AndreaBozzo/ceres-open-data-index huggingface dataset:
Vegetation cover from line intercept transects in lagomorph exclosure and shrub removal plots at the Jornada Experimental Range, southern New Mexico, USA, 1938-2001

<p>This package contains data from a study to quantify vegetation dynamics in response to lagomorph and shrub exclusion on the Jornada Experimental Range from 1938-2001. Data consist of vertical line intercept measures of the perennial grasses, suffretescents and shrubs. Sixteen plots at each of 3 sites (Gravelly Ridges, Dona Ana exclosure, and Parker Tank) were established in 1938-39. Plots were 21.3 x 21.3 m with a 7.6 m buffer zone between each. Plots were divided into east and west halves and 14 randomly located 10.65 m transects were located in each half plot. Vegetation was measured using vertical line intercepts in 1938, 1947, 1956, 1960, 1967, 1989, 1995, and 2001 for the Gravelly Ridges site, and in 1938/9, 1947, 1960, 1967, and 2001 for the Parker Tank and Dona Ana sites. The treatments include lagomorph exclusion (using wire fencing), shrub removal (hand grubbing at the ground surface), furrowing (shallow, hand raked furrows to trap surface water), and seeding (broadcast applications of seeds of native perennials). Seeding and furrowing treatments were only applied in 1939. Lagomorph exclusion has persisted since establishment, and shrub removal treatments have been reapplied immediately following all years of vegetation sampling. The dataset contains information on the site, year of data collection, plot number, line number, vegetation, and number of vegetation present on each line. This study is complete.For more information, refer to:Havstad, K.M., R.P. Gibbens, C.A. Knorr, and L.W. Murray. 1999. Long-term influences of shrub removal and lagomorph exclusion on Chihuahuan Desert vegetation dynamics. Journal of Arid Environments 42: 155-166. <a href="https://doi.org/10.1006/jare.1999.0516">https://doi.org/10.1006/jare.1999.0516</a> </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Website Pointer to html file.</p> <p>File Name: Web Page, url: <a href="https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210392001">https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210392001</a> </p><p>Webpage with information and links to data files for download</p></li></ul><p></p>

Tags: ars, basal-area, canopy-cover, data-gov, deserts, disturbance, dona-ana, exclosure, grasslands, gravelly-ridges, herbivores, herbivory, jer, long-term, np216, nsf-lterlong-term-ecological-research, parker-tank, plant-animal-interactions, plant-cover, populations, shrub-removal, shrubs, study-392, thinning, transects, vegetation-dynamics
Organization: Department of Agriculture
Soil movement across black grama and mesquite ecotone transects in the Jornada Basin, southern New Mexico, USA, 1933-2011

<p>This package contains data from a study that measured long-term soil movement in areas undergoing mesquite invasion on the Jornada Experimental Range from 1933-2011. Data consist of height measurements of soil on two long-term transects established in the Natural Revegetation Exclosure (NatReveg) in 1933 and an exclosure in Pasture 8b in 1935. In 1933, about half of the NatReveg exclosure was covered with mesquite dunes. Grasses dominated the non-dune portion, but mesquite plants were present. Approximately one-third of the NatReveg site exclosure was sprayed with 2,4,5-T herbicide for mesquite control in 1966-68. Additional herbicide treatments were conducted upon the sprayed portion in 1969-72. The 1731-m NatReveg exclosure transect runs north-south through the center of the exclosure and extends 61 m (200ft) beyond the boundary fence on either end. The 457-m Pasture 8b transect is oriented WSW-ENE and was established in an area where mesquite dunes were large and well established. The predominant soils in this exclosure are deep loamy sands. Soil movement was measured by the distance between the soil surface and a notch in 50 cm T-posts located every 15.2 m (50 ft). Transects were measured in 1950 (8b only), 1955 (8b only), every five years from 1980-2000, and most recently in 2011. Most steel posts were re-measured at these intervals, but some were lost due to excavation or burial. These were replaced with a new baseline notch height initiated on the posts. Data correspond to each year of collection, as well as measures (in cm) of soil deposition or deflation during the intervals. This study is complete.For further information, see:Gibbens, R.P., J.M. Tromble, J.T. Hennessy, and M. Cardenas, 1983. "Soil movement in mesquite dunelands and former grasslands of southern New Mexico from 1933 to 1980." Journal of Range Management 36:145-148. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Website Pointer to html file.</p> <p>File Name: Web Page, url: <a href="https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210365001">https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210365001</a> </p><p>Webpage with information and links to data files for download</p></li></ul><p></p>

