AndreaBozzo/ceres-open-data-index huggingface dataset:
Stream temperature predictions in the Delaware River Basin using pseudo-prospective learning and physical simulations

&lt;p&gt; Stream networks with reservoirs provide a particularly hard modeling challenge because reservoirs can decouple physical processes (e.g., water temperature dynamics in streams) from atmospheric signals. Including observed reservoir releases as inputs to models can improve water temperature predictions below reservoirs, but many reservoirs are not well-observed. This data release contains predictions from stream temperature models described in Jia et al. 2022, which describes different deep learning and process-guided deep learning model architectures that were developed to handle scenarios of missing reservoir releases. The spatial extent of this modeling effort was restricted to  two spatially disjointed regions in the Delaware River Basin. The first region included streams above the Delaware River at Lordville, NY, and included the West Branch of the Delaware River above and below the Cannonsville Reservoir and the East Branch of the  Delaware River above and below the Pepacton Reservoir. Additionally, the Neversink River which flows into the Delaware River at Port Jervis, New York, was included and contains river reaches above and below the Neversink Reservoir.  For each model, there are test period predictions from 2006-12-26 through 2020-06-22. Model input, training, and validation data can be found in Oliver et al. (2021). 
&lt;p&gt;The publication associated with this data release is Jia X., Chen S., Xie Y., Yang H., Appling A., Oliver S., Jiang Z. 2022. Modeling reservoir release in stream temperature prediction using pseudo-prospective learning and physical simulations, SIAM International Conference on Data Mining (SDM). DOI: https://doi.org/10.1137/1.9781611977172.11&lt;/p&gt;

Tags: climate-change, deep-learning, environment, hybrid-modeling, inlandwaters, machine-learning, modeling, new-york, ny, pa, pennsylvania, reservoirs, temperature, united-states, us, usgs-61cc99a5d34ed79293fc63ba, water, water-resources
Organization: Department of the Interior
Data related to great diversity of KSα genes from bat skin external microbiota, from Arizona and New Mexico, indicate novel PKSII biosynthetic gene clusters

We documented the type two polyketide synthases(PKS II) gene diversity and novelty by sequencing KSα genes known to synthesize bioactive small molecules. Sequences were derived from culturable bacteria isolated from bats in Arizona and New Mexico. We targeted the PKS II pathway which comprised a large proportion of the culture collection. Genomic analyses of a 16-member subset of bat bacterial isolates were additionally explored to document total BGC diversity and novelty of the bat microbiome. Data used for PKS II gene variant number per isolate by state were comprised of number of amino acid sequences per isolate (Num_seqs_per_isolate) by state, with related isolate identification (Isolate ID) and isolate number (ID #). Data used for PKS II gene variant number per isolate by species were comprised of number of amino acid sequences per isolate (Num_seqs_per_isolate) and species, with related isolate identification number. In our effort to determine novelty of PKS II sequences, we compared experimental PKS II sequences to known and curated references sequences. In an effort to determine novelty of PKS II sequences to its taxonomic assignment, in general, we compared PKS II sequences to themselves. 
Data were used to create percent of bacterial isolates from bat skin with KSα detected by location and bat species. Data were also used to describe the bat microflora from which KSα sequences were isolated. Data in the form of genomic assembly statistics and biosynthetic capacity analysis of 16 Actinobacteria isolates from bats were used. Data were used to indicate the presence or absence of the KSα gene in isolates. All of these data were regarded as supplemental.

Tags: amino-acid, arizona, bat, biota, metabolite, new-mexico, sequence, usgs-61cb410cd34e0fd3e7b3f487, white-nose-syndrome-wns
Organization: Department of the Interior
Distribution and abundance of Least Bell's Vireos (Vireo bellii pusillus) and Southwestern Willow Flycatchers (Empidonax traillii extimus) on the middle San Luis Rey River, San Diego County, Southern California in 2021

We surveyed for Least Bell’s Vireos (Vireo bellii pusillus; vireo) and Southwestern Willow Flycatchers (Empidonax traillii extimus; flycatcher) along the San Luis Rey River, between College Boulevard in Oceanside and Interstate 15 in Fallbrook, California (middle San Luis Rey River), in 2021. Surveys were conducted from April 13 to July 14 (vireo) and from May 18 to July 13 (flycatcher). We found 180 vireo territories, at least 125 of which were occupied by pairs. The vireo population size decreased by 6 percent from 2020 to 2021. One resident flycatcher, of undetermined breeding status, was observed in the survey area in 2021. He was detected from May 20 to June 4, 2021, and no evidence of pairing or nesting was observed.

