IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v15y2024i1d10.1038_s41467-024-46536-w.html
   My bibliography  Save this article

Quantifying how single dose Ad26.COV2.S vaccine efficacy depends on Spike sequence features

Author

Listed:
  • Craig A. Magaret

    (Fred Hutchinson Cancer Center)

  • Li Li

    (Fred Hutchinson Cancer Center)

  • Allan C. deCamp

    (Fred Hutchinson Cancer Center)

  • Morgane Rolland

    (Walter Reed Army Institute of Research
    Inc)

  • Michal Juraska

    (Fred Hutchinson Cancer Center)

  • Brian D. Williamson

    (Fred Hutchinson Cancer Center
    Kaiser Permanente Washington Health Research Institute)

  • James Ludwig

    (Fred Hutchinson Cancer Center)

  • Cindy Molitor

    (Fred Hutchinson Cancer Center)

  • David Benkeser

    (Emory University)

  • Alex Luedtke

    (University of Washington)

  • Brian Simpkins

    (Pitzer College)

  • Fei Heng

    (University of North Florida)

  • Yanqing Sun

    (University of North Carolina at Charlotte)

  • Lindsay N. Carpp

    (Fred Hutchinson Cancer Center)

  • Hongjun Bai

    (Walter Reed Army Institute of Research
    Inc)

  • Bethany L. Dearlove

    (Walter Reed Army Institute of Research
    Inc)

  • Elena E. Giorgi

    (Fred Hutchinson Cancer Center)

  • Mandy Jongeneelen

    (Janssen Vaccines & Prevention B.V)

  • Boerries Brandenburg

    (Janssen Vaccines & Prevention B.V)

  • Matthew McCallum

    (University of Washington)

  • John E. Bowen

    (University of Washington)

  • David Veesler

    (University of Washington
    University of Washington)

  • Jerald Sadoff

    (Janssen Vaccines & Prevention B.V)

  • Glenda E. Gray

    (University of the Witwatersrand
    South African Medical Research Council)

  • Sanne Roels

    (a division of Janssen Pharmaceutica NV)

  • An Vandebosch

    (a division of Janssen Pharmaceutica NV)

  • Daniel J. Stieh

    (Janssen Vaccines & Prevention B.V)

  • Mathieu Gars

    (Janssen Vaccines & Prevention B.V)

  • Johan Vingerhoets

    (a division of Janssen Pharmaceutica NV)

  • Beatriz Grinsztejn

    (Evandro Chagas National Institute of Infectious Diseases-Fundação Oswaldo Cruz)

  • Paul A. Goepfert

    (University of Alabama at Birmingham)

  • Leonardo Paiva Sousa

    (Evandro Chagas National Institute of Infectious Diseases-Fundação Oswaldo Cruz)

  • Mayara Secco Torres Silva

    (Evandro Chagas National Institute of Infectious Diseases-Fundação Oswaldo Cruz)

  • Martin Casapia

    (Universidad Nacional de la Amazonia Peru)

  • Marcelo H. Losso

    (Hospital General de Agudos José María Ramos Mejia)

  • Susan J. Little

    (University of California San Diego)

  • Aditya Gaur

    (St. Jude Children’s Research Hospital)

  • Linda-Gail Bekker

    (Observatory)

  • Nigel Garrett

    (University of KwaZulu-Natal
    University of KwaZulu-Natal)

  • Carla Truyers

    (a division of Janssen Pharmaceutica NV)

  • Ilse Dromme

    (a division of Janssen Pharmaceutica NV)

  • Edith Swann

    (National Institutes of Health)

  • Mary A. Marovich

    (National Institutes of Health)

  • Dean Follmann

    (National Institutes of Health)

  • Kathleen M. Neuzil

    (University of Maryland School of Medicine)

  • Lawrence Corey

    (Fred Hutchinson Cancer Center
    University of Washington)

  • Alexander L. Greninger

    (Fred Hutchinson Cancer Center
    University of Washington)

  • Pavitra Roychoudhury

    (Fred Hutchinson Cancer Center
    University of Washington)

  • Ollivier Hyrien

    (Fred Hutchinson Cancer Center)

  • Peter B. Gilbert

    (Fred Hutchinson Cancer Center
    Fred Hutchinson Cancer Center
    University of Washington School of Public Health)

