Literature DB >> 32130953

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

Chen-Hsiang Shen1, Brandon J DeKosky2, Yicheng Guo3, Kai Xu1, Ying Gu1, Divya Kilam1, Sung Hee Ko1, Rui Kong1, Kevin Liu1, Mark K Louder1, Li Ou1, Baoshan Zhang1, Cara W Chao1, Martin M Corcoran4, Eric Feng1, Jesse Huang1, Erica Normandin1, Sijy O'Dell1, Amy Ransier1, Reda Rawi1, Mallika Sastry1, Stephen D Schmidt1, Shuishu Wang1, Yiran Wang1, Gwo-Yu Chuang1, Nicole A Doria-Rose1, Bob Lin1, Tongqing Zhou1, Eli A Boritz1, Mark Connors5, Daniel C Douek1, Gunilla B Karlsson Hedestam4, Zizhang Sheng3, Lawrence Shapiro6, John R Mascola7, Peter D Kwong8.   

Abstract

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. Published by Elsevier Inc.

Entities:  

Keywords:  B cell ontogeny; SHM; antibody maturation; antibody sequencing; broadly neutralizing antibody; fusion peptide-directed; rare mutations; somatic hypermutation

Mesh:

Substances:

Year:  2020        PMID: 32130953      PMCID: PMC7467872          DOI: 10.1016/j.chom.2020.01.027

Source DB:  PubMed          Journal:  Cell Host Microbe        ISSN: 1931-3128            Impact factor:   21.023


  57 in total

1.  MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes.

Authors:  Ian W Davis; Laura Weston Murray; Jane S Richardson; David C Richardson
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

2.  Two distinct broadly neutralizing antibody specificities of different clonal lineages in a single HIV-1-infected donor: implications for vaccine design.

Authors:  Mattia Bonsignori; David C Montefiori; Xueling Wu; Xi Chen; Kwan-Ki Hwang; Chun-Yen Tsao; Daniel M Kozink; Robert J Parks; Georgia D Tomaras; John A Crump; Saidi H Kapiga; Noel E Sam; Peter D Kwong; Thomas B Kepler; Hua-Xin Liao; John R Mascola; Barton F Haynes
Journal:  J Virol       Date:  2012-02-01       Impact factor: 5.103

3.  [20] Processing of X-ray diffraction data collected in oscillation mode.

Authors:  Zbyszek Otwinowski; Wladek Minor
Journal:  Methods Enzymol       Date:  1997       Impact factor: 1.600

4.  Rapid Sequencing of Complete env Genes from Primary HIV-1 Samples.

Authors:  Melissa Laird Smith; Ben Murrell; Kemal Eren; Caroline Ignacio; Elise Landais; Steven Weaver; Pham Phung; Colleen Ludka; Lance Hepler; Gemma Caballero; Tristan Pollner; Yan Guo; Douglas Richman; Pascal Poignard; Ellen E Paxinos; Sergei L Kosakovsky Pond; Davey M Smith
Journal:  Virus Evol       Date:  2016-07-08

Review 5.  Human antibodies that neutralize HIV-1: identification, structures, and B cell ontogenies.

Authors:  Peter D Kwong; John R Mascola
Journal:  Immunity       Date:  2012-09-21       Impact factor: 31.745

6.  Staged induction of HIV-1 glycan-dependent broadly neutralizing antibodies.

Authors:  Mattia Bonsignori; Edward F Kreider; Daniela Fera; R Ryan Meyerhoff; Todd Bradley; Kevin Wiehe; S Munir Alam; Baptiste Aussedat; William E Walkowicz; Kwan-Ki Hwang; Kevin O Saunders; Ruijun Zhang; Morgan A Gladden; Anthony Monroe; Amit Kumar; Shi-Mao Xia; Melissa Cooper; Mark K Louder; Krisha McKee; Robert T Bailer; Brendan W Pier; Claudia A Jette; Garnett Kelsoe; Wilton B Williams; Lynn Morris; John Kappes; Kshitij Wagh; Gift Kamanga; Myron S Cohen; Peter T Hraber; David C Montefiori; Ashley Trama; Hua-Xin Liao; Thomas B Kepler; M Anthony Moody; Feng Gao; Samuel J Danishefsky; John R Mascola; George M Shaw; Beatrice H Hahn; Stephen C Harrison; Bette T Korber; Barton F Haynes
Journal:  Sci Transl Med       Date:  2017-03-15       Impact factor: 17.956

7.  Immunoglobulin gene insertions and deletions in the affinity maturation of HIV-1 broadly reactive neutralizing antibodies.

