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Structurally and functionally distinct early antibody responses predict COVID-19 disease trajectory and mRNA vaccine response

View ORCID ProfileSaborni Chakraborty, View ORCID ProfileJoseph C. Gonzalez, View ORCID ProfileBenjamin L. Sievers, View ORCID ProfileVamsee Mallajosyula, Srijoni Chakraborty, Megha Dubey, Usama Ashraf, View ORCID ProfileBowie Yik-Ling Cheng, Nimish Kathale, Kim Quyen Thi Tran, Courtney Scallan, Aanika Sinnott, Arianna Cassidy, Steven T. Chen, Terri Gelbart, Fei Gao, Yarden Golan, Xuhuai Ji, Seunghee Kim-Schulze, Mary Prahl, Stephanie L. Gaw, View ORCID ProfileSacha Gnjatic, Thomas U. Marron, Miriam Merad, Prabhu S. Arunachalam, Scott D. Boyd, Mark M. Davis, Marisa Holubar, Chaitan Khosla, Holden T. Maecker, Yvonne Maldonado, Elizabeth D. Mellins, View ORCID ProfileKari C. Nadeau, Bali Pulendran, Upinder Singh, Aruna Subramanian, Paul J. Utz, Robert Sherwood, Sheng Zhang, View ORCID ProfilePrasanna Jagannathan, Gene S. Tan, View ORCID ProfileTaia T. Wang
doi: https://doi.org/10.1101/2021.05.25.445649
Saborni Chakraborty
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Joseph C. Gonzalez
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
2Program in Immunology, Stanford University School of Medicine, Stanford, CA, USA
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Benjamin L. Sievers
3J. Craig Venter Institute, La Jolla, CA, USA
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Vamsee Mallajosyula
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Srijoni Chakraborty
5Department of Computer and Software Engineering, San Jose State University, San Jose, CA, USA
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Megha Dubey
6Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
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Usama Ashraf
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Bowie Yik-Ling Cheng
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Nimish Kathale
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Kim Quyen Thi Tran
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Courtney Scallan
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Aanika Sinnott
3J. Craig Venter Institute, La Jolla, CA, USA
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Arianna Cassidy
7Division of Maternal-Fetal Medicine, Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California San Francisco, San Francisco, CA, USA
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Steven T. Chen
8The Precision Immunology Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
9The Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
10Department of Oncological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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Terri Gelbart
3J. Craig Venter Institute, La Jolla, CA, USA
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Fei Gao
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Yarden Golan
11Department of Bioengineering and Therapeutic Sciences, and Institute for Human Genetics, University of California San Francisco, San Francisco, CA, USA
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Xuhuai Ji
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Seunghee Kim-Schulze
8The Precision Immunology Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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Mary Prahl
12Division of Pediatric Infectious Diseases, Department of Pediatrics, University of California, San Francisco, CA, USA
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Stephanie L. Gaw
7Division of Maternal-Fetal Medicine, Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California San Francisco, San Francisco, CA, USA
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Sacha Gnjatic
9The Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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Thomas U. Marron
8The Precision Immunology Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
9The Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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Miriam Merad
8The Precision Immunology Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
9The Tisch Cancer Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA
10Department of Oncological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA
13Human Immune Monitoring Center, Precision Immunology Institute, Department of Oncological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA
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Prabhu S. Arunachalam
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Scott D. Boyd
14Departments of Pathology and of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
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Mark M. Davis
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
6Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
15Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
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Marisa Holubar
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Chaitan Khosla
16Departments of Chemistry and Chemical Engineering, Stanford University, Stanford, CA, USA
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Holden T. Maecker
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Yvonne Maldonado
17Department of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA
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Elizabeth D. Mellins
17Department of Pediatrics, Stanford University School of Medicine, Stanford, CA, USA
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Kari C. Nadeau
18Sean N. Parker Center for Allergy and Asthma Research, Stanford, CA, USA
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Bali Pulendran
4Institute for Immunity, Transplantation, and Infection, Stanford University School of Medicine, Stanford, CA, USA
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Upinder Singh
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
6Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
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Aruna Subramanian
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
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Paul J. Utz
19Department of Medicine, Division of Immunology and Rheumatology, Stanford University School of Medicine, Stanford, CA, USA
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Robert Sherwood
20Proteomics and Metabolomics Facility, Institute of Biotechnology, Cornell University, Ithaca, NY, USA
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Sheng Zhang
20Proteomics and Metabolomics Facility, Institute of Biotechnology, Cornell University, Ithaca, NY, USA
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Prasanna Jagannathan
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
6Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
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Gene S. Tan
3J. Craig Venter Institute, La Jolla, CA, USA
21Division of Infectious Diseases, Department of Medicine, University of California San Diego, La Jolla, CA, USA
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Taia T. Wang
1Department of Medicine, Division of Infectious Diseases, Stanford University, Stanford, CA, USA
6Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA
22Chan Zuckerberg Biohub, San Francisco, CA, USA
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  • For correspondence: taiawang@stanford.edu
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Abstract

