The mutational landscape of SARS-CoV-2 variants diversifies T cell targets in an HLA-supertype-dependent manner.

Autor:	Hamelin DJ; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Fournelle D; Montreal Heart Institute, Department of Medicine, Université de Montréal, Montréal, QC, Canada., Grenier JC; Montreal Heart Institute, Department of Medicine, Université de Montréal, Montréal, QC, Canada., Schockaert J; ImmunXperts, a Nexelis Group Company, 6041 Gosselies, Belgium., Kovalchik KA; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Kubiniok P; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Mostefai F; Montreal Heart Institute, Department of Medicine, Université de Montréal, Montréal, QC, Canada., Duquette JD; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Saab F; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Sirois I; CHU Sainte-Justine Research Center, Montréal, QC, Canada., Smith MA; CHU Sainte-Justine Research Center, Montréal, QC, Canada; Department of Biochemistry and Molecular Medicine, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada., Pattijn S; ImmunXperts, a Nexelis Group Company, 6041 Gosselies, Belgium., Soudeyns H; CHU Sainte-Justine Research Center, Montréal, QC, Canada; Department of Microbiology, Infectiology and Immunology, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada; Department of Pediatrics, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada., Decaluwe H; CHU Sainte-Justine Research Center, Montréal, QC, Canada; Department of Pediatrics, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada., Hussin J; Montreal Heart Institute, Department of Medicine, Université de Montréal, Montréal, QC, Canada; Department of Biochemistry and Molecular Medicine, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada. Electronic address: julie.hussin@umontreal.ca., Caron E; CHU Sainte-Justine Research Center, Montréal, QC, Canada; Department of Pathology and Cellular Biology, Faculty of Medicine, Université de Montréal, Montréal, QC, Canada. Electronic address: etienne.caron@umontreal.ca.
Jazyk:	angličtina
Zdroj:	Cell systems [Cell Syst] 2022 Feb 16; Vol. 13 (2), pp. 143-157.e3. Date of Electronic Publication: 2021 Oct 06.
DOI:	10.1016/j.cels.2021.09.013
Abstrakt:	The rapid, global dispersion of SARS-CoV-2 has led to the emergence of a diverse range of variants. Here, we describe how the mutational landscape of SARS-CoV-2 has shaped HLA-restricted T cell immunity at the population level during the first year of the pandemic. We analyzed a total of 330,246 high-quality SARS-CoV-2 genome assemblies, sampled across 143 countries and all major continents from December 2019 to December 2020 before mass vaccination or the rise of the Delta variant. We observed that proline residues are preferentially removed from the proteome of prevalent mutants, leading to a predicted global loss of SARS-CoV-2 T cell epitopes in individuals expressing HLA-B alleles of the B7 supertype family; this is largely driven by a dominant C-to-U mutation type at the RNA level. These results indicate that B7-supertype-associated epitopes, including the most immunodominant ones, were more likely to escape CD8 + T cell immunosurveillance during the first year of the pandemic. Competing Interests: Declaration of interests Jana Schockaert and Sofie Pattijn are employees of ImmunXperts, a Nexelis Group Company. (Copyright © 2021 Elsevier Inc. All rights reserved.)
Databáze:	MEDLINE
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