Deep Sequencing Identifies Tissue-Specific MicroRNAs and Their Target Genes Involving in the Biosynthesis of Tanshinones in Salvia miltiorrhiza

Xu, Xiangbin; Jiang, Qinghua; Ma, Xiuyan; Ying, Qicai; Bo, Shen; Qian, Yongsheng; Song, Hongmiao; Wang, Huizhong

doi:10.1371/journal.pone.0111679

Cited by 58 publications

(46 citation statements)

References 44 publications

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“…Since the loss of miR162 target site in SmDCL1 , we ask whether miR162 is present in S. miltiorrhiza . In order to address this question, we checked the published high-throughput sRNA sequencing data for mature miR162 sequence in S. miltiorrhiza 46 . No miR162 sequence was found in small RNA libraries for S. miltiorrhiza roots, stems and leaves.…”

Section: Resultsmentioning

confidence: 99%

Comparative analysis of the Dicer-like gene family reveals loss of miR162 target site in SmDCL1 from Salvia miltiorrhiza

Shao

Qiu

2015

Sci Rep

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DCL1, the core component for miRNA biogenesis, is itself regulated by miR162 in Arabidopsis. MiRNA-mediated feedback regulation of AtDCL1 is important to maintain the proper level of DCL1 transcripts. However, it is unknown whether the miRNA-mediated regulation of DCL1 is conserved among plants. We analyzed the SmDCL gene family in Salvia miltiorrhiza, an emerging model plant for Traditional Chinese Medicine (TCM) studies, using a comprehensive approach integrating genome-wide prediction, molecular cloning, gene expression profiling, and posttranscriptional regulation analysis. A total of five SmDCLs were identified. Comparative analysis of SmDCLs and AtDCLs showed an apparent enlargement of SmDCL introns in S. miltiorrhiza. The absence of miR162 in S. miltiorrhiza and the loss of miR162 target site in SmDCL1 were unexpectedly found. Further analysis showed that the miR162 target site was not present in DCL1 from ancient plants and was gained during plant evolution. The gained miR162 target site might be lost in a few modern plants through nucleotide mutations. Our results provide evidence for the gain and loss of miR162 and its target sites in Dicer-like genes during evolution. The data is useful for understanding the evolution of miRNA-mediated feedback regulation of DCLs in plants.

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Section: Resultsmentioning

confidence: 99%

Comparative analysis of the Dicer-like gene family reveals loss of miR162 target site in SmDCL1 from Salvia miltiorrhiza

Shao

Qiu

2015

Sci Rep

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“…In Arabidopsis thaliana, miR826 and miR5090 share the target AOP2, which encodes a 2-oxoglutarate-dependent dioxygenase that is involved in glucosinolate biosynthesis [48]. Salvia miltiorrhiza miR5072 targets acetyl-CoA C-acetyl transferase that is involved in the biosynthesis of tanshinones [50]. miR826 targets alkenyl hydroxyalkyl producing 2 oxoglutarate dioxygenase, which is involved in glucosinolate synthesis [49].…”

Section: Other Secondary Metabolitesmentioning

confidence: 99%

MicroRNAs Associated with Secondary Metabolites Production

Vargas-Hernández¹,

Vázquez-Marrufo²,

Agustín³

et al. 2019

Plant Physiological Aspects of Phenolic Compounds

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MicroRNAs (miRNAs) are noncoding RNAs that play an important role in the regulation of the genetic expression in animals and plants by targeting mRNAs for cleavage or translational repression. Several miRNAs regulate the plant development, the metabolism, and the responses to biotic and abiotic stresses. Characterization of an miRNA has helped to show its role in fine tuning the mechanisms of posttranscriptional gene regulation. Although there is a lot of information related to miRNA regulation of some processes, the role of miRNA involved in the regulation of biosynthesis of secondary plant product is still poorly understood. In this chapter, we summarize the identification and characterization of miRNAs that participate in the regulation of the biosynthesis of secondary metabolites in plants and their use in the strategies to manipulate a controlled manipulation.

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“…Regarding miRNAs, at present there are a total of 452 known miRNAs corresponding to 589 precursor miRNAs, and 40 novel miRNAs identified in different tissues of S. miltiorrhiza by high-throughput sequencing [49]. Among them, miR5072 cleaves acetyl-CoA Cacetyltransferase and is believed to be involved in the biosynthesis of tanshinones [49]. We have overexpressed SmMiR396b in S. miltiorrhiza hairy roots whose growth is inhibited while the concentration of tanshinones in those hairy roots is enhanced (data not published).…”

Section: Transcription Factors and The Micrornas In Regulating Tanshimentioning

confidence: 99%

Biosynthesis of bioactive ingredients of Salvia miltiorrhiza and advanced biotechnologies for their production

Geng²,

Zhao

2018

Biotechnology & Biotechnological Equipment

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This review deals with the progress in the biosynthesis and regulation of tanshinones and salvianolic acids as well as the prospects and challenges for producing such compounds through biotechnology techniques. Tanshinones (lipophilic diterpenoids) and salvianolic acids (hydrophilic phenolic acids) are valuable natural products from danshen (Salvia miltiorrhiza Bunge) with remarkable clinical efficacy to treat cardiovascular diseases, with potential application in the treatment of cancer and possibly other disorders. The significant bioactivities of S. miltiorrhiza inspired scientists to explore its biosynthetic mechanism that promotes the production of these compounds. Computational and comparative genomics and transcriptomics have been used to analyse a number of pathway genes, transcription factors and microRNAs that are associated with the biosynthesis and regulation of tanshinones and salvianolic acids. At the same time, plant cell and tissue culture, transgenic plants, microbial biotransformation and metabolic engineering have been used to synthesise all these compounds.

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Deep Sequencing Identifies Tissue-Specific MicroRNAs and Their Target Genes Involving in the Biosynthesis of Tanshinones in Salvia miltiorrhiza

Cited by 58 publications

References 44 publications

Comparative analysis of the Dicer-like gene family reveals loss of miR162 target site in SmDCL1 from Salvia miltiorrhiza

Comparative analysis of the Dicer-like gene family reveals loss of miR162 target site in SmDCL1 from Salvia miltiorrhiza

MicroRNAs Associated with Secondary Metabolites Production

Biosynthesis of bioactive ingredients of Salvia miltiorrhiza and advanced biotechnologies for their production

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