Location: Plant Genetics Research
Project Number: 5070-21000-043-028-R
Project Type: Reimbursable Cooperative Agreement
Start Date: Oct 1, 2022
End Date: Sep 30, 2023
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.
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.