| Title: |
Characterization and evolutionary history of novel SARS-CoV-2-related viruses in bats from Cambodia |
| Authors: |
Ou, Tey Putita; Guillebaud, Julia; Baidaliuk, Artem; Tum, Sothyra; Chheang, Dany; Delaune, Deborah; Prot, Matthieu; Guaragna Machado, Rafael Rahal; Pum, Leakhena; Hul, Vibol; Hoem, Thavry; Ly, Sovann; Auerswald, Heidi; Smith, Gavin James; Dussart, Philippe; Karlsson, Erik, A; Chevalier, Véronique; Cappelle, Julien; Duong, Veasna; Simon-Lorière, Etienne |
| Contributors: |
Institut Pasteur du Cambodge; Pasteur Network (Réseau International des Instituts Pasteur); Génomique évolutive des virus à ARN - Evolutionary genomics of RNA viruses; Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité); Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB; Institut Pasteur Paris (IP)-Université Paris Cité (UPCité); Ministry of Agriculture, Forestry and Fisheries Cambodia (MAFF); Ministry of Health Phnom Penh, Cambodia; Duke-NUS Medical School Singapore; Institut Pasteur de Madagascar; Animal, Santé, Territoires, Risques et Ecosystèmes (ASTRE); Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM); This study was supported by the BCOMING project (Horizon Europe project 101059483),funded by the European Union, the RhinoKHoV project funded by MUSE (MUSE-16297), theZooCoV project funded by the French Research Agency (ANR-20-COVI-000), the RégionOccitanie and Pasteur Foundation Asia. The E.S.-L. laboratory is funded by Institut Pasteur,the INCEPTION program (Investissements d’Avenir grant ANR-16-CONV-0005), the Ixcorefoundation for research, the French Government’s Labex IBEID (ANR-10-LABX-62-IBEID),the HERA project DURABLE (grant no 101102733) and the NIH PICREID (grant noU01AI151758). This work used the computational and storage services (Maestro cluster)provided by the IT department at Institut Pasteur, Paris.; ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016); ANR-20-COVI-0055,ZooCov,Vers la mise en place d'un système de surveillance intégré des Betacorornavirus dans la filière de viande de brousse au Cambodge(2020); ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010); European Project: 101059483,HORIZON-CL6-2021-BIODIV-01,HORIZON-CL6-2021-BIODIV-01,BCOMING(2022); European Project: 101102733,EU4Health,DURABLE(2023) |
| Source: |
https://pasteur.hal.science/pasteur-05663896 ; 2025. |
| Publisher Information: |
CCSD |
| Publication Year: |
2025 |
| Collection: |
Institut National de la Recherche Agronomique: ProdINRA |
| Subject Terms: |
[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology |
| Description: |
Circulating bat coronaviruses present a significant pandemic threat, yet our understanding of their genetic diversity and evolutionary dynamics remains limited. Over 3 years, we sampled 1,462 bats in Cambodia’s Steung Treng province, identifying extensive and diverse coronaviruses co-circulation. Using metatranscriptomic and amplicon sequencing, we generated 33 complete sarbecovirus genomes, revealing novel lineages that cluster into four distinct groups, each associated with different Rhinolophus bat species. Our analysis highlights rapid migration and recombination of sarbecovirus lineages over short distances and timescales. Of note, the receptor-binding domains of two novel viral groups exhibit high similarity to SARS-CoV-2, and pseudovirus assays confirmed the ability of this spike protein to mediate entry into cells expressing human ACE2, suggesting a potential zoonotic risk. The observed genetic diversity underscores the urgent need for continuous surveillance to identify high-risk animal-to-human interfaces and inform pandemic preparedness. |
| Document Type: |
report |
| Language: |
English |
| Relation: |
info:eu-repo/grantAgreement//101059483/EU/Biodiversity Conservation to Mitigate the risks of emerging infectious diseases/BCOMING; info:eu-repo/grantAgreement//101102733/EU/Delivering a Unified Research Alliance of Biomedical and public health Laboratories against Epidemics/DURABLE; BIORXIV: 2025.04.15.648942 |
| DOI: |
10.1101/2025.04.15.648942 |
| Availability: |
https://pasteur.hal.science/pasteur-05663896; https://pasteur.hal.science/pasteur-05663896v1/document; https://pasteur.hal.science/pasteur-05663896v1/file/2025.04.15.648942v1.full.pdf; https://doi.org/10.1101/2025.04.15.648942 |
| Rights: |
https://creativecommons.org/licenses/by-nc-nd/4.0/ ; info:eu-repo/semantics/OpenAccess |
| Accession Number: |
edsbas.AC30BA98 |
| Database: |
BASE |