Abstract

In the ENSEMBLE randomized, placebo-controlled phase 3 trial (NCT04505722), estimated single-dose Ad26.COV2.S vaccine efficacy (VE) was 56% against moderate to severe–critical COVID-19. SARS-CoV-2 Spike sequences were determined from 484 vaccine and 1,067 placebo recipients who acquired COVID-19. In this set of prespecified analyses, we show that in Latin America, VE was significantly lower against Lambda vs. Reference and against Lambda vs. non-Lambda [family-wise error rate (FWER) p

Suggested Citation

  • Craig A. Magaret & Li Li & Allan C. deCamp & Morgane Rolland & Michal Juraska & Brian D. Williamson & James Ludwig & Cindy Molitor & David Benkeser & Alex Luedtke & Brian Simpkins & Fei Heng & Yanqing, 2024. "Quantifying how single dose Ad26.COV2.S vaccine efficacy depends on Spike sequence features," Nature Communications, Nature, vol. 15(1), pages 1-22, December.
  • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-46536-w
    DOI: 10.1038/s41467-024-46536-w
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-024-46536-w
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/s41467-024-46536-w?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    References listed on IDEAS

    as
    1. Yunlong Cao & Jing Wang & Fanchong Jian & Tianhe Xiao & Weiliang Song & Ayijiang Yisimayi & Weijin Huang & Qianqian Li & Peng Wang & Ran An & Jing Wang & Yao Wang & Xiao Niu & Sijie Yang & Hui Liang &, 2022. "Omicron escapes the majority of existing SARS-CoV-2 neutralizing antibodies," Nature, Nature, vol. 602(7898), pages 657-663, February.
    2. Galit Alter & Jingyou Yu & Jinyan Liu & Abishek Chandrashekar & Erica N. Borducchi & Lisa H. Tostanoski & Katherine McMahan & Catherine Jacob-Dolan & David R. Martinez & Aiquan Chang & Tochi Anioke & , 2021. "Immunogenicity of Ad26.COV2.S vaccine against SARS-CoV-2 variants in humans," Nature, Nature, vol. 596(7871), pages 268-272, August.
    3. Michal Juraska & Peter B. Gilbert, 2016. "Mark-specific hazard ratio model with missing multivariate marks," Lifetime Data Analysis: An International Journal Devoted to Statistical Methods and Applications for Time-to-Event Data, Springer, vol. 22(4), pages 606-625, October.
    4. Youyi Fong & Yunda Huang & David Benkeser & Lindsay N. Carpp & Germán Áñez & Wayne Woo & Alice McGarry & Lisa M. Dunkle & Iksung Cho & Christopher R. Houchens & Karen Martins & Lakshmi Jayashankar & F, 2023. "Immune correlates analysis of the PREVENT-19 COVID-19 vaccine efficacy clinical trial," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    5. Biao Zhou & Runhong Zhou & Bingjie Tang & Jasper Fuk-Woo Chan & Mengxiao Luo & Qiaoli Peng & Shuofeng Yuan & Hang Liu & Bobo Wing-Yee Mok & Bohao Chen & Pui Wang & Vincent Kwok-Man Poon & Hin Chu & Ch, 2022. "A broadly neutralizing antibody protects Syrian hamsters against SARS-CoV-2 Omicron challenge," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    6. Brian D. Williamson & Peter B. Gilbert & Noah R. Simon & Marco Carone, 2023. "A General Framework for Inference on Algorithm-Agnostic Variable Importance," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 118(543), pages 1645-1658, July.
    7. M. Juraska & P. B. Gilbert, 2013. "Mark-Specific Hazard Ratio Model with Multivariate Continuous Marks: An Application to Vaccine Efficacy," Biometrics, The International Biometric Society, vol. 69(2), pages 328-337, June.
    8. Dora Pinto & Young-Jun Park & Martina Beltramello & Alexandra C. Walls & M. Alejandra Tortorici & Siro Bianchi & Stefano Jaconi & Katja Culap & Fabrizia Zatta & Anna De Marco & Alessia Peter & Barbara, 2020. "Cross-neutralization of SARS-CoV-2 by a human monoclonal SARS-CoV antibody," Nature, Nature, vol. 583(7815), pages 290-295, July.
