Cited by 1,230SARS-CoV-2 and COVID-19 ResearchAnimal Virus Infections StudiesMonoclonal and Polyclonal Antibodies Research

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Isolation of potent SARS-CoV-2 neutralizing antibodies and protection from disease in a small animal model

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Abstract

Protective neutralizing antibodies: Antibodies produced by survivors of coronavirus disease 2019 (COVID-19) may be leveraged to develop therapies. A first step is identifying neutralizing antibodies, which confer strong protection against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Rogers et al. used a high-throughput pipeline to isolate and characterize monoclonal antibodies from convalescent donors. Antibodies were selected for binding to the viral spike protein, which facilitates entry into host cells by binding to the angiotensin-converting enzyme 2 (ACE2) receptor. Most isolated antibodies bound to regions of the spike outside of the receptor binding domain (RBD); however, a larger proportion of the RBD-binding antibodies were neutralizing, with the most potent binding at a site that overlaps the ACE2 binding site. Two of the neutralizing antibodies were tested in Syrian hamsters and provided protection against SARS-CoV-2 infection. Science , this issue p. 956

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Fig. 1 SARS-CoV-2 neutralizing antibody isolation strategy. A natural infection cohort was established to collect plasma and PBMC samples from individuals who recovered from COVID-19. In parallel, functional assays were developed to rapidly screen plasma samples for SARS-CoV-2 neutralizing activity. SARS-CoV-2 recombinant surface proteins were also produced for use as baits in single-memory B cell sorting and downstream functional characterization of isolated mAbs. Finally, a Syrian hamster animal model was set up to evaluate mAb passive immunization and protection. The standard mAb isolation pipeline was optimized to facilitate high-throughput amplification, cloning, expression, and functional screening of hundreds of unpurified Ab heavy and light chain pairs isolated from each of several selected neutralizers in only 10 days. Selected pairs were scaled up to purify IgG for validation and characterization experiments. Potent neutralizing mAbs were selected to evaluate protection in the Syrian hamster model. HC, heavy chain; κC, kappa light chain; ΛC, lambda light chain; RT, reverse transcriptase.
Fig. 1 SARS-CoV-2 neutralizing antibody isolation strategy. A natural infection cohort was established to collect plasma and PBMC samples from individuals who recovered from COVID-19. In parallel, functional assays were developed to rapidly screen plasma samples for SARS-CoV-2 neutralizing activity. SARS-CoV-2 recombinant surface proteins were also produced for use as baits in single-memory B cell sorting and downstream functional characterization of isolated mAbs. Finally, a Syrian hamster animal model was set up to evaluate mAb passive immunization and protection. The standard mAb isolation pipeline was optimized to facilitate high-throughput amplification, cloning, expression, and functional screening of hundreds of unpurified Ab heavy and light chain pairs isolated from each of several selected neutralizers in only 10 days. Selected pairs were scaled up to purify IgG for validation and characterization experiments. Potent neutralizing mAbs were selected to evaluate protection in the Syrian hamster model. HC, heavy chain; κC, kappa light chain; ΛC, lambda light chain; RT, reverse transcriptase.CC BY · PubMed Central
Fig. 2 COVID-19 cohort functional screening. (A) Demographics of the University of California, San Diego (UCSD) COVID-19 cohort (CC) participants. CC plasma was tested for binding to SARS-CoV-1 and SARS-CoV-2 S proteins (B) and RBD subunits (C) by ELISA. Background binding of plasma to bovine serum albumin–coated plates is represented by a dotted line. OD405nm, optical density for wavelength of 405 nm. (D) Plasma was also tested for neutralization of pseudotyped (PSV) SARS-CoV-1 and SARS-CoV-2 virions. (E) Correlation between PSV SARS-CoV-2 neutralization and RBD subunit ELISA binding AUC (area under the curve). AUC was computed using Simpson’s rule. The 95% confidence interval of the regression line is shown by the gray shaded area and was estimated by performing 1000 bootstrap resamplings. R2 (coefficient of determination) and P values of the regression are also indicated. CC participants from whom mAbs were isolated are specifically highlighted in blue (CC6), green (CC12), and pink (CC25).
Fig. 2 COVID-19 cohort functional screening. (A) Demographics of the University of California, San Diego (UCSD) COVID-19 cohort (CC) participants. CC plasma was tested for binding to SARS-CoV-1 and SARS-CoV-2 S proteins (B) and RBD subunits (C) by ELISA. Background binding of plasma to bovine serum albumin–coated plates is represented by a dotted line. OD405nm, optical density for wavelength of 405 nm. (D) Plasma was also tested for neutralization of pseudotyped (PSV) SARS-CoV-1 and SARS-CoV-2 virions. (E) Correlation between PSV SARS-CoV-2 neutralization and RBD subunit ELISA binding AUC (area under the curve). AUC was computed using Simpson’s rule. The 95% confidence interval of the regression line is shown by the gray shaded area and was estimated by performing 1000 bootstrap resamplings. R2 (coefficient of determination) and P values of the regression are also indicated. CC participants from whom mAbs were isolated are specifically highlighted in blue (CC6), green (CC12), and pink (CC25).CC BY · PubMed Central
