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Review
. 2022 Jul 14:13:900035.
doi: 10.3389/fpls.2022.900035. eCollection 2022.

Application of High-Throughput Sequencing on the Chinese Herbal Medicine for the Data-Mining of the Bioactive Compounds

Xiaoyan Liu  1 , Xun Gong  2 , Yi Liu  1   3 , Junlin Liu  1 , Hantao Zhang  1 , Sen Qiao  1 , Gang Li  4 , Min Tang  1
Affiliations
Review

Application of High-Throughput Sequencing on the Chinese Herbal Medicine for the Data-Mining of the Bioactive Compounds

Xiaoyan Liu et al. Front Plant Sci. .

Abstract

The Chinese Herbal Medicine (CHM) has been used worldwide in clinic to treat the vast majority of human diseases, and the healing effect is remarkable. However, the functional components and the corresponding pharmacological mechanism of the herbs are unclear. As one of the main means, the high-throughput sequencing (HTS) technologies have been employed to discover and parse the active ingredients of CHM. Moreover, a tremendous amount of effort is made to uncover the pharmacodynamic genes associated with the synthesis of active substances. Here, based on the genome-assembly and the downstream bioinformatics analysis, we present a comprehensive summary of the application of HTS on CHM for the synthesis pathways of active ingredients from two aspects: active ingredient properties and disease classification, which are important for pharmacological, herb molecular breeding, and synthetic biology studies.

Keywords: Chinese herbal medicine; bioactive compounds; functional genes; genome assembly; high-throughput sequencing technologies.

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Conflict of interest statement

The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest.

Figures

Figure 1
Figure 1
Flow chart of bioactive compound related functional genes discovering based on high-throughput sequencing (HTS).
Figure 2
Figure 2
Chemical structure formula of the bioactive compounds from four species. *Bioactive compound-related functional genes are shown in the brackets. (A) Cr_TC57083, the functional gene related to synthesis of vinblastine and vincristine in Catharanthus roseus; (B) PlUGT43, the functional gene involved in synthesis of puerarin and daidzein in Pueraria thomsonii; (C) AgF3’5’H, AgF3’H, AgANS, the functional genes associated with biosynthesis of dihydromyricetin and dihydroquercetin in Ampelopsis grossdentata; (D) UGT73B1, CYP72A9, the functional genes correlation with synthesis of isoliquiritigrnin and formononetin in Glycyrrhiza uralensis.
Figure 3
Figure 3
Industry distribution and covered areas of four representative species in China. (A) Dendrobium officinale; (B) Eucommia ulmoides; (C) Zingiber officinale; and (D) Dioscorea zingiberensis. A color scale bar is shown the acreage size of species in each province of China.
See this image and copyright information in PMC

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