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Identification of Anchored Simple Sequence Repeat Markers Associated with Calcium Content in Finger Millet (Eleusine coracana)

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Abstract

Staple food crops, mainly cereals, generally lack key mineral nutrients like calcium whose deficiency is a significant problem in human populations. Finger millet, also known as ragi, shows an extraordinary accumulation of grain calcium amongst cereals and thus could be a target crop for genetic enhancement programs. To understand the genetic basis of high calcium content in finger millet grains, 113 genotypes having calcium contents up to 450 mg/100 g of seed were screened using 23 anchored-SSR primers designed from calcium transporters and sensors. Fourteen anchored Simple Sequence Repeat markers were found polymorphic and produced a total of 83 alleles among the 113 accessions assayed. The number of alleles per locus ranged from 2 to 11. The average genetic diversity over all SSR loci was 0.22 with a mean polymorphic information content value of 0.18. The dendrogram analyses grouped the genotypes in seven different clusters according to their calcium contents. Association analyses using tools such as STRUCTURE and TASSEL revealed at least 9 markers to be significantly associated with the calcium trait. Moreover, cross-validation on a confirmation population could reconfirm the association of the markers. The findings however provide a basis for future research in genetic improvement of finger millet in terms of nutrition breeding.

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Acknowledgments

The authors wish to acknowledge the Department of Biotechnology (DBT), Govt. of India, for providing financial support in the form of Programme Mode Support for Research and Development in Agricultural Biotechnology at G. B. Pant University of Agriculture and Technology, Pantnagar (Grant No. BT/PR7849/AGR/02/374/2006). The authors thank the Ranichauri Hill Campus, G. B. Pant University of Agriculture and Technology and UAS Bangalore for providing the seed samples of the germplasm analysed in present study.

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Authors and Affiliations

  1. Department of Molecular Biology and Genetic Engineering, G. B. Pant University of Agriculture and Technology, Pantnagar, 263 145, Uttarakhand, India

    A. Kumar, S. Yadav, P. Panwar & V. S. Gaur

  2. Vivekanand Parvatiya Krishi Anusandhan Sansthan, Almora, Uttarakhand, India

    S. Sood

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  1. A. Kumar
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  2. S. Yadav
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  4. V. S. Gaur
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Correspondence to A. Kumar.

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Kumar, A., Yadav, S., Panwar, P. et al. Identification of Anchored Simple Sequence Repeat Markers Associated with Calcium Content in Finger Millet (Eleusine coracana). Proc. Natl. Acad. Sci., India, Sect. B Biol. Sci. 85, 311–317 (2015). https://doi.org/10.1007/s40011-013-0296-1

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