A damaging inflammatory response is strongly implicated in the pathogenesis of severe COVID-19 but mechanisms contributing to this response are unclear. In two prospective cohorts, early non-neutralizing, afucosylated, anti-SARS-CoV-2 IgG predicted progression from mild, to more severe COVID-19. In contrast to the antibody structures that predicted disease progression, antibodies that were elicited by mRNA SARS-CoV-2 vaccines were low in Fc afucosylation and enriched in sialylation, both modifications that reduce the inflammatory potential of IgG. To study the biology afucosylated IgG immune complexes, we developed an in vivo model which revealed that human IgG-FcγR interactions can regulate inflammation in the lung. Afucosylated IgG immune complexes induced inflammatory cytokine production and robust infiltration of the lung by immune cells. By contrast, vaccine elicited IgG did not promote an inflammatory lung response. Here, we show that IgG-FcγR interactions can regulate inflammation in the lung and define distinct lung activities associated with the IgG that predict severe COVID-19 and protection against SARS-CoV-2.

One Sentence Summary Divergent early antibody responses predict COVID-19 disease trajectory and mRNA vaccine response and are functionally distinct in vivo.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Addition of new data

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 December 27, 2021.
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Structurally and functionally distinct early antibody responses predict COVID-19 disease trajectory and mRNA vaccine response
Saborni Chakraborty, Joseph C. Gonzalez, Benjamin L. Sievers, Vamsee Mallajosyula, Srijoni Chakraborty, Megha Dubey, Usama Ashraf, Bowie Yik-Ling Cheng, Nimish Kathale, Kim Quyen Thi Tran, Courtney Scallan, Aanika Sinnott, Arianna Cassidy, Steven T. Chen, Terri Gelbart, Fei Gao, Yarden Golan, Xuhuai Ji, Seunghee Kim-Schulze, Mary Prahl, Stephanie L. Gaw, Sacha Gnjatic, Thomas U. Marron, Miriam Merad, Prabhu S. Arunachalam, Scott D. Boyd, Mark M. Davis, Marisa Holubar, Chaitan Khosla, Holden T. Maecker, Yvonne Maldonado, Elizabeth D. Mellins, Kari C. Nadeau, Bali Pulendran, Upinder Singh, Aruna Subramanian, Paul J. Utz, Robert Sherwood, Sheng Zhang, Prasanna Jagannathan, Gene S. Tan, Taia T. Wang
bioRxiv 2021.05.25.445649; doi: https://doi.org/10.1101/2021.05.25.445649
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Structurally and functionally distinct early antibody responses predict COVID-19 disease trajectory and mRNA vaccine response
Saborni Chakraborty, Joseph C. Gonzalez, Benjamin L. Sievers, Vamsee Mallajosyula, Srijoni Chakraborty, Megha Dubey, Usama Ashraf, Bowie Yik-Ling Cheng, Nimish Kathale, Kim Quyen Thi Tran, Courtney Scallan, Aanika Sinnott, Arianna Cassidy, Steven T. Chen, Terri Gelbart, Fei Gao, Yarden Golan, Xuhuai Ji, Seunghee Kim-Schulze, Mary Prahl, Stephanie L. Gaw, Sacha Gnjatic, Thomas U. Marron, Miriam Merad, Prabhu S. Arunachalam, Scott D. Boyd, Mark M. Davis, Marisa Holubar, Chaitan Khosla, Holden T. Maecker, Yvonne Maldonado, Elizabeth D. Mellins, Kari C. Nadeau, Bali Pulendran, Upinder Singh, Aruna Subramanian, Paul J. Utz, Robert Sherwood, Sheng Zhang, Prasanna Jagannathan, Gene S. Tan, Taia T. Wang
bioRxiv 2021.05.25.445649; doi: https://doi.org/10.1101/2021.05.25.445649

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