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SARS-CoV-2 variants do not evolve to promote further escape from MHC-I recognition

View ORCID ProfileMiyu Moriyama, View ORCID ProfileCarolina Lucas, Valter Silva Monteiro, Yale SARS-CoV-2 Genomic Surveillance Initiative, View ORCID ProfileAkiko Iwasaki
doi: https://doi.org/10.1101/2022.05.04.490614
Miyu Moriyama
1Department of Immunobiology, Yale School of Medicine, New Haven, CT 06519, USA.
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Carolina Lucas
1Department of Immunobiology, Yale School of Medicine, New Haven, CT 06519, USA.
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Valter Silva Monteiro
1Department of Immunobiology, Yale School of Medicine, New Haven, CT 06519, USA.
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Akiko Iwasaki
1Department of Immunobiology, Yale School of Medicine, New Haven, CT 06519, USA.
2Department of Molecular Cellular and Developmental Biology, Yale University, New Haven CT 06520, USA.
3Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA.
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  • For correspondence: akiko.iwasaki@yale.edu
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Abstract

SARS-CoV-2 variants of concern (VOCs) possess mutations that confer resistance to neutralizing antibodies within the Spike protein and are associated with breakthrough infection and reinfection. By contrast, less is known about the escape from CD8+ T cell-mediated immunity by VOC. Here, we demonstrated that VOCs retain similar MHC-I downregulation capacity compared to the ancestral virus. However, VOCs exhibit a greater ability to suppress type I IFN than the ancestral virus. Although VOCs possess unique mutations within the ORF8 gene, which suppresses MHC-I expression, none of these mutations enhanced the ability of ORF8 to suppress MHC-I expression. Notably, MHC-I upregulation was strongly inhibited after the ancestral SARS-CoV-2 infection in vivo. Collectively, our data suggest that the ancestral SARS-CoV-2 already possesses an intrinsically potent MHC-I evasion capacity, and that further adaptation by the variants was not observed.

Summary Moriyama et al. demonstrate that SARS-CoV-2 variants of concern retain similar MHC-I downregulation capacity compared to the ancestral virus. The results suggest that MHC-I evasion capacity is optimized in the ancestral virus and thus further adaptation was not observed.

Competing Interest Statement

The authors have declared no competing interest.

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Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted May 16, 2022.
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SARS-CoV-2 variants do not evolve to promote further escape from MHC-I recognition
Miyu Moriyama, Carolina Lucas, Valter Silva Monteiro, Yale SARS-CoV-2 Genomic Surveillance Initiative, Akiko Iwasaki
bioRxiv 2022.05.04.490614; doi: https://doi.org/10.1101/2022.05.04.490614
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SARS-CoV-2 variants do not evolve to promote further escape from MHC-I recognition
Miyu Moriyama, Carolina Lucas, Valter Silva Monteiro, Yale SARS-CoV-2 Genomic Surveillance Initiative, Akiko Iwasaki
bioRxiv 2022.05.04.490614; doi: https://doi.org/10.1101/2022.05.04.490614

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