Role of functional genes for seed vigor related traits through genome-wide association mapping in finger millet (Eleusine coracana L. Gaertn.)

Kannababu, N and Nanjundappa, S and Narayanan, N and Vetriventhan, M and Venkateswarlu, R and Das, I K and Srikanth, A and Viswanath, A and Singh, S and Malipatil, R and Satyavathi, C T and Thirunavukkarasu, N (2025) Role of functional genes for seed vigor related traits through genome-wide association mapping in finger millet (Eleusine coracana L. Gaertn.). Scientific Reports (TSI), 15. pp. 1-19. ISSN 2045-2322

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Abstract

Finger millet (Eleusine coracana (L.) Gaertn.) is a calcium-rich, nutritious and resilient crop that thrives even in harsh environmental conditions. In such ecologies, seed longevity and seedling vigor are crucial for sustainable crop production amid climate change. The current study explores the genetics of accelerated aging on seed longevity traits across 221 diverse accessions of finger millet through genome-wide association approach (GWAS). A significant variation was identified in germination percentage, germination rate indices, mean germination time, seedling vigor indices and dry weight upon aging treatment. GWAS model from 11,832 high-quality SNPs identified through Genotyping-by-Sequencing (GBS) approach produced 491 marker-trait associations (MTAs) for 27 traits, of which 54 were FDR-corrected. A pleiotropic SNP, FM_SNP_9478 identified on chromosome 7B was associated with the traits viz., germination after aging, germination index after aging and their relative measures. Functional annotation revealed DET1 and expansin-A2 influenced seed coat integrity, critical for germination and aging resilience. Probable protein phosphatase 2C3 and piezo-type ion channels contributed to mechanical sensing and stress adaptation in seeds. Beta-amylase and acetyl-CoA carboxylase 2 were identified for seed metabolism and stress response. These insights lay the framework for targeted breeding efforts to improve seed quality and resilience under diverse production conditions.

Item Type:	Article
Divisions:	Genebank
CRP:	UNSPECIFIED
Uncontrolled Keywords:	Accelerated aging, Association mapping, Finger millet, Functional genes, Seed longevity, Seedling vigor
Subjects:	Others > Biotechnology Others > Molecular Biology Others > Plant Genetics Others > Plant Breeding Mandate crops > Millets > Finger Millet
Depositing User:	Mr Nagaraju T
Date Deposited:	26 Jun 2025 10:57
Last Modified:	26 Jun 2025 10:57
URI:	http://oar.icrisat.org/id/eprint/13181
Official URL:	https://www.nature.com/articles/s41598-025-89315-3
Projects:	UNSPECIFIED
Funders:	Government of India - Department of Science and Technology
Acknowledgement:	The experiment was funded by the Science and Engineering Research Board (SERB), Department of Science and Technology, Government of India under the project CRG/2021/000477, the ICAR-Indian Institute of Millets Research project (IIMR/SS/2020-2025/126) and the Global Centre of Excellence on Millets (Shree Anna) project. The seed material of the finger millet diverse panel was supplied by the Gene Bank, International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India.
Links:	Google Scholar

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