AndreaBozzo/ceres-open-data-index huggingface dataset:
Water temperature data to support effectiveness monitoring of channel and floodplain restoration projects along the Willamette River, Oregon: Willamette Confluence Preserve 2019-2021

Continuous water-temperature data were collected at multiple sites along the Middle Fork and mainstem Willamette Rivers between Jasper and Newberg, Oregon, to support effectiveness monitoring for a large-scale channel and floodplain restoration program (Willamette Focused Investment Partnership, WFIP). Continuous water temperature loggers were deployed at a subset of WFIP restoration sites where river restoration activities were implemented to improve habitat conditions for native fish species. Data from water-temperature monitoring will be used to evaluate the effectiveness of restoration activities at improving habitat conditions for ESA-listed salmonids and other native fish  in the Willamette River. Additionally, water temperature monitoring in summer and early fall months at restoration sites is useful for determining whether thermal conditions at these sites are optimal, sub-optimal, or lethal for cold-water adapted fish species like spring Chinook salmon (Oncorhynchus tshawytscha). Temperature monitoring for this study spans 2019 through 2022. Water-temperature loggers were suspended in the water column on a wire between a concrete block and a buoy as part of a monitoring arrays installed at multiple off-channel location throughout the study area.
This document describes data collected at the Willamette Confluence Preserve Mile Long pond monitoring site between 06/27/2019 and 03/22/2021. The monitoring site is within a former gravel pit adjacent to the Middle Fork Willamette River and includes two monitoring arrays consisting of three water-temperature loggers suspended in the water column from 06/27/2019 to 08/06/2020 and one monitoring array with one logger from 11/09/2020 to 03/22/2021.

Tags: albany, alcove, collins-bay, effectiveness-monitoring, gravel-pit, hydrology, inland-waters, middle-fork-willamette-river, middle-willamette-river, native-fish, off-channel, oregon, pond, restoration, river, salem, springfield, surface-water, upper-willamette-river, usgs-60403e3dd34eb120311873e7, water-temperature, willamette-basin, willamette-confluence-preserve, willamette-river
Organization: Department of the Interior
USGS National and Global Oil and Gas Assessment Project -- Horn River Basin, Cordova Embayment, and Liard Basin, Canada, Assessment Unit Boundaries and Assessment Input Forms

This data release contains the boundaries of assessment units for the assessment of undiscovered oil and gas resources in the Horn River Basin, Cordova Embayment and Liard Basin in Alberta Basin Province, Canada.  The Assessment Unit is the fundamental unit used in the National Assessment Project for the assessment of undiscovered oil and gas resources.  The Assessment Unit is defined within the context of the higher-level Total Petroleum System.  The Assessment Unit is shown herein as a geographic boundary interpreted, defined, and mapped by the geologist responsible for the province and incorporates a set of known or postulated oil and (or) gas accumulations sharing similar geologic, geographic, and temporal properties within the Total Petroleum System, such as source rock, timing, migration pathways, trapping mechanism, and hydrocarbon type.  The Assessment Unit boundary is defined geologically as the limits of the geologic elements that define the Assessment Unit, such as limits of reservoir rock, geologic structures, source rock, and seal lithologies. Methodology of assessments are documented in USGS Data Series 547 for continuous assessments (https://pubs.usgs.gov/ds/547) and USGS DDS69-D, Chapter 21 for conventional assessments (https://pubs.usgs.gov/dds/dds-069/dds-069-d/REPORTS/69_D_CH_21.pdf). See supplemental information for a detailed list of files included this data release.

Tags: alberta-basin, assessment-unit, canada, continuous-assessment-unit, cordova-embayment-evie-shale-gas-au, cordova-embayment-exshaw-shale-gas-au, cordova-embayment-muskwa-otter-park-shale-gas-au, energy-resources, geology, geoscientificinformation, horn-river-basin-evie-shale-gas-au, horn-river-basin-exshaw-shale-gas-au, horn-river-basin-muskwa-otter-park-shale-gas-au, liard-basin-exshaw-shale-gas-au, national-assessment-of-oil-and-gas, natural-gas, natural-gas-resources, noga2000, oil, oil-resources, oilgas, petroleum, resource-assessment, shale-gas, usgs-604017f4d34eb12031187374
Organization: Department of the Interior
Sea Otter blood chemistry and hematology from animals captured at sites between Bering Island, Russia and Prince William Sound, Alaska during 2004-2012

The data consist of blood chemistry and hematology from sea otters captured at sites along the Aleutian archipelago, the Alaska Peninsula, the Gulf of Alaska, and Prince William sound between 2004 and 2012. The data include the blood chemistry and hematology findings as well as general capture location, if the sea otter population in that area is declining, capture date, age estimate, age class, sex, and a unique sea otter number connecting the sample to gene expression data.

