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Planta Med 2019; 85(14/15): 1168-1176
DOI: 10.1055/a-0989-7302
Natural Product Chemistry and Analytical Studies
Original Papers
Georg Thieme Verlag KG Stuttgart · New York

Analysis of Panax ginseng miRNAs and Their Target Prediction Based on High-Throughput Sequencing

Yingfang Wang
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
2   Guangdong Engineering &Technology Research Center of Topical Precise Drug Delivery System, Guangzhou, Guangdong, China
,
Mengyuan Peng
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Yanlin Chen
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Wenjuan Wang
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Zhihua He
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Zemin Yang
3   School of Basic Courses, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Zhiyun Lin
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Mengjuan Gong
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Yongqin Yin
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
,
Yu Zeng
1   School of Traditional Chinese Medicine, Guangdong Pharmaceutical University, Guangzhou, Guangdong, China
› Author Affiliations
Further Information

Publication History

received 19 June 2019
revised 20 July 2019

accepted 03 August 2019

Publication Date:
21 August 2019 (online)

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Abstract

Panax ginseng has been widely and effectively used as medicine for thousands of years. However, only limited studies have been conducted to date on ginseng miRNAs. In the present study, we collected 3 ginseng samples from the Changbai Mountain in China. Small RNA libraries were constructed and sequenced on the Illumina HiSeq platform. Sequencing analyses identified 3798 miRNAs, including 298 known miRNAs and 3500 potentially novel miRNAs. The miR166, miR159, and miR396 families were among the most highly expressed miRNAs in all libraries. The results of miRNA expression analyses were validated by qRT-PCR. Target gene prediction through computational and pathway annotation analyses revealed that the primary pathways were related to plant development, including metabolic processes and single-organism processes. It has been reported that plant miRNAs might be one of the hidden bioactive ingredients in medicinal plants. Based on the combined use of RNAhybrid, Miranda, and TargetScan software, a total of 50,992 potential human genes were predicted as the putative targets of 2868 miRNAs. Interestingly, the enriched KEGG pathways were associated with some human diseases, especially cancer, immune system diseases, and neurological disorders, and this could support the clinical use of ginseng. However, the human targets of ginseng miRNAs should be confirmed by further experimental validation. Our results provided valuable insight into ginseng miRNAs and the putative roles of these miRNAs.

Key words

Panax ginseng - miRNAs - high-throughput sequencing - target gene - cross-kingdom regulation - Araliaceae

Supporting Information

    Statistics of clean data (Table 1S), categorization of clean tags (Table 2S), KEGG pathways for putative human targets (Table 3S), and distribution of the number of members in conserved miRNA families (Fig. 1S) are available as Supporting Information.

  • Supporting Information
 

  • References

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