    9. Deborah Cromer & Megan Steain & Arnold Reynaldi & Timothy E. Schlub & Shanchita R. Khan & Sarah C. Sasson & Stephen J. Kent & David S. Khoury & Miles P. Davenport, 2023. "Predicting vaccine effectiveness against severe COVID-19 over time and against variants: a meta-analysis," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    10. Charles R. Harris & K. Jarrod Millman & Stéfan J. Walt & Ralf Gommers & Pauli Virtanen & David Cournapeau & Eric Wieser & Julian Taylor & Sebastian Berg & Nathaniel J. Smith & Robert Kern & Matti Picu, 2020. "Array programming with NumPy," Nature, Nature, vol. 585(7825), pages 357-362, September.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Haonan Yang & Huimin Guo & Aojie Wang & Liwei Cao & Qing Fan & Jie Jiang & Miao Wang & Lin Lin & Xiangyang Ge & Haiyan Wang & Runze Zhang & Ming Liao & Renhong Yan & Bin Ju & Zheng Zhang, 2024. "Structural basis for the evolution and antibody evasion of SARS-CoV-2 BA.2.86 and JN.1 subvariants," Nature Communications, Nature, vol. 15(1), pages 1-14, December.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Yanqing Sun & Li Qi & Fei Heng & Peter B. Gilbert, 2020. "A hybrid approach for the stratified mark‐specific proportional hazards model with missing covariates and missing marks, with application to vaccine efficacy trials," Journal of the Royal Statistical Society Series C, Royal Statistical Society, vol. 69(4), pages 791-814, August.
    2. Leire Campos-Mata & Benjamin Trinité & Andrea Modrego & Sonia Tejedor Vaquero & Edwards Pradenas & Anna Pons-Grífols & Natalia Rodrigo Melero & Diego Carlero & Silvia Marfil & César Santiago & Dàlia R, 2024. "A monoclonal antibody targeting a large surface of the receptor binding motif shows pan-neutralizing SARS-CoV-2 activity," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    3. Emanuele Andreano & Ida Paciello & Silvia Marchese & Lorena Donnici & Giulio Pierleoni & Giulia Piccini & Noemi Manganaro & Elisa Pantano & Valentina Abbiento & Piero Pileri & Linda Benincasa & Ginevr, 2022. "Anatomy of Omicron BA.1 and BA.2 neutralizing antibodies in COVID-19 mRNA vaccinees," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
    4. Rajeshwer S. Sankhala & Kerri G. Lal & Jaime L. Jensen & Vincent Dussupt & Letzibeth Mendez-Rivera & Hongjun Bai & Lindsay Wieczorek & Sandra V. Mayer & Michelle Zemil & Danielle A. Wagner & Samantha , 2024. "Diverse array of neutralizing antibodies elicited upon Spike Ferritin Nanoparticle vaccination in rhesus macaques," Nature Communications, Nature, vol. 15(1), pages 1-19, December.
    5. Yanqun Wang & An Yan & Deyong Song & Maoqin Duan & Chuangchuang Dong & Jiantao Chen & Zihe Jiang & Yuanzhu Gao & Muding Rao & Jianxia Feng & Zhaoyong Zhang & Ruxi Qi & Xiaomin Ma & Hong Liu & Beibei Y, 2024. "Identification of a highly conserved neutralizing epitope within the RBD region of diverse SARS-CoV-2 variants," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    6. Dhiraj Mannar & James W. Saville & Zehua Sun & Xing Zhu & Michelle M. Marti & Shanti S. Srivastava & Alison M. Berezuk & Steven Zhou & Katharine S. Tuttle & Michele D. Sobolewski & Andrew Kim & Benjam, 2022. "SARS-CoV-2 variants of concern: spike protein mutational analysis and epitope for broad neutralization," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    7. Zhennan Zhao & Jingya Zhou & Mingxiong Tian & Min Huang & Sheng Liu & Yufeng Xie & Pu Han & Chongzhi Bai & Pengcheng Han & Anqi Zheng & Lutang Fu & Yuanzhu Gao & Qi Peng & Ying Li & Yan Chai & Zengyua, 2022. "Omicron SARS-CoV-2 mutations stabilize spike up-RBD conformation and lead to a non-RBM-binding monoclonal antibody escape," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    8. Yuanchen Liu & Xiaoyu Zhao & Jialu Shi & Yajie Wang & Huan Liu & Ye-Fan Hu & Bingjie Hu & Huiping Shuai & Terrence Tsz-Tai Yuen & Yue Chai & Feifei Liu & Hua-Rui Gong & Jiayan Li & Xun Wang & Shujun J, 2024. "Lineage-specific pathogenicity, immune evasion, and virological features of SARS-CoV-2 BA.2.86/JN.1 and EG.5.1/HK.3," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    9. Dean Follmann & Chiung‐Yu Huang, 2018. "Sieve analysis using the number of infecting pathogens," Biometrics, The International Biometric Society, vol. 74(3), pages 1023-1033, September.
