Cargando…

Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation

New evidence strongly discloses the pathogenesis of host-associated microbiomes in respiratory diseases. The microbiome dysbiosis modulates the lung’s behavior and deteriorates the respiratory system’s effective functioning. Several exogenous and environmental factors influence the development of as...

Descripción completa

Detalles Bibliográficos
Autores principales: Sekaran, Karthik, Varghese, Rinku Polachirakkal, Doss C., George Priya, Alsamman, Alsamman M., Zayed, Hatem, El Allali, Achraf
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10434894/
https://www.ncbi.nlm.nih.gov/pubmed/37590197
http://dx.doi.org/10.1371/journal.pone.0289891
_version_ 1785092007575683072
author Sekaran, Karthik
Varghese, Rinku Polachirakkal
Doss C., George Priya
Alsamman, Alsamman M.
Zayed, Hatem
El Allali, Achraf
author_facet Sekaran, Karthik
Varghese, Rinku Polachirakkal
Doss C., George Priya
Alsamman, Alsamman M.
Zayed, Hatem
El Allali, Achraf
author_sort Sekaran, Karthik
collection PubMed
description New evidence strongly discloses the pathogenesis of host-associated microbiomes in respiratory diseases. The microbiome dysbiosis modulates the lung’s behavior and deteriorates the respiratory system’s effective functioning. Several exogenous and environmental factors influence the development of asthma and chronic lung disease. The relationship between asthma and microbes is reasonably understood and yet to be investigated for more substantiation. The comorbidities such as SARS-CoV-2 further exacerbate the health condition of the asthma-affected individuals. This study examines the raw 16S rRNA sequencing data collected from the saliva and nasopharyngeal regions of pre-existing asthma (23) and non-asthma patients (82) infected by SARS-CoV-2 acquired from the public database. The experiment is designed in a two-fold pattern, analyzing the associativity between the samples collected from the saliva and nasopharyngeal regions. Later, investigates the microbial pathogenesis, its role in exacerbations of respiratory disease, and deciphering the diagnostic biomarkers of the target condition. LEfSE analysis identified that Actinobacteriota and Pseudomonadota are enriched in the SARS-CoV-2-non-asthma group and SARS-CoV-2 asthma group of the salivary microbiome, respectively. Random forest algorithm is trained with amplicon sequence variants (ASVs) attained better classification accuracy, ROC scores on nasal (84% and 87%) and saliva datasets (93% and 97.5%). Rothia mucilaginosa is less abundant, and Corynebacterium tuberculostearicum showed higher abundance in the SARS-CoV-2 asthma group. The increase in Streptococcus at the genus level in the SARS-CoV-2-asthma group is evidence of discriminating the subgroups.
format Online
Article
Text
id pubmed-10434894
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher Public Library of Science
record_format MEDLINE/PubMed
spelling pubmed-104348942023-08-18 Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation Sekaran, Karthik Varghese, Rinku Polachirakkal Doss C., George Priya Alsamman, Alsamman M. Zayed, Hatem El Allali, Achraf PLoS One Research Article New evidence strongly discloses the pathogenesis of host-associated microbiomes in respiratory diseases. The microbiome dysbiosis modulates the lung’s behavior and deteriorates the respiratory system’s effective functioning. Several exogenous and environmental factors influence the development of asthma and chronic lung disease. The relationship between asthma and microbes is reasonably understood and yet to be investigated for more substantiation. The comorbidities such as SARS-CoV-2 further exacerbate the health condition of the asthma-affected individuals. This study examines the raw 16S rRNA sequencing data collected from the saliva and nasopharyngeal regions of pre-existing asthma (23) and non-asthma patients (82) infected by SARS-CoV-2 acquired from the public database. The experiment is designed in a two-fold pattern, analyzing the associativity between the samples collected from the saliva and nasopharyngeal regions. Later, investigates the microbial pathogenesis, its role in exacerbations of respiratory disease, and deciphering the diagnostic biomarkers of the target condition. LEfSE analysis identified that Actinobacteriota and Pseudomonadota are enriched in the SARS-CoV-2-non-asthma group and SARS-CoV-2 asthma group of the salivary microbiome, respectively. Random forest algorithm is trained with amplicon sequence variants (ASVs) attained better classification accuracy, ROC scores on nasal (84% and 87%) and saliva datasets (93% and 97.5%). Rothia mucilaginosa is less abundant, and Corynebacterium tuberculostearicum showed higher abundance in the SARS-CoV-2 asthma group. The increase in Streptococcus at the genus level in the SARS-CoV-2-asthma group is evidence of discriminating the subgroups. Public Library of Science 2023-08-17 /pmc/articles/PMC10434894/ /pubmed/37590197 http://dx.doi.org/10.1371/journal.pone.0289891 Text en © 2023 Sekaran et al https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Sekaran, Karthik
Varghese, Rinku Polachirakkal
Doss C., George Priya
Alsamman, Alsamman M.
Zayed, Hatem
El Allali, Achraf
Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title_full Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title_fullStr Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title_full_unstemmed Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title_short Airway and Oral microbiome profiling of SARS-CoV-2 infected asthma and non-asthma cases revealing alterations–A pulmonary microbial investigation
title_sort airway and oral microbiome profiling of sars-cov-2 infected asthma and non-asthma cases revealing alterations–a pulmonary microbial investigation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10434894/
https://www.ncbi.nlm.nih.gov/pubmed/37590197
http://dx.doi.org/10.1371/journal.pone.0289891
work_keys_str_mv AT sekarankarthik airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation
AT vargheserinkupolachirakkal airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation
AT dosscgeorgepriya airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation
AT alsammanalsammanm airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation
AT zayedhatem airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation
AT elallaliachraf airwayandoralmicrobiomeprofilingofsarscov2infectedasthmaandnonasthmacasesrevealingalterationsapulmonarymicrobialinvestigation