VRC34-Antibody Lineage Development Reveals How a Required Rare Mutation Shapes the Maturation of a Broad HIV-Neutralizing Lineage

• Published in: Cell host & microbe Vol. 27; no. 4; pp. 531 - 543.e6
• Main Authors: Shen, Chen-Hsiang, DeKosky, Brandon J., Guo, Yicheng, Xu, Kai, Gu, Ying, Kilam, Divya, Ko, Sung Hee, Kong, Rui, Liu, Kevin, Louder, Mark K., Ou, Li, Zhang, Baoshan, Chao, Cara W., Corcoran, Martin M., Feng, Eric, Huang, Jesse, Normandin, Erica, O’Dell, Sijy, Ransier, Amy, Rawi, Reda, Sastry, Mallika, Schmidt, Stephen D., Wang, Shuishu, Wang, Yiran, Chuang, Gwo-Yu, Doria-Rose, Nicole A., Lin, Bob, Zhou, Tongqing, Boritz, Eli A., Connors, Mark, Douek, Daniel C., Karlsson Hedestam, Gunilla B., Sheng, Zizhang, Shapiro, Lawrence, Mascola, John R., Kwong, Peter D.
• Format: Journal Article
• Language: English
• Published: United States Elsevier Inc 08-04-2020; Elsevier
• Subjects: Antibodies, Neutralizing - chemistry; Antibodies, Neutralizing - genetics; Antibodies, Neutralizing - immunology; antibody maturation; antibody sequencing; B cell ontogeny; B-Lymphocytes - immunology; B-Lymphocytes - metabolism; Broadly Neutralizing Antibodies - chemistry; Broadly Neutralizing Antibodies - genetics; Broadly Neutralizing Antibodies - immunology; broadly neutralizing antibody; Crystallography, X-Ray; env Gene Products, Human Immunodeficiency Virus - immunology; fusion peptide-directed; Gene Expression; HIV Antibodies - chemistry; HIV Antibodies - genetics; HIV Antibodies - immunology; HIV Infections - immunology; HIV-1 - immunology; Humans; Medicin och hälsovetenskap; Mutation; rare mutations; SHM; somatic hypermutation; Transcriptome - genetics; Viral Fusion Proteins - immunology; broadly neutralizing antibody; somatic hypermutation; SHM; antibody sequencing; fusion peptide-directed; rare mutations; B cell ontogeny; antibody maturation
• ISSN: 1931-3128; 1934-6069; 1934-6069
• DOI: 10.1016/j.chom.2020.01.027

Rare mutations have been proposed to restrict the development of broadly neutralizing antibodies against HIV-1, but this has not been explicitly demonstrated. We hypothesized that such rare mutations might be identified by comparing broadly neutralizing and non-broadly neutralizing branches of an antibody-developmental tree. Because sequences of antibodies isolated from the fusion peptide (FP)-targeting VRC34-antibody lineage suggested it might be suitable for such rare mutation analysis, we carried out next-generation sequencing (NGS) on B cell transcripts from donor N123, the source of the VRC34 lineage, and functionally and structurally characterized inferred intermediates along broadly neutralizing and poorly neutralizing developmental branches. The broadly neutralizing VRC34.01 branch required the rare heavy-chain mutation Y33P to bind FP, whereas the early bifurcated VRC34.05 branch did not require this rare mutation and evolved less breadth. Our results demonstrate how a required rare mutation can restrict development and shape the maturation of a broad HIV-1-neutralizing antibody lineage.
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•Maturation of VRC34 lineage bifurcates early along VRC34.01 and VRC34.05 branches•VRC34.01 branch requires the rare mutation Y33PHC to achieve broad neutralization•VRC34.05 branch utilizes Y33 to bind FP and does not achieve broad neutralization•An early rare mutation shapes VRC34-lineage development and neutralization breadth
Rare mutations have been hypothesized to control the development of broadly neutralizing antibody lineages. However, this has not been explicitly demonstrated. Shen et al. show that a rare mutation, present only in the neutralization branch of the VRC34-antibody lineage, both restricts and shapes the maturation of this lineage.