure described by Messinger and Burgholzer (2017), in Appendix 2. This release also contains the existing AltFlow record for the same streamgages in comma-separated variable (csv) format.

Tags: potomac-river-basin, rating-stability, stage-discharge-relationship, streamflow, streamflow-uncertainty, streamgage-reliability, usgs-59c27d69e4b091459a61d292, virginia
Organization: Department of the Interior
Monkeypox challenge of rope squirrels: data

Monkeypox virus (MPXV) is a zoonotic disease endemic in Central and West Africa and is the most virulent orthopoxvirus affecting humans since the eradication of variola virus (VARV). In order to assess their reservoir potential, wild-caught rope squirrels were experimentally infected via intranasal and intradermal exposure with a recombinant MPXV strain from Central Africa engineered to express the luciferase gene.  After infection, we monitored viral replication via in vivo bioluminescent imaging and viral shedding via culture and PCR. MPXV infection in African rope squirrels caused mortality and moderate to severe morbidity, with clinical signs including pox lesions in the skin, eyes, mouth and nose, dyspnea, and profuse nasal discharge. Both intranasal and intradermal exposures induced high levels of viremia, fast systemic spread, and long periods of viral shedding. Shedding and luminescence peaked at day 6 post infection and was still detectable after 15 days. Evidence of viral persistence in tissues by real-time PCR was observed in animals that survived infection. Interestingly, one sentinel animal, housed in the same room but in a separate cage, also developed severe MPX disease and was euthanized. This study highlights the epidemiological importance of African rope squirrels and suggests the potential role of this rodent species as a natural reservoir host of MPXV and a source of direct transmission to humans and other animals in endemic MPX regions.

Tags: biophotonic-imaging, disease, monkeypox-virus, serology, usgs-59c265f2e4b091459a61d23d, viral-shedding
Organization: Department of the Interior
Single-Beam Bathymetric Data collected with Personal Watercraft collected within Narrow Bay, New York (2014) in XYZ ASCII text file format

Scientists from the U.S. Geological Survey St. Petersburg Coastal
and Marine Science Center in St. Petersburg, Florida, conducted a
bathymetric survey of Fire Island, New York, from October 5 to 10,
2014. The U.S. Geological Survey is involved in a post-Hurricane
Sandy effort to map and monitor the morphologic evolution of the
wilderness breach, which formed in October 2012 during Hurricane
Sandy, as part of the Hurricane Sandy Supplemental Project GS2-2B.
During this study, bathymetry data were collected, using single-beam
echo sounders and global positioning systems mounted to personal
watercraft, along the Fire Island shoreface and within the
wilderness breach, Fire Island Inlet, Narrow Bay, and Great South
Bay east of Nicoll Bay. Additional bathymetry and elevation data
were collected using backpack and wheel-mounted global positioning
systems along the subaerial beach (foreshore and backshore), and
flood shoals and shallow channels within the wilderness breach and
adjacent shoreface.

Tags: 2014-325-fa, atlantic-ocean, barrier-island, bathymetry, bellport-bay, cmgp, coastal-and-marine-geology-program, elevation, fire-island, fire-island-inlet, fire-island-national-seashore, geomorphology, geophysics, geoscientificinformation, geospatial-datasets, gps-measurement, great-south-bay, hurricane-sandy, hurricane-sandy-supplemental-fire-island, imagerybasemapsearthcover, mapping, marine-geology, narrow-bay, new-york, oceans, otis-pike-fire-island-high-dune-wilderness, sea-floor-characteristics, shoals, single-beam, single-beam-echo-sounder, spcmsc, st-petersburg-coastal-and-marine-science-center, u-s-geological-survey, united-states-of-america, usgs, usgs-59c20e20-69da-48ef-ad65-6026d05e5730, wilderness-breach
Organization: Department of the Interior
High-resolution bathymetry data collected in 2004 in Skagit Bay, Washington

These metadata describe the U.S. Geological Survey (USGS), Pacific Coastal and Marine Science Center (PCMSC) 2004 bathymetry data collected in Skagit Bay Washington that is provided as a 1-m resolution TIFF image, as well as a 1-m resolution shaded-relief TIFF image. In 2004, 2005, 2007, and 2010 the USGS, PCMSC collected bathymetry and acoustic backscatter data in Skagit Bay, Washington using an interferometric bathymetric sidescan-sonar system mounded to the USGS R/V Parke Snavely and the USGS R/V Karluk. The research was conducted in coordination with the Swinomish Indian Tribal Community, Skagit River System Cooperative, Skagit Watershed Council, Puget Sound Nearshore Ecosystem Restoration Project, and U.S. Army Corps of Engineers to characterize estuarine habitats and processes, including the sediment budget of the Skagit River and the influence of river-delta channelization on sediment transport. Information quantifying the distribution of habitats and extent that sediment transport influences habitats and the morphology of the delta is useful for planning for salmon recovery, agricultural resilience, flood risk protection, and coastal change associated with sea-level rise.