Authors:  Thomas B Kepler; Hua-Xin Liao; S Munir Alam; Rekha Bhaskarabhatla; Ruijun Zhang; Chandri Yandava; Shelley Stewart; Kara Anasti; Garnett Kelsoe; Robert Parks; Krissey E Lloyd; Christina Stolarchuk; Jamie Pritchett; Erika Solomon; Emma Friberg; Lynn Morris; Salim S Abdool Karim; Myron S Cohen; Emmanuel Walter; M Anthony Moody; Xueling Wu; Han R Altae-Tran; Ivelin S Georgiev; Peter D Kwong; Scott D Boyd; Andrew Z Fire; John R Mascola; Barton F Haynes
Journal:  Cell Host Microbe       Date:  2014-09-10       Impact factor: 21.023

8.  Deciphering human immunodeficiency virus type 1 transmission and early envelope diversification by single-genome amplification and sequencing.

Authors:  Jesus F Salazar-Gonzalez; Elizabeth Bailes; Kimmy T Pham; Maria G Salazar; M Brad Guffey; Brandon F Keele; Cynthia A Derdeyn; Paul Farmer; Eric Hunter; Susan Allen; Olivier Manigart; Joseph Mulenga; Jeffrey A Anderson; Ronald Swanstrom; Barton F Haynes; Gayathri S Athreya; Bette T M Korber; Paul M Sharp; George M Shaw; Beatrice H Hahn
Journal:  J Virol       Date:  2008-02-06       Impact factor: 5.103

9.  Crystal structure, conformational fixation and entry-related interactions of mature ligand-free HIV-1 Env.

Authors:  Young Do Kwon; Marie Pancera; Priyamvada Acharya; Ivelin S Georgiev; Emma T Crooks; Jason Gorman; M Gordon Joyce; Miklos Guttman; Xiaochu Ma; Sandeep Narpala; Cinque Soto; Daniel S Terry; Yongping Yang; Tongqing Zhou; Goran Ahlsen; Robert T Bailer; Michael Chambers; Gwo-Yu Chuang; Nicole A Doria-Rose; Aliaksandr Druz; Mark A Hallen; Adam Harned; Tatsiana Kirys; Mark K Louder; Sijy O'Dell; Gilad Ofek; Keiko Osawa; Madhu Prabhakaran; Mallika Sastry; Guillaume B E Stewart-Jones; Jonathan Stuckey; Paul V Thomas; Tishina Tittley; Constance Williams; Baoshan Zhang; Hong Zhao; Zhou Zhou; Bruce R Donald; Lawrence K Lee; Susan Zolla-Pazner; Ulrich Baxa; Arne Schön; Ernesto Freire; Lawrence Shapiro; Kelly K Lee; James Arthos; James B Munro; Scott C Blanchard; Walther Mothes; James M Binley; Adrian B McDermott; John R Mascola; Peter D Kwong
Journal:  Nat Struct Mol Biol       Date:  2015-06-22       Impact factor: 15.369

Review 10.  Antibodyomics: bioinformatics technologies for understanding B-cell immunity to HIV-1.

Authors:  Peter D Kwong; Gwo-Yu Chuang; Brandon J DeKosky; Tatyana Gindin; Ivelin S Georgiev; Thomas Lemmin; Chaim A Schramm; Zizhang Sheng; Cinque Soto; An-Suei Yang; John R Mascola; Lawrence Shapiro
Journal:  Immunol Rev       Date:  2017-01       Impact factor: 12.988

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  9 in total

1.  Highly protective antimalarial antibodies via precision library generation and yeast display screening.

Authors:  Bailey B Banach; Prabhanshu Tripathi; Lais Da Silva Pereira; Jason Gorman; Thuy Duong Nguyen; Marlon Dillon; Ahmed S Fahad; Patience K Kiyuka; Bharat Madan; Jacy R Wolfe; Brian Bonilla; Barbara Flynn; Joseph R Francica; Nicholas K Hurlburt; Neville K Kisalu; Tracy Liu; Li Ou; Reda Rawi; Arne Schön; Chen-Hsiang Shen; I-Ting Teng; Baoshan Zhang; Marie Pancera; Azza H Idris; Robert A Seder; Peter D Kwong; Brandon J DeKosky
Journal:  J Exp Med       Date:  2022-06-23       Impact factor: 17.579

2.  Epitope-focused immunogen design based on the ebolavirus glycoprotein HR2-MPER region.

Authors:  Clara T Schoeder; Pavlo Gilchuk; Amandeep K Sangha; Kaitlyn V Ledwitch; Delphine C Malherbe; Xuan Zhang; Elad Binshtein; Lauren E Williamson; Cristina E Martina; Jinhui Dong; Erica Armstrong; Rachel Sutton; Rachel Nargi; Jessica Rodriguez; Natalia Kuzmina; Brooke Fiala; Neil P King; Alexander Bukreyev; James E Crowe; Jens Meiler
Journal:  PLoS Pathog       Date:  2022-05-18       Impact factor: 7.464

3.  Rapid selection of HIV envelopes that bind to neutralizing antibody B cell lineage members with functional improbable mutations.

