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Expression analysis of lncRNA AK370814 involved in the barley vitamin B6 salvage pathway under salinity

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Abstract

Long non-coding RNAs (lncRNAs), which are longer than > 200 nt, perform various functions in a variety of important biological processes. The aim of this study is the investigation of relative expression levels of AK372815 putative pyridoxal reductase (PLR) gene and sense lncRNA AK370814 on four barley genotypes (Hasat, Beysehir 99, Konevi 98 and Tarm 92) in response to 150 mM salinity application during 3 days post-germination. Seeds were placed randomly in petri dishes containing (a) only H2O (control), (b) 150 mM NaCl, for 72 h. RNA isolation was carried out using TriPure® reagent from 150 mM salt-treated root and shoot samples. Relative expression levels of AK372815 PLR and sense lncRNA AK370814 were determined by qPCR. Results demonstrated that salinity affected the expression levels of both AK372815 PLR gene and sense lncRNA AK370814 during germination. Although expression levels of AK372815 PLR tended to be down-regulated under salinity, expression levels of sense lncRNA AK370814 were up-regulated. Another goal of this study is improvement of alternative approach to NGS technologies for determination of relative expression levels of sense lncRNAs under particular circumstances. This is the first report that demonstrates a relationship between lncRNA and vitamin B6 salvage pathway.

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Acknowledgements

This work was supported by Scientific Research Projects Coordination Unit of Istanbul University. Project Number: FDK-2016-23086. Also, the authors thank Dr. Stuart James Lucas for his kind revision and Dr. Cem Horozoglu (Gelisim University) for helpful suggestions.

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  1. Department of Biotechnology, Istanbul University, 34134, Vezneciler, Istanbul, Turkey

    Elif Karlik

  2. Department of Molecular Biology and Genetics, Istanbul University, 34134, Vezneciler, Istanbul, Turkey

    Nermin Gozukirmizi

  3. Department of Molecular Biology and Genetics, İstinye University, 34010, Zeytinburnu, İstanbul, Turkey

    Nermin Gozukirmizi

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  1. Elif Karlik
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  2. Nermin Gozukirmizi
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Correspondence to Elif Karlik.

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Karlik, E., Gozukirmizi, N. Expression analysis of lncRNA AK370814 involved in the barley vitamin B6 salvage pathway under salinity. Mol Biol Rep 45, 1597–1609 (2018). https://doi.org/10.1007/s11033-018-4289-2

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  • DOI: https://doi.org/10.1007/s11033-018-4289-2

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