AndreaBozzo/ceres-open-data-index huggingface dataset:
Germplasm Resources Information Network (GRIN)

<p>The <a href="https://www.ars-grin.gov/">Germplasm Resources Information Network</a> (GRIN) is an online portal for information about agricultural genetic resources that are managed by the Agricultural Research Service of USDA, along with U.S. partnering organizations. </p>
<p>The content includes general information about ARS animal, microbial and plant germplasm collections, most notably the U.S. National Plant Germplasm System (NPGS). The NPGS curates more than 600,000 active accessions of living plant material at 20 genebank locations around the U.S., and makes small quantities available globally to plant breeders and other professional scientists. </p>
<p>GRIN also documents activities of Crop Germplasm Committees (CGC) that support the NPGS. The CGCs are comprised of public and private sector subject matter experts for a given crop (there are currently 44 CGCs) who voluntarily provide input on technical and operational matters to the NPGS.</p>
<p>The site includes two searchable datasets: the ARS Rhizobium collection and Plant Variety Protection Certificates. The Rhizobium collection is living bacteria that nodulate the roots of leguminous plants symbiotically to provide nitrogen fixation. Samples are available to research scientists globally upon request. The Plant Variety Protection (PVP) Certificates are issued by the Agricultural Marketing Service (AMS) of USDA to provide intellectual property protection to registered new varieties of plants that are propagated by seed or tubers. The GRIN site allows queries of PVPs by certificate number, name of the crop, variety name, or certificate holder, all using data provided by the AMS.</p>
<div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Website Pointer for Germplasm Resources Information Network (GRIN).</p> <p>File Name: Web Page, url: https://www.ars-grin.gov/ </p></li></ul>

Tags: angiosperms, animals, arid-land-plant, ars, biofluids, cell-cultures, cotton, data-gov, food-security, genetics, germplasm, grains, gymnosperms, legumes, livestock, maize, national-arboretum, np301, online-database, organisms, ornamental-plant, pea, plants, potato, pteridophytes, rice, seeds, soybean, species, tissue-cultures, tomato, u-s-forest-service
Organization: Department of Agriculture
PHACE Study for Greenhouse gas Reduction through Agricultural Carbon Enhancement network in Cheyenne, Wyoming

<p>PHACE Study for Greenhouse gas Reduction through Agricultural Carbon Enhancement network in Cheyenne, Wyoming</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/5b4b1e8e-ab58-4bfa-a3f1-67e84ba71dd8" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/5b4b1e8e-ab58-4bfa-a3f1-67e84ba71dd8</a> </p></li></ul>

Tags: ars, carbon, data-gov, environment, farming, greenhouse-gasses, np211, np212
Organization: Department of Agriculture
Dr. Duke's Phytochemical and Ethnobotanical Databases

<p>Of interest to pharmaceutical, nutritional, and biomedical researchers, as well as individuals and companies involved with alternative therapies and and herbal products, this database is one of the world's leading repositories of ethnobotanical data, evolving out of the extensive compilations by the former Chief of USDA's Economic Botany Laboratory in the Agricultural Research Service in Beltsville, Maryland, in particular his popular <em>Handbook of phytochemical constituents of GRAS herbs and other economic plants</em> (CRC Press, Boca Raton, FL, 1992).  In addition to Duke's own publications, the database documents phytochemical information and quantitative data collected over many years through research results presented at meetings and symposia, and findings from the published scientific literature.</p>
<p>The current Phytochemical and Ethnobotanical databases facilitate plant, chemical, bioactivity, and ethnobotany searches. A large number of plants and their chemical profiles are covered, and data are structured to support browsing and searching in several user-focused ways. For example, users can </p>
<ul>
<li>get a list of chemicals and activities for a specific plant of interest, using either its scientific or common name</li>
<li>download a list of chemicals and their known activities in PDF or spreadsheet form</li>
<li>find plants with chemicals known for a specific biological activity</li>
<li>display a list of chemicals with their LD toxicity data</li>
<li>find plants with potential cancer-preventing activity</li>
<li>display a list of plants for a given ethnobotanical use</li>
<li>find out which plants have the highest levels of a specific chemical </li>
</ul>
<p>References to the supporting scientific publications are provided for each specific result.  </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Duke-Source-CSV.zip.</p> <p>File Name: Duke-Source-CSV.zip</p><p>Resource Description: Dr. Duke's Phytochemistry and Ethnobotany - raw database tables for archival purposes.</p>
<p>Visit <a href="https://phytochem.nal.usda.gov/phytochem/search">https://phytochem.nal.usda.gov/phytochem/search</a> for the interactive web version of the database.</p></li><br><li><p>Resource Title: Data Dictionary (preliminary).</p> <p>File Name: DrDukesDatabaseDataDictionary-prelim.csv</p><p>Resource Description: This Data Dictionary describes the columns for each table. [Note that this is in progress and some variables are yet to be defined or are unused in the current implementation. Please send comments/suggestions to nal-adc-curator@ars.usda.gov ]</p></li></ul><p></p>

