AndreaBozzo/ceres-open-data-index huggingface dataset:
Experimental Observations on the decay of Environmental DNA from Bighead and Silver Carp-Data

Interest in the field of environmental DNA (eDNA) is growing rapidly and eDNA surveys are becoming an important consideration for aquatic resource managers dealing with invasive species. However, in order for eDNA monitoring to mature as a research and management tool, there are several critical knowledge gaps that must be filled. One such gap is the fate of eDNA materials in the aquatic environment. Understanding the environmental factors that influence the decay of eDNA and how these factors impact detection probabilities over time and space could have significant implications for eDNA survey design and data interpretation. Here we experimentally explore eDNA decay in waste materials and reproductive cells obtained from captive stocks of the invasive bigheaded carps, Hypophthalmichthys nobilis and H. molitrix, as well as the influence of differing levels of water turbulence, temperature, microbial load, and pH on rates of eDNA decay. We found that the decay patterns of eDNA associated with both H. nobilis biological waste and H. molitrix milt significantly fit monophasic exponential decay curves. Secondly, we observed that the highest temperature we tested resulted in decay half-life as much as 5.5X more rapid than the lowest temperature we tested. When we suppressed microbial loads in eDNA samples, we observed that overall losses of eDNA were reduced by about 2.5X. When we amended eDNA samples with pond water the half-life of eDNA was reduced by about 2.25X, despite relatively little apparent increase in the overall microbial load, indicating the microbial sources, not only loads, might play a critical role in eDNA degradation. A shift in pH from 6.5 to 8.0 in the samples resulted in a 1.6X reduction in eDNA half-life. Water turbulence in our study had no apparent effect on eDNA decay. When we combined different temperature, pH, and microbial load treatments to create a rapid decay conditions and a slow decay conditions, and tracked eDNA decay over 91 days, we observed a 5.0X greater loss of eDNA by Day 5 under rapid decay conditions than under slow decay conditions. At the end of the trials, the differences in eDNA loss between the rapid decay and baseline and slow decay conditions were 0.1X and 3.3X, respectively. Our results strongly demonstrate the potential for environmental factors to influence eDNA fate, and thus the interpretation of eDNA survey results.

Tags: aquatic-biology, ecology, edna, environmental-factors, environmental-health, genetics, microbial-load, ph, usgs-5810bd7de4b0f497e7972b83, water-temperature
Organization: Department of the Interior
2021 Illinois Waterway Aerial Imagery Mosaics - La Grange - North 4-Band

The Corps of Engineers' Rock Island District is planning an unprecedented closure of the Illinois Waterway in 2020 in order to perform required maintenance on locks. Aerial imagery will document river conditions prior to the closure (2019) and after the locks are reopened (2021). Under a separate but related effort, aerial imagery of the entire Illinois Waterway will be collected in 2020 as part of the decadal Upper Mississippi River System Land Cover/Land Use mapping project. 
The imagery has a resolution of approximately 0.4 meter/pixel (16 inches). The imagery was collected on September 16 and 17, 2021 with a Phase One iXU-R 180 RGB camera co-mounted with a Phase One iXU-RS 160 Achromatic camera to create 4-band imagery that can be displayed as either true-color (RGB) or color-infrared (CIR).

Tags: illinois, illinois-river, illinois-waterway, imagerybasemapsearthcover, usgs-67338d1ed34ee3976592b4ab
Organization: Department of the Interior
Combined wildfire datasets for the United States and certain territories, 1878-2019

This dataset is comprised of four different zip files. 
Zip File 1: A combined wildfire polygon dataset ranging in years from 1878-2019 (142 years) that was created by merging and dissolving fire information from 12 different original wildfire datasets to create one of the most comprehensive wildfire datasets available. Attributes describing fires that were reported in the various source data, including fire name, fire code, ignition date, controlled date, containment date, and fire cause, were included in this product’s attribute table.
Zip Files 2-4: The fire polygons were turned into 30 meter rasters with the values representing area burned in each year (128 yearly rasters total, as some years in the 1800s had no fires recorded). Three rasters were calculated from the yearly rasters: (a) their yearly values were turned to 1 and these values were summed to create a count of the number of times burned, (b) the first time a pixel burned was selected to create a first year burned raster, and (c) the last time a pixel burned was selected to create a most recent year burned raster. These calculations were done for the contiguous US, Alaska, and Hawaii separately in order to reduce file size and download time. Each of the zipped files contains the three rasters for one of the following  locations: contiguous US, Alaska, and Hawaii.

