Genome-wide association study uncovers genomic regions associated with grain iron, zinc and protein content in pearl millet

Pujar, M and Gangaprasad, S and Govindaraj, M and Gangurde, S S and Kanatti, A and Kudapa, H (2020) Genome-wide association study uncovers genomic regions associated with grain iron, zinc and protein content in pearl millet. Scientific Reports (TSI), 10 (1). ISSN 2045-2322

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Abstract

Pearl millet hybrids biofortified with iron (Fe) and zinc (Zn) promise to be part of a long-term strategy to combat micronutrient malnutrition in the arid and semi-arid tropical (SAT) regions of the world. Biofortification through molecular breeding is the way forward to achieving a rapid trait-based breeding strategy. This genome-wide association study (GWAS) was conducted to identify significant marker-trait associations (MTAs) for Fe, Zn, and protein content (PC) for enhanced biofortification breeding. A diverse panel of 281 advanced inbred lines was evaluated for Fe, Zn, and PC over two seasons. Phenotypic evaluation revealed high variability (Fe: 32–120 mg kg−1, Zn: 19–87 mg kg−1, PC: 8–16%), heritability (hbs2 ≥ 90%) and significantly positive correlation among Fe, Zn and PC (P = 0.01), implying concurrent improvement. Based on the Diversity Arrays Technology (DArT) seq assay, 58,719 highly informative SNPs were filtered for association mapping. Population structure analysis showed six major genetic groups (K = 6). A total of 78 MTAs were identified, of which 18 were associated with Fe, 43 with Zn, and 17 with PC. Four SNPs viz., Pgl04_64673688, Pgl05_135500493, Pgl05_144482656, and Pgl07_101483782 located on chromosomes Pgl04 (1), Pgl05 (2) and Pgl07 (1), respectively were co-segregated for Fe and Zn. Promising genes, ‘Late embryogenesis abundant protein’, ‘Myb domain’, ‘pentatricopeptide repeat’, and ‘iron ion binding’ coded by 8 SNPs were identified. The SNPs/genes identified in the present study presents prospects for genomics assisted biofortification breeding in pearl millet.

Item Type:	Article
Divisions:	Research Program : Asia
CRP:	CGIAR Research Program on Agriculture for Nutrition and Health (A4NH)
Uncontrolled Keywords:	Pearl millet, Nutrition
Subjects:	Mandate crops > Millets > Pearl Millet Others > Food and Nutrition
Depositing User:	Mr Arun S
Date Deposited:	10 Nov 2020 15:00
Last Modified:	10 Nov 2020 15:00
URI:	http://oar.icrisat.org/id/eprint/11638
Official URL:	https://doi.org/10.1038/s41598-020-76230-y
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	This research was supported by funding from the HarvestPlus Challenge Program of the CGIAR. It was carried out as part of the CGIAR Research Program (CRP) on Agriculture for Nutrition and Health.
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