Broad sarbecovirus neutralization by a human monoclonal antibody.

M Alejandra Tortorici1,2 Nadine Czudnochowski3 Tyler N Starr4 Roberta Marzi5 Alexandra C Walls1 Fabrizia Zatta5 John E Bowen1 Stefano Jaconi5 Julia Di Iulio3 Zhaoqian Wang1 Anna De Marco5 Samantha K Zepeda1 Dora Pinto5 Zhuoming Liu6 Martina Beltramello5 Istvan Bartha5 Michael P Housley3 Florian A Lempp3 Laura E Rosen3 Exequiel Dellota3 Hannah Kaiser3 Martin Montiel-Ruiz3 Jiayi Zhou3 Amin Addetia4 Barbara Guarino3 Katja Culap5 Nicole Sprugasci5 Christian Saliba5 Eneida Vetti5 Isabella Giacchetto-Sasselli5 Chiara Silacci Fregni5 Rana Abdelnabi7 Shi-Yan Caroline Foo7 Colin Havenar-Daughton3 Michael A Schmid5 Fabio Benigni5 Elisabetta Cameroni5 Johan Neyts7 Amalio Telenti3 Herbert W Virgin3 Sean P J Whelan6 Gyorgy Snell3 Jesse D Bloom4,8 Davide Corti9 David Veesler10 Matteo Samuele Pizzuto11
Affiliations 11 institutions
  1. Department of Biochemistry, University of Washington, Seattle, WA, USA.
  2. Institut Pasteur and CNRS UMR 3569, Unité de Virologie Structurale, Paris, France.
  3. Vir Biotechnology, San Francisco, CA, USA.
  4. Basic Sciences Division and Computational Biology Program, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  5. Humabs Biomed SA, a subsidiary of Vir Biotechnology, Bellinzona, Switzerland.
  6. Department of Molecular Microbiology, Washington University School of Medicine, St Louis, MO, USA.
  7. Rega Institute for Medical Research, Laboratory of Virology and Chemotherapy, KU Leuven, Leuven, Belgium.
  8. Howard Hughes Medical Institute, Seattle, WA, USA.
  9. Humabs Biomed SA, a subsidiary of Vir Biotechnology, Bellinzona, Switzerland. [email protected].
  10. Department of Biochemistry, University of Washington, Seattle, WA, USA. [email protected].
  11. Humabs Biomed SA, a subsidiary of Vir Biotechnology, Bellinzona, Switzerland. [email protected].

Abstract

The recent emergence of SARS-CoV-2 variants of concern1-10 and the recurrent spillovers of coronaviruses11,12 into the human population highlight the need for broadly neutralizing antibodies that are not affected by the ongoing antigenic drift and that can prevent or treat future zoonotic infections. Here we describe a human monoclonal antibody designated S2X259, which recognizes a highly conserved cryptic epitope of the receptor-binding domain and cross-reacts with spikes from all clades of sarbecovirus. S2X259 broadly neutralizes spike-mediated cell entry of SARS-CoV-2, including variants of concern (B.1.1.7, B.1.351, P.1, and B.1.427/B.1.429), as well as a wide spectrum of human and potentially zoonotic sarbecoviruses through inhibition of angiotensin-converting enzyme 2 (ACE2) binding to the receptor-binding domain. Furthermore, deep-mutational scanning and in vitro escape selection experiments demonstrate that S2X259 possesses an escape profile that is limited to a single substitution, G504D. We show that prophylactic and therapeutic administration of S2X259 protects Syrian hamsters (Mesocricetus auratus) against challenge with the prototypic SARS-CoV-2 and the B.1.351 variant of concern, which suggests that this monoclonal antibody is a promising candidate for the prevention and treatment of emergent variants and zoonotic infections. Our data reveal a key antigenic site that is targeted by broadly neutralizing antibodies and will guide the design of vaccines that are effective against all sarbecoviruses.

Supporting text Virus Host Location
Animals 1949 Antibodies, Monoclonal 26 Antibodies, Viral 212 Broadly Neutralizing Antibodies 2 COVID-19 425 Cross Reactions 21 Disease Models, Animal 77 Female 289 Humans 1441 Immune Evasion 25 Mesocricetus 13 Mutation 209 Neutralization Tests 31 SARS-CoV-2 453 Viral Zoonoses 65

Evidence records

2 total
Functional Mechanism
2 records · 2 evidence types
Evidence type
1 records
OVE4980
Key finding

The monoclonal antibody S2X259 inhibits binding of SARS-CoV-2 and other sarbecoviruses to the ACE2 receptor, demonstrating that viral entry for these viruses relies on ACE2.

Virus
Host
Location
Not specified
Supporting text

S2X259 broadly neutralizes spike-mediated cell entry of SARS-CoV-2, including variants of concern, as well as a wide spectrum of human and potentially zoonotic sarbecoviruses through inhibition of angiotensin-converting enzyme 2 (ACE2) binding to the receptor-binding domain.

Method
neutralization assay | spike-mediated cell entry assay | receptor-binding inhibition
Receptors
angiotensin-converting enzyme 2 | ACE2
Host factors
S2X259 monoclonal antibody
Evidence type
1 records
OVE4981
Key finding

Deep-mutational scanning identified a single SARS-CoV-2 spike receptor-binding domain substitution, G504D, that confers escape from the broadly neutralizing antibody S2X259.

Virus
Host
Not specified
Location
Not specified
Supporting text

Deep-mutational scanning and in vitro escape selection experiments demonstrate that S2X259 possesses an escape profile that is limited to a single substitution, G504D.

Genes or proteins
spike protein | receptor-binding domain
Receptors
ACE2
Mutations
G504D
Mechanism types
immune escape