Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature
Abstract
:1. Introduction
2. Results
2.1. Identification and Characterization of CsCBFs
2.2. Comparative Analysis of the DNA-Binding Domain, Phylogenetic Tree and Conserved Motifs
2.3. Bioinformatics Analysis of Cis-Elements
2.4. Expression Profiles of CsCBFs in Eight Tea Plant Tissues
2.5. Expression Profiles of Cscbfs in Response to Low Temperature
2.6. Identification and Annotationo of Potential Cscbf Target Genes at Low Temperature in the Winter
2.7. Functional Analysis of the CsCBF Putative Target Genes
3. Discussion
4. Materials and Methods
4.1. Plant Materials and Low-Temperature Treatment
4.2. Identification, Sequence Alignment and Phylogenetic Analysis of CBF Homologs in Tea Plants
4.3. Conserved Motif Distributions and Promoter Analyses
4.4. Quantitative Real-Time PCR (qRT-PCR) Analysis
4.5. Tissue-Specific Expression Detected by RNA-seq Data
4.6. Identification, Annotation, and Classification of Potential CBF Target Genes
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Conflicts of Interest
Abbreviations
CBFs | C-repeat binding factors |
CRT/DRE | C-repeat/dehydration-responsive |
COR | Cold-responsive gene |
AP2/ERF | APETALA2/Ethylene-Responsive Factor |
FPKM | Fragments Per Kilobase of transcript per Million mapped reads |
AME | Analysis of Motif Enrichment |
Nr | Nonredundant protein sequences |
GO | Gene Ontology |
KEGG | Kyoto Encyclopedia of Genes and Genomes |
CDS | Coding sequences |
GA | Gibberellin |
ABA | Abscisic acid |
ETH | Ethylene |
JA | Jasmonic acid |
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Gene Name | Locus ID | CDS Length | Animo Acids | MW (kDa) | pI | Instability Index | Aliphatic Index | GRAVY | Subcellular Localization |
---|---|---|---|---|---|---|---|---|---|
CsCBF1 | TEA010420.1 | 720 | 239 | 26.44 | 5.22 | 49.45 | 73.51 | −0.28 | nucleus |
CsCBF2 | TEA010423.1 | 540 | 179 | 19.54 | 9.54 | 46.70 | 74.75 | −0.40 | nucleus |
CsCBF3 | TEA010806.1 | 753 | 250 | 27.63 | 6.10 | 54.32 | 66.40 | −0.59 | nucleus |
CsCBF4 | TEA011105.1 | 777 | 258 | 27.79 | 4.94 | 49.28 | 65.12 | −0.47 | nucleus |
CsCBF5 | TEA031249.1 | 1056 | 351 | 38.28 | 4.75 | 47.30 | 66.55 | −0.48 | nucleus |
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Wang, P.; Chen, X.; Guo, Y.; Zheng, Y.; Yue, C.; Yang, J.; Ye, N. Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature. Int. J. Mol. Sci. 2019, 20, 5137. https://0-doi-org.brum.beds.ac.uk/10.3390/ijms20205137
Wang P, Chen X, Guo Y, Zheng Y, Yue C, Yang J, Ye N. Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature. International Journal of Molecular Sciences. 2019; 20(20):5137. https://0-doi-org.brum.beds.ac.uk/10.3390/ijms20205137
Chicago/Turabian StyleWang, Pengjie, Xuejin Chen, Yongchun Guo, Yucheng Zheng, Chuan Yue, Jiangfan Yang, and Naixing Ye. 2019. "Identification of CBF Transcription Factors in Tea Plants and a Survey of Potential CBF Target Genes under Low Temperature" International Journal of Molecular Sciences 20, no. 20: 5137. https://0-doi-org.brum.beds.ac.uk/10.3390/ijms20205137