Bhadragiri, H B and Kar, J and Sharma, Madhvi and Veerendrakumar, H V and Swain, D and Dal, A and Pradhan, S K and Abbai, R and Hoat, T X and Sudini, H K and Bhat, R S and Pandey, M K (2026) Candidate Gene Discovery for Rust Resistance Through Multi-Locus Genome-Wide Association Study in Groundnut. Preprints.org. pp. 1-16. (Submitted)
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Abstract
Rust, caused by Puccinia arachidis, is one among the most destructive fungal diseases constraining global groundnut (Arachis hypogaea L.) production. While the development of disease-resistant varieties stands as the most effective approach to preventing substantial yield losses, the genetic mechanisms underlying resistance to rust is not yet well understood, emphasizing the necessity for further detailed research. In this study, 184 accessions from the ICRISAT groundnut mini-core collection were evaluated for rust resistance at Dharwad, India, across multiple seasons, as well as in Vietnam for one season. Whole-genome resequencing-based genome-wide association study (GWAS) identified five highly significant marker trait associations (MTAs) for rust resistance (p = 5.22 × 10-13 to 7.21 × 10-08). Among these, two robust rust-associated kompetitive allele specific PCR (KASP) markers, snpAH00607 at chromosome Ah01 and snpAH00609 at chromosome Ah17, were validated across diverse set of breeding and pre-breeding lines. These markers were linked to candidate genes encoding sterol C4-methyl oxidase 1-2, implicated in brassinosteroid-mediated salicylic acid signalling, and MYB transcription factor known to be associated with defense responses. The identified SNPs, validated markers, and candidate genes will serve as important resources for marker-assisted breeding of rust disease resistant groundnut varieties.
| Item Type: | Article |
|---|---|
| Divisions: | Center of Excellence in Genomics and Systems Biology Global Research Program - Accelerated Crop Improvement |
| CRP: | UNSPECIFIED |
| Uncontrolled Keywords: | groundnut, GWAS, candidate genes, SNPs, KASP markers, marker assisted breeding |
| Subjects: | Others > Plant Breeding Mandate crops > Groundnut Others > Genetics and Genomics Others > Plant Pathology |
| Depositing User: | Mr Nagaraju T |
| Date Deposited: | 20 Apr 2026 04:34 |
| Last Modified: | 20 Apr 2026 04:34 |
| URI: | http://oar.icrisat.org/id/eprint/13602 |
| Official URL: | https://www.preprints.org/manuscript/202603.0377 |
| Projects: | Tropical Legumes III |
| Funders: | Bill and Melinda Gates Foundation |
| Acknowledgement: | Authors would like to thank ICRISAT-Genebank for providing minicore seed material for the experimentation and ICRISAT- Groundnut Breeding department for providing seed material for validation. |
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