Tags: biota, burned-area, count-of-times-burned, environment, fire, fires, first-year-burned, geospatial-datasets, most-recent-year-burned, north-america, united-states, usgs-5ee13de982ce3bd58d7be7e7, wildfire
Organization: Department of the Interior
Channel Island Grazer Removal Data 2004-2016

This data includes data and metadata of (1) the percent cover of all species found along transects on the south facing slopes of Santa Cruz Island, CA (2) the height of all shrub individuals on transects on the south facing slopes of Santa Cruz Island, CA  and (3) location data of on the south facing slopes of Santa Cruz Island, CA. Data were used in the analysis for the Manuspcript "Long-term impacts of exotic grazer removal on native shrub recovery, Santa Cruz Island, California".  These sites were sampled in 2004 and 2016 to gain a longer term view on native shrub reestablishment into exotic grasslands after exotic grazer removal.

Tags: artemisia-californica, biota, california-grasslands, coastal-sage-scrub, drought, eriogonum-arborescens, exotic-plants, grazer-removal, usgs-5a3055dde4b08e6a89d58bf2
Organization: Department of the Interior
Water Surface Elevation in the Auxiliary Lock Chamber at Lock and Dam 14 near Pleasant Valley, Iowa (June 2017)

These data were collected in support of a multi-agency effort to evaluate the feasibility of using carbon dioxide to create a barrier and prevent upstream passage of invasive fish through navigational locks. The auxiliary lock at Lock and Dam 14 on the Mississippi River near Pleasant Valley, Iowa, was chosen for a field-scale trial of the carbon dioxide barrier to be conducted in 2018. In preparation for this trial, the mixing in the lock chamber during routine operations and the fate and transport of lock water released to the pool downstream was studied using a dye tracer. In June 2017, the U.S. Geological Survey (USGS) performed two injections of Rhodamine WT dye into the auxiliary lock chamber as the lock was filled. The dye was injected directly into the fill water at the upstream valves on both sides of the lock.  The first injection of 0.82 liters of Rhodamine WT (0.41 liters per intake) occurred at 9:50 am on June 13, 2017. The second injection of 0.25 liters of Rhodamine WT (0.125 liters per intake) occurred at 12:11 pm on June 13, 2017. Both injections started approximately 1 minute after filling of the lock began and the injections took approximately 2 minutes to complete. The total time to fill the auxiliary lock in both cases was 6 minutes. All times are in Central Daylight Time (CDT). The distribution of dye within the lock chamber and downstream of the lock was measured using eight Turner Designs C3 submersible fluorometers (1 in vertical profiling mode in the lock chamber, 6 at fixed locations downstream of the lock, and 1 mounted on a mobile survey vessel).   
This data release is comprised of a time series of water surface elevation within the auxiliary lock chamber at Lock and Dam 14 on the Mississippi River near Pleasant Valley, Iowa, between June 12, 2017 and June 14, 2017. The water surface elevation within the lock chamber was monitored using an independent Van Essen Mini-Diver DI501 (SN W1006) pressure transducer deployed in the lock chamber throughout the study. A Van Essen Baro-Diver DI500 (SN T2323) was also deployed and used to monitor and compensate for changes in barometric pressure (the Mini-Diver is not vented). The water surface elevation was measured every 5 seconds.

Tags: iowa, lock-and-dam-14, mississippi-river, pleasant-valley, scott-county, surface-water-level, tracer-study, united-states, usgs-5a577588e4b01e7be245cc7e
Organization: Department of the Interior
Coastwide Reference Monitoring System (CRMS) 2021 Site 4407 land-water classification data

