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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
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    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. 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.
    4. 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.
    5. 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.
    6. 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.
    7. 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.
    8. 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.
    9. 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.
    10. 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.
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