Tags: biota, endangered-species, usgs-61e1c387d34e8911d9fffa73, wetland-ecosystems
Organization: Department of the Interior
Data release for Oxygen  isotopes of land snail shells in high latitude regions

The present study investigates the environmental significance of the oxygen isotopic composition of several modern land snail species collected along two north-to-south transects in Alaska and Scandinavia at latitudes between 60 and 70 °N. We tested the hypothesis that land snail shell δ18O values primarily track precipitation δ18O. The results show that shell δ18O values from Scandinavia were ~5.1‰ enriched in 18O with respect to snails from Alaska, equivalent to differences in precipitation δ18O values between the two regions. Within the Alaskan transect, shell δ18O values increased with observed increasing air temperature and precipitation δ18O, whereas shell δ18O values from Scandinavia did not correlate to instrumental climate data because of a reduced climatic gradient across the locations sampled. In addition, shell δ18O values differed significantly among sympatric species, with larger species consistently exhibiting higher δ18O values, which implies that species-level isotopic variations should be considered at the local and microhabitat scale. However, when snail shell δ18O values from this study are combined with previously published data from North America and Europe, we see evidence that shell δ18O track precipitation δ18O across latitudes, even when different species are combined because climate gradients are greater than variations between taxa.

Tags: alaska, calibration, high-latitudes, land-snail, oxygen-isotopes, paleoclimate, scandinavia, usgs-61cb3677d34e0fd3e7b3f440
Organization: Department of the Interior
Supplemental Data: Incorporating temperature into seepage loss estimates for a large irrigation canal

This USGS data release child item presents tabular data of temperature and canal stage measured at 19 locations on the Truckee Canal for the 2018 to 2019 irrigation seasons. Data were collected to inversely estimate hydraulic and thermal soil properties and seepage rates.
The child items consist of:
(1) Site locations of 19 transect locations in the Truckee Canal (tabular data), and
(2) Sediment temperature, water temperature, and canal stage in the Truckee Canal (tabular data).

Tags: environment, fernley, geoscientificinformation, inlandwaters, irrigation, lahontan-reservoir, modeling, structure, surface-water-non-marine, truckee-canal, usgs-61ca07c2d34e2ca389dbd514, wadsworth, water-temperature
Organization: Department of the Interior
Color Shaded-Relief GeoTIFF Image Showing the 2-m Bathymetry Generated from National Oceanic and Atmospheric Administration (NOAA) Survey H11445 North of Plum Island, New York (H11445_MB2M_UTM.TIF, UTM Zone 18, NAD83)

The U.S. Geological Survey (USGS), in cooperation with the Connecticut Department of Environmental Protection and National Oceanic and Atmospheric Administration (NOAA), is producing detailed geologic maps of the coastal sea floor. Imagery, originally collected by NOAA for charting purposes, provides a fundamental framework for research and management activities along this part of Long Island Sound, shows the composition and terrain of the seabed, and provides information on sediment transport and benthic habitat. Interpretive data layers were derived from the multibeam echo-sounder data and sidescan-sonar data collected north of Plum Island, New York. During November 2009, bottom photographs and surficial sediment data were acquired as part of a ground-truth reconnaissance survey. For more information on the ground-truth survey see http://quashnet.er.usgs.gov/data/2009/09059/.

