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A novel SARS-CoV-2 related coronavirus in bats from Cambodia

Author

Listed:
  • Deborah Delaune

    (Institut Pasteur
    Institut de Recherche Biomédicale des Armées
    Université Paris-Saclay)

  • Vibol Hul

    (Institut Pasteur International Network
    UVE: Aix-Marseille Univ-IRD 190-Inserm)

  • Erik A. Karlsson

    (Institut Pasteur International Network)

  • Alexandre Hassanin

    (Sorbonne Université, MNHN, CNRS, EPHE, UA)

  • Tey Putita Ou

    (Institut Pasteur International Network)

  • Artem Baidaliuk

    (Institut Pasteur)

  • Fabiana Gámbaro

    (Institut Pasteur
    Université de Paris, Sorbonne Paris Cité)

  • Matthieu Prot

    (Institut Pasteur)

  • Vuong Tan Tu

    (Sorbonne Université, MNHN, CNRS, EPHE, UA
    Vietnam Academy of Science and Technology)

  • Sokha Chea

    (Cambodia Program)

  • Lucy Keatts

    (Health Program
    University of California)

  • Jonna Mazet

    (University of California)

  • Christine K. Johnson

    (University of California)

  • Philippe Buchy

    (Institut Pasteur International Network
    GlaxoSmithKline Vaccines R&D Greater China & Intercontinental)

  • Philippe Dussart

    (Institut Pasteur International Network
    Institut Pasteur International Network)

  • Tracey Goldstein

    (University of California)

  • Etienne Simon-Lorière

    (Institut Pasteur)

  • Veasna Duong

    (Institut Pasteur International Network)

Abstract

Knowledge of the origin and reservoir of the coronavirus responsible for the ongoing COVID-19 pandemic is still fragmentary. To date, the closest relatives to SARS-CoV-2 have been detected in Rhinolophus bats sampled in the Yunnan province, China. Here we describe the identification of SARS-CoV-2 related coronaviruses in two Rhinolophus shameli bats sampled in Cambodia in 2010. Metagenomic sequencing identifies nearly identical viruses sharing 92.6% nucleotide identity with SARS-CoV-2. Most genomic regions are closely related to SARS-CoV-2, with the exception of a region of the spike, which is not compatible with human ACE2-mediated entry. The discovery of these viruses in a bat species not found in China indicates that SARS-CoV-2 related viruses have a much wider geographic distribution than previously reported, and suggests that Southeast Asia represents a key area to consider for future surveillance for coronaviruses.

Suggested Citation

  • Deborah Delaune & Vibol Hul & Erik A. Karlsson & Alexandre Hassanin & Tey Putita Ou & Artem Baidaliuk & Fabiana Gámbaro & Matthieu Prot & Vuong Tan Tu & Sokha Chea & Lucy Keatts & Jonna Mazet & Christ, 2021. "A novel SARS-CoV-2 related coronavirus in bats from Cambodia," Nature Communications, Nature, vol. 12(1), pages 1-7, December.
    • Handle: RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-26809-4
    DOI: 10.1038/s41467-021-26809-4
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    References listed on IDEAS

    as
    1. Peng Zhou & Xing-Lou Yang & Xian-Guang Wang & Ben Hu & Lei Zhang & Wei Zhang & Hao-Rui Si & Yan Zhu & Bei Li & Chao-Lin Huang & Hui-Dong Chen & Jing Chen & Yun Luo & Hua Guo & Ren-Di Jiang & Mei-Qin L, 2020. "Addendum: A pneumonia outbreak associated with a new coronavirus of probable bat origin," Nature, Nature, vol. 588(7836), pages 6-6, December.
    2. Peng Zhou & Xing-Lou Yang & Xian-Guang Wang & Ben Hu & Lei Zhang & Wei Zhang & Hao-Rui Si & Yan Zhu & Bei Li & Chao-Lin Huang & Hui-Dong Chen & Jing Chen & Yun Luo & Hua Guo & Ren-Di Jiang & Mei-Qin L, 2020. "A pneumonia outbreak associated with a new coronavirus of probable bat origin," Nature, Nature, vol. 579(7798), pages 270-273, March.
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    Cited by:

    1. Anna S. Speranskaya & Ilia V. Artiushin & Andrei E. Samoilov & Elena V. Korneenko & Kirill V. Khabudaev & Elena N. Ilina & Alexander P. Yusefovich & Marina V. Safonova & Anna S. Dolgova & Anna S. Glad, 2023. "Identification and Genetic Characterization of MERS-Related Coronavirus Isolated from Nathusius’ Pipistrelle ( Pipistrellus nathusii ) near Zvenigorod (Moscow Region, Russia)," IJERPH, MDPI, vol. 20(4), pages 1-16, February.
    2. Cecilia A. Sánchez & Hongying Li & Kendra L. Phelps & Carlos Zambrana-Torrelio & Lin-Fa Wang & Peng Zhou & Zheng-Li Shi & Kevin J. Olival & Peter Daszak, 2022. "A strategy to assess spillover risk of bat SARS-related coronaviruses in Southeast Asia," Nature Communications, Nature, vol. 13(1), pages 1-12, December.

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