Discovery and validation of candidate genes for grain iron and zinc metabolism in pearl millet [Pennisetum glaucum (L.) R. Br.]

Mahendrakar, M D and Parveda, M and Kishor, P B K and Srivastava, R K (2020) Discovery and validation of candidate genes for grain iron and zinc metabolism in pearl millet [Pennisetum glaucum (L.) R. Br.]. Scientific Reports (TSI), 10 (1). ISSN 2045-2322

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Abstract

Pearl millet is an important crop for alleviating micronutrient malnutrition through genomics-assisted breeding for grain Fe (GFeC) and Zn (GZnC) content. In this study, we identified candidate genes related to iron (Fe) and zinc (Zn) metabolism through gene expression analysis and correlated it with known QTL regions for GFeC/GZnC. From a total of 114 Fe and Zn metabolism-related genes that were selected from the related crop species, we studied 29 genes. Different developmental stages exhibited tissue and stage-specific expressions for Fe and Zn metabolism genes in parents contrasting for GFeC and GZnC. Results revealed that PglZIP, PglNRAMP and PglFER gene families were candidates for GFeC and GZnC. Ferritin-like gene, PglFER1 may be the potential candidate gene for GFeC. Promoter analysis revealed Fe and Zn deficiency, hormone, metal-responsive, and salt-regulated elements. Genomic regions underlying GFeC and GZnC were validated by annotating major QTL regions for grain Fe and Zn. Interestingly, PglZIP and PglNRAMP gene families were found common with a previously reported linkage group 7 major QTL region for GFeC and GZnC. The study provides insights into the foundation for functional dissection of different Fe and Zn metabolism genes homologs and their subsequent use in pearl millet molecular breeding programs globally.

Item Type:	Article
Divisions:	Research Program : Genetic Gains
CRP:	CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC)
Uncontrolled Keywords:	Pearl Millet, Nutrition
Subjects:	Mandate crops > Millets > Pearl Millet Others > Genetics and Genomics Others > Food and Nutrition
Depositing User:	Mr Arun S
Date Deposited:	13 Nov 2020 15:13
Last Modified:	13 Nov 2020 15:13
URI:	http://oar.icrisat.org/id/eprint/11647
Official URL:	https://doi.org/10.1038/s41598-020-73241-7
Projects:	UNSPECIFIED
Funders:	UNSPECIFIED
Acknowledgement:	The research work was supported by research grants from the CGIAR Research Program on Grain Legumes and Dryland Cereals (CRP-GLDC), and the Department of Biotechnology (DBT), India. This work has been published as part of the CGIAR Research Program on Dryland Cereals. Gene expression data and computational analysis were carried out at the Department of Genetics, Osmania University. PBK is thankful to the CSIR, New Delhi, for providing CSIR-Emeritus Fellowship and contingency grants [CSIR Reference No. 21(934/12-EMRII)]. This work was also supported by Prof. P.B. Kavi Kishor, who used his personal money to carry out gene expression experiments. The corresponding authors would like to thank Dr. Nagaraju Marka, Department of Genetics, who helped in data analysis, Dr. Rajeev Gupta, Dr. Abhishek Rathore, Prasad Bajaj from ICRISAT and our partners Drs. Rattan S. Yadav and Tara Satyayavathi for their help in research work. We also acknowledge Dr. Prashanth Suravajhala, and Dr. Purva Lohan, BISR, Jaipur for their inputs. Authors dedicate this manuscript to Late Vengaldas Rajaram who did all the initial groundwork for this study.
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