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ARS Home » Midwest Area » Ames, Iowa » Corn Insects and Crop Genetics Research » Research » Research Project #434522

Research Project: SoyBase and the Legume Clade Database

Location: Corn Insects and Crop Genetics Research

Project Number: 5030-21000-069-00-D
Project Type: In-House Appropriated

Start Date: Mar 21, 2018
End Date: Mar 20, 2023

Objective:
Objective 1: Accelerate trait analyses, germplasm analyses, genetic studies, and breeding of soybean and other economically important legume crops through stewardship of genomes, genetic data, genotype data, and phenotype data. Objective 2: Develop an infrastructure that enhances the integration of genotype and phenotype information and corresponding data sets with query and visualization tools to facilitate efficient plant breeding for soybean and select legume crops. Objective 3: Collaborate with database developers and plant researchers to develop improved methods and mechanisms for open, standardized data and knowledge exchange to enhance database utility and interoperability. Objective 4: Provide support and research coordination services for the soybean and other legume research and breeding communities; train new scientists and expand outreach activities through workshops, web-based tutorials, and other communications.

Approach:
Incorporate revised primary reference genome sequence for soybean into SoyBase. House and provide access to genome sequences for other soybean accessions, haplotype data, and related annotations. Incorporate revised gene models and annotations into SoyBase. Install or implement web-based tools for curation and improvement of soybean gene models and gene annotations. Incorporate available legume genome sequences and annotations. Working with collaborators, collect and add genetic map and QTL data for crop legumes. Extend web-based tools for navigation among biological sequence data across the legumes. Extend and develop methods and storage capacity for accepting genomic data sets for soybean and other legume species. Develop a complete set of descriptors (ontologies) for soybean biology (anatomy, traits, and development), and for other significant crop legumes as needed. Work with the relevant ontology communities-of-practice to incorporate these descriptors into broadly accessible ontologies. Develop web tutorials for important typical uses of SoyBase and the Legume Clade Database. Present and train about features at relevant conferences and workshops. Regularly seek feedback from users about desired features and usability.