Tags: atlantic-ocean, bathymetry, cmgp, coastal-and-marine-geology-program, computational-methods, connecticut-department-of-environmental-protection, ct-dep, elevation, geospatial-datasets, geotiff, h11445, hill-shaded, imagerybasemapsearthcover, long-island-sound, marine-geophysics, multibeam-bathymetry, multibeam-sonar, national-oceanic-and-atmospheric-administration, new-york, noaa, noaa-survey-h11445, north-america, oceans, ofr-2010-1005, open-file-report-2010-1005, orient-point, plum-island, reson-8101, reson-8125, sea-floor-characteristics, u-s-east-coast, u-s-geological-survey, united-states, usgs, usgs-61c8181d-78b4-4580-b6f4-c5f8ea828776, whcmsc, woods-hole-coastal-and-marine-science-center
Organization: Department of the Interior
Streamflow regressions and daily mean streamflow estimates for Kootenai River tributaries near Bonners Ferry, Idaho (ver 2.0, January 2023)

The U.S. Geological Survey (USGS), in cooperation with the Kootenai Tribe of Idaho, used streamflow measurements at 14 partial-record sites and related them to nearby USGS real-time streamgages (index sites) to provide daily mean streamflow values at ungaged (partial-record) sites. Daily mean streamflow was estimated by developing a regression relationship between streamflow at each partial-record site and the index site for the period of record of the index site. The daily mean streamflow at partial-record sites will support the Kootenai Tribe of Idaho effort to understand fish and wildlife habitat in the watershed and provide streamflow estimates for Kootenai River tributaries for use in hydraulic modeling that supports habitat restoration projects.

Tags: biological-and-physical-processes, boundary, climate-change, climatologymeteorologyatmosphere, data-management, data-release, effects-of-climate-change, environment, geoscientificinformation, geospatial-analysis, idaho, inlandwaters, kootenai, kootenai-pend-oreille-spokane, land, location, mathematical-modeling, mathematical-simulation, north-america, pacific-northwest, regression-analysis, scientific-investigations-report, statistical-analysis, stream-discharge, stream-gage-measurement, streamflow, study-areas, surface-water-level, time-series-datasets, united-states, usgs-61c4ad75d34e2ca389db248c, usgs-publication-series
Organization: Department of the Interior
Soil and Vegetation Data from Lake-Margin Wetlands in the Yukon Flats National Wildlife Refuge

This data release includes six child items of soil and vegetation data from lake margin soils of the Yukon Flats National Wildlife Refuge, Alaska. Data includes multiple lakes that are defined as either stable or drying. Lake margin vegetation communities include graminoid, shrub, and forest. Sols are separated into organic and mineral layers. Microbial data includes different phospholipid fatty acids and soil enzyme activity data for multiple enzymes involved in C,N, and P cycling. Data also includes information on respiration rate constants (k) and labile substrate pool (Ao) from soil incubations. Other soil chemical attributes such as soil pH, electrical conductivity, percent C and percent N are also included.
      Child Item 1: "Plant Functional Type Percent Cover Estimates from the Yukon Flats National Wildlife Refuge". Ocular percent cover estimates for eight plant functional types occurring in lake-margin wetland plant communities.
      Child Item 2: "Aboveground Net Primary Production Estimates from the Yukon Flats National Wildlife Refuge". The historical dynamics of the lake, the sampled community type, and the dry mass of annual new growth.
      Child Item 3: "Soil Properties of Lake-Margin Wetlands of the Yukon Flats National Wildlife Refuge". Soil pH, electrical conductivity (EC), water content (VWC), and bulk density (BD) of soil core samples within organic soil horizon in lake-margin wetland plant communities.
      Child Item 4: "Soil Microbial Data from the Yukon Flats National Wildlife Refuge 2009 to 2012". Soil properties and microbial data from lake-margin soils.
      Child Item 5: "Carbon and Nitrogen Content of Organic Soils in Lake-Margin Wetlands of the Yukon Flats National Wildlife Refuge". Soil core dimensions, bulk density, and carbon/nitrogen content of soil core samples within the organic soil horizon in lake-margin wetland plant communities.
      Child Item 6: "Total Carbon, Organic Carbon, and Nitrogen Data from a Subset of Soils Within the Yukon River Basin". Total and organic carbon values from soil samples taken from the Yukon River Basin.