Tags: biota, eastern-aleutian-islands, gulf-of-alaska, health, kodiak-island, prince-william-sound, sea-otters, usgs-60401084d34eb12031187356, western-aleutian-islands, wildlife-biology, wildlife-disease
Organization: Department of the Interior
Water-Quality, Bed-Sediment, and Invertebrate Tissue Trace-Element Concentrations for Tributaries in the Clark Fork Basin, Montana, October 2018–September 2019

Water, bed sediment, and invertebrate tissue were sampled in streams from Butte to near Missoula, Montana, as part of a monitoring program in the Clark Fork Basin. The sampling program was completed by the U.S. Geological Survey, in cooperation with the U.S. Environmental Protection Agency, to characterize aquatic resources in the Clark Fork Basin and monitor trace elements associated with historical mining and smelting activities. Sampling sites were on the river and tributaries of the Clark Fork. Water samples were collected periodically at 20 sites from October 2018 through September 2019. Bed-sediment and tissue samples were collected once at 13 sites during July 2019. 
Water-quality data included concentrations of major ions, dissolved organic carbon, nitrogen (nitrate plus nitrite), trace elements, and suspended sediment. Daily values of turbidity were determined at four sites. Bed-sediment data included trace-element concentrations in the fine-grained (less than 0.063 millimeter) fraction. Biological data included trace-element concentrations in whole-body tissue of aquatic benthic invertebrates. Statistical summaries of water-quality, bed-sediment, and invertebrate tissue trace element data for sites in the Clark Fork Basin were provided for the period of record: March 1985–September 2019.

Tags: bed-sediment, biota, clark-fork-basin, montana, trace-elements, usgs-603fe233d34eb1203118714b, water-quality
Organization: Department of the Interior
Geo-referenced orthophotographs of the Snow River, Alaska, acquired September 1, 2018

This data release consists of orthophotographs of the Snow River in Alaska acquired on September 1, 2018. The orthophotographs were produced from images obtained using a Hasselblad A6D-100C 100 megapixel digital mapping camera deployed within a pod mounted on the landing gear of a Robinson R44 helicopter. Images were acquired as the helicopter transited a series of flight lines designed to provide complete coverage, with ample overlap, of the study area along the Snow River. Also within the pod was an ATLANS GPS/Inertial Motion Unit (IMU) that recorded the position and orientation of the platform during the flight. This information was used to geo-reference the images by performing aerial triangulation and bundle adjustment within the TerraSolid software suite, which was also used to produce a LiDAR DEM that was incorporated into the orthophoto production process. The resulting orthorectified imagery had a spatial resolution (pixel size) of 0.05 m. The imagery is saved as a GeoTIFF files with an embedded header that contains the spatial referencing information for the image; the projected coordinate system is UTM Zone 6N, NAD83. The main purpose of these orthophotographs was to provide an ancillary dataset that could be used with a related lidar product and data release.

Tags: alaska, geo-referenced, image, orthophotography, primrose, remote-sensing, river, snow-river, usa, usgs-603fdab6d34eb120311870f7
Organization: Department of the Interior
Serum osmolality, cortisol, and protein in laboratory common carp (Cyprinus carpio)

Common carp were placed into three treatment groups based on levels of induced stress in the laboratory setting. Measurements of common carp blood serum cortisol and serum protein were collected by spectrophotometry.  Additionally, serum osmolality measurements were obtained by vapor pressure osmometry.  Fish weights were taken at the time of blood collection.

Tags: biota, fish, usgs-603fdaa4d34eb120311870f1
Organization: Department of the Interior
Sea Otter surveys from selected Western Aleutian Islands, Alaska and Bering Island, Russia between 1959-2015

The data table consists of a compilation of sea otter survey results from Bering Island, Russia and select Western Aleutian Islands conducted between 1959 and 2015. The counts were reduced to sea otters per kilometer of coastline for temporal comparability. A correction factor of 3.6 was applied to aerial survey totals to yield results comparable to skiff based surveys. The data table provides the island, year, mode (aerial, skiff, or ground), and shore length covered in each survey. Counts of independent otters and pups are provided if available. Total otters counted or calculated with the correction factor and the calculated linear density are also provided.

