Identification and analysis of the R2R3-MYB transcription factor based on a transcriptome database in Morinda officinalis
10.16438/j.0513-4870.2019-0650
- VernacularTitle:基于巴戟天转录组数据的R2R3-MYB转录因子的鉴定和分析
- Author:
De-jin XIE
1
;
You-jie YE
1
;
De-ming YANG
1
;
Ke YANG
1
;
Cheng-cheng ZHOU
1
;
Ling-yan CHEN
2
;
Jun-dong RONG
1
;
Yu-shan ZHENG
3
Author Information
1. College of forestry
2. College of Landscape, Fujian Agriculture and Forestry University, Fuzhou 350002, China
3. College of forestry; College of Landscape, Fujian Agriculture and Forestry University, Fuzhou 350002, China
- Publication Type:Research Article
- Keywords:
italic>Morinda officinalis;
MYB;
transcriptome;
functional annotation;
phenylpropanoid metabolism
- From:
Acta Pharmaceutica Sinica
2020;55(1):160-167
- CountryChina
- Language:Chinese
-
Abstract:
In order to explore MYB transcription factors related to developmental processes and secondary metabolism in Morinda officinalis, we analyzed MoMYB expression based on transcriptome data from three tissues (root, stem and leaf). We used this analysis to provide a theoretical foundation for regulating the metabolism of M. officinalis. RNA-seq data along with the five databases including PFAM and plantTFDB and others were used to screen and classify MoMYB, including GO functional annotation and classification, subcellular localization, signal peptide prediction, conserved motif discovery, and comparative phylogenetic analysis. RT-qPCR was carried out to detect tissue-specific expression differences of MoMYB genes. According to transcriptome data, 109 MoMYB sequences were identified and divided into four classes, containing 51 sequences related to R2R3-MYB. Subcellular localization analysis indicated that a majority of sequences were located in nucleus. Blast2GO analysis showed that 109 MoMYB sequences were classified into three major functional ontologies including molecular function (112), biological processes (76) and cellular components (239). The R2-MYB conserved motif of 51 R2R3-MYB sequences possessed three significantly conserved tryptophan residues, whereas a phenylalanine replaced the first tryptophan in R3-MYB. The results of multiple sequence alignment and phylogenetic analysis revealed that the R2R3-MYB was distributed in all subgroups, apart from the S10, S19 and S21 subgroups. RT-qPCR indicated that several R2R3-MYB genes were differentially expressed among the three tissues, and this finding was consistent with transcriptome data. The 109 MoMYB sequences were annotated and divided into different classes, which lays the foundation for further study on MYB transcriptional factors in M. officinalis.
