Genome-wide analysis of non-coding RNA reveals the role of a novel miR319c for tuber dormancy release process in potato

Abstract

Tuber dormancy and sprouting are significant for potato cultivation, storage, and processing. Although the substantial role of microRNAs (miRNAs) in some biological processes has been recognized, the critical role of miRNA in breaking potato tuber dormancy is not well understood to date. In this investigation, we expand research on miRNA-mediated gene regulation in tuber dormancy release. In this work, 204 known and 192 novel miRNAs were identified. One hundred thirty-six differentially expressed miRNAs (DE-miRNAs) were also screened out, of which 56 DE-miRNAs were regulated by temperature during tuber dormancy release. Additionally, degradome sequencing revealed that 821 target genes for 202 miRNAs were discovered. Among them, 63 target genes and 48 miRNAs were predicted to be involved in plant hormone signaling pathways. This study used degradome sequencing, tobacco cotransformation system, and β-glucuronidase (GUS) staining technology to confirm that stu-miR319c can target StTCP26 and StTCP27 and effectively suppress their expression. The transgenic approach exhibited that stu-miR319c overexpressed tubers sprouted in advance, while silent expression of stu-miR319c showed delayed sprouting. Treatment of wild-type tubers with exogenous MeJA revealed that 1 mg/L MeJA significantly broke dormancy and enhanced potato sprouting ability. Furthermore, transgenic tubers revealed variance in jasmonic acid (JA) content and relative expression of genes associated with the JA synthesis pathway, including StAOC, StLOX2, and StLOX4, suggesting that the miR319c may participate in the JA pathway to regulate tuber dormancy release. In summary, our research offers evidence that miRNA regulates potato dormancy release and supports the idea that stu-miR319c is a unique epigenetic regulator for dormancy-sprouting transition in potatoes.

Acknowledgements

This research was funded by the Gansu Science and Technology Major Project (No. 22ZD6NA009), National Key Research and Development Program of China (No. 2022YFD1602103), and the Gansu Science and Technology Major Project (No. 23ZDNA006).

Author contributions

S.L., N.Z., and H.S. conceived and designed the study. S.L. and J.Y. performed the experiments. S.L., N.Z., and H.S. wrote the manuscript. All authors reviewed and approved the final version of the manuscript.

Data availability

The raw sRNA sequencing and degradome sequencing data reported in the present study have been deposited in the National Center for Biotechnology Information (NCBI) database under project numbers PRJNA1160163 and PRJNA1160198, respectively.

Conflict of interests

None declared.

Supplementary data

Supplementary data are available at Horticulture Research online.

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