Comparative Transcriptome Analysis Reveals That WSSV IE1 Protein Plays a Crucial Role in DNA Replication Control
Abstract
:1. Introduction
2. Results
2.1. De Novo Assembly and Unigene Annotation
2.2. Identification and Functional Classification Analysis of DEGs
2.3. Validation of RNA-Seq Results by qPCR Analysis
2.4. P. Vannamei MCM Complex Genes Are Upregulated after WSSV Challenge
2.5. P. vannamei MCM Complex Enhances WSSV Replication at the Early Infection Stage
2.6. IE1 Promotes the Cellular DNA Synthesis In Vitro
3. Discussion
4. Materials and Methods
4.1. Shrimp Culture and Virus
4.2. RNAi-Mediated Knockdown of IE1 and Sample Collection
4.3. RNA Extraction, cDNA Library Construction, and Transcriptome Sequencing
4.4. Reads Mapping, De Novo Assembly, and Unigene Annotation
4.5. Identification and Functional Classification Analysis of Differential Expression Genes
4.6. Validation of DEGs by Real-Time Quantitative PCR (qPCR) Analysis
4.7. Expression Analysis of P. vannamei MCM Complex Genes after WSSV Infection
4.8. Detection of Viral Genes’ Expression and Viral Loads after PvMCM2 Knockdown
4.9. Plasmid Transfection and Analysis of MCM Complex Genes’ Expression and DNA Synthesis
4.10. Western Blot Analysis
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Chen, Y.; Wu, G.; Wang, C.; Zhang, H.; Zhu, J.; Zhang, Y.; Lin, Z.; Yao, D. Comparative Transcriptome Analysis Reveals That WSSV IE1 Protein Plays a Crucial Role in DNA Replication Control. Int. J. Mol. Sci. 2022, 23, 8176. https://doi.org/10.3390/ijms23158176
Chen Y, Wu G, Wang C, Zhang H, Zhu J, Zhang Y, Lin Z, Yao D. Comparative Transcriptome Analysis Reveals That WSSV IE1 Protein Plays a Crucial Role in DNA Replication Control. International Journal of Molecular Sciences. 2022; 23(15):8176. https://doi.org/10.3390/ijms23158176
Chicago/Turabian StyleChen, Yixi, Gaochun Wu, Chuanqi Wang, Huimin Zhang, Jinghua Zhu, Yueling Zhang, Zhongyang Lin, and Defu Yao. 2022. "Comparative Transcriptome Analysis Reveals That WSSV IE1 Protein Plays a Crucial Role in DNA Replication Control" International Journal of Molecular Sciences 23, no. 15: 8176. https://doi.org/10.3390/ijms23158176