Tags: alaska, biogeochemical-cycles, biomass, biomass-dynamics, biota, community-ecology, community-structure, environment, lake-drying, landscape-ecology, plants, primary-production, soil-carbon-storage, succession-biological, terrestrial-ecosystems, usgs-61e23281d34e8079b6521da0, vegetation-cover, wetland-ecosystems, yukon-flats, yukon-flats-national-wildlife-refuge
Organization: Department of the Interior
Model archive and output files for net infiltration, runoff, and irrigation water use for the Mississippi Embayment Regional Aquifer System, 2000 to 2020, simulated with the Soil-Water-Balance model

This item provides Soil-Water-Balance (SWB) model output  and a model archive of water budget simulations for the Mississippi Embayment Regional Aquifer System (MERAS) during the period 2000 to 2020. Gridded daily data (1 kilometer resolution) include net infiltration (water that might become groundwater recharge), rejected net infiltration, runoff, irrigation, actual evapotranspiration and gross precipitation The model output files are in netcdf format and all water budget components are in inches. The net infiltration, rejected net infiltration, runoff, irrigation, and actual evapotranspiration data sets are from simulations done with the USGS SWB model (version 2; Westenbroek and others, 2018). The precipitation and temperature data used as input for the SWB model application are derived from the PRISM group (http://prism.oregonstate.edu/; Daly and others, 1994). Further details about this application of the SWB model can be found in the related primary publication.The primary publication can be accessed through links in the related external resources section below. There are two child items: one with daily netcdf model output and one with a Soil-Water-Balance model archive. These data provide updates to previously published estimates for 2000 to 2018 in https://doi.org/10.5066/P98PBR8O and  https://doi.org/10.5066/P9U484X5.

Tags: environment, geoscientificinformation, groundwater, groundwater-recharge, groundwater-recharge-model, hydrology, inlandwaters, irrigation, irrigation-water-use, mississippi, mississippi-river-delta, net-infiltration, soil-water-balance-model, swb, usgs-61c36bebd34e2ca389dadc93, usgssoilwaterbalancemodel, water-availability, water-budget
Organization: Department of the Interior
Input Data for Hydrologic Simulations of the CONUS using the NHM-PRMS, 1950-2010, Maurer Calibration

This data release contains inputs for and outputs from hydrologic simulations for the conterminous United States (CONUS) using the Precipitation Runoff Modeling System (PRMS) version 5.1.0 and the USGS National Hydrologic Model infrastructure (NHM, Regan and others, 2018). Historical simulations using the Maurer atmospheric forcings (Maurer and others, 2002) were produced for the period 1950-2010. These data document the PRMS climate input data files for these simulations. Input files for the simulations include the PRMS base parameter file and five dynamic parameter files that update model parameters on an annual time step for impervious area, dominant land cover type, and canopy interception. Maurer forcings include precipitation and minimum and maximum temperature at a daily time-step. USGS measured streamflow data are included for 8,270 USGS streamgage locations from 1980-2016. Streamflow was calibrated on the odd years and the even years were used for validation.

Tags: inlandwaters, model, streamflow, streamflow-modeling, usgs-61e70d52d34e3618e01c5387
Organization: Department of the Interior
Model archive and output files for net infiltration, runoff, and irrigation water use for the Mississippi Embayment Regional Aquifer System, 2000 to 2020, simulated with the Soil-Water-Balance model

This item provides a complete model archive for an application of the Soil-Water-Balance (SWB) model code to simulate water budget components of the Mississippi Embayment Regional Aquifer System (MERAS) during the period 2000 to 2020. All necessary data, model code, and model input files are provided so the simulations can be recreated.  Gridded model outputs that were the basis for the primary publication are also provided.   Gridded daily data (1 kilometer resolution) include net infiltration (water that might become groundwater recharge), rejected net infiltration, runoff, irrigation, actual evapotranspiration and gross precipitation Simulations were done with the USGS SWB model (version 2; Westenbroek and others, 2018). The precipitation and temperature data used as input for the SWB model application are derived from PRISM Climate products (PRISM Climate Group, 2020).   Further details about this application of the SWB model can be found in the related primary publication

