Small RNA-Seq to Unveil the miRNA Expression Patterns and Identify the Target Genes in Panax ginseng
Abstract
:1. Introduction
2. Results
2.1. Features of miRNA Population in Panax ginseng
2.2. Identification of Known and Novel miRNAs
2.3. miRNAs Differentially Expressed
2.4. Target Gene Prediction and Functional Annotation
2.5. qRT-PCR Verification and Analysis
3. Discussion
4. Materials and Methods
4.1. Plant Materials in this Study
4.2. Library Construction and Sequencing of RNA in Ginseng
4.3. Quality Control of Sequencing Data
4.4. Identification of Known and Novel miRNAs in Ginseng Adventurous Roots and Ginseng Hairy Roots
4.5. The miRNA Expression Pattern Analysis
4.6. The miRNA Target Gene Prediction
4.7. Functional Annotation of miRNA Target Genes
4.8. The miRNA Genes Expression Analysis Using the qRT-PCR
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Data Availability Statement
Conflicts of Interest
References
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miRNA and Reference Gene | Stem-Loop Primers | Forward Primer | Reverse Primer |
---|---|---|---|
miRNA166 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACGGGGAA | GCGTCGGACCAGGCTTCA | AGTGCAGGGTCCGAGGTATT |
miRNA396 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACCAGTTC | CGCGTTCCACAGCTTTCTT | AGTGCAGGGTCCGAGGTATT |
miRNA156 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACGTGCTC | CGCGCGTGACAGAAGAGAGT | AGTGCAGGGTCCGAGGTATT |
miRNA399 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACAAGGGC | GCGCGCCAAAGGAGAGTT | AGTGCAGGGTCCGAGGTATT |
miRNA482 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACGGAATG | GCGTCTTGCCAATTCCTCC | AGTGCAGGGTCCGAGGTATT |
miRNA157 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACGTGCTC | CGCGCGTTGACAGAAGATAGA | AGTGCAGGGTCCGAGGTATT |
miRNA172 | GTCGTATCCAGTGCAGGGTCCGAGGTATTCGCACTGGATACGACATGCAG | GCGCGAGAATCTTGATGATG | AGTGCAGGGTCCGAGGTATT |
U6 | TTGTCTGACGACGAGAGAGAGCACG | GTGCAGGGTCCGAGGTTTGGACCATTTCTAGAT | TTGTCTGACGACGAGAGAGAGCACG |
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Liu, C.; Jiang, Y.; Yun, Z.; Zhang, K.; Zhao, M.; Wang, Y.; Zhang, M.; Tian, Z.; Wang, K. Small RNA-Seq to Unveil the miRNA Expression Patterns and Identify the Target Genes in Panax ginseng. Plants 2023, 12, 3070. https://doi.org/10.3390/plants12173070
Liu C, Jiang Y, Yun Z, Zhang K, Zhao M, Wang Y, Zhang M, Tian Z, Wang K. Small RNA-Seq to Unveil the miRNA Expression Patterns and Identify the Target Genes in Panax ginseng. Plants. 2023; 12(17):3070. https://doi.org/10.3390/plants12173070
Chicago/Turabian StyleLiu, Chang, Yang Jiang, Ziyi Yun, Kexin Zhang, Mingzhu Zhao, Yi Wang, Meiping Zhang, Zhuo Tian, and Kangyu Wang. 2023. "Small RNA-Seq to Unveil the miRNA Expression Patterns and Identify the Target Genes in Panax ginseng" Plants 12, no. 17: 3070. https://doi.org/10.3390/plants12173070