Tags: adak-island-alaska, aleutian-islands, amchitka-island-alaska, attu-island-alaska, bering-island-russia, clam-lagoon-adak-island-alaska, kagalaska-island-alaska, kiska-island-alaska, oceans, population-and-community-ecology, population-decline, population-dynamics, sea-otters, southwest-alaska, usgs-603ef5a1d34eb12031185dd9, western-aleutian-islands
Organization: Department of the Interior
Observations of Potential Avian Predators of Agassiz’s Desert Tortoise (Gopherus agassizii) at the Desert Tortoise Research Natural Area, Eastern Kern County, California, in late Winter and Spring of 1989, 1993, 1997, 2002, and 2012

During a long-term study at the Desert Tortoise Research Natural Area in the western Mojave Desert of California, factors affecting the decline of desert tortoises were evaluated inside the protective fence vs. outside. During the five-survey years, 1,645 sightings of 13 species of avian predators were collected. Eleven species occurred both inside and outside the fenced Desert Tortoise Research Natural Area, and two species, the short-eared owl and great horned owl, occurred only inside the fence. The most abundant predator was the common raven with more observations outside the fence than inside the fence in most years. Ravens are hyper-predators of the desert tortoise and, at the Desert Tortoise Research Natural Area, are one of four drivers of population decline. This species also inhibits recovery because of the high numbers (Berry et al. 2020, Wildlife Monographs 205:1-53).
References:
Berry, K.H., Yee, J.L., Shields, T.A. and Stockton, L., 2020. The Catastrophic Decline of Tortoises at a Fenced Natural Area. Wildlife Monographs, 205(1), pp.1-53.

Tags: biota, desert-tortoise-research-natural-area, field-inventory-and-monitoring, mojave-desert, usgs-603ed1e3d34eb12031185daa, usgs-ema-low-pl-mojave-desert-sw-desert, usgs-ema-low-sb-smc-avian
Organization: Department of the Interior
Light and GPP estimates for 173 U.S. rivers: 4. Model source code and documentation

This section contains the model source code for StreamLight v0.2.0 built as a binary package. Additionally, an R environment is included that contains all of the site parameters, model driver files, and model source code from this data release already loaded. Finally, an example markdown file is included to give a brief summary of the model and a demonstration of running the model.

Tags: biota, usgs-603ea8a4d34eb12031185d07
Organization: Department of the Interior
2006-2009 Phytoplankton data collected in the Mississippi River Navigation Pools 8, 13, and 26

The dimensions of each organism were measured with a Whipple grid and the biovolume was estimated using the simplest geometric shape (e.g., cylinder, cone, sphere, etc.) that best fit the shape of each taxon. Shapes were assigned according to Hillebrand et al. (1999). Biovolume was calculated for the first five organisms/counting units of each taxon identified in a sample. The average biovolume was then used to calculate total biovolume of each taxon in the sample.

Tags: biota, biovolume, cell, navigation-pool-13, navigation-pool-26, navigation-pool-8, phytoplankton, upper-mississippi-river, usgs-603e57cdd34eb120311859cd, volume
Organization: Department of the Interior
Data on the Enrichment and Isolation of the Acetylenotrophic and Diazotrophic Isolate Bradyrhizobium sp. strain I71 (ver. 2.0, September 2022)

Acetylene (C2H2) is a molecule rarely found in nature, with few known natural sources, but acetylenotrophic microorganisms can use acetylene as their primary carbon and energy source. As of 2018 there were 15 known strains of aerobic and anaerobic acetylenotrophs, however we hypothesized that there may be yet unrecognized diversity of acetylenotrophs in nature. In this study, we expanded this diversity by isolating an aerobic acetylenotroph, Bradyrhizobium sp. strain I71, from trichloroethene (TCE)-contaminated soils undergoing bioremediation. TCE-contaminated soils from the NASA Ames Research Center in California were used to establish soil microcosms with acetylene as the primary carbon substrate and acetylene uptake was tracked over time and reported in T1_soil_microcosm_v2.0.csv. DNA was extracted from soil microcosm samples for microbial community analysis based on 16S rRNA gene sequencing; the resulting operational taxonomic units are presented in T2_soil_OTU_v2.0.csv. Bradyrhizobium sp. strain I71 was isolated from the soil microcosms and acetylene uptake and cell growth data for the isolate over time are shown in T3_soil_isolate_v2.0.csv. Nitrogen fixation assays for the pure culture of Bradyrhizobium sp. strain I71 are reported in T4_N2_fixation_v2.0.csv. Acetylene concentrations and cell densities from acetylenotrophic and heterotrophic growth assays for Bradyrhizobium sp. strain I71 are reported in T5_GrowthCurve_v2.0.csv