Tags: ars, cdrrc, data-gov, debris-flows, deflation, desert, disturbance, disturbance-patterns, dunes, erosion, grasslands, jer, land-use-history, long-term, nautral-revegetation-exclosure, np216, nsf-lterlong-term-ecological-research, pasture-8b, sedimentation, sediments, soil, soil-disturbance, soil-horizons, soil-movement, soil-properties, study-365, topography, transects, usda
Organization: Department of Agriculture
Plant Density at Permanent Quad Locations on the Jornada Experimental Range, 1915-ongoing

<p>This ongoing data set contains counts of perennial forbs and subshrubs in 122 1m x 1m quadrats on the Jornada Experimental Range in the northern extent of the Chihuahuan Desert of New Mexico, USA. These quadrats were established to investigate livestock grazing effects on plant community dynamics as well as responses to variable climatic conditions over time. Vegetation monitoring is carried out by charting the locations of forbs and subshrubs within each quadrat. Quadrats were established at different times, with start dates from 1915 to 1935. Specific quadrat locations were selected for a variety of reasons, but the overall intent was to represent varying plant community conditions across the Jornada Experimental Range. From 1915 to 1924 charting was done by dividing the quadrat frame into a decimeter grid using straps and reproducing locations of plants on grid paper. From 1925 to 2016 charting was done using a pantograph. With few exceptions, quadrats were charted until 1947, and a portion of the quadrats were charted intermittently between 1947 and 1979. Sampling resumed again in 1995 and continues every 5-6 years. Charts are digitally scanned, georeferenced, and chart features are digitally reproduced by hand. This data set is not yet complete; charts are actively being processed by Jornada Experimental Range staff and will be updated to this data package as they become available. A companion data package of basal cover of perennial grasses and canopy cover of shrubs is also available for this project (data package knb-lter-jrn.210351001).   </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Website Pointer to html file.</p> <p>File Name: Web Page, url: <a href="https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210351002">https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-jrn&identifier=210351002</a> </p><p>Webpage with information and links to data files for download</p></li></ul><p></p>

Tags: arid-grasslands, ars, core, data-gov, desertification, grazing, jer, land-use-and-land-cover-change, np216, nsf-lterlong-term-ecological-research, perennial-forbs, permanent-quadrats, plant-communities, plant-functional-types, plant-growth, plant-species, plant-species-composition, plants, populations, primary-production, study-351, subshrubs, vascular-plants, vegetation-dynamics
Organization: Department of Agriculture
SGP97 GCIP/EOP Surface: Precipitation NCEP/EMC 4KM Gridded Data (GRIB) Multi-Sensor Analysis (MUL) <-2001

