Widespread impact of immunoglobulin V gene allelic polymorphisms on antibody reactivity.


Journal

bioRxiv : the preprint server for biology
Titre abrégé: bioRxiv
Pays: United States
ID NLM: 101680187

Informations de publication

Date de publication:
07 Jun 2023
Historique:
medline: 19 6 2023
pubmed: 19 6 2023
entrez: 19 6 2023
Statut: epublish

Résumé

The ability of human immune system to generate antibodies to any given antigen can be strongly influenced by immunoglobulin V gene (IGV) allelic polymorphisms. However, previous studies have provided only a limited number of examples. Therefore, the prevalence of this phenomenon has been unclear. By analyzing >1,000 publicly available antibody-antigen structures, we show that many IGV allelic polymorphisms in antibody paratopes are determinants for antibody binding activity. Biolayer interferometry experiment further demonstrates that paratope allelic mutations on both heavy and light chain often abolish antibody binding. We also illustrate the importance of minor IGV allelic variants with low frequency in several broadly neutralizing antibodies to SARS-CoV-2 and influenza virus. Overall, this study not only highlights the pervasive impact of IGV allelic polymorphisms on antibody binding, but also provides mechanistic insights into the variability of antibody repertoires across individuals, which in turn have important implications for vaccine development and antibody discovery.

Identifiants

pubmed: 37333077
doi: 10.1101/2023.06.06.543969
pmc: PMC10274783
pii:
doi:

Types de publication

Preprint

Langues

eng

Subventions

Organisme : NIAID NIH HHS
ID : UM1 AI144462
Pays : United States
Organisme : NIAID NIH HHS
ID : 75N93021C00015
Pays : United States
Organisme : Bill & Melinda Gates Foundation
ID : INV-004923
Pays : United States
Organisme : NCCIH NIH HHS
ID : DP2 AT011966
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI167910
Pays : United States

