Bioinformatics analysis and function prediction of ginseng TCP transcription factor family.
10.19540/j.cnki.cjcmm.20210523.103
- Author:
Qi LYU
1
;
Hong-Hong JIAO
2
;
Qi-Rui YU
2
;
Zhong-Yi HUA
2
;
Yu-Yang ZHAO
2
;
Jun-Hui ZHOU
2
;
Yuan YUAN
2
;
Lu-Qi HUANG
1
Author Information
1. Aademician Workstation, Jiangxi University of Traditional Chinese Medicine Nanchang 330004, China State Key Laboratory Breeding Base of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences Beijing 100700, China.
2. State Key Laboratory Breeding Base of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences Beijing 100700, China.
- Publication Type:Journal Article
- Keywords:
Panax ginseng;
TCP gene;
evolutionary analysis;
meristem;
tissue-specific expression
- MeSH:
Computational Biology;
Gene Expression Regulation, Plant;
Multigene Family;
Panax/metabolism*;
Phylogeny;
Plant Proteins/metabolism*;
Transcription Factors/metabolism*
- From:
China Journal of Chinese Materia Medica
2021;46(15):3838-3845
- CountryChina
- Language:Chinese
-
Abstract:
The longevity mechanism of ginseng(Panax ginseng) is related to its strong meristematic ability. In this paper, this study used bioinformatic methods to identify the members of the ginseng TCP gene family in the whole genome and analyzed their sequence characteristics. Then, quantitative real-time fluorescent PCR was performed to analyze the TCP genes containing elements rela-ted to meristem expression in the taproots, fibrous roots, stems, and leaves. According to the data, this study further explored the expression specificity of TCP genes in ginseng tissues, which facilitated the dissection of the longevity mechanism of ginseng. The ginseng TCP members were identified and analyzed using PlantTFDB, ExPASy, MEME, PLANTCARE, TBtools, MEGA and DNAMAN. The results demonstrated that there were 60 TCP gene family members in ginseng, and they could be divided into two classes: Class Ⅰ and Class Ⅱ, in which the Class Ⅱ possessed two subclasses: CYC-TCP and CIN-TCP. The deduced TCP proteins in ginseng had the length of 128-793 aa, the isoelectric point of 4.49-9.84 and the relative molecular mass of 14.2-89.3 kDa. They all contained the basic helix-loop-helix(bHLH) domain. There are a variety of stress response-related cis-acting elements in the promoter regions of ginseng TCP genes, and PgTCP20-PgTCP24 contained the elements associated with meristematic expression. The transcription levels of PgTCP20-PgTCP24 were high in fibrous roots and leaves, but low in stems, indicating the tissue-specific expression of ginseng TCP genes. The Class Ⅰ TCP members which contained PgTCP20-PgTCP23, may be important regulators for the growth and development of ginseng roots.