<p>The Southern Great Plains 1997 (SGP97) Hydrology Experiment originated from an interdisciplinary investigation, "Soil Moisture Mapping at Satellite Temporal and Spatial Scales" (PI: Thomas J. Jackson, USDA Agricultural Research Service, Beltsville, MD) selected under the NASA Research Announcement 95-MTPE-03. The Global Energy and Water Cycle Experiment (GEWEX) Continental-scale International Project (GCIP) Enhanced Observing Period (EOP) takes place in the Mississippi River basin, which provides a number of watershed areas that are potentially useful for hydrologic focused studies. The temporal coverage for this dataset is as follows: Begin datetime: 1996-07-09 00:00:00, End datetime: 2001-12-31 23:59:59. This dataset contains the National Centers for Environmental Prediction (NCEP) Environmental Modeling Center (EMC) 4 KM GRIB multi-sensor analysis ("MUL") data. A prototype, real-time, hourly, multi-sensor National Preciptation Analysis (NPA) has been developed at NCEP in cooperation with the Office of Hydrology (OH). This analysis merges two data sources that are currently being collected in real-time by OH and NCEP. Hourly digital precipitation (HDP) radar estimates are created by the WSR-88D Radar Product Generator on a 131 X 131 4-km grid centered over each radar site. Data analysis routines, including a bias correction of the radar estimates using rain gage data, have been adapted by NCEP on a national 4-km grid from algorithms developed by OH and executed regionally at NWS River Forecast Centers (RFC). This dataset only contains the NCEP 4 KM GRIB Data multi-sensor hourly, 6-hourly, and daily analysis (gage and unbiased radar). 6-hourly data are generally available at 00Z, 06Z, 12Z, and 18Z. Daily data are generally available at 12Z. Depending on the time period selected, all three datasets may or may not be available. Other NCEP 4 KM GRIB Data including gage-only analysis, radar estimate, radar estimate after bias removal, and gage-only analysis using 24h accumulated ("RFC") data are available as independent datasets. Depending on the time period selected, all five types may or may not be available. Please see GCIP/EOP: Surface NCEP Ancillary Catalogue of Available GCIP Precipitation Data (NCEP/EMC). The format of the files is GRIB. The files are compressed using the UNIX "compress" command and "uncompress" must be used before decoding.</p> <div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: GeoData catalog record.</p> <p>File Name: Web Page, url: <a href="https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/SGP974KM2001_JJM_2015-04-24_1054" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/SGP974KM2001_JJM_2015-04-24_1054</a> </p></li></ul>

Tags: ars, data-gov, earth-science-agriculture-soils-soil-moisture-water-content, earth-science-atmosphere-precipitation-rain, earth-science-spectral-engineering-radar, environment, farming, rain-gauges
Organization: Department of Agriculture
Data from: Genomic analysis of a malate decarboxylation deficient lactic acid bacterium, Lactiplantibacillus pentosus MU045

<p>This is a Microsoft Excel spreadsheet containing raw absorbance data collected from PM01 and PM02A plates in an Omnilog system for Lactiplantibacillus pentosus LA0445 and MU045. Independent duplicates were run for each bacterial culture.</p>
<p>Resources in this dataset: </p>
<ul>
<li>Resource Title: Omnilog Phenotype Microarray Data for Lactiplantibacillus pentosus LA0445 and MU045
File Name: Omnilog Data for L pentosus LA0445 and MU045.xlsx</li>
</ul>

Tags: ars, biolog, comparative, data-gov, lactobacilli, np306, omnilog, pentosus, phenotype
Organization: Department of Agriculture
Upper Washita River Experimental Watersheds: Nutrient Water Quality Data

<p>Climate variability, changing land use and management, and dynamic policy environments are the main reasons why long-term water quality data sets are needed to understand and predict possible water quality outcomes to alternative future scenarios. Such data sets were acquired by the USDA-ARS in three watersheds in Oklahoma: the Southern Great Plains Research Watershed (SGPRW), the Little Washita River Experimental Watershed (LWREW), and the Fort Cobb Reservoir Experimental Watershed (FCREW). Water quality data collection in the SGPRW began in the 1960s and continued through 1978, while that in the LWREW covered the 1960s to 1990 period. Data collection began in the FCREW in 2004 and continues through the present.

The data were collected from streams, unit source watersheds, groundwater wells, and reservoirs. It should be noted that various forms of P—reactive P, total P, soluble P, water-soluble P, particulate P, bioavailable P, total water-soluble P—were measured and are described here as given in the original data sets. No effort was made to determine the similarity of these variables.</p> <div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: GeoData catalog record.</p> <p>File Name: Web Page, url: <a href="https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/WashitaNutrient_jjm_2015-03-16_1025" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/WashitaNutrient_jjm_2015-03-16_1025</a> </p></li></ul>

