Logo-bi
BioImpacts. 2022;12(2): 139-146.
doi: 10.34172/bi.2021.23378
PMID: 35411293
PMCID: PMC8905590
Scopus ID: 85127131228
  Abstract View: 1534
  PDF Download: 999
  Full Text View: 374

Original Research

The active lung microbiota landscape of COVID-19 patients through the metatranscriptome data analysis

Yang Han 1,2 ORCID logo, Zhilong Jia 1,2* ORCID logo, Jinlong Shi 1,2, Weidong Wang 1,2*, Kunlun He 1,2*

1 Key Laboratory of Biomedical Engineering and Translational Medicine, Ministry of Industry and Information Technology, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
2 Beijing Key Laboratory for Precision Medicine of Chronic Heart Failure, Medical Innovation Research Division of Chinese PLA General Hospital, Beijing, China
*Corresponding Authors: Corresponding authors: Zhilong Jia, Email: jiazhilong@plagh.org; Weidong Wang, Email: wangwd301@126.com; Kunlun He Email: kunlunhe@plagh.org, Email: jiazhilong@plagh.org; Email: wangwd301@126.com; Email: kunlunhe@plagh.org

Abstract

Introduction: With the outbreak of coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the interaction between the host and SARS-CoV-2 was widely studied. However, it is unclear whether and how SARS-CoV-2 infection affects lung microflora, which contribute to COVID-19 complications.
Methods: Here, we analyzed the metatranscriptomic data of bronchoalveolar lavage fluid (BALF) of 19 COVID-19 patients and 23 healthy controls from 6 independent projects and detailed the active microbiota landscape in both healthy individuals and COVID-19 patients.
Results: The infection of SARS-CoV-2 could deeply change the lung microbiota, evidenced by the α-diversity, β-diversity, and species composition analysis based on bacterial microbiota and virome. Pathogens (e.g., Klebsiella oxytoca causing pneumonia as well), immunomodulatory probiotics (e.g., lactic acid bacteria and Faecalibacterium prausnitzii, a butyrate producer), and Tobacco mosaic virus (TMV) were enriched in the COVID-19 group, suggesting a severe microbiota dysbiosis. The significant correlation between Rothia mucilaginosa, TMV, and SARS-CoV-2 revealed drastic inflammatory battles between the host, SARS-CoV-2, and other microbes in the lungs. Notably, TMV only existed in the COVID-19 group, while human respirovirus 3 (HRV 3) only existed in the healthy group. Our study provides insights into the active microbiota in the lungs of COVID-19 patients and would contribute to the understanding of the infection mechanism of SARS-CoV-2 and the treatment of the disease and complications.
Conclusion: SARS-COV-2 infection deeply altered the lung microbiota of COVID-19 patients. The enrichment of several other pathogens, immunomodulatory probiotics (lactic acid or butyrate producers), and TMV in the COVID-19 group suggests a complex and active lung microbiota disorder.
First Name
Last Name
Email Address
Comments
Security code


Abstract View: 1535

Your browser does not support the canvas element.


PDF Download: 999

Your browser does not support the canvas element.


Full Text View: 374

Your browser does not support the canvas element.

Submitted: 22 Aug 2020
Revision: 30 Oct 2020
Accepted: 14 Nov 2020
ePublished: 09 Oct 2021
EndNote EndNote

(Enw Format - Win & Mac)

BibTeX BibTeX

(Bib Format - Win & Mac)

Bookends Bookends

(Ris Format - Mac only)

EasyBib EasyBib

(Ris Format - Win & Mac)

Medlars Medlars

(Txt Format - Win & Mac)

Mendeley Web Mendeley Web
Mendeley Mendeley

(Ris Format - Win & Mac)

Papers Papers

(Ris Format - Win & Mac)

ProCite ProCite

(Ris Format - Win & Mac)

Reference Manager Reference Manager

(Ris Format - Win only)

Refworks Refworks

(Refworks Format - Win & Mac)

Zotero Zotero

(Ris Format - Firefox Plugin)