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

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, Christine K. Johnson, Philippe Buchy, Philippe Dussart, Tracey Goldstein, Etienne Simon-Lorière () and Veasna Duong ()
Additional contact information
Deborah Delaune: Institut Pasteur
Vibol Hul: Institut Pasteur International Network
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
Matthieu Prot: Institut Pasteur
Vuong Tan Tu: Sorbonne Université, MNHN, CNRS, EPHE, UA
Sokha Chea: Cambodia Program
Lucy Keatts: Health Program
Jonna Mazet: University of California
Christine K. Johnson: University of California
Philippe Buchy: Institut Pasteur International Network
Philippe Dussart: Institut Pasteur International Network
Tracey Goldstein: University of California
Etienne Simon-Lorière: Institut Pasteur
Veasna Duong: Institut Pasteur International Network

Nature Communications, 2021, vol. 12, issue 1, 1-7

Abstract: 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.

Date: 2021
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DOI: 10.1038/s41467-021-26809-4

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