Commentaires et corrections

Type : UpdateIn

Références

Nature. 2012 Sep 27;489(7417):526-32
pubmed: 22982990
BMC Bioinformatics. 2009 Aug 27;10 Suppl 8:S8
pubmed: 19758472
Immunol Lett. 2023 Jul;259:24-29
pubmed: 37209913
Proc Natl Acad Sci U S A. 2012 Jul 24;109(30):E2083-90
pubmed: 22745174
Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42
pubmed: 23193287
Comput Struct Biotechnol J. 2018 Feb 03;16:25-33
pubmed: 30275935
J Immunol. 2011 Feb 1;186(3):1840-8
pubmed: 21187443
J Mol Biol. 2017 Jan 20;429(2):208-219
pubmed: 27956146
Trends Immunol. 2023 Jan;44(1):7-21
pubmed: 36470826
Science. 2013 May 10;340(6133):711-6
pubmed: 23539181
Immunity. 2023 Jan 10;56(1):193-206.e7
pubmed: 36574772
Bioinformatics. 2019 Oct 15;35(20):4168-4169
pubmed: 30874800
Oncotarget. 2017 Oct 6;8(52):90215-90224
pubmed: 29163822
Expert Rev Clin Pharmacol. 2017 Sep;10(9):935-945
pubmed: 28714780
PLoS One. 2008;3(12):e3942
pubmed: 19079604
Cell Res. 2017 Jan;27(1):151-153
pubmed: 27573173
J Mol Biol. 1992 Mar 20;224(2):487-99
pubmed: 1560463
Nat Methods. 2021 Jun;18(6):588-591
pubmed: 34002093
Proc Natl Acad Sci U S A. 2022 Jul 19;119(29):e2205784119
pubmed: 35767670
Trends Biotechnol. 2019 Jan;37(1):9-16
pubmed: 29945725
Biochem Biophys Res Commun. 2021 Jan 15;536:26-31
pubmed: 33360095
Nat Commun. 2023 Jul 7;14(1):4036
pubmed: 37419906
Cell. 2013 Mar 28;153(1):126-38
pubmed: 23540694
Science. 2020 Sep 18;369(6510):1501-1505
pubmed: 32703906
J Virol. 2011 Nov;85(22):11725-31
pubmed: 21917975
Nat Commun. 2023 Feb 8;14(1):687
pubmed: 36755042
Science. 2018 Jun 22;360(6395):1358-1362
pubmed: 29880723
J Virol. 2013 Nov;87(22):12471-80
pubmed: 24027321
Science. 2022 Dec 2;378(6623):eadd6502
pubmed: 36454825
Science. 2022 Aug 12;377(6607):728-735
pubmed: 35857439
Protein Eng Des Sel. 2009 Sep;22(9):553-60
pubmed: 19561092
Nat Commun. 2016 Nov 18;7:13376
pubmed: 27857134
Nat Commun. 2023 Jul 21;14(1):4419
pubmed: 37479682
Cell Rep. 2022 Nov 15;41(7):111650
pubmed: 36335937
Nat Commun. 2016 Dec 02;7:13577
pubmed: 27910950
BMC Bioinformatics. 2020 Jul 16;21(1):314
pubmed: 32677886
Biopolymers. 1983 Dec;22(12):2577-637
pubmed: 6667333
Nature. 2014 Dec 18;516(7531):418-22
pubmed: 25296253
Immunity. 2019 Mar 19;50(3):677-691.e13
pubmed: 30876875
PLoS One. 2020 Sep 11;15(9):e0232311
pubmed: 32915778
Nucleic Acids Res. 2013 Jul;41(Web Server issue):W34-40
pubmed: 23671333
J Hum Genet. 2021 May;66(5):475-489
pubmed: 33106546
Science. 2013 Nov 29;342(6162):1090-4
pubmed: 24288331
Sci Rep. 2016 Feb 16;6:20842
pubmed: 26880249
Nature. 2019 Feb;566(7744):393-397
pubmed: 30664748
NPJ Vaccines. 2021 Sep 6;6(1):113
pubmed: 34489473
Nat Commun. 2017 May 11;8:14946
pubmed: 28492228
Immunity. 2016 Jan 19;44(1):21-31
pubmed: 26777395
PLoS Pathog. 2022 Mar 28;18(3):e1010409
pubmed: 35344575
Bioinformatics. 2016 Jan 15;32(2):298-300
pubmed: 26424857
Sci Transl Med. 2023 May 10;15(695):eadg7404
pubmed: 37163615
Hepatology. 2016 Dec;64(6):1922-1933
pubmed: 27641232
Nucleic Acids Res. 2009 Jan;37(Database issue):D1006-12
pubmed: 18978023
Mol Biosyst. 2011 Apr;7(4):1004-12
pubmed: 21298133
Cell Host Microbe. 2020 Sep 9;28(3):434-444.e4
pubmed: 32619441
Nucleic Acids Res. 2014 Jan;42(Database issue):D1140-6
pubmed: 24214988
Biochem Biophys Res Commun. 2022 Apr 9;599:31-37
pubmed: 35168061
Immunity. 2022 Sep 13;55(9):1693-1709.e8
pubmed: 35952670
Curr Opin Virol. 2019 Feb;34:149-159
pubmed: 30884330

Auteurs

Meng Yuan (M)

Department of Integrative Structural and Computational Biology, The Scripps Research Institute, LaJolla, CA 92037, USA.

Ziqi Feng (Z)

Department of Integrative Structural and Computational Biology, The Scripps Research Institute, LaJolla, CA 92037, USA.

Huibin Lv (H)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL61801, USA.

Natalie So (N)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
Department of Computer Science, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.

Ivana R Shen (IR)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.

Timothy J C Tan (TJC)

Center for Biophysics and Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, IL61801, USA.

Qi WenTeo (Q)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL61801, USA.

Wenhao O Ouyang (WO)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.

Logan Talmage (L)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.

Ian A Wilson (IA)

Department of Integrative Structural and Computational Biology, The Scripps Research Institute, LaJolla, CA 92037, USA.
The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.

Nicholas C Wu (NC)

Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL61801, USA.
Center for Biophysics and Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, IL61801, USA.
Carle Illinois College of Medicine, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.

Classifications MeSH