Sharma, V and Mahadevaiah, S S and Latha, P and Gowda, S A and Manohar, S S and Jadhav, K and Bajaj, P and Joshi, P and Anitha, T and Jadhav, M P and Sharma, Shailendra and Janila, P and Bhat, R S and Varshney, R K and Pandey, M K (2024) Dissecting genomic regions and underlying candidate genes in groundnut MAGIC population for drought tolerance. BMC Plant Biology (TSI), 24. pp. 1-21. ISSN 1471-2229
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Abstract
Background Groundnut is mainly grown in the semi-arid tropic (SAT) regions worldwide, where abiotic stress like drought is persistent. However, a major research gap exists regarding exploring the genetic and genomic underpinnings of tolerance to drought. In this study, a multi-parent advanced generation inter-cross (MAGIC) population was developed and evaluated for five seasons at two locations for three consecutive years (2018–19, 2019–20 and 2020–21) under drought stress and normal environments. Results Phenotyping data of drought tolerance related traits, combined with the high-quality 10,556 polymorphic SNPs, were used to perform multi-locus model genome-wide association study (GWAS) analysis. We identified 37 significant marker-trait associations (MTAs) (Bonferroni-corrected) accounting, 0.91- 9.82% of the phenotypic variance. Intriguingly, 26 significant MTAs overlap on four chromosomes (Ah03, Ah07, Ah10 and Ah18) (harboring 70% of MTAs), indicating genomic hotspot regions governing drought tolerance traits. Furthermore, important candidate genes associated with leaf senescence (NAC transcription factor), flowering (B3 domain-containing transcription factor, Ulp1 protease family, and Ankyrin repeat-containing protein), involved in chlorophyll biosynthesis (FAR1 DNA-binding domain protein), stomatal regulation (Rop guanine nucleotide exchange factor; Galacturonosyltransferases), and associated with yield traits (Fasciclin-like arabinogalactan protein 11 and Fasciclin-like arabinogalactan protein 21) were found in the vicinity of significant MTAs genomic regions. Conclusion The findings of our investigation have the potential to provide a basis for significant MTAs validation, gene discovery and development of functional markers, which could be employed in genomics-assisted breeding to develop climate-resilient groundnut varieties.
| Item Type: | Article |
|---|---|
| Divisions: | Center of Excellence in Genomics and Systems Biology |
| CRP: | UNSPECIFIED |
| Uncontrolled Keywords: | Climate resilient, Drought, Groundnut, Gene, Marker, MAGIC population |
| Subjects: | Others > Climate Resilient Technologies Mandate crops > Groundnut Others > Drought Others > Genetics and Genomics |
| Depositing User: | Mr Nagaraju T |
| Date Deposited: | 19 Feb 2025 03:18 |
| Last Modified: | 19 Feb 2025 03:18 |
| URI: | http://oar.icrisat.org/id/eprint/12970 |
| Official URL: | https://link.springer.com/article/10.1186/s12870-0... |
| Projects: | National Agricultural Science Fund |
| Funders: | Indian Council of Agricultural Research, Government of India - Department of Biotechnology, Bill & Melinda Gates Foundation |
| Acknowledgement: | The authors thank the National Agricultural Science Fund (NASF) of the Indian Council of Agricultural Research (ICAR), India, for supporting the generation of genotyping and multi-location evaluation data, and the Bill & Melinda Gates Foundation (BMGF), USA, for their support in population development. VS and PJ acknowledges Chaudhary Charan Singh University (CCSU), Meerut, for collaborating with ICRISAT. V.S also acknowledges Council of Scientific and Industrial Research (CSIR), Government of India, for awarding the SRF-Direct fellowship (File No: 09/0800(18433)/2024-EMR-I) for PhD. |
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