Tags: bathymetry, bathymetry-and-elevation, cmgp, coastal-and-marine-geology-program, environment, geology, geoscientificinformation, imagerybasemapsearthcover, pacific-coastal-and-marine-science-center, pcmsc, puget-sound, sea-floor-acoustic-reflectivity, seabed, seafloor-topography, skagit-bay, state-of-washington, u-s-geological-survey, usgs, usgs-59c16044e4b091459a5faec5
Organization: Department of the Interior
Metabolism estimates for 356 U.S. rivers (2007-2017): 3. Timeseries data

This dataset provides timeseries data on water quality and quantity, as collected or computed from outside sources. The format is many tables with one row per time series observation (1 tab-delimited file per site-variable combination, 1 zip file per site).
This compilation of data is intended for use in estimating or interpreting metabolism. Sites were included if they met the initial criteria of having at least 100 dissolved oxygen observations and one of the accepted NWIS site types ('ST','ST-CA','ST-DCH','ST-TS', or 'SP').
This dataset is part of a larger data release of metabolism model inputs and outputs for 356 streams and rivers across the United States (https://doi.org/10.5066/F70864KX). The complete release includes: modeled estimates of gross primary productivity, ecosystem respiration, and the gas exchange coefficient; model input data and alternative input data; model fit and diagnostic information; site catchment boundaries and site point locations; and potential predictors of metabolism such as discharge and light availability.

Tags: 007, 012, aerobic-respiration, ak, al, alabama, alaska, ar, arkansas, ca, california, carbon, carbon-dioxide, co, colorado, connecticut, ct, dc, de, delaware, dissolved-oxygen, district-of-columbia, energy-metabolism, environment, fl, florida, ga, gas-exchange, georgia, ia, id, idaho, il, illinois, in, indiana, inlandwaters, iowa, kansas, kentucky, ks, ky, la, louisiana, ma, maine, maryland, massachusetts, md, me, mi, michigan, minnesota, mississippi, missouri, mn, mo, montana, ms, mt, nc, nd, ne, nebraska, new-jersey, new-mexico, new-york, nj, nm, north-carolina, north-dakota, ny, oh, ohio, ok, oklahoma, or, oregon, oxygen, pa, pennsylvania, photosynthesis, pr, primary-production, puerto-rico, rivers, sc, sd, south-carolina, south-dakota, streams, tennessee, texas, tn, tx, united-states, us, usgs-59c03b72e4b091459a5e0b64, ut, utah, va, virginia, wa, washington, water-courses, west-virginia, wi, wisconsin, wv, wy, wyoming
Organization: Department of the Interior
Veg Data AZ GRSP Territories 2009 to 2013

These data provide information about all vegetation structure measurements (except shrub point-centered quarter measures) taken on Arizona Grasshopper Sparrow territories in 2009 to 2013 on two study sites - Audubon Appleton-Whittell Research Ranch, and BLM Las Cienegas NCA - Davis Pasture - in southeastern Arizona.

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02869e4b091459a5e0b08, vegetation
Organization: Department of the Interior
Veg Data AZ GRSP Random 2009 to 2013

These data provide information about all vegetation structure measurements (except shrub point-centered quarter measures) taken on random 1000 m transects in 2009 to 2013 on two study sites - Audubon Appleton-Whittell Research Ranch, and BLM Las Cienegas NCA - Davis Pasture - in southeastern Arizona.

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02869e4b091459a5e0b04, vegetation
Organization: Department of the Interior
Veg Data AZ GRSP Nests 2011 to 2013

These data provide information about all vegetation structure measurements (except shrub point-centered quarter measures) taken on Arizona Grasshopper Sparrow nest plots in 2011 to 2013 on two study sites - Audubon Appleton-Whittell Research Ranch, and BLM Las Cienegas NCA - Davis Pasture - in southeastern Arizona.

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02868e4b091459a5e0b00, vegetation
Organization: Department of the Interior
Plant Codes and Species

These data associate the Plant Codes used in the other habitat datasets with the appropriate common name and scientific name for the referenced plant species (or genus).

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02868e4b091459a5e0afc, vegetation
Organization: Department of the Interior
PCQ Shrub Data AZ GRSP Nests 2011 to 2013

These data provide information about the point-centered quarter measurements taken to calculate distance to the nearest shrub and shrub density for Arizona Grasshopper Sparrow nest plots.

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02866e4b091459a5e0af0, vegetation
Organization: Department of the Interior
PCQ Shrub Data AZ GRSP Nests 2011 to 2013

These data provide information about the point-centered quarter measurements taken to calculate distance to the nearest shrub and shrub density for Arizona Grasshopper Sparrow nest plots.

