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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: Sporobolus stapfianus: Insights into desiccation tolerance in the resurrection grasses from linking transcriptomics to metabolomics

    Non-targeted metabolomics, combined with transcriptomics via a NimbleGen array platform, are used to study how gene expression and metabolite profiles can be linked to generate a more detailed mechanistic appreciation of the cellular response to both desiccation and rehydration in the C4 resurrection grass, *Sporobolus stapfianus* Gandoger, as a member of a group of important forage grasses.

    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.

      Data from: Genetic Architecture of Resistance to Stripe Rust in a Global Winter Wheat Germplasm Collection

        Virulence shifts in populations of *Puccinia striiformis* f. sp. *tritici* (*Pst*), the causal pathogen of wheat stripe rust, are a major challenge to resistance breeding. The majority of known resistance genes are already ineffective against current races of *Pst*, necessitating the identification and introgression of new sources of resistance. Germplasm core collections that reflect the range of genetic and phenotypic diversity of crop species are ideal platforms for examining the genetic architecture of complex traits such as resistance to stripe rust. We report the results of genetic characterization and genome-wide association analysis (GWAS) for resistance to stripe rust in a core subset of 1175 accessions in the National Small Grains Collection (NSGC) winter wheat germplasm collection, based on genotyping with the wheat 9K single nucleotide polymorphism (SNP) iSelect assay and phenotyping of seedling and adult plants under natural disease epidemics in four environments.

        ELIGULUM-A regulates lateral branch and leaf development. Original figure files

          TIFF and JPEG files for the photographs used in constructing figures and supplemental figures in the manuscript, "ELIGULUM-A regulates lateral branch and leaf development," submitted to Plant Physiology. The images document a mutation that alters most of the structures of the plant and how the ELIGULUM-A gene interacts with different developmental pathways. The Figure Legend files describe the images individually.

          Genomes To Fields 2016

            Phenotypic, genotypic, and environment data for the 2016 field season: The data is stored in [CyVerse](http://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/GenomesToFields_G2F_2016_Data_Mar_2018).

            Genomes To Fields 2015

              Phenotypic, genotypic, and environment data for the 2015 field season: The data is stored in [CyVerse](http://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/Carolyn_Lawrence_Dill_G2F_Mar_2017).

              Genomes To Fields 2014

                Phenotypic, genotypic, and environment data for the 2014 field season: The data is stored in [CyVerse](http://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/Carolyn_Lawrence_Dill_G2F_Nov_2016_V.3).

                Genomes To Fields (G2F) Inbred Ear Imaging Data 2017

                  A subset of ~30 inbreds were evaluated in 2014 and 2015 to develop an image based ear phenotyping tool. The data is stored in [CyVerse](http://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/Edgar_Spalding_G2F_Inbred_Ear_Imaging_June_2017).

                  Professor: A Motorized Field-Based Phenotyping Cart

                    An easy-to-customize, low-cost, low disturbance, motorized, and adjustable proximal sensing cart for field-based high-throughput phenotyping is described. General dimensions, motor specifications, and a remote operation application are given. The cart, named "Professor", supports mounting multiple proximal sensors and cameras for characterizing plant traits grown under field conditions.