A comparative analysis of small RNA sequencing data in tubers of purple potato and its red mutant reveals small RNA regulation in anthocyanin biosynthesis

Anthocyanins are a group of natural pigments acting as stress protectants induced by biotic/abiotic stress in plants. Although the metabolic pathway of anthocyanin has been studied in potato, the roles of miRNAs on the metabolic pathway remain unclear. In this study, a purple tetraploid potato of SD...

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Published inPeerJ (San Francisco, CA) Vol. 11; p. e15349
Main Authors Liu, Fang, Zhao, Peng, Chen, Guangxia, Wang, Yongqiang, Yang, Yuanjun
Format Journal Article
LanguageEnglish
Published United States PeerJ. Ltd 19.05.2023
PeerJ Inc
Subjects
Agricultural Science
Analysis
Anthocyanin
Anthocyanins - genetics
Cellular signal transduction
DNA binding proteins
MicroRNA
MicroRNAs - genetics
Molecular Biology
Plant genetics
Plant Science
Potatoes
Purple potato
Red mutant
RNA sequencing
RNA, Messenger - genetics
Sequence Analysis, RNA
Small RNA
Solanum tuberosum - genetics
Anthocyanin
Red mutant
Purple potato
Small RNA
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Summary:Anthocyanins are a group of natural pigments acting as stress protectants induced by biotic/abiotic stress in plants. Although the metabolic pathway of anthocyanin has been studied in potato, the roles of miRNAs on the metabolic pathway remain unclear. In this study, a purple tetraploid potato of SD92 and its red mutant of SD140 were selected to explore the regulation mechanism of miRNA in anthocyanin biosynthesis. A comparative analysis of small RNAs between SD92 and SD140 revealed that there were 179 differentially expressed miRNAs, including 65 up- and 114 down-regulated miRNAs. Furthermore, 31 differentially expressed miRNAs were predicted to potentially regulate 305 target genes. KEGG pathway enrichment analysis for these target genes showed that plant hormone signal transduction pathway and plant-pathogen interaction pathway were significantly enriched. The correlation analysis of miRNA sequencing data and transcriptome data showed that there were 140 negative regulatory miRNA-mRNA pairs. The miRNAs included miR171 family, miR172 family, miR530b_4 and novel_mir170. The mRNAs encoded transcription factors, hormone response factors and protein kinases. All these results indicated that miRNAs might regulate anthocyanin biosynthesis through transcription factors, hormone response factors and protein kinase.
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ISSN:2167-8359
2167-8359
DOI:10.7717/PEERJ.15349