Wetland restoration efforts conducted by the Coastal Wetlands Planning, Protection and Restoration Act (CWPPRA) in Louisiana rely on monitoring efforts to determine the efficacy of these efforts. The Coastwide Reference Monitoring System (CRMS) was developed to assist in a multiple-reference approach that uses aspects of hydrogeomorphic functional assessments and probabilistic sampling for monitoring. The CRMS program includes a suite of approximately 398 sites that encompass the range of hydrological and ecological conditions for each stratum. As part of CRMS, land and water classifications are created from Digital Orthophoto Quarter Quadrangles (DOQQs) approximately every three years at all CRMS sites. A DOQQ is a raster image in which displacement in the image caused by sensor orientation and terrain relief has been removed and combines the image characteristics of a photo with geometric qualities of a map. The DOQQs generated for this project consist of 2021 Color Infrared (CIR) Digital Imagery. These images were classified into land and water categories using a threshold of the near infrared (NIR) band, followed by supervised and unsupervised classification.  Initial classification results are then reviewed by multiple image analysts to identify and manually recode errors. The final land-water classifications are intended to serve as both geographic and quantitative assessments of landscape composition on the date of acquisition. Five previous assessments have been conducted (2005, 2008, 2012, 2015/2016, and 2018). Once the program creates enough data points for statistical analyses, these data will be used for land area change rate calculation.

Tags: alteration-of-wetland-habitats, cartography, coastal, coastal-louisiana, crms, doqq, emergent-wetland, forested-wetland, geographic-information-system, imagerybasemapsearthcover, land-water, louisiana, mapping, marsh, protection, restoration, scrub-shrub-wetland, state-of-louisiana, usgs-64dce336d34e5f6cd5528098, wetland, wetland-restoration
Organization: Department of the Interior
Raw Continuous Resistivity Profiles from Cape Cod National Seashore, May 19, 2004

Continuous resistivity profiling (CRP) surveys were conducted at Cape Cod National Seashore in 2004 and 2006 in order to test hypotheses about groundwater flow under and into estuaries and the Atlantic Ocean. Coastal resource managers here and elsewhere are concerned about nutrients that are entering coastal waters via submarine groundwater discharge, which are contributing to eutrophication and harmful algal blooms. CRP is used to measure electrical resistivity of sediments, a property that is sensitive to differences in salinity of submarine ground water. The 2004 and 2006 surveys used floating resistivity streamers of 100 m and 50 m respectively. The depth penetration of the streamers is approximately 20% of the streamer length which translates to approximately 20-25 m with the 100 m streamer and 12-14 m with the 50 m streamer. These data were processed using AGI's EarthImager 2D software.

Tags: atlantic-ocean, cape-cod, cape-cod-national-seashore, cmgp, coastal-and-marine-geology-program, continuous-resistivity-profiling, crp, geoscientificinformation, ground-water, inlandwaters, location, massachusetts, navigational-data, north-america, oceans, of-2006-1169, open-file-report, pleasant-bay, submarine-ground-water, u-s-geological-survey, united-states, usgs, usgs-b51f8083-1534-49e8-a1df-7e30c0f9673d, whsc-field-activity-serial-number-04014, woods-hole-science-center
Organization: Department of the Interior
Data supporting the study of tree species' access to rock-derived nutrients, Tillamook State Forest, 2015

This dataset describes foliar and soil chemistry and isotopes for six tree species in Tillamook State Forest, 2015.

Tags: biogeochemical-cycling, biota, environment, forests, geoscientificinformation, nutrient-cycling, soil-chemistry, usgs-5b1966b0e4b092d965238209
Organization: Department of the Interior
s378sc.m77t and s378sc.h77t: MGD77T data and header files for single-beam bathymetry data for field activity S-3-78-SC in Southern California from 05/24/1978 to 06/01/1978

Single-beam bathymetry data along with radar and Loran-C navigation data was collected as part of the U.S. Geological Survey cruise G-1-77-EG. The cruise was conducted in Southern California from May 24 to June 1, 1978. The chief scientists were Bill Normark and Gordon Hess from the USGS Coastal and Marine Geology office in Menlo Park, CA. The geophysical source was a 12 kilohertz (kHz) and 3.5 kHz system.
These data are reformatted from space-delimited ASCII text files located in the Coastal and Marine Geology Program (CMGP) InfoBank field activity catalog at http://walrus.wr.usgs.gov/infobank/g/g177eg/html/g-1-77-eg.meta.htmlinto MGD77T format provided by the NOAA's National Geophysical Data Center(NGDC). The MGD77T format includes a header (documentation) file (.h77t) and a data file (.m77t). More information regarding this format can be found in the publication listed in the Cross_reference section of this metadata file.