Tags: ars, autoanalyzer, colorimeters, data-gov, earth-science-agriculture-soils, earth-science-agriculture-soils-nitrogen, earth-science-agriculture-soils-phosphorus, earth-science-climate-indicators, earth-science-human-dimensions-environmental-governance-management-land-management, earth-science-land-surface-land-use-land-cover-land-resources, earth-science-services-models-climate-change-impact-assessment-models, earth-science-terrestrial-hydrosphere-ground-water-groundwater-chemistry, earth-science-terrestrial-hydrosphere-surface-water-processes-measurements-rivers-streams, earth-science-terrestrial-hydrosphere-water-quality-water-chemistry, earth-science-terrestrial-hydrosphere-water-quality-water-chemistry-nutrients, pressure-transducers, stream-gauges, turbidity-meters
Organization: Department of Agriculture
Data from: Dataset of bovine mammary gland dry secretion proteome from the end of lactation through day 21 of the dry period

<p>This dataset is a label-free quantitation of proteins milk and dry secretions from the end of lactation through day 21 of the dry period using liquid chromatography with tandem mass spectrometry (LC-MS/MS). The data supplied in this article supports the accompanying publication entitled “Characterization of bovine mammary gland dry secretions and their proteome from the end of lactation through day 21 of the dry period”. The Thermo mass spectrometry raw files and MaxQuant files have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset number PXD017837. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Characterization of Bovine Dry Secretions and their Proteome from the End of Lactation Through Day 21 of the Dry Period - ProteomeXchange Consortium via the PRIDE partner repository, Project PXD017837.</p> <p>File Name: Web Page, url: <a href="https://www.ebi.ac.uk/pride/archive/projects/PXD017837">https://www.ebi.ac.uk/pride/archive/projects/PXD017837</a> </p><p>Thermo raw file code for Pride raw files and supplemental Excel files. The 3 technical replicates are denoted as a letter A, B and C. The number following is the cow identification number for 11 cows used. The final two-digit number after the underscore is the day sampled where _01 = day 1, _03 = day 3, _10 = day 10 and _21 = day 21 of dry period. For example, A1313_01 is technical replicate A for cow 1313 collected on day 1. B1313_03 is technical replicate B for cow 1313 collected on day 3. Details of sample and data processing protocols are provided.</p></li></ul><p></p>

Tags: ars, bovine-dry-secretions, dairy-cow-dry-period, data-gov, mammary-involution, mastitis, np103, proteome
Organization: Department of Agriculture
Data from: Exotic herbivores and fire energy drive standing herbaceous biomass but do not alter compositional patterns in a semiarid savanna ecosystem

<p>The data comprise 2 years of biomass and plant community data from a study on fire and herbivore impacts on vegetation in semi-arid Texas savanna. Data are from 72 10m x 10m plots. We randomly assigned one of three fire treatments (no fire, low-energy fire, and high-energy fire), to each whole plot, resulting in 24 replicates. We then divided each of the seventy-two whole plots into four quadrants and established a subplot in the middle of each quadrant. We randomly assigned one of two herbivory treatments to two subplots within each whole plot, with an herbivore exclusion cage (hereafter exclosure) randomly assigned to two subplots; the remaining two subplots served as controls (herbivore-accessible with no exclosure; hereafter herbivore-accessible). We constructed exclosures from 0.13 x 0.76m 19-gauge steel hardware cloth encircled into a 0.5m diameter cage. We secured them with wires to ensure there were no gaps and securely anchored them to be flush with the soil surface. Similar hardware cloth roofs were constructed and affixed on the top of the exclosures to ensure exclusion of vertebrate herbivores. The herbivore-accessible controls were equivalent diameter subplots without an exclosure.</p>
<p>During the growing season one year after treatment implementation (April 2019) we selected one exclosure and one herbivore-accessible subplot for above-ground biomass harvesting. We removed exclosures and hand-clipped all vegetation in the plot to soil level, separated it by functional group, placed it in paper bags, and dried it at 60 degrees C for 24hrs prior to weighing. We clipped herbivore-accessible subplots in the same manner using a 0.5m diameter circular wire-frame to mimic the caged area in adjacent subplots. This process was repeated in August 2020 on the two remaining unharvested subplots. Before clipping, for each subplot, we visually assessed the percent cover of each species present following the Daubenmire classification system.</p>
<p>Resources in this dataset:</p>
<ul>
<li>Resource Title: Fire Herbivory Subplot Data
File Name: TexasFireEnergyPlotsDataset.xlsx
Resource Description: All data from the project and a tab for metadata</li>
</ul>