Fig. 3 Antibody isolation and functional screening for SARS-CoV antigen binding and neutralization. (A) Antibody down-selection process from three donors, presented as bubble plots. The areas of the bubbles for each donor are sized according to the number of antibodies (n) that were cloned and transfected, then scaled according to the number that were positive in subsequent assays. All antibodies that expressed at measurable levels were tested for binding to S protein and RBD to determine their specificity and then screened for neutralization. (B) VH gene distribution of down-selected mAbs. (C) Heavy chain CDR3 lengths of down-selected mAbs. Antibodies in (B) and (C) are colored according to their respective clonal lineages. (D) Mutation frequency of down-selected mAb lineages. Bubble position represents the mean mutation frequency for each lineage, with a bubble area that is proportional to lineage size. LC, light chain; nt, nucleotides.
Fig. 3 Antibody isolation and functional screening for SARS-CoV antigen binding and neutralization. (A) Antibody down-selection process from three donors, presented as bubble plots. The areas of the bubbles for each donor are sized according to the number of antibodies (n) that were cloned and transfected, then scaled according to the number that were positive in subsequent assays. All antibodies that expressed at measurable levels were tested for binding to S protein and RBD to determine their specificity and then screened for neutralization. (B) VH gene distribution of down-selected mAbs. (C) Heavy chain CDR3 lengths of down-selected mAbs. Antibodies in (B) and (C) are colored according to their respective clonal lineages. (D) Mutation frequency of down-selected mAb lineages. Bubble position represents the mean mutation frequency for each lineage, with a bubble area that is proportional to lineage size. LC, light chain; nt, nucleotides.CC BY · PubMed Central
Fig. 4 Antibody functional activity by epitope specificities. Monoclonal antibody epitope binning was completed using RBD and SARS-CoV-2 S protein as target antigens. (A) A total of three noncompeting epitopes for RBD (RBD-A, RBD-B, and RBD-C) and three noncompeting epitopes for S (S-A, S-B, and S-C) were identified. (B) MAbs were evaluated for binding to different target antigens (S, NTD, RBD, RBD-SD1, and RBD-SD1-2) by ELISA and apparent EC50 values are reported in micrograms per milliliter. (C) MAbs were evaluated for neutralization of SARS-CoV-2 pseudovirus using HeLa-ACE2 target cells. Antibodies are grouped according to epitope specificities, and neutralization IC50 values are reported in micrograms per milliliter. (D) The MNP is reported for each mAb and grouped by epitope specificity. MAbs were mixed with (E) S or (F) RBD protein and measured for binding to HeLa-ACE2 target cells as a measure of competition to the cell surface ACE-2 receptor. (G) mAb neutralization potencies (IC50) are plotted as a function of dissociation constants (KD) measured by SPR to RBD target antigen.
Fig. 4 Antibody functional activity by epitope specificities. Monoclonal antibody epitope binning was completed using RBD and SARS-CoV-2 S protein as target antigens. (A) A total of three noncompeting epitopes for RBD (RBD-A, RBD-B, and RBD-C) and three noncompeting epitopes for S (S-A, S-B, and S-C) were identified. (B) MAbs were evaluated for binding to different target antigens (S, NTD, RBD, RBD-SD1, and RBD-SD1-2) by ELISA and apparent EC50 values are reported in micrograms per milliliter. (C) MAbs were evaluated for neutralization of SARS-CoV-2 pseudovirus using HeLa-ACE2 target cells. Antibodies are grouped according to epitope specificities, and neutralization IC50 values are reported in micrograms per milliliter. (D) The MNP is reported for each mAb and grouped by epitope specificity. MAbs were mixed with (E) S or (F) RBD protein and measured for binding to HeLa-ACE2 target cells as a measure of competition to the cell surface ACE-2 receptor. (G) mAb neutralization potencies (IC50) are plotted as a function of dissociation constants (KD) measured by SPR to RBD target antigen.CC BY · PubMed Central
Fig. 5 A potent SARS-CoV-2 RBD-specific neutralizing mAb protects against weight loss and lung viral replication in Syrian hamsters. (A) SARS-CoV-2–specific human neutralizing mAb CC12.1 isolated from natural infection was administered at a starting dose of 2 mg per animal (average: 16.5 mg/kg) and subsequent serial fourfold dilutions. Control animals received 2 mg of Den3. Each group of six animals was challenged intranasally (i.n.) 12 hours after infusion with 1 × 106 PFU of SARS-CoV-2. Serum was collected at the time of challenge (day 0), and animal weight was monitored as an indicator of disease progression. On day 5, lung tissue was collected for viral burden assessment. (B) Percent weight change was calculated from day 0 for all animals. (C) Viral load, as assessed by nucleocapsid RNA quantitative polymerase chain reaction (qPCR) from lung tissue at day 5 after infection. (D) Serum titers of the passively administered mAb, as assessed by ELISA at the time of challenge [12 hours after intraperitoneal (i.p.) administration]. Correlation analyses with 95% confidence intervals indicated by the gray shaded area.
Fig. 5 A potent SARS-CoV-2 RBD-specific neutralizing mAb protects against weight loss and lung viral replication in Syrian hamsters. (A) SARS-CoV-2–specific human neutralizing mAb CC12.1 isolated from natural infection was administered at a starting dose of 2 mg per animal (average: 16.5 mg/kg) and subsequent serial fourfold dilutions. Control animals received 2 mg of Den3. Each group of six animals was challenged intranasally (i.n.) 12 hours after infusion with 1 × 106 PFU of SARS-CoV-2. Serum was collected at the time of challenge (day 0), and animal weight was monitored as an indicator of disease progression. On day 5, lung tissue was collected for viral burden assessment. (B) Percent weight change was calculated from day 0 for all animals. (C) Viral load, as assessed by nucleocapsid RNA quantitative polymerase chain reaction (qPCR) from lung tissue at day 5 after infection. (D) Serum titers of the passively administered mAb, as assessed by ELISA at the time of challenge [12 hours after intraperitoneal (i.p.) administration]. Correlation analyses with 95% confidence intervals indicated by the gray shaded area.CC BY · PubMed Central