Tags: ars, data-gov, nal-ksd, online-database
Organization: Department of Agriculture
PAUP Study for Resilient Economic Agricultural Practices in University Park, Pennsylvania

<p>PAUP Study for Resilient Economic Agricultural Practices in University Park, Pennsylvania</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/429040e1-69ff-4472-897d-179b23fc6258" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/429040e1-69ff-4472-897d-179b23fc6258</a> </p></li></ul>

Tags: agricultural-economics, agricultural-practices, ars, data-gov, environment, farming, np211, np212
Organization: Department of Agriculture
Data from: Solving the Robot-World Hand-Eye(s) Calibration Problem with Iterative Methods

<p>These datasets were generated for calibrating robot-camera systems.  In an extension, we also considered the problem of calibrating robots with more than one camera.  </p>
<p>These datasets are provided as a companion to the paper "Solving the Robot-World Hand-Eye(s) Calibration Problem with Iterative Methods" by Amy Tabb and Khalil M. Ahmad Yousef.</p>
<p>Included are eight datasets in zipped files, numbered DS1.zip, DS2.zip, etc.</p>
<p>Explanations of the format of the datasets is provided in the README resource in the file "README_input_format.txt".  Generally, each zipped folder consists of images and a text file of robot positions when those images were acquired.</p>
<p>Open source code can be found at:
<a href="https://github.com/amy-tabb/RWHEC-Tabb-AhmadYousef">https://github.com/amy-tabb/RWHEC-Tabb-AhmadYousef</a></p>
<p>We also include the results of using our code on one of the datasets so that you can be sure that the code worked correctly.  This folder is named DS1_write.zip and can be found in the resource titled "Output from running methods on Dataset 1".</p>
<p>Problems/Comments/Bugs should be addressed to amy.tabb@ars.usda.gov </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: README.</p> <p>File Name: README_input_format.txt.txt</p><p>Resource Description: This file gives an in-depth description of the image and robot position datasets.</p></li><br><li><p>Resource Title: Dataset 1.</p> <p>File Name: DS1.zip</p></li><br><li><p>Resource Title: Dataset 2.</p> <p>File Name: DS2.zip</p></li><br><li><p>Resource Title: Dataset 3.</p> <p>File Name: DS3.zip</p></li><br><li><p>Resource Title: Dataset 4.</p> <p>File Name: DS4.zip</p></li><br><li><p>Resource Title: Dataset 5.</p> <p>File Name: DS5.zip</p></li><br><li><p>Resource Title: Dataset 6.</p> <p>File Name: DS6.zip</p></li><br><li><p>Resource Title: Dataset 7.</p> <p>File Name: DS7.zip</p></li><br><li><p>Resource Title: Dataset 8.</p> <p>File Name: DS8.zip</p></li><br><li><p>Resource Title: Output from running methods on Datatset 1.</p> <p>File Name: DS1_write.zip</p></li></ul><p></p>

Tags: ars, calibration, computer-vision, data-gov, np305, reconstruction, robotics
Organization: Department of Agriculture
Osmia lignaria genome assembly release v1

<p>Genome was assembled from a single male, gDNA isolated from the flight muscle using the Gentra Puregene kit.  PacBio S2 sequencing at 127x coverage, polished with NextSeq-500 Illumina reads at >150x coverage.</p>
<p>The project is funded by the USDA Agricultural Research Service and North Dakota State University through a Track-2 EPSCoR grant (NSF-EPSCoR-1826834). </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Osmia lignaria genome assembly release v1.</p> <p>File Name: OligGenome-v1.zip</p></li></ul><p></p>

