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CD8+ T cell cross-reactivity against SARS-CoV-2 conferred by other coronavirus strains and influenza virus

Chloe H. Lee, Mariana Pereira Pinho, Paul Buckley, Isaac Woodhouse, Graham Ogg, Alison Simmons, Giorgio Napolitani, Hashem Koohy
doi: https://doi.org/10.1101/2020.05.20.107292
Chloe H. Lee
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
2MRC WIMM Centre For Computational Biology, MRC Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, University of Oxford, Oxford, UK
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Mariana Pereira Pinho
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
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Paul Buckley
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
2MRC WIMM Centre For Computational Biology, MRC Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, University of Oxford, Oxford, UK
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Isaac Woodhouse
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
2MRC WIMM Centre For Computational Biology, MRC Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, University of Oxford, Oxford, UK
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Graham Ogg
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
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Alison Simmons
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
3Translational Gastroenterology Unit, John Radcliffe Hospital, Oxford, UK
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Giorgio Napolitani
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
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  • For correspondence: hashem.koohy@rdm.ox.ac.uk
Hashem Koohy
1MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine (WIMM), John Radcliffe Hospital, University of Oxford, Oxford, UK
2MRC WIMM Centre For Computational Biology, MRC Weatherall Institute of Molecular Medicine, John Radcliffe Hospital, University of Oxford, Oxford, UK
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  • For correspondence: hashem.koohy@rdm.ox.ac.uk
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Abstract

While individuals infected with coronavirus disease 2019 (COVID-19) manifested a broad range in susceptibility and severity to the disease, the pre-existing immune memory of related pathogens can influence the disease outcome. Here, we investigated the potential extent of T cell cross-reactivity against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) that can be conferred by other coronaviruses and influenza virus, and generated a map of public and private predicted CD8+ T cell epitopes between coronaviruses. Moreover, to assess the potential risk of self-reactivity and/or diminished T cell response for peptides identical or highly similar to the host, we identified predicted epitopes with high sequence similarity with human proteome. Lastly, we compared predicted epitopes from coronaviruses with epitopes from influenza virus deposited in IEDB to support vaccine development against different virus strains. We believe the comprehensive in silico profile of private and public predicted epitopes across coronaviruses and influenza viruses will facilitate design of vaccines capable of protecting against various viral infections.

Competing Interest Statement

G.O. has served on advisory boards or holds consultancies or equity with Eli Lilly, Novartis, Janssen, Sanofi, Orbit Discovery and UCB Pharma, and has undertaken clinical trials with Atopix, Regeneron/Sanofi, Roche.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted May 20, 2020.
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CD8+ T cell cross-reactivity against SARS-CoV-2 conferred by other coronavirus strains and influenza virus
Chloe H. Lee, Mariana Pereira Pinho, Paul Buckley, Isaac Woodhouse, Graham Ogg, Alison Simmons, Giorgio Napolitani, Hashem Koohy
bioRxiv 2020.05.20.107292; doi: https://doi.org/10.1101/2020.05.20.107292
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CD8+ T cell cross-reactivity against SARS-CoV-2 conferred by other coronavirus strains and influenza virus
Chloe H. Lee, Mariana Pereira Pinho, Paul Buckley, Isaac Woodhouse, Graham Ogg, Alison Simmons, Giorgio Napolitani, Hashem Koohy
bioRxiv 2020.05.20.107292; doi: https://doi.org/10.1101/2020.05.20.107292

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