Metagenomic analysis of blood samples from ten COVID-19 patients in Wuhan, China

Jiewei Ding; Hui Long; Wei Wang; Baoli Zhu; Waterfield Nicholas R.; Qiang Wang; Yun Wu; Shen Cen; Qingming Wu

doi:10.21092/jav.v12i3.110

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About The Authors

Jiewei Ding
Institute of Medicinal Biotechnology, Chinese Academy of Medical Science & Peking Union Medical College, 100050, P.R. China
China

Hui Long
Tianyou Hospital, Wuhan University of Science and Technology, Wuhan, Hubei, 430064, P.R. China
China

Wei Wang
Department of respiratory medicine, Beijing Friendship Hospital, Capital Medical University, 100050, China
China

Baoli Zhu
CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, P.R China Savaid Medical School, University of Chinese Academy of Sciences, Beijing 100049, China 6 Beijing Key Laboratory of Antimicrobial Resistance and Pathogen Genomics, Beijing 100101, P.R. China Department of Pathogenic Biology, School of Basic Medical Sciences, Southwest Medical University, Luzhou, Sichuan 646000, P.R. China
China

Waterfield Nicholas R.
Warwick Medical School, Warwick University, Coventry CV4 7AL, UK
United Kingdom

Qiang Wang
Institute of Infection, Immunology and Tumor Microenvironment, Hubei Province, Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan 430065, P.R. China
China

Yun Wu
Beijing Institute of Tropical Medicine, Beijing Friendship Hospital, Capital Medical University, 100050, P.R. China
China

Shen Cen
Institute of Medicinal Biotechnology, Chinese Academy of Medical Science & Peking Union Medical College, 100050, China; Beijing Institute of Tropical Medicine, Beijing Friendship Hospital, Capital Medical University, 100050, China
China

Qingming Wu
Tianyou Hospital, Wuhan University of Science and Technology, Wuhan, Hubei, 430064, P.R. China. Institute of Infection, Immunology and Tumor Microenvironment, Hubei Province, Key Laboratory of Occupational Hazard Identification and Control, Medical College, Wuhan University of Science and Technology, Wuhan 430065, P.R. China. Beijing Institute of Tropical Medicine, Beijing Friendship Hospital, Capital Medical University, 100050, P.R.China.
China

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Metagenomic analysis of blood samples from ten COVID-19 patients in Wuhan, China

Jiewei Ding, Hui Long, Wei Wang, Baoli Zhu, Waterfield Nicholas R., Qiang Wang, Yun Wu, Shen Cen, Qingming Wu

Abstract

Metagenomic next-generation sequencing (mNGS) of samples from 10 patients with documented SARS-CoV-2 in Wuhan, China from Feb 3^rd to Mar 13^th identified atypical coinfection of chlamydophilla and avocado sunblotch viroid in 1 of 10 blood samples from a critically ill patient. Furthermore, LEfSe analysis revealed that SARS-CoV-2 infection significantly reshaped the blood microbial community. The patients showed an increase of bacteria belonging to Campylobacterales and Rickettsiales order whereas healthy volunteers were highly colonized by Proteobacteria and Actinobacteria. Collectively, our study highlights the importance of microbial sampling and judicious use of antimicrobials in severe and critically ill COVID-19 patients, and provides insights into the changes in microbial community composition by SARS-CoV-2 infection.

Keywords

Metagenomics, SARS-CoV-2, COVID-19, Coinfection，LEfSe analysis

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DOI: https://doi.org/10.21092/jav.v12i3.110

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Journal of Applied Virology

Metagenomic analysis of blood samples from ten COVID-19 patients in Wuhan, China

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