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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...

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Detalles Bibliográficos
Autores principales: Greaney, Allison J., Starr, Tyler N., Bloom, Jesse D.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Cold Spring Harbor Laboratory 2021
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.
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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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