    10. Tan Wang & L. Jeff Hong, 2023. "Large-Scale Inventory Optimization: A Recurrent Neural Networks–Inspired Simulation Approach," INFORMS Journal on Computing, INFORMS, vol. 35(1), pages 196-215, January.
    11. Léon Faure & Bastien Mollet & Wolfram Liebermeister & Jean-Loup Faulon, 2023. "A neural-mechanistic hybrid approach improving the predictive power of genome-scale metabolic models," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    12. Claudia Quinteros-Cartaya & Guillermo Solorio-Magaña & Francisco Javier Núñez-Cornú & Felipe de Jesús Escalona-Alcázar & Diana Núñez, 2023. "Microearthquakes in the Guadalajara Metropolitan Zone, Mexico: evidence from buried active faults in Tesistán Valley, Zapopan," Natural Hazards: Journal of the International Society for the Prevention and Mitigation of Natural Hazards, Springer;International Society for the Prevention and Mitigation of Natural Hazards, vol. 116(3), pages 2797-2818, April.
    13. Furqan Dar & Samuel R. Cohen & Diana M. Mitrea & Aaron H. Phillips & Gergely Nagy & Wellington C. Leite & Christopher B. Stanley & Jeong-Mo Choi & Richard W. Kriwacki & Rohit V. Pappu, 2024. "Biomolecular condensates form spatially inhomogeneous network fluids," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    14. Nina Tiel & Fabian Fopp & Philipp Brun & Johan Hoogen & Dirk Nikolaus Karger & Cecilia M. Casadei & Lisha Lyu & Devis Tuia & Niklaus E. Zimmermann & Thomas W. Crowther & Loïc Pellissier, 2024. "Regional uniqueness of tree species composition and response to forest loss and climate change," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    15. López Pérez, Mario & Mansilla Corona, Ricardo, 2022. "Ordinal synchronization and typical states in high-frequency digital markets," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 598(C).
    16. Taha Y. Taha & Irene P. Chen & Jennifer M. Hayashi & Takako Tabata & Keith Walcott & Gabriella R. Kimmerly & Abdullah M. Syed & Alison Ciling & Rahul K. Suryawanshi & Hannah S. Martin & Bryan H. Bach , 2023. "Rapid assembly of SARS-CoV-2 genomes reveals attenuation of the Omicron BA.1 variant through NSP6," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    17. Jessica M. Vanslambrouck & Sean B. Wilson & Ker Sin Tan & Ella Groenewegen & Rajeev Rudraraju & Jessica Neil & Kynan T. Lawlor & Sophia Mah & Michelle Scurr & Sara E. Howden & Kanta Subbarao & Melissa, 2022. "Enhanced metanephric specification to functional proximal tubule enables toxicity screening and infectious disease modelling in kidney organoids," Nature Communications, Nature, vol. 13(1), pages 1-23, December.
    18. Kiran Krishnamachari & Dylan Lu & Alexander Swift-Scott & Anuar Yeraliyev & Kayla Lee & Weitai Huang & Sim Ngak Leng & Anders Jacobsen Skanderup, 2022. "Accurate somatic variant detection using weakly supervised deep learning," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
    19. Larissa Samaan & Leonie Klock & Sandra Weber & Mirjam Reidick & Leonie Ascone & Simone Kühn, 2024. "Low-Level Visual Features of Window Views Contribute to Perceived Naturalness and Mental Health Outcomes," IJERPH, MDPI, vol. 21(5), pages 1-35, May.
    20. Dennis Bontempi & Leonard Nuernberg & Suraj Pai & Deepa Krishnaswamy & Vamsi Thiriveedhi & Ahmed Hosny & Raymond H. Mak & Keyvan Farahani & Ron Kikinis & Andrey Fedorov & Hugo J. W. L. Aerts, 2024. "End-to-end reproducible AI pipelines in radiology using the cloud," Nature Communications, Nature, vol. 15(1), pages 1-9, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-46536-w. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.