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An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain
A key goal of SARS-CoV-2 surveillance is to rapidly identify viral variants with mutations that reduce neutralization by polyclonal antibodies elicited by vaccination or infection. Unfortunately, direct experimental characterization of new viral variants lags their sequence-based identification. Her...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Cold Spring Harbor Laboratory
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8669837/ https://www.ncbi.nlm.nih.gov/pubmed/34909770 http://dx.doi.org/10.1101/2021.12.04.471236 |
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author | Greaney, Allison J. Starr, Tyler N. Bloom, Jesse D. |
author_facet | Greaney, Allison J. Starr, Tyler N. Bloom, Jesse D. |
author_sort | Greaney, Allison J. |
collection | PubMed |
description | A key goal of SARS-CoV-2 surveillance is to rapidly identify viral variants with mutations that reduce neutralization by polyclonal antibodies elicited by vaccination or infection. Unfortunately, direct experimental characterization of new viral variants lags their sequence-based identification. Here we help address this challenge by aggregating deep mutational scanning data into an “escape calculator” that estimates the antigenic effects of arbitrary combinations of mutations to the virus’s spike receptor-binding domain (RBD). The calculator can be used to intuitively visualize how mutations impact polyclonal antibody recognition, and score the expected antigenic effect of combinations of mutations. These scores correlate with neutralization assays performed on SARS-CoV-2 variants, and emphasize the ominous antigenic properties of the recently described Omicron variant. An interactive version of the calculator is at https://jbloomlab.github.io/SARS2_RBD_Ab_escape_maps/escape-calc/, and we provide a Python module for batch processing. |
format | Online Article Text |
id | pubmed-8669837 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Cold Spring Harbor Laboratory |
record_format | MEDLINE/PubMed |
spelling | pubmed-86698372021-12-15 An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain Greaney, Allison J. Starr, Tyler N. Bloom, Jesse D. bioRxiv Article A key goal of SARS-CoV-2 surveillance is to rapidly identify viral variants with mutations that reduce neutralization by polyclonal antibodies elicited by vaccination or infection. Unfortunately, direct experimental characterization of new viral variants lags their sequence-based identification. Here we help address this challenge by aggregating deep mutational scanning data into an “escape calculator” that estimates the antigenic effects of arbitrary combinations of mutations to the virus’s spike receptor-binding domain (RBD). The calculator can be used to intuitively visualize how mutations impact polyclonal antibody recognition, and score the expected antigenic effect of combinations of mutations. These scores correlate with neutralization assays performed on SARS-CoV-2 variants, and emphasize the ominous antigenic properties of the recently described Omicron variant. An interactive version of the calculator is at https://jbloomlab.github.io/SARS2_RBD_Ab_escape_maps/escape-calc/, and we provide a Python module for batch processing. Cold Spring Harbor Laboratory 2021-12-07 /pmc/articles/PMC8669837/ /pubmed/34909770 http://dx.doi.org/10.1101/2021.12.04.471236 Text en https://creativecommons.org/licenses/by/4.0/This work is licensed under a Creative Commons Attribution 4.0 International License (https://creativecommons.org/licenses/by/4.0/) , which allows reusers to distribute, remix, adapt, and build upon the material in any medium or format, so long as attribution is given to the creator. The license allows for commercial use. |
spellingShingle | Article Greaney, Allison J. Starr, Tyler N. Bloom, Jesse D. An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title | An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title_full | An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title_fullStr | An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title_full_unstemmed | An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title_short | An antibody-escape calculator for mutations to the SARS-CoV-2 receptor-binding domain |
title_sort | antibody-escape calculator for mutations to the sars-cov-2 receptor-binding domain |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8669837/ https://www.ncbi.nlm.nih.gov/pubmed/34909770 http://dx.doi.org/10.1101/2021.12.04.471236 |
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