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Identification of suitable internal control genes for transcriptional studies in Eleusine coracana under different abiotic stress conditions

Physiology and Molecular Biology of Plants volume 24, pages 793–807 (2018)Cite this article

Abstract

Finger millet [Eleusine coracana (L.) Gaertn] is an excellent food and forage crop of arid and semiarid areas in Africa and Asia. It is well adapted to drought, heat, high salinity, poor soil fertility and low pH with an efficient C4 carbon fixation mechanism for high yield potential. To normalize the target gene expression data, the identification of suitable reference genes is essential. Ten candidate reference genes were selected and their expression stability was analyzed in various samples treated with different abiotic stress conditions. Five different statistical algorithms: geNorm, NormFinder, BestKeeper, ΔCt, and RefFinder were used to determine the stability of these genes. Our results revealed GAPDH, EEF1a, ACT and CYC as highly stable reference genes and PP2A and eIF4A as least stable reference genes across all the samples and suggesting that these genes could be used for accurate transcript normalization under abiotic stress. To the best of our knowledge, this is the first report on identification of suitable reference genes for accurate transcript normalization using qRT-PCR in finger millet under abiotic stress.

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Acknowledgements

The authors are grateful to Indian Council of Medical research (ICMR) (Grant No. 3/1/3/JRF-2014/HRD) for financial support. We also express sincere thanks to Bioinformatics Infrastructure Facility (DBT-BIF), Interdisciplinary Program for Life Sciences (DBT-IPLS), Department of Science and Technology-Promotion of University Research and Scientific Excellence (DST-PURSE) and Departmental Research Support (DRS-Phase-II), Department of Botany, University of Rajasthan for providing necessary research facilities.

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  1. Department of Botany, University of Rajasthan, Jaipur, 302004, India

    Pradeep K. Jatav, Atika Agarwal & Sumita Kachhwaha

  2. National Bureau of Animal Genetic Resources, Karnal, Haryana, 132001, India

    Ankita Sharma

  3. Post Graduate Institute of Veterinary Education and Research, Jaipur, 302020, India

    Dinesh K. Dahiya & Arif Khan

  4. Amity Institute of Biotechnology, Amity University Rajasthan, Jaipur, 302006, India

    S. L. Kothari

  5. Bioinformatics Infrastructure Facility, University of Rajasthan, Jaipur, 302004, India

    Sumita Kachhwaha

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  1. Pradeep K. Jatav
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Jatav, P.K., Sharma, A., Dahiya, D.K. et al. Identification of suitable internal control genes for transcriptional studies in Eleusine coracana under different abiotic stress conditions. Physiol Mol Biol Plants 24, 793–807 (2018). https://doi.org/10.1007/s12298-018-0544-1

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Keywords

  • Finger millet
  • Abiotic stress
  • RT-qPCR
  • Reference gene validation