Analysis of WRKY transcription factor family based on full-length transcriptome sequencing in Polygonatum cyrtonema.
10.19540/j.cnki.cjcmm.20221101.102
- Author:
Wei-Wei TIAN
1
;
Zhi-Xiang YAN
2
;
Cheng WANG
3
;
Quan YUAN
2
;
Hua HUA
1
;
Li LIU
1
;
Dong-Mei YU
2
;
Jian-Bo WANG
1
;
Jun-Ning ZHAO
1
Author Information
1. Key Laboratory of Translational Medicine of Traditional Chinese Medicine in Sichuan, Sichuan Institute for Translational Chinese Medicine Chengdu 610041, China Sichuan Engineering Technology Research Center for Formation Principle and Quality Evaluation of Genuine Medicinal Materials, Sichuan Engineering Technology Research Center for System Development of Genuine Medicinal Materials, Sichuan Academy of Chinese Medical Sciences Chengdu 610041, China.
2. Sichuan Engineering Technology Research Center for Formation Principle and Quality Evaluation of Genuine Medicinal Materials, Sichuan Engineering Technology Research Center for System Development of Genuine Medicinal Materials, Sichuan Academy of Chinese Medical Sciences Chengdu 610041, China.
3. Wumengshan Industrial Technology Branch of Sichuan Academy of Chinese Medical Sciences, Sichuan Junlian County Traditional Chinese Medicine Development Center Yibin 645250, China.
- Publication Type:Journal Article
- Keywords:
Polygonatum cyrtonema;
WRKY transcription factor family;
bioinformatics analysis;
full-length transcriptome
- MeSH:
Transcription Factors;
Polygonatum;
Phylogeny;
Transcriptome;
Gene Expression Regulation;
Arabidopsis
- From:
China Journal of Chinese Materia Medica
2023;48(4):939-950
- CountryChina
- Language:Chinese
-
Abstract:
WRKY transcription factor family plays an important role in plant growth and development, secondary metabolite synthesis, and biotic and abiotic stress responses. The present study performed full-length transcriptome sequencing of Polygonatum cyrtonema by virtue of the PacBio SMRT high-throughput platform, identified the WRKY family by bioinformatics methods, and analyzed the physicochemical properties, subcellular localization, phylogeny, and conserved motifs. The results showed that 30.69 Gb nucleotide bases and 89 564 transcripts were obtained after redundancy removal. These transcripts had a mean length of 2 060 bp and an N50 value of 3 156 bp. Based on the full-length transcriptome sequencing data, 64 candidate proteins were selected from the WRKY transcription factor family, with the protein size of 92-1 027 aa, the relative molecular mass of 10 377.85-115 779.48 kDa, and the isoelectric point of 4.49-9.84. These WRKY family members were mostly located in the nucleus and belonged to the hydrophobic proteins. According to the phylogenetic analysis of WRKY family in P. cyrtonema and Arabidopsis thaliana, all WRKY family members were clustered into seven subfamilies and WRKY proteins from P. cyrtonema were distributed in different numbers in these seven subgroups. Expression pattern analysis confirmed that 40 WRKY family members had distinct expression patterns in the rhizomes of 1-and 3-year-old P. cyrtonema. Except for PcWRKY39, the expression of 39 WRKY family members was down-regulated in 3-year-old samples. In conclusion, this study provides abundant reference data for genetic research on P. cyrtonema and lays a foundation for the in-depth investigation of the biological functions of the WRKY family.