Tags: bathymetry, bathymetry-and-elevation, bathymetry-measurement, distributions, geoscientificinformation, marine-geology, marine-geophysics, oceans, pacific-ocean, seafloor-topography, single-beam-bathymetry, single-beam-echo-sounder, southern-california, state-of-california, usgs-4d8a061b-f2e3-4990-8180-d57b85314f65, water-depth
Organization: Department of the Interior
Digital Orthorectified Aerial Image of Cottonwood Lake Study Area Wetland T2 from 16 July 1998

Orthorectified image from aerial photograph of wetland T2 in the Cottonwood Lake Study Area, Stutsman County, North Dakota. This image is part of a collection of photographs of the study area acquired during July and early August from 1975 to 2015.

Tags: aerial-photography, chase-lake-wetland-management-districtgtstutsman-county-waterfowl-production-areagteddy, chase-lake-wetland-management-districtgtstutsman-county-waterfowl-production-areagtshuler, cottonwood-lake-study-area, earth-sciencegtbiospheregtecosystemsgtaquatic-ecosystemsgtwetlands, earth-sciencegtbiospheregtecosystemsgtterrestrial-ecosystemsgtwetlands, environment, image-collections, imagerybasemapsearthcover, inlandwaters, north-dakota, northern-great-plains, platformgtaerial-photographs, prairie-pothole-region, stutsman-county, surface-water-non-marine, united-states-of-america, usgs-58863941e4b0cad700058b3d, wetland-ecosystems
Organization: Department of the Interior
Flood Inundation Depth for a Flow of 1,200 cfs (stage 11) at Gage 14211500, Johnson Creek near Sycamore, Oregon (sycor_11.tif)

The basis for these features is U.S. Geological Survey Scientific Investigation Report 2017-5024 Flood Inundation Mapping Data for Johnson Creek near Sycamore, Oregon. The domain of the HEC-RAS hydraulic model is a 12.9 mile reach of Johnson Creek from just upstream of SE 174th Avenue in Portland, Oregon to its confluence with the Willamette River. Some of the hydraulics used in the model were taken from Federal Emergency Management Agency, 2010, Flood Insurance Study, City of Portland, Oregon, Multnomah, Clackamas and Washington Counties, Volume 1 of 3, November 26, 2010. The Digital Elevation Model (DEM) utilized for the project was developed from LiDAR data flown in 2015 and provided by the Oregon Department of Geology and Mineral Industries. Bridge decks are generally removed from DEMs as standard practice. Therefore, these features may be shown as inundated when they are not. Judgement should be used when estimating the usefulness of a bridge during flood flow. Comparing the bridge to the surrounding ground can be more informative in this respect than simply looking at the bridge itself. Two model plans were used in the creation of the flood layers. The first is a stable model plan using unsteady flow in which the maximum streamflow is held in place for a long period of time (a number of days) in order to replicate a steady model using an unsteady plan. The stable model plan produced the areas of uncertainty contained in the sycor_breach.shp shapefile. The second is an unstable model plan that uses unsteady flow in which the full hydrograph (rising and falling limb) is represented based on the hydrograph shape of the December 2015 peak annual flood.  The unstable model plan produced the flood extent polygons contained in the sycor.shp shapefile and the depth rasters and represents the best estimate of flood inundation for the given streamflow at U.S. Geological Survey streamgage 14211500.

Tags: digital-elevation-models, floods, hydrology, inlandwaters, johnson-creek, portland-oregon, stream-discharge, streamflow, usgs-58f78978e4b0b7ea5451f0d6, willamette-valley
Organization: Department of the Interior
Velocity Mapping Toolbox (VMT) processed Acoustic Doppler Current Profiler (ADCP)  transect data averaged from 2 to 4 meters on June 24, 2015

