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Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity

The high morbidity of patients with coronavirus disease 2019 (COVID-19) brings on a panic around the world. COVID-19 is associated with sex bias, immune system, and preexisting chronic diseases. We analyzed the gene expression in patients with COVID-19 and in their microbiota in order to identify po...

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Autores principales: Gan, Hairun, Min, Jiumeng, Long, Haoyu, Li, Bing, Hu, Xinyan, Zhu, Zhongyi, Li, Luting, Wang, Tiancheng, He, Xiangyan, Cai, Jianxun, Zhang, Yongyu, He, Jianan, Chen, Luan, Wang, Dashuai, Su, Jintao, Zhao, Ni, Huang, Weile, Zhang, Jingjing, Su, Ziqi, Guo, Hui, Hu, Xiaojun, Mao, Junjie, Ma, Jinmin, Pang, Pengfei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9479730/
https://www.ncbi.nlm.nih.gov/pubmed/36118230
http://dx.doi.org/10.3389/fmicb.2022.959433
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author Gan, Hairun
Min, Jiumeng
Long, Haoyu
Li, Bing
Hu, Xinyan
Zhu, Zhongyi
Li, Luting
Wang, Tiancheng
He, Xiangyan
Cai, Jianxun
Zhang, Yongyu
He, Jianan
Chen, Luan
Wang, Dashuai
Su, Jintao
Zhao, Ni
Huang, Weile
Zhang, Jingjing
Su, Ziqi
Guo, Hui
Hu, Xiaojun
Mao, Junjie
Ma, Jinmin
Pang, Pengfei
author_facet Gan, Hairun
Min, Jiumeng
Long, Haoyu
Li, Bing
Hu, Xinyan
Zhu, Zhongyi
Li, Luting
Wang, Tiancheng
He, Xiangyan
Cai, Jianxun
Zhang, Yongyu
He, Jianan
Chen, Luan
Wang, Dashuai
Su, Jintao
Zhao, Ni
Huang, Weile
Zhang, Jingjing
Su, Ziqi
Guo, Hui
Hu, Xiaojun
Mao, Junjie
Ma, Jinmin
Pang, Pengfei
author_sort Gan, Hairun
collection PubMed
description The high morbidity of patients with coronavirus disease 2019 (COVID-19) brings on a panic around the world. COVID-19 is associated with sex bias, immune system, and preexisting chronic diseases. We analyzed the gene expression in patients with COVID-19 and in their microbiota in order to identify potential biomarkers to aid in disease management. A total of 129 RNA samples from nasopharyngeal, oropharyngeal, and anal swabs were collected and sequenced in a high-throughput manner. Several microbial strains differed in abundance between patients with mild or severe COVID-19. Microbial genera were more abundant in oropharyngeal swabs than in nasopharyngeal or anal swabs. Oropharyngeal swabs allowed more sensitive detection of the causative SARS-CoV-2. Microbial and human transcriptomes in swabs from patients with mild disease showed enrichment of genes involved in amino acid metabolism, or protein modification via small protein removal, and antibacterial defense responses, respectively, whereas swabs from patients with severe disease showed enrichment of genes involved in drug metabolism, or negative regulation of apoptosis execution, spermatogenesis, and immune system, respectively. Microbial abundance and diversity did not differ significantly between males and females. The expression of several host genes on the X chromosome correlated negatively with disease severity. In this way, our analyses identify host genes whose differential expression could aid in the diagnosis of COVID-19 and prediction of its severity via non-invasive assay.
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spelling pubmed-94797302022-09-17 Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity Gan, Hairun Min, Jiumeng Long, Haoyu Li, Bing Hu, Xinyan Zhu, Zhongyi Li, Luting Wang, Tiancheng He, Xiangyan Cai, Jianxun Zhang, Yongyu He, Jianan Chen, Luan Wang, Dashuai Su, Jintao Zhao, Ni Huang, Weile Zhang, Jingjing Su, Ziqi Guo, Hui Hu, Xiaojun Mao, Junjie Ma, Jinmin Pang, Pengfei Front Microbiol Microbiology The high morbidity of patients with coronavirus disease 2019 (COVID-19) brings on a panic around the world. COVID-19 is associated with sex bias, immune system, and preexisting chronic diseases. We analyzed the gene expression in patients with COVID-19 and in their microbiota in order to identify potential biomarkers to aid in disease management. A total of 129 RNA samples from nasopharyngeal, oropharyngeal, and anal swabs were collected and sequenced in a high-throughput manner. Several microbial strains differed in abundance between patients with mild or severe COVID-19. Microbial genera were more abundant in oropharyngeal swabs than in nasopharyngeal or anal swabs. Oropharyngeal swabs allowed more sensitive detection of the causative SARS-CoV-2. Microbial and human transcriptomes in swabs from patients with mild disease showed enrichment of genes involved in amino acid metabolism, or protein modification via small protein removal, and antibacterial defense responses, respectively, whereas swabs from patients with severe disease showed enrichment of genes involved in drug metabolism, or negative regulation of apoptosis execution, spermatogenesis, and immune system, respectively. Microbial abundance and diversity did not differ significantly between males and females. The expression of several host genes on the X chromosome correlated negatively with disease severity. In this way, our analyses identify host genes whose differential expression could aid in the diagnosis of COVID-19 and prediction of its severity via non-invasive assay. Frontiers Media S.A. 2022-09-02 /pmc/articles/PMC9479730/ /pubmed/36118230 http://dx.doi.org/10.3389/fmicb.2022.959433 Text en Copyright © 2022 Gan, Min, Long, Li, Hu, Zhu, Li, Wang, He, Cai, Zhang, He, Chen, Wang, Su, Zhao, Huang, Zhang, Su, Guo, Hu, Mao, Ma and Pang. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Gan, Hairun
Min, Jiumeng
Long, Haoyu
Li, Bing
Hu, Xinyan
Zhu, Zhongyi
Li, Luting
Wang, Tiancheng
He, Xiangyan
Cai, Jianxun
Zhang, Yongyu
He, Jianan
Chen, Luan
Wang, Dashuai
Su, Jintao
Zhao, Ni
Huang, Weile
Zhang, Jingjing
Su, Ziqi
Guo, Hui
Hu, Xiaojun
Mao, Junjie
Ma, Jinmin
Pang, Pengfei
Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title_full Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title_fullStr Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title_full_unstemmed Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title_short Microbial and human transcriptional profiling of coronavirus disease 2019 patients: Potential predictors of disease severity
title_sort microbial and human transcriptional profiling of coronavirus disease 2019 patients: potential predictors of disease severity
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9479730/
https://www.ncbi.nlm.nih.gov/pubmed/36118230
http://dx.doi.org/10.3389/fmicb.2022.959433
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