We present a large-scale analysis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) substitutions, considering 1,585,456 high-quality raw sequencing samples, aimed at investigating the existence and quantifying the effect of mutational processes causing mutations in SARS-CoV-2 genomes when interacting with the human host. As a result, we confirmed the presence of three well-differentiated mutational processes likely ruled by reactive oxygen species (ROS), apolipoprotein B editing complex (APOBEC), and adenosine deaminase acting on RNA (ADAR). We then evaluated the activity of these mutational processes in different continental groups, showing that some samples from Africa present a significantly higher number of substitutions, most likely due to higher APOBEC activity. We finally analyzed the activity of mutational processes across different SARS-CoV-2 variants, and we found a significantly lower number of mutations attributable to APOBEC activity in samples assigned to the Omicron variant.

Aroldi, A., Angaroni, F., D’Aliberti, D., Spinelli, S., Crespiatico, I., Crippa, V., et al. (2023). Characterization of SARS-CoV-2 Mutational Signatures from 1.5+ Million Raw Sequencing Samples. VIRUSES, 15(1) [10.3390/v15010007].

Characterization of SARS-CoV-2 Mutational Signatures from 1.5+ Million Raw Sequencing Samples

Aroldi, Andrea;Angaroni, Fabrizio;D’Aliberti, Deborah;Spinelli, Silvia;Crespiatico, Ilaria;Crippa, Valentina;Piazza, Rocco;Graudenzi, Alex
;
Ramazzotti, Daniele
2023

Abstract

We present a large-scale analysis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) substitutions, considering 1,585,456 high-quality raw sequencing samples, aimed at investigating the existence and quantifying the effect of mutational processes causing mutations in SARS-CoV-2 genomes when interacting with the human host. As a result, we confirmed the presence of three well-differentiated mutational processes likely ruled by reactive oxygen species (ROS), apolipoprotein B editing complex (APOBEC), and adenosine deaminase acting on RNA (ADAR). We then evaluated the activity of these mutational processes in different continental groups, showing that some samples from Africa present a significantly higher number of substitutions, most likely due to higher APOBEC activity. We finally analyzed the activity of mutational processes across different SARS-CoV-2 variants, and we found a significantly lower number of mutations attributable to APOBEC activity in samples assigned to the Omicron variant.
Articolo in rivista - Articolo scientifico
SARS-CoV-2; mutational signatures; APOBEC; variants
English
Aroldi, A., Angaroni, F., D’Aliberti, D., Spinelli, S., Crespiatico, I., Crippa, V., et al. (2023). Characterization of SARS-CoV-2 Mutational Signatures from 1.5+ Million Raw Sequencing Samples. VIRUSES, 15(1) [10.3390/v15010007].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10281/399952
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