Tags: bacteria, bacteriology, biota, california, culturing-specimens, environmental-dna, gas-chromatography, laboratory-experiments, microbiology, moffett-field-naval-air-station-historical, usgs-603e3665d34eb120311853fa
Organization: Department of the Interior
Erodibility Data from Gust Erosion Chamber Experiments in Grizzly Bay and San Pablo Bay, California, Winter 2020

A Gust erosion chamber was used to apply horizontal shear stress to sediment cores obtained from San Pablo and Grizzly (within Suisun) Bays in California. A pair of sediment cores were collected from the same approximate locations in each bay five times between January 22nd, 2020 and March 11th, 2020 for a total of 10 experiments and 20 sediment core results. Locations were chosen to capture the benthic variability along the estuarine salinity gradient, are established benthic monitoring stations, proximity to historic/restored wetlands, and practicality for field operations. Sampling dates targeted spring and neap tide conditions. An onshore experiment was conducted on each core to apply shear stresses with stepwise and monotonic increases. Effluent following erosion was monitored for turbidity and sampled for suspended-sediment concentration analysis. For each core, experiment results were used to calculate the following at each applied shear stress step of the experiment: 1) critical shear stress required to initiate erosion, 2) mass eroded per square meter, and 3) the erosion rate coefficient (M). Equations used for calculations are outlined in Process Step 3 of this data release.

Tags: california, california-water-science-center, cawsc, erosion, fine-unconsolidated-substrate, grab-sampling, grizzly-bay, gust-chamber, micro-erosion, oceans, san-francisco-bay, san-pablo-bay, sea-floor-characteristics, sediment, sediment-erosion, sediment-transport, unconsolidated-deposits, usgs-603d7af6d34eb1203117f30a, usgs-cc-california-bay-delta
Organization: Department of the Interior
Visible and near-infrared spectroscopy for sediment samples collected across North-eastern U.S.

This data record contains a CSV file with spectral reflectance (420-2114 nm) for sediment samples collected from each of four source locations (cropland, stream bank, glaciolacustrine, and street dust) located across sites in the Northwestern US during prior studies. Data were collected in a laboratory setting using Spectrecology USB4000-VIS-NIR and NIRQuest512-2.2 spectrometers. The data contain spectra collected from sieved, non-sieved, dry and suspended samples from each sample source, as well as spectra for calibration standards. Explanation of fields in contained in the spectral properties data table are described in a data dictionary. Data on the physical properties of samples used in this study have been collected and are summarized in this data release.

Tags: baltimore, geoscientificinformation, harrisonburg, inlandwaters, lower-chesapeake-bay, maryland, new-york, sediment-analysis, upper-chesapeake-bay, usgs-603d353fd34eb1203117efdd, virginia
Organization: Department of the Interior
Wetland burned area extent derived from Sentinel-2 across the southeastern U.S. (2016-2019)

Wildfires and prescribed fires are frequent but under-mapped across wetlands of the southeastern United States .  High annual precipitation supports rapid post-fire recovery of wetland vegetation, while associated cloud cover limits clear-sky observations. In addition, the low burn severity of prescribed fires and spectral confusion between fluctuating water levels and burned areas have resulted in wetland burned area being chronically under-estimated across the region. In this analysis, we first quantify the increase in clear-sky observations by using Sentinel-2 in addition to Landsat 8. We then present an approach using the Sentinel-2 archive (2016-2019) to train a wetland burned area algorithm at 20 m resolution. We coupled a Python-derived random forest model with Google Earth Engine to apply the algorithm across the southeastern United States (&gt;290,000 km2). The burned area extent was validated (burned, unburned) using points derived from 27 WorldView-2 and WorldView-3 images. The burned area extent was compared to 555 wetland fire perimeters compiled from state and federal agencies. On an annual timestep, combining the Sentinel-2 and Landsat 8 data increased the mean observation count from 17 to 46 in 2016 and from 16 to 78 in 2019. When validating single-scene burned area extent, the Sentinel-2 output had 29% and 30% omission and commission error rates, respectively. We compared this to the U.S. Geological Survey’s Landsat 8 Burned Area Product (L8 BA), which had 47% and 8% omission and commission error rates, respectively. Across the four-year period, by count the Sentinel-2 burned area detected 78% of the wetland fire perimeters, compared to the L8 BA which detected 60% of the wetland fire perimeters. By area, Sentinel-2 burned area mapped 48% of the perimeter area as burned, compared to the L8 BA which mapped 32% of the perimeter area as burned. This analysis demonstrated the potential of Sentinel-2 to support efforts to track burned area extent even across challenging ecosystem types, such as wetlands.