Tags: ammodramus-savannarum-ammolegus, arizona, arizona-grasshopper-sparrow, biota, birds, grassland-ecosystems, habitats, nest-site-habitat, santa-cruz-county, territory-habitat, united-states, usgs-59c02835e4b091459a5e0ae9, vegetation
Organization: Department of the Interior
Targeted amplicon resequencing of chelonid alphaherpesvirus 5 from tumor samples collected from Chelonia mydas (green turtle) inhabiting Hawaiian and Florida coastal waters

The files in this data release are the processed DNA consensus sequence alignment files for the chelonid herpesvirus 5 (ChHV-5) genome plus 66 open reading frames representing protien-coding genes. DNA was extracted from tumor biopsies from green sea turtles (Chelonias mydas) with fibropapillomatosis sampled from Florida and Hawaii coastal waters. We used high-throughput short-read sequencing  (Illumina MiSeq and Ion Torrent Personal Genome Machine) of long-range PCR products amplified from tumor tissue using primers designed from the single available ChHV5 reference genome from a Hawaii green sea turtle. The raw sequence data is available at the NCBI Sequence Read Archive under bioproject number PRJNA360405, including biosample numbers SAMN06210144- SAMN06210150.

Tags: biota, class-reptilia, disease-research, dna-sequencing, earth-oceans-atlantic-north-atlantic, earth-oceans-pacific, endangered-species, family-cheloniidae, family-herpesviridae, florida-indian-river-county-martin-county-sarasota, genetic-diversity, genetics, genus-chelonia, genus-scutavirus, green-sea-turtle, hawaii-hilo, hawaii-maui-county-2, hawaii-oahu-honolulu-county, infrakingdom-deuterostomia, infraphylum-gnathostomata, kingdom-animalia, marine-biology, order-herpesvirales, order-testudines, phylum-chordata, polymerase-chain-reaction, reptiles, sea-turtles, species-chelonia-mydas, species-chelonid-alphaherpesvirus-5, subfamily-alpheherpesvirinae, subfamily-cheloniinae, subkingdom-bilateria, suborder-cryptodira, subphylum-vertebrata, superclass-tetrapoda, superfamily-chelonioidea, usgs-59c01bede4b091459a5e0aaa, virology, viruses
Organization: Department of the Interior
Bathymetric Data at Highway Bridges crossing the Lower Gasconade River after May 2017 Flood in Central Missouri (ver 2.0, May 2019)

These data are high-resolution bathymetry (riverbed elevation) in ASCII format, generated from hydrographic surveys near six highway bridge structures over the Gasconade River in central Missouri.  These sites were surveyed in June 2017 to help identify possible effects from extreme flooding on May 1-2, 2017.  At the five downstream sites, hydrographic data were collected using a high-resolution multibeam echosounder mapping system (MBMS), which consists of a multibeam echosounder (MBES) and an inertial navigation system (INS) mounted on a marine survey vessel.  Data were collected as the vessel traversed the river along planned survey lines distributed throughout the reach.  Data collection software integrated and stored the depth data from the MBES and the horizontal and vertical position and attitude data of the vessel from the INS in real time.  At the upstream-most site, hydrographic data were collected using a high-resolution multibeam scanning echosounder system (MSES), which consists of a multibeam profile echosounder and high-precision pan-tilt base unit mounted on a tripod.  Data were collected as the MSES unit rotated about various tripod setups distributed throughout the reach.  Data collection software integrated and stored the range and angular measurements from the MSES.  For all the sites, data processing required computer software to extract bathymetry data from the raw data files, to edit and align the data, and to summarize and map the information.
First posted October 3, 2017
Revised May 15, 2019, ver. 2.0

Tags: ascii, bathymetry, elevation, gasconade, gasconade-river, geology, geoscientificinformation, imagerybasemapsearthcover, inland-waters, inlandwaters, jerome, location, missouri, mo, mount-sterling, multibeam, oceans, rich-fountain, structure, u-s-geological-survey, usa, usgs, usgs-59c01138e4b091459a5e0a52, vienna, water-depth, xyz
Organization: Department of the Interior
Chance of moderate (MMI = VII) damaging earthquake shaking in 100 years

This data set portrays the spatial potential for damaging earthquake ground shaking quantified as moderate (MMI = VII) in 100 years.  The maps and data are based on the average of the results obtained from peak ground acceleration and 1.0-second horizontal spectral acceleration.  Site specific soil factors based on Vs30 shear wave velocities were implemented using a simple topographic proxy technique (Allen and Wald, 2009) and site amplification based on the relationships of Seyhan and Stewart (2014).  MMI = VII is equivalent to peak ground acceleration of 0.2152g and 1.0-second horizontal spectral acceleration of 0.2256g (Worden et al., 2012) for the default site class (Vs30=760 m/s).

