| Literature DB >> 28561788 |
Jing-Jing Zhang1,2, He Su3,4, Lei Zhang5, Bao-Sheng Liao6, Shui-Ming Xiao7, Lin-Lin Dong8, Zhi-Gang Hu9, Ping Wang10, Xi-Wen Li11, Zhi-Hai Huang12, Zhi-Ming Gao13, Lian-Juan Zhang14, Liang Shen15, Rui-Yang Cheng16, Jiang Xu17, Shi-Lin Chen18.
Abstract
Herbgenomics provides a global platform to explore the genetics and biology of herbs on the genome level. Panax ginseng C.A. Meyer is an important medicinal plant with numerous pharmaceutical effects. Previous reports mainly discussed the transcriptome of ginseng at the organ level. However, based on mass spectrometry imaging analyses, the ginsenosides varied among different tissues. In this work, ginseng root was separated into three tissues-periderm, cortex and stele-each for five duplicates. The chemical analysis and transcriptome analysis were conducted simultaneously. Gene-encoding enzymes involved in ginsenosides biosynthesis and modification were studied based on gene and molecule data. Eight widely-used ginsenosides were distributed unevenly in ginseng roots. A total of 182,881 unigenes were assembled with an N50 contig size of 1374 bp. About 21,000 of these unigenes were positively correlated with the content of ginsenosides. Additionally, we identified 192 transcripts encoding enzymes involved in two triterpenoid biosynthesis pathways and 290 transcripts encoding UDP-glycosyltransferases (UGTs). Of these UGTs, 195 UGTs (67.2%) were more highly expressed in the periderm, and that seven UGTs and one UGT were specifically expressed in the periderm and stele, respectively. This genetic resource will help to improve the interpretation on complex mechanisms of ginsenosides biosynthesis, accumulation, and transportation.Entities:
Keywords: Panax ginseng; biosynthesis; ginsenoside; transcriptome; triterpenes
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Year: 2017 PMID: 28561788 PMCID: PMC6152789 DOI: 10.3390/molecules22060889
Source DB: PubMed Journal: Molecules ISSN: 1420-3049 Impact factor: 4.411
Figure 1Bar graph for the distribution of eight ginsenosides in ginseng main root tissues.
Summary of the transcriptome data and the assembly results for ginseng main root tissues.
| Item | No. of Sequences |
|---|---|
| High-quality reads | 929,225,004 |
| Average length (bp) | 9,208,092,085 |
| No. of contig > 500 bp | 91,092 |
| Total unigenes | 182,881 |
| N50 contig size (bp) | 1374 |
| Total assemble bases (bp) | 156,275,266 |
Figure 2Clustering analysis of expression genes in ginseng main root tissues. (A) Clustering tree for expression genes in ginseng main root tissues. The leaves of the tree correspond to the three tissues with five duplicates. The color bands beneath the tree represent the relative content of the ginsenoside-Rg1, ginsenoside-Re, and ginsenoside-Rb1, with red indicating high values. P, C, and S refer to the periderm, cortex, and stele, respectively. (B) Venn diagram showing the overlap between the expression genes of each root tissue.
Figure 3Co-expression analysis with 39,493 genes through the WGCNA. The modules corresponding to the branches are represented by colors in the first color band underneath the tree, and the remaining color bands reveal the correlation between transcripts and ginsenoside-Rg1, ginsenoside-Re and ginsenoside-Rb1. The red module indicates a highly positive correlation with the corresponding gene, the white module denotes a weak correlation, and the blue module represents a highly negative correlation.
Figure 4Heatmap of 73 MVA pathway and downstream genes involved in ginsenoside biosynthesis in ginseng main root tissues, this was constructed using an average FPKM value of five duplicates (FPKM ≥ 2).