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Identification of drought-responsive miRNAs in Hippophae tibetana using high-throughput sequencing

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Abstract

MicroRNAs (miRNAs) play an important role in abiotic stress response in plants. However, the total miRNA profiles (miRNome) and drought-responsive miRNAs in H. tibetana have not been identified. In this study, we present the first report on the miRNome profiles of H. tibetana by high-throughput sequencing technology. 116 known and 4 predicted novel miRNAs were all identified in six H. tibetana samples. Moreover, to reveal the drought-responsive miRNAs in H. tibetana, we compared the miRNA profiles of H. tibetana grown under water sufficiency and drought stress. The results showed that 39 known miRNAs were up-regulated, while 34 miRNAs were downregulated under drought stress. Moreover, the expression of two novel miRNAs (novel_mir_24 and novel_mir_87) showed notable changes in response to drought stress. The target genes of these differentially expressed miRNAs were mainly enriched in cellular process, metabolic process, cell part, and response to stimulus. The identified drought-responsive miRNAs might be used for improving drought tolerance in H. tibetana and other plateau plants.

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Acknowledgements

The authors gratefully acknowledge the financial support from National Natural Science Foundation of China (No. 81473428) and the National Key Research and Development Program of China (No. 2017YFC1703900).

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Author notes

  1. Gang Fan and Yue Liu contributed equally to this work.

Authors and Affiliations

  1. College of Ethnic Medicine, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137, China

    Gang Fan, Huan Du, Tingting Kuang & Yi Zhang

  2. Sichuan Industrial Institute of Antibiotics, Chengdu University, Chengdu, 610051, China

    Yue Liu

Authors
  1. Gang Fan
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  2. Yue Liu
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  3. Huan Du
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  4. Tingting Kuang
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  5. Yi Zhang
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Correspondence to Yi Zhang.

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Figure S1

Length distribution and abundance of the miRNome for the six Hippophae tibetana samples, i.e., HT-1, HT-2, HT-3, HT-4, HT-5, and HT-6 (PDF 427 kb)

Figure S2

Venn plot analysis of the predicted miRNAs for the six Hippophae tibetana samples, i.e., HT-1, HT-2, HT-3, HT-4, HT-5, and HT-6 (PDF 148 kb)

Table S1

Distribution of small RNAs among different categories in the six H. tibetana samples (HT-1, HT-2, HT-3, HT-4, HT-5, and HT-6) (XLSX 17 kb)

Table S2

Identified miRNAs as well as its expression profiles of the conserved miRNAs in the six H. tibetana samples (HT-1, HT-2, HT-3, HT-4, HT-5, and HT-6) (XLSX 58 kb)

Table S3

miRNAs expression profiles between HT123 (HT-1, HT-2 and HT-3) and HT456 (HT-4, HT-5 and HT-6) (XLSX 48 kb)

Table S4

KEGG pathway analysis of the target genes of differentially expressed miRNAs between HT123 (HT-1, HT-2 and HT-3) and HT456 (HT-4, HT-5 and HT-6) (XLSX 20 kb)

Table S5

Predicted novel miRNAs in the six H. tibetana samples (HT-1, HT-2, HT-3, HT-4, HT-5, and HT-6) (XLSX 22 kb)

Table S6

Expression difference of the novel miRNAs between HT123 (HT-1, HT-2 and HT-3) and HT456 (HT-4, HT-5 and HT-6) (XLSX 15 kb)

Table S7

Primers used for qRT-PCR (XLSX 15 kb)

Table S8

GO analysis (XLSX 10 kb)

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Fan, G., Liu, Y., Du, H. et al. Identification of drought-responsive miRNAs in Hippophae tibetana using high-throughput sequencing. 3 Biotech 10, 53 (2020). https://doi.org/10.1007/s13205-019-2045-5

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  • DOI: https://doi.org/10.1007/s13205-019-2045-5

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