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Development and molecular characterization of genic molecular markers for grain protein and calcium content in finger millet (Eleusine coracana (L.) Gaertn.)

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Abstract

Finger millet (Eleusine coracana (L.) Gaertn), holds immense agricultural and economic importance for its high nutraceuticals quality. Finger millets seeds are rich source of calcium and its proteins are good source of essential amino acids. In the present study, we developed 36 EST-SSR primers for the opaque2 modifiers and 20 anchored-SSR primers for calcium transporters and calmodulin for analysis of the genetic diversity of 103 finger millet genotypes for grain protein and calcium contents. Out of the 36 opaque2 modifiers primers, 15 were found polymorphic and were used for the diversity analysis. The highest PIC value was observed with the primer FMO2E33 (0.26), while the lowest was observed FMO2E27 (0.023) with an average value of 0.17. The gene diversity was highest for the primer FMO2E33 (0.33), however it was lowest for FMO2E27 (0.024) at average value of 0.29. The percentage polymorphism shown by opaque2 modifiers primers was 68.23 %. The diversity analysis by calcium transporters and calmodulin based anchored SSR loci revealed that the highest PIC was observed with the primer FMCA8 (0.30) and the lowest was observed for FMCA5 (0.023) with an average value of 0.18. The highest gene diversity was observed for primer FMCA8 (0.37), while lowest for FMCA5 (0.024) at an average of 0.21. The opaque2 modifiers specific EST-SSRs could able to differentiate the finger millet genotypes into high, medium and low protein containing genotypes. However, calcium dependent candidate gene based EST-SSRs could broadly differentiate the genotypes based on the calcium content with a few exceptions. A significant negative correlation between calcium and protein content was observed. The present study resulted in identification of highly polymorphic primers (FMO2E30, FMO2E33, FMO2-18 and FMO2-14) based on the parameters such as percentage of polymorphism, PIC values, gene diversity and number of alleles.

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Authors and Affiliations

  1. Department of Molecular Biology and Genetic Engineering, College of Basic Sciences & Humanities, G.B. Pant University of Agriculture and Technology, Pantnagar, 263 145, India

    M. Nirgude, B. Kalyana Babu, Y. Shambhavi, U. M. Singh & Anil Kumar

  2. Vivekananda Parvateeya Krishi Anusandhan Sansthan (VPKAS), Almora, 263 601, India

    B. Kalyana Babu

  3. International Crops Research Institute for Semi-Arid Tropics (ICRISAT), Patancheru, 502 324, India

    H. D. Upadhyaya

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  1. M. Nirgude
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  2. B. Kalyana Babu
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  3. Y. Shambhavi
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  4. U. M. Singh
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  5. H. D. Upadhyaya
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  6. Anil Kumar
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Correspondence to Anil Kumar.

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Nirgude, M., Babu, B.K., Shambhavi, Y. et al. Development and molecular characterization of genic molecular markers for grain protein and calcium content in finger millet (Eleusine coracana (L.) Gaertn.). Mol Biol Rep 41, 1189–1200 (2014). https://doi.org/10.1007/s11033-013-2825-7

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  • DOI: https://doi.org/10.1007/s11033-013-2825-7

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