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Metadata

Authors
Rogers, T. F., Zhao, F., Huang, D., Beutler, N., Burns, A., He, W.-T., Limbo, O., Smith, C., Song, G., Woehl, J., Yang, L., Abbott, R. K., Callaghan, S., Garcia, E., Hurtado, J., Parren, M., Peng, L., Ramirez, S., Ricketts, J., Ricciardi, M. J., Rawlings, S. A., Wu, N. C., Yuan, M., Smith, D. M., Nemazee, D., Teijaro, J. R., Voss, J. E., Wilson, I. A., Andrabi, R., Briney, B., Landais, E., Sok, D., Jardine, J. G., & Burton, D. R.
Affiliations
  • Scripps Research Institute (US)
  • Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA 92037, USA.
  • La Jolla Institute for Immunology (US)
  • George Washington University (US)
  • University of California San Diego (US)
Corresponding author
  • Rogers, Thomas F.
  • Zhao, Fangzhu
  • Huang, Deli
  • Beutler, Nathan
  • Sok, Devin
  • Jardine, Joseph G.
  • Burton, Dennis R.
Venue
Science
Published
2020-08-21
Volume
369
Issue
6506
Pages
956-963
ISSN
  • 0036-8075 (ISSN-L)
  • 1095-9203
OpenAlex
W3035459690
Cited by
1,230
References
33
Citations by year
2026: 23 · 2025: 47 · 2024: 68 · 2023: 126 · 2022: 242 · 2021: 504 · 2020: 217
FWCI
35.77
Type
journal article
Language
en
Open access
Locations
  • Science (publishedVersion, cc-by)
  • bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • eScholarship (California Digital Library) (submittedVersion, cc-by)
  • PubMed Central (submittedVersion, cc-by)
  • eScholarship (California Digital Library) (submittedVersion)
Funders
  • National Institute of Allergy and Infectious Diseases (UM1 AI144462)
  • Bill and Melinda Gates Foundation (OPP 1170236, OPP 1206647, OPP1196345)
Topics
  • Health Sciences › Medicine › Infectious Diseases › SARS-CoV-2 and COVID-19 Research
  • Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Virus Infections Studies
  • Life Sciences › Immunology and Microbiology › Immunology › Monoclonal and Polyclonal Antibodies Research
Keywords
SARS-CoV-2, neutralizing antibodies, COVID-19 pandemic, receptor binding domain, spike protein epitopes, passive antibody transfer, Syrian hamster model, antibody isolation, high-throughput antibody screening, prophylaxis, vaccine design, lung viral titers

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