SARS-CoV-2 detection in nasopharyngeal throat swabs by metagenomics

  1. Le Van Tan
  2. Nguyen Thi Thu Hong
  3. Nghiem My Ngoc
  4. Tran Tan Thanh
  5. Vo Thanh Lam
  6. Lam Anh Nguyet
  7. Le Nguyen Truc Nhu
  8. Nguyen Thi Han Ny
  9. Ngo Ngoc Quang Minh
  10. Dinh Nguyen Huy Man
  11. Vu Thi Ty Hang
  12. Phan Nguyen Quoc Khanh
  13. Tran Chanh Xuan
  14. Nguyen Thanh Phong
  15. Tran Nguyen Hoang Tu
  16. Tran Tinh Hien
  17. Le Manh Hung
  18. Nguyen Thanh Truong
  19. Lam Minh Yen
  20. Nguyen Thanh Dung
  21. Guy Thwaites
  22. Nguyen Van Vinh Chau
  23. for OUCRU COVID-19 research group
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Abstract

Metagenomics could detect SARS-CoV-2 in all eight nasopharyngeal/throat swabs with high/low viral loads, and rhinovirus in a co-infected patient. The sequenced viruses belonged to lineage B1. Because metagenomics could detect novel pathogen and co-infection, and generate sequence data for epidemiological investigation, it is an attractive approach for infectious-disease diagnosis.

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