Tags: ars, bees, data-gov, de-novo-genome, native-bees, np305, pollinators, solitary-bees
Organization: Department of Agriculture
Data from: Insect Pollinivores of Sorghum bicolor and Plant Traits that Influence Visitation

<p dir="ltr">Grasses such as sorghum are rarely considered as an important food resource for pollinators. In this study, we report insects collecting or consuming pollen of sorghum over the 8-week flowering period of a mapping population in Tifton, GA. We also examine the response of insects to plant morphological traits and disease damage, and the ability of bumble bees to cross-pollinate sorghum.</p><p dir="ltr"><b>Supplemental Figure Legends:</b></p><p dir="ltr"><b>Supplemental Fig. 1. Average air temperature (orange line) and precipitation (blue bars) that occurred during the sorghum growing season of 2022 in Tifton, GA.</b><b> </b><b>Data from NRCS National Water and Climate Center, SCAN site no. 2027 (https://wcc.sc.egov.usda.gov/nwcc/site?sitenum=2027).</b></p><p dir="ltr"><b>Supplemental Fig. 2. Probability of observing a hover fly on a sorghum panicle for each week of flowering.</b><b> </b><b>Probabilities with the same letter are not different at α = 0.05.</b></p><p dir="ltr"><b>Supplemental Fig. 3. Probability of observing a bee (honey, bumble, or southern carpenter) on a sorghum panicle each week of flowering. </b><b>Probabilities with the same letter are not different at α = 0.05.</b></p><p dir="ltr"><b>Supplemental Fig. 4. The probability of observing an insect on a sorghum panicle by week of flowering. </b><b>Probabilities with the same letter are not different at α = 0.05.</b></p><p dir="ltr"><br></p>

Tags: bee, hover-fly, pollen, pollinators, sorghum
Organization: Department of Agriculture
LTAR Walnut Gulch Experimental Watershed Kendall Phenocam

<p>A stationary camera overlooking the Kendall sub-watershed in the Walnut Gulch Experimental Watershed used to track vegetation phenology (RGB and IR imagery). Images are taken every 30 minutes between 4:00am and 10:30pm local standard time. 

A link to the Phenocam's network FAQ: https://phenocam.sr.unh.edu/webcam/faq</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/8bab3971-4125-4480-8616-9303f8418378" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/8bab3971-4125-4480-8616-9303f8418378</a> </p></li></ul>

Tags: ars, biota, cameras, data-gov, environment, farming, np211, phenocam, photographs, vegetation
Organization: Department of Agriculture
Water Erosion Prediction Project (WEPP)

<p>The Water Erosion Prediction Project (WEPP) model is a process-based, distributed parameter, continuous simulation, erosion prediction model for use on personal computers running Windows 95/98/NT/2000/XP/Vista/Windows7. The current model version (v2012.8) available for download is applicable to hillslope erosion processes (sheet and rill erosion), as well as simulation of the hydrologic and erosion processes on small watersheds. Included in the download package is the WEPP model (version 2012.8), WEPP Windows interface (August 2012), CLIGEN climate generators (versions 4.3 and 5.3), documentation and example data.</p>
<p>The objective of the Water Erosion Prediction Project is to develop new generation prediction technology for use by the USDA-Natural Resources Conservation Service, USDA-Forest Service, USDI-Bureau of Land Management, and others involved in soil and water conservation and environmental planning and assessment. This improved erosion prediction technology is based on modern hydrologic and erosion science, is process-oriented, and is computer-implemented. This document is a detailed description of the WEPP erosion model as developed for application to small watersheds and hillslope profiles within those watersheds. The WEPP erosion model is a continuous simulation computer program which predicts soil loss and sediment deposition from overland flow on hillslopes, soil loss and sediment deposition from concentrated flow in small channels, and sediment deposition in impoundments. In addition to the erosion components, it also includes a climate component which uses a stochastic generator to provide daily weather information, a hydrology component which is based on a modified Green-Ampt infiltration equation and solutions of the kinematic wave equations, a daily water balance component, a plant growth and residue decomposition component, and an irrigation component. The WEPP model computes spatial and temporal distributions of soil loss and deposition, and provides explicit estimates of when and where in a watershed or on a hillslope that erosion is occurring so that conservation measures can be selected to most effectively control soil loss and sediment yield. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: WEPP Downloads.</p> <p>File Name: Web Page, url: <a href="https://www.ars.usda.gov/midwest-area/west-lafayette-in/national-soil-erosion-research/docs/wepp/wepp-downloads/">https://www.ars.usda.gov/midwest-area/west-lafayette-in/national-soil-erosion-research/docs/wepp/wepp-downloads/</a> </p></li></ul><p></p>

