Literature DB >> 34532060

RV144 vaccine imprinting constrained HIV-1 evolution following breakthrough infection.

Eric Lewitus1, Eric Sanders-Buell1, Meera Bose1, Anne Marie O'Sullivan1, Kultida Poltavee1, Yifan Li1, Hongjun Bai1, Thembi Mdluli1, Gina Donofrio1, Bonnie Slike1, Hong Zhao2, Kim Wong2, Lennie Chen2, Shana Miller1, Jenica Lee1, Bahar Ahani1, Steven Lepore1, Sevan Muhammad1, Rebecca Grande1, Ursula Tran1, Vincent Dussupt1, Letzibeth Mendez-Rivera1, Sorachai Nitayaphan3, Jaranit Kaewkungwal3, Punnee Pitisuttithum4, Supachai Rerks-Ngarm5, Robert J O'Connell3, Holly Janes6, Peter B Gilbert6, Robert Gramzinski1, Sandhya Vasan1, Merlin L Robb1, Nelson L Michael7, Shelly J Krebs1, Joshua T Herbeck8, Paul T Edlefsen6, James I Mullins2, Jerome H Kim1, Sodsai Tovanabutra1, Morgane Rolland1.   

Abstract

The scale of the HIV-1 epidemic underscores the need for a vaccine. The multitude of circulating HIV-1 strains together with HIV-1's high evolvability hints that HIV-1 could adapt to a future vaccine. Here, we wanted to investigate the effect of vaccination on the evolution of the virus post-breakthrough infection. We analyzed 2,635 HIV-1 env sequences sampled up to a year post-diagnosis from 110 vaccine and placebo participants who became infected in the RV144 vaccine efficacy trial. We showed that the Env signature sites that were previously identified to distinguish vaccine and placebo participants were maintained over time. In addition, fewer sites were under diversifying selection in the vaccine group than in the placebo group. These results indicate that HIV-1 would possibly adapt to a vaccine upon its roll-out.
© The Author(s) 2021. Published by Oxford University Press.

Entities:  

Keywords:  HIV-1; sieve analysis; vaccine; within-host evolution

Year:  2021        PMID: 34532060      PMCID: PMC8438874          DOI: 10.1093/ve/veab057

Source DB:  PubMed          Journal:  Virus Evol        ISSN: 2057-1577


  57 in total

1.  Selection on the human immunodeficiency virus type 1 proteome following primary infection.

Authors:  Yi Liu; John McNevin; Jianhong Cao; Hong Zhao; Indira Genowati; Kim Wong; Sherry McLaughlin; Matthew D McSweyn; Kurt Diem; Claire E Stevens; Janine Maenza; Hongxia He; David C Nickle; Daniel Shriner; Sarah E Holte; Ann C Collier; Lawrence Corey; M Juliana McElrath; James I Mullins
Journal:  J Virol       Date:  2006-10       Impact factor: 5.103

2.  Not so different after all: a comparison of methods for detecting amino acid sites under selection.

Authors:  Sergei L Kosakovsky Pond; Simon D W Frost
Journal:  Mol Biol Evol       Date:  2005-02-09       Impact factor: 16.240

3.  ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R.

Authors:  Emmanuel Paradis; Klaus Schliep
Journal:  Bioinformatics       Date:  2019-02-01       Impact factor: 6.937

4.  Magnitude and breadth of the neutralizing antibody response in the RV144 and Vax003 HIV-1 vaccine efficacy trials.

Authors:  David C Montefiori; Chitraporn Karnasuta; Ying Huang; Hasan Ahmed; Peter Gilbert; Mark S de Souza; Robert McLinden; Sodsai Tovanabutra; Agnes Laurence-Chenine; Eric Sanders-Buell; M Anthony Moody; Mattia Bonsignori; Christina Ochsenbauer; John Kappes; Haili Tang; Kelli Greene; Hongmei Gao; Celia C LaBranche; Charla Andrews; Victoria R Polonis; Supachai Rerks-Ngarm; Punnee Pitisuttithum; Sorachai Nitayaphan; Jaranit Kaewkungwal; Steve G Self; Phillip W Berman; Donald Francis; Faruk Sinangil; Carter Lee; Jim Tartaglia; Merlin L Robb; Barton F Haynes; Nelson L Michael; Jerome H Kim
Journal:  J Infect Dis       Date:  2012-05-25       Impact factor: 5.226

