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Evidence for host-dependent RNA editing in the transcriptome of SARS-CoV-2
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Abstract
Host deaminases shape the viral RNA genome and its evolution by targeting its RNA.
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Database analysis of SARS-CoV-2 genomic variations showed an overwhelmingly high C-to-U mutation rate, accounting for about 40% of all single nucleotide variations, which was interpreted as a result of RNA editing by host APOBECs rather than random mutations.
“Interestingly, the database analysis of SARS-CoV-2 genomic variations showed an overwhelmingly high C-to-U mutation rate, account for about 40% of all single nucleotide variations, which was interpreted as a result of RNA editing by host APOBECs rather than random mutations11,12,14,27.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [11]
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Experimental — accuracy not yet measuredRecent analysis of SARS-CoV-2 and rubella vaccine virus genome data derived from patients show predominant mutational patterns with specific signatures rather than random genetic variations, suggesting that host-factor induced mutations play an important role in shaping the viral genomic RNA mutational outcome and evolution.
“Recent analysis of SARS-CoV-2 and rubella vaccine virus genome data derived from patients show predominant mutational patterns with specific signatures rather than random genetic variations, suggesting that the host-factor induced mutations play an important role in shaping the viral genomic RNA mutational outcome and evolution11–14.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [11]
Analysis of SARS-CoV-2 variants from the database showed higher AC motif mutations (38.3%) than UC motif mutations (31.2%).
“Interestingly, analysis of SARS-CoV-2 variants from the database also showed higher AC motif mutations (38.3%) than UC motif mutations (31.2%) (Supplementary Fig. S4), as also reported in the previous bioinformatic database analysis3,11,27.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [11]
Prior bioinformatic analyses suggested that some C-to-U mutations in SARS-CoV-2 sequences may be caused by APOBEC proteins rather than random mutations by viral RNA polymerase or ROS.
“Prior bioinformatic analysis of the SARS-CoV-2 sequences suggested that some of the C-to-U mutations may be caused by APOBEC proteins instead of the random mutations caused by viral RNA polymerase during replication or ROS11,12,14,27,51,52.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [11]
A high mutation rate of C in AC motif was noted in SARS-CoV-2 and Rubella Virus by prior bioinformatic analysis.
“A high mutation rate of C in AC motif was also noted in SARS-CoV-2 and Rubella Virus by prior bioinformatic analysis3,11,27.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [11]
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The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness
Kim, K., Calabrese, P., Wang, S., Qin, C., Rao, Y., Feng, P., & Chen, X. S. (2022) · Scientific Reports · doi:10.1038/s41598-022-19067-x · Cited by 115
Metadata
- Authors
- Di Giorgio, S., Martignano, F., Torcia, M. G., Mattiuz, G., & Conticello, S. G.
- Affiliations
- Core Research Laboratory, ISPRO, Firenze 50139, Italy.
- Department of Experimental and Clinical Medicine, University of Florence, Firenze 50139, Italy.
- ORCID
- Venue
- Science Advances
- Published
- 2020-06-17
- Volume
- 6
- Issue
- 25
- ISSN
- 2375-2548
- PMC
- PMC7299625
- Cited by
- 355
- References
- 5
- Language
- en
- Funders
- Ministero della Salute (PE-2013-02357669)
- Associazione Italiana per la Ricerca sul Cancro (IG-17701)
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