Tags: ars, conservation, data-gov, prediction, soil-erosion
Organization: Department of Agriculture
WATSUIT

<p>WASUIT is a computer program which predicts the </p>
<ul>
<li>Salinity</li>
<li>Sodicity</li>
<li>Toxic-solute concentration</li>
</ul>
<p><br>
<br></p>
<p>of the soil-water within a simulated crop root zone resulting from the use of a particular irrigation water of given composition and at a specified leaching fraction. It can be used to evaluate the effect of a given salinity level (or solute concentration) on crop yield and of a given sodicity level on soil permeability.</p>
<p>System Requirements:
WATSUIT is written in Standard FORTRAN 77 and requires ANSI.SYS installed in your CONFIG.SYS file (i.e., DEVICE=C:\DOS\ANSI.SYS). The ANSI.SYS screen commands are used to clear your computer screen. If for some reason you do not have ANSI.SYS, the program will still run but will not your screen will not be cleared. MS-DOS 2.0 or later operating system and standard IBM 360 or 1.2 kbytes diskette drives are required. </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: WATSUIT download page.</p> <p>File Name: Web Page, url: <a href="https://www.ars.usda.gov/research/software/download/?softwareid=107&modecode=20-36-15-00">https://www.ars.usda.gov/research/software/download/?softwareid=107&modecode=20-36-15-00</a> </p></li></ul><p></p>

Tags: ars, computer-software, crop-yield, data-gov, irrigation, salinity, sodicity, soil-water
Organization: Department of Agriculture
Grapevine rootstock stilbenoid data and RKN induction

<p>Stilbenoid levels in resistant (Freedom) and susceptible (O39-16) grapevine rootstock roots, in plants that were healthy or infected with root knot nematodes (RKN).   </p><div><br>Resources in this dataset:</div><br><ul><li><p>Resource Title: Grapevine Root Stilbenoids and Induction by Root Knot Nematodes.</p> <p>File Name: RKN induced grapevine root stilbenoids.xlsx</p><p>Resource Description: Comparison of the phenolic stilbenoids in roots of root-knot nematode susceptible (O39-16) and resistant (Freedom) grapevines</p></li></ul><p></p>

Tags: ars, data-gov, host-plant-interactions, meloidogyne-incognita, metabolomics, np303, phenolics, stilbenoids, vitis-vinifera
Organization: Department of Agriculture
LTAR Gulf Atlantic Coastal Plain Phenocam ARSGACP1

<p>Phenocam images overlooking row crop field.</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/59bdc8a9-0fe6-43d5-8d18-f445e819c9bf" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/59bdc8a9-0fe6-43d5-8d18-f445e819c9bf</a> </p></li></ul>

Tags: ars, biota, cameras, crops, data-gov, environment, farming, np211, np216, phenocam, photographs
Organization: Department of Agriculture
Water level monitoring data at Lake Carl Blackwell, Payne County, Oklahoma

<p dir="ltr">A radar water level sensor (Campbell Scientific ® CS475A-L) was installed on the water intake tower of Lake Carl Blackwell, Payne County, Oklahoma (36.1351 N, 97.2195 W) to automate monitoring of lake water level conducted by USDA Agriculture Research Service staff. Manual monitoring of lake level has been conducted by Hydraulic Engineering Research Unit staff since the laboratory’s inception in 1940. Current lake level monitoring is undertaken by visual observation of a lake level staff gauge. Manual monitoring methods have changed with time and have included visual observations of lake level staff gauges, float and strip chart recorder gauge located on the raw water intake tower, u-tube manometer gauge connected to siphon system, bubble gauge with strip chart recorder and telemetry system located at the downstream toe of the dam, gatehouse staff gauge connected to siphon system, and individual measurements from the auxiliary spillway staff gauge recorded during spillway flow events.</p><p dir="ltr">This data release provides data collected since installation of the sensor on June 12, 2025. All data are reported with respect to the NGVD of 1929 (EPSG 5702), the datum utilized for manual readings. Time is reported in local time (CST or CDT). Manual readings collected from June 12, 2025, are also provided to quantify variability between past and ongoing monitoring methods (Figure 1). The elevation of the radar transducer face is at 953.85 ft (NGVD, 1929). Spillway crest elevation of 944.17 ft (NGVD 1929) was confirmed by visual observation when lake level indicated by manual staff gauge readings equaled the elevation of spillway crest. Radar water level was initially recorded at 1-minute intervals and then changed to a 10-minute recording interval from June 15, 2025, onwards.</p><p dir="ltr">Mention of trade names or commercial products in this publication is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the U.S. Department of Agriculture.</p>