5.  Global population structure and evolution of Bordetella pertussis and their relationship with vaccination.

Authors:  Marieke J Bart; Simon R Harris; Abdolreza Advani; Yoshichika Arakawa; Daniela Bottero; Valérie Bouchez; Pamela K Cassiday; Chuen-Sheue Chiang; Tine Dalby; Norman K Fry; María Emilia Gaillard; Marjolein van Gent; Nicole Guiso; Hans O Hallander; Eric T Harvill; Qiushui He; Han G J van der Heide; Kees Heuvelman; Daniela F Hozbor; Kazunari Kamachi; Gennady I Karataev; Ruiting Lan; Anna Lutyńska; Ram P Maharjan; Jussi Mertsola; Tatsuo Miyamura; Sophie Octavia; Andrew Preston; Michael A Quail; Vitali Sintchenko; Paola Stefanelli; M Lucia Tondella; Raymond S W Tsang; Yinghua Xu; Shu-Man Yao; Shumin Zhang; Julian Parkhill; Frits R Mooi
Journal:  mBio       Date:  2014-04-22       Impact factor: 7.867

6.  Comparison of Antibody Responses Induced by RV144, VAX003, and VAX004 Vaccination Regimens.

Authors:  Chitraporn Karnasuta; Siriwat Akapirat; Sirinan Madnote; Hathairat Savadsuk; Jiraporn Puangkaew; Surawach Rittiroongrad; Supachai Rerks-Ngarm; Sorachai Nitayaphan; Punnee Pitisuttithum; Jaranit Kaewkungwal; James Tartaglia; Faruk Sinangil; Donald P Francis; Merlin L Robb; Mark S de Souza; Nelson L Michael; Jean-Louis Excler; Jerome H Kim; Robert J O'Connell; Nicos Karasavvas
Journal:  AIDS Res Hum Retroviruses       Date:  2017-01-30       Impact factor: 2.205

Review 7.  Modelling the course of an HIV infection: insights from ecology and evolution.

Authors:  Samuel Alizon; Carsten Magnus
Journal:  Viruses       Date:  2012-10-04       Impact factor: 5.048

8.  Comprehensive sieve analysis of breakthrough HIV-1 sequences in the RV144 vaccine efficacy trial.

Authors:  Paul T Edlefsen; Morgane Rolland; Tomer Hertz; Sodsai Tovanabutra; Andrew J Gartland; Allan C deCamp; Craig A Magaret; Hasan Ahmed; Raphael Gottardo; Michal Juraska; Connor McCoy; Brendan B Larsen; Eric Sanders-Buell; Chris Carrico; Sergey Menis; Gustavo H Kijak; Meera Bose; Miguel A Arroyo; Robert J O'Connell; Sorachai Nitayaphan; Punnee Pitisuttithum; Jaranit Kaewkungwal; Supachai Rerks-Ngarm; Merlin L Robb; Tatsiana Kirys; Ivelin S Georgiev; Peter D Kwong; Konrad Scheffler; Sergei L Kosakovsky Pond; Jonathan M Carlson; Nelson L Michael; William R Schief; James I Mullins; Jerome H Kim; Peter B Gilbert
Journal:  PLoS Comput Biol       Date:  2015-02-03       Impact factor: 4.475

9.  Evidence for the Selective Basis of Transition-to-Transversion Substitution Bias in Two RNA Viruses.

Authors:  Daniel M Lyons; Adam S Lauring
Journal:  Mol Biol Evol       Date:  2017-12-01       Impact factor: 16.240

10.  Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.

Authors:  Hongshuo Song; Elena E Giorgi; Vitaly V Ganusov; Fangping Cai; Gayathri Athreya; Hyejin Yoon; Oana Carja; Bhavna Hora; Peter Hraber; Ethan Romero-Severson; Chunlai Jiang; Xiaojun Li; Shuyi Wang; Hui Li; Jesus F Salazar-Gonzalez; Maria G Salazar; Nilu Goonetilleke; Brandon F Keele; David C Montefiori; Myron S Cohen; George M Shaw; Beatrice H Hahn; Andrew J McMichael; Barton F Haynes; Bette Korber; Tanmoy Bhattacharya; Feng Gao
Journal:  Nat Commun       Date:  2018-05-15       Impact factor: 14.919

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  1 in total

1.  HIV-1 infections with multiple founders associate with the development of neutralization breadth.

Authors:  Eric Lewitus; Samantha M Townsley; Yifan Li; Gina C Donofrio; Bethany L Dearlove; Hongjun Bai; Eric Sanders-Buell; Anne Marie O'Sullivan; Meera Bose; Hannah Kibuuka; Lucas Maganga; Sorachai Nitayaphan; Fredrick K Sawe; Leigh Anne Eller; Nelson L Michael; Victoria R Polonis; Julie A Ake; Sandhya Vasan; Merlin L Robb; Sodsai Tovanabutra; Shelly J Krebs; Morgane Rolland
Journal:  PLoS Pathog       Date:  2022-03-18       Impact factor: 6.823

  1 in total

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