Tags: environment, geoscientificinformation, groundwater, groundwater-recharge, groundwater-recharge-model, hydrology, inlandwaters, irrigation, irrigation-water-use, mississippi, mississippi-river-delta, net-infiltration, soil-water-balance-model, swb, usgs-61c34170d34e2ca389dadc03, usgssoilwaterbalancemodel, water-availability, water-budget
Organization: Department of the Interior
Laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) geochemical data for apatite grains in rocks and stream sediments from the Taurus porphyry copper deposit area, eastern Tanacross quadrangle, Alaska

Laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) analyses of apatite provide trace element concentrations that support indicator mineral studies near the Taurus porphyry Cu-Mo deposit in the eastern Tanacross quadrangle, Alaska. The Taurus deposit and others in the region are mostly concealed, and traditional stream sediment samples typically show subdued geochemical signatures. The indicator mineral studies include collection of stream sediment samples and analysis using automated SEM mineralogical techniques. The presence of select minerals in the stream sediments may indicate mineralization. In addition, the chemistry of specific minerals may be used to distinguish a hydrothermal origin as opposed to others. The LA-ICP-MS data for apatite were collected by personnel of the Geology, Geophysics, and Geochemistry Science Center in Denver, Colorado, for the U.S. Geological Survey (USGS) Mineral Resources Program (MRP). Additional data were obtained at Queens University and Colorado School of Mines. Appreciable differences in chemistry were noted for apatite in mineralized rock and stream sediment samples draining these rocks compared to barren rocks or sediment samples away from mineralization.

Tags: alaska, apatite, chemical-analysis, geochemistry, geology-geophysics-and-geochemistry-science-center, geoscientificinformation, gggsc, la-icp-ms, laser-ablation-inductively-coupled-plasma-mass-spectrometry, mineral-resource-program, mineral-resources, mineralogy, mrp, ore-formation, tanacross, taurus-porphyry, unconsolidated-deposits, usgs-61c3373ad34e2ca389dadbd1
Organization: Department of the Interior
Hourly sea floor water temperatures recorded at four kelp forest monitoring sites at San Nicolas Island, California (2015-2019)

The data represent hourly temperatures recorded at four permanent subtidal monitoring sites around San Nicolas Island, CA between November 2015 and October 2019. The temperatures were recorded by TidbiT (registered trademark) v2 model UTBI-001 (Onset Computer Corporation, Bourne, Massachusetts) archival temperature loggers attached at the sea floor. The loggers were deployed approximately 10-12 m deep at Nav Fac (12 m) on the north side of the island, at West End Urchin (11 m) on the southwest side, at east Dutch Harbor (11 m) on the south side, and at Daytona Beach (10 m) near the east end of the island.

Tags: california, northeast-pacific, ocean-temperature, oceans, san-nicolas-island, southern-california-coastal, usgs-61c25c27d34e2ca389d9e861
Organization: Department of the Interior
Benthic kelp and invertebrate counts, California sheephead abundance, substrate rugosity data, and benthic temperatures from long-term kelp forest ecosystem monitoring sites at San Nicolas Island, California

Four data sets are included here to aid in assessing the influence of substrate complexity on kelp forest ecosystem stability. One data set consists of counts of a suite of kelps and benthic invertebrates on permanent band transects (swaths) at six long-term monitoring sites from 1980-2018. A second data set consists of total counts of adult California sheephead (Semicossyphus pulcher), an important sea urchin predator, on these sites from 1981-2018. The third data set gives an index of the relative substrate rugosity in the form of replicate distances along the bottom profile of each permanent swath. Finally, bottom temperatures recorded from 2015-2019 show the relatively homogenous water mass that encompasses all the sites.

Tags: attached-sea-urchins, bathymetry, benthic-macroalgae, biota, brown-algae-and-kelp, california, kelp-forest, marine-fishery-resources, northeast-pacific, ocean-temperature, oceans, pacific, reef-ecosystems, san-nicolas-island, sea-urchins-and-sand-dollars, southern-california-coastal, structure, substrate, usgs-61c25a06d34e2ca389d9e84a
Organization: Department of the Interior