Tags: argentina, bolivia, brazil, chile, colombia, earthquake, ecuador, french-guiana, guyana, hazard, panama, paraguay, peru, risk, seismic, south-america, suriname, trinidad-and-tobago, uruguay, usgs-59c15074e4b091459a5fae95, venezuela
Organization: Department of the Interior
Metabolism estimates for 356 U.S. rivers (2007-2017): 1. Site data

This dataset provides site identifiers, details, and quality indicators. The format is a table with 1 row per site (tab-delimited file).
This dataset is part of a larger data release of metabolism model inputs and outputs for 356 streams and rivers across the United States (https://doi.org/10.5066/F70864KX). The complete release includes: modeled estimates of gross primary productivity, ecosystem respiration, and the gas exchange coefficient; model input data and alternative input data; model fit and diagnostic information; site catchment boundaries and site point locations; and potential predictors of metabolism such as discharge and light availability.

Tags: 007, 012, aerobic-respiration, ak, al, alabama, alaska, ar, arkansas, ca, california, carbon, carbon-dioxide, co, colorado, connecticut, ct, dc, de, delaware, dissolved-oxygen, district-of-columbia, energy-metabolism, environment, fl, florida, ga, gas-exchange, georgia, ia, id, idaho, il, illinois, in, indiana, inlandwaters, iowa, kansas, kentucky, ks, ky, la, louisiana, ma, maine, maryland, massachusetts, md, me, mi, michigan, minnesota, mississippi, missouri, mn, mo, montana, ms, mt, nc, nd, ne, nebraska, new-jersey, new-mexico, new-york, nj, nm, north-carolina, north-dakota, ny, oh, ohio, ok, oklahoma, or, oregon, oxygen, pa, pennsylvania, photosynthesis, pr, primary-production, puerto-rico, rivers, sc, sd, south-carolina, south-dakota, streams, tennessee, texas, tn, tx, united-states, us, usgs-59bff64be4b091459a5e098b, ut, utah, va, virginia, wa, washington, water-courses, west-virginia, wi, wisconsin, wv, wy, wyoming
Organization: Department of the Interior
Elk River in Kanawha and Clay Counties, West Virginia, Flood Map Files from June 2016

The mapped area boundary, flood inundation extents, and depth rasters were created to provide an estimated extent of flood inundation along the Elk River within communities in Kanawha and Clay Counties, West Virginia. These geospatial data include the following items: 
1. elk_bnd; shapefile containing the polygon showing the mapped area boundary for the Elk River flood maps, 
2. elk_hwm; shapefile containing high-water mark points, 
3. polygon_elk_hwm; shapefile containing mapped extent of flood inundation, derived from the water-surface elevation surveyed at high-water marks, 
4. depth_hwm; raster file for the flood depths derived from the water-surface elevation surveyed at high-water marks, 
5. polygon_elk_dem; shapefile containing mapped extent of flood inundation, derived from the height above ground recorded at high-water marks and the digital elevation model (DEM) raster, 
6. depth_dem; raster file for the flood depths derived from the height above ground recorded at high-water marks and the digital elevation model raster. 
The upstream and downstream mapped area extent is limited to the upstream-most and downstream-most high-water mark locations. In areas of uncertainty of flood extent, the mapped area boundary is lined up with the flood inundation polygon extent. The mapped area boundary polygon was used to extract the final flood inundation polygon and depth raster from the water-surface elevation raster file. Depth raster files were created using the "Topo to Raster" tool in ArcMap (ESRI, 2012). For this study two sets of inundation layers were generated for each reach. One raster file showing flood depths, "depth_hwm", was created by using high-water mark water-surface elevation values on the land surface and a digital elevation model. However, differences in elevation between the surveyed water-surface elevation values at HWM’s and the land-surface elevation from the digital elevation model data provided uncertainty in the inundation extent of the generated layers. Often times elevation differences of +/- 20 feet were noticed between the surveyed elevation from a HWM on the land surface and the digital elevation model land-surface elevation. Due to these elevation differences, we incorporated a second method of interpolating the water-surface layer. The recorded height above ground value from the surveyed HWM was added to the digital elevation model land-surface elevation at that point. This created a new water-surface elevation value to be used with the “Topo to Raster” interpolation method to create a second depth raster, "depth_dem". Both sets of inundation layers are provided.

Tags: boundary, clay-county, elk-river, extent, flood, flood-inundation-maps, flooded-area, geospatial-analysis, high-water-marks, kanawha-county, river-stream, study-area, usgs-59bfeafae4b091459a5e0932, west-virginia
Organization: Department of the Interior