Ribosome Pausing at Inefficient Codons at the End of the Replicase Coding Region Is Important for Hepatitis C Virus Genome Replication
Abstract
:1. Introduction
2. Results
2.1. Analysis of Ribosome Occupancy of the HCV Genome
2.2. RNA Structure Analyses
2.3. Ribosome Pausing at the HCV Stop Codon Region
2.4. A Replicon System for the Analysis of Rare Codon Function
2.5. The NS5B Rare Codons Are Important for HCV Genome Replication but Not Translation
3. Discussion
4. Materials and Methods
4.1. Plasmids
4.2. In vitro-Transcription
4.3. RNA Transfection of Replicon RNAs and HiBiT Expression Assay
4.4. Statistical Analysis
4.5. Transfection of HCV Full-Length Genomes and Ribosome Profiling
4.6. RNA Structure Prediction and Visualization
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Gerresheim, G.K.; Hess, C.S.; Shalamova, L.A.; Fricke, M.; Marz, M.; Andreev, D.E.; Shatsky, I.N.; Niepmann, M. Ribosome Pausing at Inefficient Codons at the End of the Replicase Coding Region Is Important for Hepatitis C Virus Genome Replication. Int. J. Mol. Sci. 2020, 21, 6955. https://doi.org/10.3390/ijms21186955
Gerresheim GK, Hess CS, Shalamova LA, Fricke M, Marz M, Andreev DE, Shatsky IN, Niepmann M. Ribosome Pausing at Inefficient Codons at the End of the Replicase Coding Region Is Important for Hepatitis C Virus Genome Replication. International Journal of Molecular Sciences. 2020; 21(18):6955. https://doi.org/10.3390/ijms21186955
Chicago/Turabian StyleGerresheim, Gesche K., Carolin S. Hess, Lyudmila A. Shalamova, Markus Fricke, Manja Marz, Dmitri E. Andreev, Ivan N. Shatsky, and Michael Niepmann. 2020. "Ribosome Pausing at Inefficient Codons at the End of the Replicase Coding Region Is Important for Hepatitis C Virus Genome Replication" International Journal of Molecular Sciences 21, no. 18: 6955. https://doi.org/10.3390/ijms21186955