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: Efficient imaging and computer vision detection of two cell shapes in young cotton fibers
Data presented show the AI-assisted visualization of multiple cotton fiber tips in one image. Cotton fiber sample preparation, digital image collection, and image analysis are described, including test images, training/validation sets, and annotations.
Data from: Conditions to terminate reproductive diapause of a univoltine insect: Ceratapion basicorne (Coleoptera: Apionidae), a biological control agent of yellow starthistle
The data are the number and proportion of female weevils (Ceratapion basicorne) that oviposited after exposure to three different environmental hibernation conditions for three different durations (4, 8 and 11 weeks). The conditions were Greenhouse [ambient temperature and photoperiod], glass door Refrigerator [5°C and ambient photoperiod], and incubator [5°C and 24 h dark]).
- 2x csv
IMAP: Image Mapping & Analytics for Phenotyping
A set of PYTHON programs to implement image processing of ground and aerial images by offering via graphical user interface (GUI) 1) plot-level metrics extraction through a series of algorithms for image conversion, band math, radiometric/geometric calibrations, segmentation, masking, adaptive region of interest (ROI), gridding, heatmap, and batch process, 2) GIS interface for GeoTIFF pixels to Lat/Lon, UTM conversion, read/write shapefile, Lat/Lon to ROI, grid to polygon, and 3) utility GUI functions for zooming, panning, rotation, images to video, file I/O, and histogram.
Data from: Plant strategies for maximizing growth during drought and drought recovery in Solanum melongena L. (eggplant)
This data represents the collection of physiological and biometric data of above- and below-ground plant traits in four species of Solanum melongena of Philippine origin (PHL 4841, PHL 2778, PHL 2789, and Mara). Half of the plants were subjected to significant water deficit, and half again of those deficit plants were allowed to recover after subsequent watering. This data is suitable to serve as a benchmark for trait values in S. melongena, as well as in studies of trait responses to terminal drought and episodic drought in agricultural settings.
Data from: Transcriptome profiling of interaction effects of soybean cyst nematodes and soybean aphids on soybean
Soybean aphid (*Aphis glycines*; SBA) and soybean cyst nematode (*Heterodera glycines*; SCN) are two major pests of soybean (*Glycine max*) in the United States of America. This study aims to characterize three-way interactions among soybean, SBA, and SCN using both demographic and genetic datasets. The data comprises of 47 libraries that are useful for further analyses of important genes, which are involved in interaction effects of SBA and SCN on soybean.
Virtual Grower 3
Initially designed to help greenhouse growers determine heating costs and do simple simulations to figure out where heat savings could be achieved, it has slowly added features so that now, Virtual Grower can help not only identify those savings through different greenhouse designs, but predict crop growth, assist in scheduling, make real-time predictions of energy use, and see the impact of supplemental lighting on plant growth and development. In other words, the software can be a safety net and allow users to experiment with "what if" scenarios in a risk-free setting.
PhotoSim
This program models the photosynthetic response of 13 floriculture crops to light, temperature, or carbon dioxide (CO2) and allows users to estimate the impact of adjusting their greenhouse environment. You can predict the impact on photosynthesis for different management changes (shading, supplemental high pressure sodium lighting, CO2 injection,or heating or cooling).
Data from: Cultivar resistance to common scab disease of potato is dependent on the pathogen species
All data from the paper "Cultivar resistance to common scab disease of potato is dependent on the pathogen species." Three separate datasets are included:
1.A csv file with the disease severity of three common scab pathogens across 55 different potato cultivars in a greenhouse pot assay (Figures 2-5 in the associated paper). The included R script was used with this data to perform the ANOVA for the data from the greenhouse pot assay (Table 2 in the associated paper). This script can be used in R for any similar dataset to calculate the significance and percent of total variation for any number of user-defined fixed effects.
2. A zipped file with all of the qPCR data for the expression of the txtAB genes (Figure 6 in the associated paper).
3. An Excel file with the HPLC data for making the thaxtomin detection standard curve and quantifying the amount of thaxtomin in the test sample.
Data from: Genome-Wide Association Mapping of Loci Associated with Plant Growth and Forage Production under Salt Stress in Alfalfa (Medicago sativa L.)
Salinity tolerance is highly desirable to sustain alfalfa production in marginal lands that have been rendered saline. In this study, we used a diverse panel of 198 alfalfa accessions for mapping loci associated with plant growth and forage production under salt stress using genome-wide association studies (GWAS). The plants were genotyped using genotyping-by-sequencing (GBS). A greenhouse procedure was used for phenotyping four agronomic and physiological traits affected by salt stress, including dry weight (DW), plant height (PH), leaf chlorophyll content (LCC), and stomatal conductance (SC). For each trait, a stress susceptibility index (SSI) was used to evaluate plant performance under stressed and non-stressed conditions. Marker-trait association identified a total of 42 markers significantly associated with salt tolerance. They were located on all chromosomes except chromosome 2 based on the alignment of their flanking sequences to the reference genome (*Medicago truncatula*). Of those identified, 13 were associated with multiple traits. Several loci identified in the present study were also identified in previous reports. BLAST search revealed that 19 putative candidate genes linked to 24 significant markers. Among them, B3 DNA-binding protein, Thiaminepyrophosphokinase and IQ calmodulin-binding motif protein were identified among multiple traits in the present and previous studies. With further investigation, these markers and candidates would be useful for developing markers for marker-assisted selection in breeding programs to improve alfalfa cultivars with enhanced tolerance to salt stress.