Tags: lake-level, surface-water
Organization: Department of Agriculture
LTAR Gulf Atlantic Coastal Plain Phenocam ARSGACP2

<p>Phenocam images overlooking miscanthus field.</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/ced278ad-baf3-4546-ad7b-4a623cc831d3" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/ced278ad-baf3-4546-ad7b-4a623cc831d3</a> </p></li></ul>

Tags: ars, biota, cameras, crops, data-gov, environment, farming, np211, np216, phenocam, photographs
Organization: Department of Agriculture
Northwest Weather Service - Lind Station

<p>Northwest Weather Service, Lind Station located near Lind, WA</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/7ce58496-3fe5-4496-b102-f2df0d7cd81e" target="_blank">https://geodata.nal.usda.gov/geonetwork/srv/eng/catalog.search#/metadata/7ce58496-3fe5-4496-b102-f2df0d7cd81e</a> </p></li></ul>

Tags: ars, data-gov, earth-science-atmosphere, earth-science-atmosphere-atmospheric-temperature-surface-temperature-air-temperature, earth-science-atmosphere-precipitation, earth-science-atmosphere-weather-events, environment, farming, weather, weather-station
Organization: Department of Agriculture
Data From: Vertical and temporal flight patterns of coffee berry borer (Coleoptera: Curculionidae) in Hawaii

<p dir="ltr">These data are from a study that characterized the height and time of day that coffee berry borer (CBB, <i>Hypothenemus hampei</i>) fly in commercial coffee fields located on Hawaii Island. We estimated the flight height of coffee berry borer females from 2020-2021 at four farms using alcohol-baited funnel traps set at 1-meter intervals up to 5 meters above the ground. Coffee fruit phenology was quantified to determine if CBB flight patterns changed with fruit availability. Fruit infestation in the low, mid, and high canopy was estimated to see if flight height patterns observed from traps mirrored that observed in trees. Coffee berry borer temporal flight patterns were estimated using timer traps, and temperature, relative humidity, and wind speed were measured using cell-service weather stations. Knowledge of vertical and temporal flight patterns in coffee berry borer could be used to optimize spray timing and precision targeting of areas within the coffee tree.</p>

Tags: crop-infestation, integrated-pest-management, phenology, trap-catch, weather
Organization: Department of Agriculture
Data from: Correlations among agronomic traits obtained from sorghum accessions planted in a field infected with three important fungal diseases

<p dir="ltr">Data based on a total of 179 sorghum accessions from Ethiopia, Gambia, and Senegal maintained by the USDA-ARS, Plant Genetic Resources Conservation Unit, Griffin, Georgia, USA, and planted in replicated plots in Isabela, Puerto Rico. Data for anthracnose, grain mold and rust infections with various agronomic traits such as anthracnose, grain mold, rust, seed weight, percent germination rate, and grain yield, seed weight, panicle height, panicle length, and flowering time were collected in 2017 and 2018 by L. K. Prom, H. Cuevas, E. Ahn, T. S. Isakeit, and C. W. Magill. The disease rating was based on previously published scale of 1 to 5. Seed weight in grams was based on the weight of 100 randomly selected seeds from each replication. Percent germination based on the number of seeds that germinated out of 100 seeds placed on germination paper. At maturity, plant height was measured from the soil to the top of the plant in centimeters, and panicle length was measured from the first branch with racemes to the top of the panicle. Grain yield in grams was based on three harvested panicles per accession, and each panicle was threshed and weighed in grams. The flowering date was based on Julian days.</p><p><br></p>

Tags: flowering-time, fungal-pathogen, grain-yield, panicle-height, panicle-length, seed-weight, sorghum
Organization: Department of Agriculture