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Modulation of type I interferon responses potently inhibits SARS-CoV-2 replication and inflammation in rhesus macaques

Timothy N. Hoang, Elise G. Viox, Amit A. Upadhyay, Zachary Strongin, Gregory K. Tharp, Maria Pino, Rayhane Nchioua, Maximilian Hirschenberger, Matthew Gagne, Kevin Nguyen, Justin L. Harper, Shir Marciano, Arun K. Boddapati, Kathryn L. Pellegrini, Jennifer Tisoncik-Go, Leanne S. Whitmore, Kirti A. Karunakaran, Melissa Roy, Shannon Kirejczyk, Elizabeth H. Curran, Chelsea Wallace, Jennifer S. Wood, Fawn Connor-Stroud, Sudhir P. Kasturi, Rebecca D. Levit, Michael Gale Jr., Thomas H. Vanderford, Guido Silvestri, Kathleen Busman-Sahay, Jacob D. Estes, Monica Vaccari, Daniel C. Douek, Konstantin M.J. Sparrer, View ORCID ProfileFrank Kirchhoff, R. Paul Johnson, Gideon Schreiber, Steven E. Bosinger, Mirko Paiardini
doi: https://doi.org/10.1101/2022.10.21.512606
Timothy N. Hoang
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Elise G. Viox
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Amit A. Upadhyay
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Zachary Strongin
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Gregory K. Tharp
2Emory NPRC Genomics Core Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Maria Pino
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Rayhane Nchioua
3Institute of Molecular Virology, Ulm University Medical Center, 89081 Ulm, Germany
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Maximilian Hirschenberger
3Institute of Molecular Virology, Ulm University Medical Center, 89081 Ulm, Germany
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Matthew Gagne
4Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892, USA
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Kevin Nguyen
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Justin L. Harper
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Shir Marciano
5Department of Biomolecular Sciences, Weizmann Institute of Science, Rehovot, 76100 Israel
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Arun K. Boddapati
2Emory NPRC Genomics Core Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Kathryn L. Pellegrini
2Emory NPRC Genomics Core Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Jennifer Tisoncik-Go
6Department of Immunology, University of Washington School of Medicine, and the Washington National Primate Research Center, Seattle, WA, 98109, USA
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Leanne S. Whitmore
6Department of Immunology, University of Washington School of Medicine, and the Washington National Primate Research Center, Seattle, WA, 98109, USA
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Kirti A. Karunakaran
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Melissa Roy
7Division of Pathology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Shannon Kirejczyk
7Division of Pathology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Elizabeth H. Curran
7Division of Pathology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Chelsea Wallace
8Division of Animal Resources, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Jennifer S. Wood
8Division of Animal Resources, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Fawn Connor-Stroud
8Division of Animal Resources, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Sudhir P. Kasturi
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
9Department of Pathology and Laboratory Medicine, School of Medicine, Emory University, Atlanta, GA 30322, USA
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Rebecca D. Levit
10Department of Medicine, School of Medicine, Emory University, Atlanta, GA 30322, USA
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Michael Gale Jr.
6Department of Immunology, University of Washington School of Medicine, and the Washington National Primate Research Center, Seattle, WA, 98109, USA
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Thomas H. Vanderford
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Guido Silvestri
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
7Division of Pathology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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Kathleen Busman-Sahay
11Vaccine and Gene Therapy Institute, Oregon Health & Science University, Beaverton, OR 97006, USA
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Jacob D. Estes
11Vaccine and Gene Therapy Institute, Oregon Health & Science University, Beaverton, OR 97006, USA
12Oregon National Primate Research Center, Oregon Health & Science University, Beaverton, OR 97006, USA
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Monica Vaccari
13Division of Immunology, Tulane National Primate Research Center, Covington, LA 70433, USA
14Department of Microbiology and Immunology, Tulane School of Medicine, New Orleans, LA 70112, USA
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Daniel C. Douek
4Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD 20892, USA
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Konstantin M.J. Sparrer
3Institute of Molecular Virology, Ulm University Medical Center, 89081 Ulm, Germany
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Frank Kirchhoff
3Institute of Molecular Virology, Ulm University Medical Center, 89081 Ulm, Germany
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  • ORCID record for Frank Kirchhoff
R. Paul Johnson
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
15Infectious Disease Division, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA
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Gideon Schreiber
5Department of Biomolecular Sciences, Weizmann Institute of Science, Rehovot, 76100 Israel
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Steven E. Bosinger
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
2Emory NPRC Genomics Core Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
9Department of Pathology and Laboratory Medicine, School of Medicine, Emory University, Atlanta, GA 30322, USA
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  • For correspondence: mirko.paiardini@emory.edu steven.bosinger@emory.edu
Mirko Paiardini
1Division of Microbiology and Immunology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
7Division of Pathology, Emory National Primate Research Center, Emory University, Atlanta, GA 30329, USA
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  • For correspondence: mirko.paiardini@emory.edu steven.bosinger@emory.edu
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Abstract

