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Ag Data Commons migration begins October 18, 2023

The Ag Data Commons is migrating to a new platform – an institutional portal on Figshare. Starting October 18 the current system will be available for search and download only. Submissions will resume after the launch of our portal on Figshare in November. Stay tuned for details!

Data from: Use of long-read sequencing simulators to assess real-world applications for food safety

    The goal of this project was to use NanoSim-H software to simulate Oxford Nanopore sequencing reads to assess the feasibility of sequencing-based foodborne pathogen detection and guide experimental design. Sequencing reads were simulated for STEC, *L. monocytogenes*, and a 1:1 combination of STEC and *Bos taurus* genomes using NanoSim-H. This dataset includes all of the simulated reads generated by the project in fasta format.

    Minimum Inhibitory Concentration (MIC) data for third generation cephalosporin resistant E. coli and extended spectrum beta-lactamase producing Enterobacteriaceae from feedlot cattle

      The data presents the antimicrobial susceptibility testing results in three separate files: 1) third generation cephalosporin resistant E. coli isolates obtained on cefotaxime supplemented media; 2) extended spectrum beta-lactamase (ESBL) producing E. coli, and 3) ESBL-producing Klebsiella, Enterobacter and Citrobacter species obtained on chromogenic media. The data was generated as part of a research project that evaluated the impact of tylosin supplementation of feedlot cattle on the dynamics of antimicrobial resistant fecal bacteria. The study was a longitudinal design with periodic sampling of fecal samples from individual animals over the entire feeding period.

      Data from: Genome wide association study of thyroid hormone levels following challenge with porcine reproductive and respiratory syndrome virus

        Porcine reproductive and respiratory syndrome virus (PRRSV) causes respiratory disease in piglets and reproductive disease in sows. Piglet and fetal serum thyroid hormone (i.e., T3 and T4) levels decrease rapidly in response to PRRSV infection. Our objective was to estimate genetic parameters and identify quantitative trait loci (QTL) for absolute T3 and/or T4 levels of piglets and fetuses challenged with PRRSV.

        Southeast Purdue Agricultural Center (SEPAC) drainage research data, 1984-2020

          This dataset contains research data obtained during a long-term subsurface drainage research project conducted at the Southeast Purdue Agricultural Center in Jennings County, Indiana, from 1984 to 2020. The original goals of the project were to evaluate the effects of different subsurface drain spacings (drainage intensities) on drain flow and corn growth and yield. Additional objectives were added over the years, especially related to movement of agricultural chemicals (nitrate-N, other nutrients, and pesticides) through the soil into the drainage waters.

          Floridan Aquifer Collaborative Engagement for Sustainability (FACETS) - Field trial data from University of Georgia Stripling Irrigation Research Park (SIRP): ARDN Products

            ARDN (Agricultural Research Data Network) annotations for "Floridan Aquifer Collaborative Engagement for Sustainability (FACETS) - Field trial data from University of Georgia Stripling Irrigation Research Park (SIRP)". The ARDN project (https://data.nal.usda.gov/ardn) is a network of datasets harmonized and aggregated using the ICASA vocabulary, as recommended by USDA NAL (https://data.nal.usda.gov/data-dictionary-examples) and described in detail here: www.tinyurl.com/icasa-mvl”. The original dataset presents evaluations of different irrigation and fertilization treatments (corn and cotton have three nitrogen fertilization and three irrigation treatments, peanut has nine irrigation treatments and no N fertilizer treatment) at the University of Georgia’s Stripling Irrigation Research Park (SIRP) located near Camilla, Georgia in a 4 ha research field.

            Floridan Aquifer Collaborative Engagement for Sustainability (FACETS) - Field trial data from University of Georgia Stripling Irrigation Research Park (SIRP)

              Data are presented to evaluate different irrigation and fertilization treatments (corn and cotton have three nitrogen fertilization and three irrigation treatments, peanut has nine irrigation treatments and no N fertilizer treatment) at the University of Georgia’s Stripling Irrigation Research Park (SIRP) located near Camilla, Georgia in a 4 ha research field.

              Soil Water Content Data for The Bushland, Texas, Winter Wheat Experiments

                This dataset contains soil water content data developed from neutron probe readings taken in access tubes in each of the four large, precision weighing lysimeters and in the fields surrounding each lysimeter at the USDA-ARS Conservation and Production Laboratory (CPRL), Soil and Water Management Research Unit (SWMRU), Bushland, Texas (Lat. 35.186714°, Long. -102.094189°, elevation 1170 m above MSL) beginning in 1989. Readings were taken periodically with a field-calibrated neutron probe at depths from 10 cm to 230 cm (maximum of 190 cm depth in the lysimeters) in 20-cm depth increments. Periods between readings were typically one to two weeks, sometimes longer according to experimental design and need for data. Field calibrations in the Pullman soil series were done every few years. Calibrations typically produced a regression equation with RMSE <= 0.01 m3 m-3. Data were used to guide irrigation scheduling to achieve full or deficit irrigation as required by the experimental design.

                Soil Water Content Data for The Bushland, Texas Alfalfa Experiments

                  This dataset contains soil water content data developed from neutron probe readings taken in access tubes in each of the four large, precision weighing lysimeters and in the fields surrounding each lysimeter at the USDA-ARS Conservation and Production Laboratory (CPRL), Soil and Water Management Research Unit (SWMRU), Bushland, Texas (Lat. 35.186714°, Long. -102.094189°, elevation 1170 m above MSL) beginning in 1989. Readings were taken periodically with a field-calibrated neutron probe at depths from 10 cm to 230 cm (maximum of 190 cm depth in the lysimeters) in 20-cm depth increments. Periods between readings were typically one to two weeks, sometimes longer according to experimental design and need for data. Field calibrations in the Pullman soil series were done every few years. Calibrations typically produced a regression equation with RMSE <= 0.01 m3 m-3. Data were used to guide irrigation scheduling to achieve full or deficit irrigation as required by the experimental design.

                  Soil Water Content Data for The Bushland, Texas Large Weighing Lysimeter Experiments

                    This dataset contains soil water content data developed from neutron probe readings taken in access tubes in each of the four large, precision weighing lysimeters and in the fields surrounding each lysimeter at the USDA-ARS Conservation and Production Laboratory (CPRL), Soil and Water Management Research Unit (SWMRU), Bushland, Texas (Lat. 35.186714°, Long. -102.094189°, elevation 1170 m above MSL) beginning in 1989. Readings were taken periodically with a field-calibrated neutron probe at depths from 10 cm to 230 cm (maximum of 190 cm depth in the lysimeters) in 20-cm depth increments. Periods between readings were typically one to two weeks, sometimes longer according to experimental design and need for data. Field calibrations in the Pullman soil series were done every few years. Calibrations typically produced a regression equation with RMSE <= 0.01 m3 m-3. Data were used to guide irrigation scheduling to achieve full or deficit irrigation as required by the experimental design.