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 dormancy duration in groundnut. Plant Physiology and Biochemistry, 229. pp. 1-13. ISSN 0981-9428
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Abstract
Groundnut is an important leguminous 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 donors in each agronomic type, in addition to analysing data on whole genome re-sequencing and multi-season phenotypic evaluations to identify stable marker-trait associations (MTAs) associated with 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 studies (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 for 12 SNPs were developed and validated, of these 6 markers (snpAH00577, snpAH00580, snpAH00582, snpAH00585, snpAH00586 and snpAH00588) showed polymorphism between dormant and non-dormant lines. Incorporating favourable dormant alleles into breeding strategies could enable the development of high-yielding cultivars with a dormancy period of 2-3 weeks.
| Item Type: | Article |
|---|---|
| Divisions: | Center of Excellence in Genomics and Systems Biology 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: | 30 Sep 2025 04:04 |
| Last Modified: | 30 Sep 2025 04:04 |
| URI: | http://oar.icrisat.org/id/eprint/13347 |
| Official URL: | https://www.biorxiv.org/content/10.1101/2025.06.20... |
| Projects: | ICAR-ICRISAT collaborative project, Tropical Legumes III project |
| Funders: | MARS Inc. USA, Bill & Melinda Gates Foundation (BMGF), USA |
| 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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