This data release supports the following publication: Hittle, Elizabeth, 2017, Longshore Water-Current Velocity and the Potential for Transport of Contaminants: A Pilot Study in Lake Erie from Walnut Creek to Presque Isle State Park Beaches, Erie, Pennsylvania, June and August 2015: U.S. Geological Survey Open-File Report 2016–1206 126 p., https://doi.org/10.3133/ofr20161206. 
This dataset is Velocity Mapping Toolbox (VMT) processed Acoustic Doppler Current Profiler (ADCP) data.  The data was processed with a horizontal averaging of 5 grid nodes (Parsons, D.R., Jackson, P.R., Czuba, J.A., Oberg, K.A., Mueller, D.S., Rhoads, B., Best, J.L., Johnson, K.K., Engel, F., and Riley, J. (2013) Velocity Mapping Toolbox (VMT): a processing and visualization suite for moving-vessel ADCP measurements, Earth Surface Processes and Landforms. doi: 10.1002/esp.3367).  Data was collected on June 24, the depth range is 2 to 4 meters.

Tags: erie-county, lake-erie, pennsylvania, presque-isle-state-park, usgs-57a2000ee4b006cb455537aa, water-circulation, water-depth, water-velocity
Organization: Department of the Interior
Climate, Landscape, and Water-Quality Metrics for Selected Watersheds in Fairfax County, Virginia, 2007 – 2018

This data release documents spatiotemporal water-quality, landscape, and climatic conditions in Fairfax County, Virginia from 2007 through 2018. These data were used to evaluate the water-quality and ecological condition of 20 Fairfax County watersheds monitored since 2007. Data include measures of water-quality, precipitation, air temperature, land use, land cover, wastewater and stormwater infrastructure, soil properties, geologic setting, and stream networks. Annual values from 2007 through 2018 are reported for data expected to change over time. Watershed-specific values are reported for data that differ across the landscape. Annual values for the 20 study watersheds and Fairfax County are reported in the file "Spatiotemporal Predictors.csv". A description of each spatiotemporal variable, including data sources, are provided in the file "Data Dictionary.csv".

Tags: air-temperature, biota, land-use-and-land-cover, precipitation-atmospheric, usgs-6267d31ad34e76103ccf16aa, water-quality
Organization: Department of the Interior
Borehole Nuclear Magnetic Resonance Inverted Models; Alaska, 2015

Fire can be a significant driver of permafrost change in boreal landscapes, altering the availability of soil carbon and nutrients that have important implications for future climate and ecological succession. However, not all landscapes are equally susceptible to fire-induced change. As fire frequency is expected to increase in the high latitudes, methods to understand the vulnerability and resilience of different landscapes to permafrost degradation are needed. Geophysical and other field observations reveal details of both near-surface (less than 1 m) and deeper (greater than 1 m) impacts of fire on permafrost along 14 transects that span burned-unburned boundaries in different landscape settings within interior Alaska. Downhole nuclear magnetic resonance (NMR) data are used to quantify in situ unfrozen water content in shallow auger holes.

Tags: active-layer-thickness, alaska, borehole-nuclear-magnetic-resonance, chatanika, city-of-fairbanks, coldfoot, disturbance, environment, fire, fire-damage, fires, geology-geophysics-and-geochemistry-science-center, geoscientificinformation, gggsc, mineral-resources-program, mrp, organic-layer-thickness, permafrost, resistivity, resistivity-profiling, soil-moisture, soils, toolik-lake, usgs-583474e7e4b0070c0abfb36d, vegetation
Organization: Department of the Interior
Wind rose plots for the volcano: 257030  Aoba

This zip folder contains ASCII text files of vectors at the specified volcano at 
12-hour intervals, 
from January 1, 1990 through December 28, 2009.  
The wind vectors are divided into five files, names by their elevation range above 
sea level in the atmosphere: 00-05km.txt; 05-11km.txt; 11-16km.txt; 16-24km.txt; 
and 24-30km.txt. 
The zip folder also contains a subfolder "figures", with Wind rose plots of wind 
direction and speed over 
this time period.  The plots are by season, and by elevation, given a total of 20 
plots (4 seasons, 5 
elevation ranges).  A summary plot is also included which gives the year-round 
wind pattern at the volcano, 
at 0-5 km elevation.  Plots are in both jpg and pdf format.

Tags: meteorology, usgs-58d011dfe4b0236b68f52abf, volcanic-ash, volcanic-eruption-forecasting, wind
Organization: Department of the Interior