Type-I interferons (IFN-I) are critical mediators of innate control of viral infections, but also drive recruitment of inflammatory cells to sites of infection, a key feature of severe COVID-19. Here, and for the first time, IFN-I signaling was modulated in rhesus macaques (RMs) prior to and during acute SARS-CoV-2 infection using a mutated IFNα2 (IFN-modulator; IFNmod), which has previously been shown to reduce the binding and signaling of endogenous IFN-I. In SARS-CoV-2-infected RMs, IFNmod reduced both antiviral and inflammatory ISGs. Notably, IFNmod treatment resulted in a potent reduction in (i) SARS-CoV-2 viral load in Bronchoalveolar lavage (BAL), upper airways, lung, and hilar lymph nodes; (ii) inflammatory cytokines, chemokines, and CD163+MRC1-inflammatory macrophages in BAL; and (iii) expression of Siglec-1, which enhances SARS-CoV-2 infection and predicts disease severity, on circulating monocytes. In the lung, IFNmod also reduced pathogenesis and attenuated pathways of inflammasome activation and stress response during acute SARS-CoV-2 infection. This study, using an intervention targeting both IFN-α and IFN-β pathways, shows that excessive inflammation driven by type 1 IFN critically contributes to SARS-CoV-2 pathogenesis in RMs, and demonstrates the potential of IFNmod to limit viral replication, SARS-CoV-2 induced inflammation, and COVID-19 severity.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵† Deceased

  • https://github.com/BosingerLab/NHP_COVID_IFNmod

  • https://github.com/galelab/Paiardini_Modulation_type_I_Interferon

Copyright 
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 October 24, 2022.
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Modulation of type I interferon responses potently inhibits SARS-CoV-2 replication and inflammation in rhesus macaques
Timothy N. Hoang, Elise G. Viox, Amit A. Upadhyay, Zachary Strongin, Gregory K. Tharp, Maria Pino, Rayhane Nchioua, Maximilian Hirschenberger, Matthew Gagne, Kevin Nguyen, Justin L. Harper, Shir Marciano, Arun K. Boddapati, Kathryn L. Pellegrini, Jennifer Tisoncik-Go, Leanne S. Whitmore, Kirti A. Karunakaran, Melissa Roy, Shannon Kirejczyk, Elizabeth H. Curran, Chelsea Wallace, Jennifer S. Wood, Fawn Connor-Stroud, Sudhir P. Kasturi, Rebecca D. Levit, Michael Gale Jr., Thomas H. Vanderford, Guido Silvestri, Kathleen Busman-Sahay, Jacob D. Estes, Monica Vaccari, Daniel C. Douek, Konstantin M.J. Sparrer, Frank Kirchhoff, R. Paul Johnson, Gideon Schreiber, Steven E. Bosinger, Mirko Paiardini
bioRxiv 2022.10.21.512606; doi: https://doi.org/10.1101/2022.10.21.512606
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Modulation of type I interferon responses potently inhibits SARS-CoV-2 replication and inflammation in rhesus macaques
Timothy N. Hoang, Elise G. Viox, Amit A. Upadhyay, Zachary Strongin, Gregory K. Tharp, Maria Pino, Rayhane Nchioua, Maximilian Hirschenberger, Matthew Gagne, Kevin Nguyen, Justin L. Harper, Shir Marciano, Arun K. Boddapati, Kathryn L. Pellegrini, Jennifer Tisoncik-Go, Leanne S. Whitmore, Kirti A. Karunakaran, Melissa Roy, Shannon Kirejczyk, Elizabeth H. Curran, Chelsea Wallace, Jennifer S. Wood, Fawn Connor-Stroud, Sudhir P. Kasturi, Rebecca D. Levit, Michael Gale Jr., Thomas H. Vanderford, Guido Silvestri, Kathleen Busman-Sahay, Jacob D. Estes, Monica Vaccari, Daniel C. Douek, Konstantin M.J. Sparrer, Frank Kirchhoff, R. Paul Johnson, Gideon Schreiber, Steven E. Bosinger, Mirko Paiardini
bioRxiv 2022.10.21.512606; doi: https://doi.org/10.1101/2022.10.21.512606

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