Authors:  Olivia Swanson; Brianna Rhodes; Avivah Wang; Shi-Mao Xia; Robert Parks; Haiyan Chen; Aja Sanzone; Melissa Cooper; Mark K Louder; Bob C Lin; Nicole A Doria-Rose; Mattia Bonsignori; Kevin O Saunders; Kevin Wiehe; Barton F Haynes; Mihai L Azoitei
Journal:  Cell Rep       Date:  2021-08-17       Impact factor: 9.423

4.  Broadly neutralizing antibodies target the coronavirus fusion peptide.

Authors:  Cherrelle Dacon; Courtney Tucker; Linghang Peng; Chang-Chun D Lee; Ting-Hui Lin; Meng Yuan; Yu Cong; Lingshu Wang; Lauren Purser; Jazmean K Williams; Chul-Woo Pyo; Ivan Kosik; Zhe Hu; Ming Zhao; Divya Mohan; Andrew Cooper; Mary Peterson; Jeff Skinner; Saurabh Dixit; Erin Kollins; Louis Huzella; Donna Perry; Russell Byrum; Sanae Lembirik; Yi Zhang; Eun Sung Yang; Man Chen; Kwanyee Leung; Rona S Weinberg; Amarendra Pegu; Daniel E Geraghty; Edgar Davidson; Iyadh Douagi; Susan Moir; Jonathan W Yewdell; Connie Schmaljohn; Peter D Crompton; Michael R Holbrook; David Nemazee; John R Mascola; Ian A Wilson; Joshua Tan
Journal:  bioRxiv       Date:  2022-04-12

5.  Development of Neutralization Breadth against Diverse HIV-1 by Increasing Ab-Ag Interface on V2.

Authors:  Nan Gao; Yanxin Gai; Lina Meng; Chu Wang; Wei Wang; Xiaojun Li; Tiejun Gu; Mark K Louder; Nicole A Doria-Rose; Kevin Wiehe; Alexandra F Nazzari; Adam S Olia; Jason Gorman; Reda Rawi; Wenmin Wu; Clayton Smith; Htet Khant; Natalia de Val; Bin Yu; Junhong Luo; Haitao Niu; Yaroslav Tsybovsky; Huaxin Liao; Thomas B Kepler; Peter D Kwong; John R Mascola; Chuan Qin; Tongqing Zhou; Xianghui Yu; Feng Gao
Journal:  Adv Sci (Weinh)       Date:  2022-03-23       Impact factor: 17.521

Review 6.  Strategies for HIV-1 vaccines that induce broadly neutralizing antibodies.

Authors:  Barton F Haynes; Kevin Wiehe; Persephone Borrrow; Kevin O Saunders; Bette Korber; Kshitij Wagh; Andrew J McMichael; Garnett Kelsoe; Beatrice H Hahn; Frederick Alt; George M Shaw
Journal:  Nat Rev Immunol       Date:  2022-08-12       Impact factor: 108.555

7.  Dependence on a variable residue limits the breadth of an HIV MPER neutralizing antibody, despite convergent evolution with broadly neutralizing antibodies.

Authors:  Cathrine Scheepers; Prudence Kgagudi; Nonkululeko Mzindle; Elin S Gray; Thandeka Moyo-Gwete; Bronwen E Lambson; Brent Oosthuysen; Batsirai Mabvakure; Nigel J Garrett; Salim S Abdool Karim; Lynn Morris; Penny L Moore
Journal:  PLoS Pathog       Date:  2022-09-02       Impact factor: 7.464

Review 8.  Advancing HIV Broadly Neutralizing Antibodies: From Discovery to the Clinic.

Authors:  David A Spencer; Mariya B Shapiro; Nancy L Haigwood; Ann J Hessell
Journal:  Front Public Health       Date:  2021-05-26

Review 9.  Neutralizing Antibodies Targeting HIV-1 gp41.

Authors:  Christophe Caillat; Delphine Guilligay; Guidenn Sulbaran; Winfried Weissenhorn
Journal:  Viruses       Date:  2020-10-23       Impact factor: 5.048

  9 in total

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