SARS-CoV-2 evolution within hosts and vaccination effects

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SARS-CoV-2 evolution within hosts and vaccination effects Coronavirus Disease COVID Evolution Genomic Sequencing SARSCoV2 ResearchSquare HKUniversity hkust

By Dr. Liji Thomas, MDAug 16 2022Reviewed by Benedette Cuffari, M.Sc. The severe acute respiratory syndrome coronavirus 2 continues to be transmitted throughout the world following its initial identification in Wuhan, China, at the end of December 2019. Despite the development of vaccines against SARS-CoV-2, several new variants with escape mutations have emerged that are capable of resisting neutralization by antibodies elicited by infection with previous variants.

The current study reports the effects of vaccination on viral adaptive mutations. These types of mutations arise as a result of errors in viral genome replication or because of damage to or editing of the viral ribonucleic acid . These mutations may become fixed, either by genetic drift, a stochastic process, or natural selection.

The researchers also explored the Alpha, Delta, Omicron, as well as other SARS-CoV-2 variants that were not designated as variants of concern , as well as BTIs after vaccination with either the Pfizer/BioNTech messenger ribonucleic acid vaccine or CoronaVac vaccines. RNA editing/damage-associated changes were observed and may be the result of an overabundance of reactive oxygen species .

The nucleotide diversity was also higher as compared to unvaccinated non-VOC samples. For unvaccinated non-VOCs, this measure showed excess synonymous polymorphism, which was a sign of purifying selection at the whole-genome level. This was not observed for unvaccinated VOC samples. The higher iSNV incidence in BTI samples following a primary vaccination is observed for the Delta VOC but not Omicron. While this might be due to a longer time lapse between the second dose of the vaccine and sampling date in Omicron patients, it could also be the result of increased neutralizing antibody titers against Delta as compared to Omicron.

 

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