Tags: alabama, drought, everglades, florida, georgia, google-earth-engine, jupyter-notebook, prescribed-fire, south-carolina, usgs-603d2d6ed34eb1203117ef8f, wetland, wildland-fire
Organization: Department of the Interior
Target-Chemical Concentration Results for Assessment of Mixed-Organic/Inorganic Chemical and Biological Exposures in North Dakota and South Dakota Tapwater, 2019

Concentration and quality assurance results for organic compounds analyzed at the National Water Quality Laboratory, Denver, Colorado, Organic Chemistry Research Laboratory, Sacramento, California, the Organic Geochemistry Research Laboratory, Lawrence, Kansas, for the 2019 tapwater study conducted in North Dakota and South Dakota, USA.  This project is part of the U.S. Geological Survey, Ecosystems Mission Area, Environmental Health Infrastructure Project.

Tags: biota, environmental-health, exposure, north-dakota, organic-compounds, south-dakota, tapwater, usgs-603d1956d34eb1203117ec25
Organization: Department of the Interior
Modeled nutrient and sediment concentrations from major rivers in Illinois based on continuous monitoring from October 1, 2015, through September 30, 2020

During water years 2016–2020, the U.S. Geological Survey, in cooperation with the Illinois Environmental Protection Agency, operated continuous monitoring stations on eight of the major rivers in Illinois to better quantify nutrient and sediment loadings from the State of Illinois to the Mississippi River. This data release presents estimates of daily nitrate, suspended sediment, and phosphorus concentrations and uncertainty over that period. The concentration estimates are based on a combination of discrete sampling data and surrogate regression (imputation). The data release comprises a single csv file containing daily timeseries of conentration and uncertainty for each monitoring station.

Tags: continuous-monitoring, nitrate, suspended-sediment-concentration, total-phosphorus, usgs-603cfea2d34eb1203117e466, water-quality
Organization: Department of the Interior
Influence of filter pore size on microbial communities and microbial source tracking (MST) markers on water in Racine, Wisconsin; Chicago, Illinois; East Chicago, Indiana, 2015-2017

The data being released were part of a project funded by the Great Lakes Restoration Initiative (GLRI). This study sought to examine the influence of filter pore size (5.0 µm pre and 0.22 µm final filtration) on microbial communities and source-specific microbial source tracking (MST) markers at three locations along southern  Lake Michigan: Racine, WI; Chicago, IL; and East Chicago, IN; between 2015 and 2017. In 2015, triplicate water samples were collected during three events, in 2016 individual water samples were collected during three events, and in 2017, individual water samples were collected one day a week for ten weeks between June and August. Samples were collected from twelve locations, two river, two river mouth, three offshore, one wetland outlet, and four shorelines.
The upstream river locations are as follows: 
1. Root River at the Root River Environmental Education Community Center (REC, 2015-2017), Racine, Wisconsin
2. Grand Calumet River at Columbus Drive (GC, 2015-2017), East Chicago, Indiana 
The river mouth locations are as follows:
1. Grand Calumet River Mouth (GCM, 2015 only), East Chicago, Indiana
2. Root River Mouth (RRM), Racine, Wisconsin 
The offshore locations are as follows:
1. Grand Calumet River (GCN, 2015 only), East Chicago, Indiana
2. Grand Calumet River (GCE, 2015 only), East Chicago, Indiana
3. Root River marina harbor wall (NBW, 2015 only), Racine, Wisconsin 
The shoreline locations are as follows:
1. North Beach (NB), Racine, Wisconsin
2. 63rd Street Beach (63rd), Chicago, Illinois
3. Jeorse Park (JP), East Chicago, Indiana
4. Whihala beach (WHW, 2015 only), Whiting, IN
The wetland outlet location:
1. North Beach (IEB outlet, 2015 only), Racine, Wisconsin

Tags: biota, chicago, dna-sequencing, east-chicago, ecology, freshwater-ecosystems, grand-calumet-river, illinois, indiana, lake-michigan, microbial-communities, microbiology, polymerase-chain-reaction, racine, root-river-canal, usgs-603ce171d34eb1203117e41f, water-sampling, wisconsin
Organization: Department of the Interior