Location: Plant Genetics Research
Project Number: 5070-21000-045-006-R
Project Type: Reimbursable Cooperative Agreement
Start Date: Oct 1, 2022
End Date: Dec 31, 2023
Objective:
1). Develop and make available consolidated, high-quality, expandable, quality controlled and user-friendly resources of structural and functional genomics data.
2). Develop, validate and deploy a suite of multi-disciplinary data analysis and mining strategies and tools.
3). Develop and deploy a breeding array containing 2000 causative QTL gene alleles (candidates) and high effective markers and its needed in-silico data analysis software and wet-lab assay.
4). Generate and deploy an expandable collection of QTL genes, alleles, germplasm, markers and phenotype prediction model for soybean research and development.
Approach:
Recently, we analyzed genome sequencing data from1500 diverse wild and domesticated soybean accessions generated by ARS. In addition, ARS has developed a big-data driven trait QTL gene discovery platform and an in-silico genotyping pipeline. The platform will be used to increase the efficiency of discovering trait genes/candidates and identifying beneficial alleles and germplasm. This project will integrate additional public genome and transcriptome sequencing data, which will be used to futher improve our big-data mining approach to discover soybean trait QTL genes and alleles, and develop a functional marker array technology for molecular breeding. We will apply the technology platform to characterize genes and germplasm associated with undesirable seed quality traits.
