Mohinuddin, D K and Gangurde, S S and Khan, H and Bomireddy, D and Sharma, V and Shah, P and Sagar, U N and Dube, N and Senthil, R and Tembhurne, B V and Nayak, V H and Peerzada, O H and Amaregouda, A and Babu, K and Singh, K and Janila, P and Guo, B and Liao, B and Varshney, R K and Pandey, M K (2025) Genomic analysis reveals the interplay between ABA-GA in determining fresh seed dormancy in groundnut. Plant Physiology and Biochemistry, 229. pp. 1-13. ISSN 0981-9428
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Abstract
Groundnut is an important oilseed crop; however, its productivity and seed quality are frequently reduced due to lack of fresh seed dormancy (FSD). To address this challenge, a mini-core collection of 184 accessions was phenotyped to identify potential donors in each agronomic type. In addition, whole genome re-sequencing and multi-season phenotypic evaluations were analyzed to identify stable marker-trait associations (MTAs) linked to FSD. Phenotypic analysis revealed substantial variability in dormancy durations, with days to 50 % germination (DFG) ranging from 1 to 30 days. Multi-locus genome-wide association study (ML-GWAS) identified 27 MTAs in individual seasons and 12 MTAs in pooled seasons data, respectively. Key candidate genes identified included Cytochrome P450 superfamily proteins, protein kinase superfamily proteins, and MYB transcription factors involved in the Abscisic acid (ABA) pathway, as well as F-box interaction domain proteins, ATP-binding ABC transporters, associated with the Gibberellic acid (GA) pathway. SNP-based KASP (Kompetitive Allele-Specific Polymerase chain reaction) markers were developed for 12 SNPs, of which four markers (snpAH00577, snpAH00580, snpAH00586 and snpAH00588) were found useful for the selection of FSD. The combination of favourable allele from four genes namely Ahfsd1 (Arahy.8B3CAL), Ahfsd2 (Arahy.NRZN5K), Ahfsd3 (Arahy.JJ8FJQ), and Ahfsd4 (Arahy.PI0JM6) provides stable 24–30 days of dormancy. Incorporating favourable dormant alleles into breeding programs could enable the development of high-yielding cultivars with a dormancy period of more than two weeks.
| Item Type: | Article |
|---|---|
| Divisions: | Global Research Program - Accelerated Crop Improvement |
| CRP: | UNSPECIFIED |
| Uncontrolled Keywords: | ABA and GA pathway, Candidate genes, KASP markers, Multi-locus GWAS |
| Subjects: | Mandate crops > Groundnut Others > Genetics and Genomics Others > Germplasm |
| Depositing User: | Mr Nagaraju T |
| Date Deposited: | 09 Mar 2026 03:33 |
| Last Modified: | 09 Mar 2026 03:33 |
| URI: | http://oar.icrisat.org/id/eprint/13520 |
| Official URL: | https://www.sciencedirect.com/science/article/pii/... |
| Projects: | Tropical Legumes III project |
| Funders: | Indian Council of Agricultural Research (ICAR) |
| Acknowledgement: | The authors are thankful to GeneBank, ICRISAT for their support in providing seed material and assistance in phenotyping work. D. Khaja Mohinuddin is grateful to ICRISAT for providing the facilities to conduct the work. |
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