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miRNA-Mediated Posttranscriptional Regulation of Gene Expression in ABR17-Transgenic Arabidopsis thaliana Under Salt Stress

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Abstract

MicroRNAs (miRNAs) are a class of small endogenous RNAs conserved in eukaryotic organisms including plants. They suppress gene expression posttranscriptionally in many different biological processes. Previously, we reported salinity-induced changes in gene expression in transgenic Arabidopsis thaliana plants that constitutively expressed a pea abscisic acid-responsive (ABR17) gene. In the current study, we used microarrays to investigate the role of miRNA-mediated posttranscriptional gene regulation in these same transgenic plants in the presence and absence of salinity stress. We identified nine miRNAs that were significantly modulated due to ABR17 gene expression and seven miRNAs that were modulated in response to salt stress. The target genes regulated by these miRNAs were identified using sRNA target Base (starBase) degradome analysis and through 5′-RNA ligase-mediated rapid amplification of cDNA ends (RLM-RACE). Our findings revealed miRNA–mRNA interactions comprising regulatory networks of auxin response factor (ARF), argonaute 1 (AGO1), dicer-like proteins 1 (DCL1), SQUAMOSA promoter binding (SPB), NAC, APETALA 2 (AP2), nuclear factor Y (NFY), RNA-binding proteins, A. thaliana vacuolar phyrophosphate 1 (AVP1), and pentatricopeptide repeat (PPR) in ABR17-transgenic A. thaliana, which control physiological, biochemical, and stress signaling cascades due to the imposition of salt stress. Our results are discussed within the context of the effect of the transgene, ABR17, and the roles of miRNA expression may play in mediating plant responses to salinity.

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Acknowledgements

Funding from the Natural Sciences and Engineering Research Council (NSERC) of Canada, Agriculture Funding Consortium, Alberta Canola Producers Commission, and Alberta Crop Industry Development Fund is gratefully acknowledged. We would like to thank Sona Todi (Indian Institute of Technology, Kharagpur, India) for her contribution in some of the experiments.

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  1. Rakesh Sinha

    Present address: Agriculture and Agri-Food Canada Lethbridge, Alberta, T1J 4B1, Canada

Authors and Affiliations

  1. Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta, T6G 2P5, Canada

    Shiv S. Verma, Rakesh Sinha, M. H. Rahman, Swati Megha & Nat N. V. Kav

  2. Department of Biological Sciences, University of Alberta, Edmonton, Alberta, T6G 2E9, Canada

    Michael K. Deyholos

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Supplementary Fig. S1

Visualization of the miRNA microarray data through clustering heat maps showing t-test of selected miRNA differentially expressed in transgenic A. thaliana expressing ABR17 gene compared with WT (a), salt stressed ABR17 compared with non-stressed ABR17 (b), salt-stressed WT compared to non-stressed WT (c), and salt-stressed ABR17 as compared to salt-stressed WT (d). Red indicate an increase in abundance, while green represents a decrease in abundance of miRNAs at a P value of less than 0.01 (P < 0.01) (GIF 261 kb)

High resolution Image (TIFF 747 kb)

Supplementary material S2

a-d Excel sheets showing the modulation of expression of miRNAs in transgenic A. thaliana expressing ABR17 gene compared with WT (a), salt stressed ABR17 compared with non-stressed ABR17 (b), salt-stressed WT compared to non-stressed WT (c), and salt-stressed ABR17 as compared to salt-stressed WT (d) (XLS 49 kb)

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Verma, S.S., Sinha, R., Rahman, M.H. et al. miRNA-Mediated Posttranscriptional Regulation of Gene Expression in ABR17-Transgenic Arabidopsis thaliana Under Salt Stress. Plant Mol Biol Rep 32, 1203–1218 (2014). https://doi.org/10.1007/s11105-014-0716-2

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