Tags: ars, data-gov, extreme-fire, grassland-community-composition, herbaceous-biomass, indian-axis-deer, np304, np305, pyric-herbivory, texas-semi-arid-rangeland, white-tailed-deer, woody-encroachment
Organization: Department of Agriculture
MaLi Fallow Study for Greenhouse gas Reduction through Agricultural Carbon Enhancement network in Mandan, North Dakota

<p>The ‘Management Strategies for Soil Quality’ study was established in 1993 by Dr. Don Tanaka (USDA-ARS-NGPRL) to evaluate long-term impacts of minimum and no-till cropping systems on crop yield, precipitation use, and soil properties.  The study was designed with six crop sequences (whole plot) each split by tillage type (split plot).  All phases of each crop sequence are present every year, and treatments are replicated three times.</p>
<p>See record in the GeoData catalog at <a href="https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/dda43934-b75f-46da-b48e-81be1317b79b">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/dda43934-b75f-46da-b48e-81be1317b79b</a> for more information and links to the data resources.</p>

Tags: agricultural-carbon, agropyron-desertorum, ars, botanical-composition, carbon-dioxide, carbon-sequestration, cattle, crop-sequences, crop-yield, data-gov, farming, gas-emissions, global-warming, grasslands, grazing-intensity, grazing-management, greenhouse-gases, indigenous-species, livestock-production, methane, nitrogen-fertilizers, nitrous-oxide, no-till-cropping-system, north-dakota, np212, pasture-plants, pastures, precipitation, rangelands, soil, soil-organic-carbon, soil-quality, soil-respiration
Organization: Department of Agriculture
Data and code from: Cultivation and dynamic cropping processes impart land-cover heterogeneity within agroecosystems: a metrics-based case study in the Yazoo-Mississippi Delta (USA)

<p dir="ltr">This dataset contains data and code from the manuscript:</p><p dir="ltr">Heintzman, L.J., McIntyre, N.E., Langendoen, E.J., & Read, Q.D.  (2024). Cultivation and dynamic cropping processes impart land-cover heterogeneity within agroecosystems: a metrics-based case study in the Yazoo-Mississippi Delta (USA). <i>Landscape Ecology</i> <b>39</b>, 29 (2024). https://doi.org/10.1007/s10980-024-01797-0</p><p dir="ltr">There are 14 rasters of land use and land cover data for the study region, in .tif format with associated auxiliary files, two shape files with county boundaries and study area extent, a CSV file with summary information derived from the rasters, and a Jupyter notebook containing Python code.</p><p dir="ltr">The rasters included here represent an intermediate data product. Original unprocessed rasters from NASS CropScape are not included here, nor is the code to process them.</p><h3>List of files</h3><ul><li><code>MS_Delta_maps.zip</code></li><li><ul><li><code>MSDeltaCounties_UTMZone15N.shp</code>: Depiction of the 19 counties (labeled) that intersect the Mississippi Alluvial Plain in western Mississippi.</li><li><code>MS_Delta_MAP_UTMZone15N.shp</code>: Depiction of the study area extent.</li></ul></li><li><code>mf8h_20082021.zip</code></li><li><ul><li><code>mf8h_XXXX.tif</code>: Yearly, reclassified and majority filtered LULC data used to build <code>comboall1.csv</code> - derived from USDA NASS CropScape. There are 14 .tif files total for years 2008-2021. Each .tif file includes auxiliary files with the same file name and the following extensions: .tfw, .tif.aux.xml, .tif.ovr., .tif.vat.cpg., .tif.vat.dbf.</li></ul></li><li><code>comboall1.csv</code>: Combined dataset of LULC information for all 14 years in study period.</li><li><code>analysis.ipynb_.txt</code>: Jupyter Notebook used to analyze <code>comboall1.csv</code>. Convert to <code>.ipynb</code> format to open with Jupyter.</li></ul><p dir="ltr">This research was conducted under USDA Agricultural Research Service, National Program 211 (Water Availability and Watershed Management).</p>

Tags: ars, crop-rotation, data-gov, land-use-and-land-cover, land-use-and-land-cover-change, landscape, mississippi-delta, np211
Organization: Department of Agriculture