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The upper and lower respiratory tract microbiome in severe aspiration pneumonia

Uncertainty persists whether anaerobic bacteria represent important pathogens in aspiration pneumonia. In a nested case-control study of mechanically ventilated patients classified as macro-aspiration pneumonia (MAsP, n = 56), non-macro-aspiration pneumonia (NonMAsP, n = 91), and uninfected controls...

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Autores principales: Kitsios, Georgios D., Nguyen, Vi D., Sayed, Khaled, Al-Yousif, Nameer, Schaefer, Caitlin, Shah, Faraaz A., Bain, William, Yang, Haopu, Fitch, Adam, Li, Kelvin, Wang, Xiaohong, Qin, Shulin, Gentry, Heather, Zhang, Yingze, Varon, Jack, Arciniegas Rubio, Antonio, Englert, Joshua A., Baron, Rebecca M., Lee, Janet S., Methé, Barbara, Benos, Panayiotis V., Morris, Alison, McVerry, Bryan J.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10212968/
https://www.ncbi.nlm.nih.gov/pubmed/37250794
http://dx.doi.org/10.1016/j.isci.2023.106832
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author Kitsios, Georgios D.
Nguyen, Vi D.
Sayed, Khaled
Al-Yousif, Nameer
Schaefer, Caitlin
Shah, Faraaz A.
Bain, William
Yang, Haopu
Fitch, Adam
Li, Kelvin
Wang, Xiaohong
Qin, Shulin
Gentry, Heather
Zhang, Yingze
Varon, Jack
Arciniegas Rubio, Antonio
Englert, Joshua A.
Baron, Rebecca M.
Lee, Janet S.
Methé, Barbara
Benos, Panayiotis V.
Morris, Alison
McVerry, Bryan J.
author_facet Kitsios, Georgios D.
Nguyen, Vi D.
Sayed, Khaled
Al-Yousif, Nameer
Schaefer, Caitlin
Shah, Faraaz A.
Bain, William
Yang, Haopu
Fitch, Adam
Li, Kelvin
Wang, Xiaohong
Qin, Shulin
Gentry, Heather
Zhang, Yingze
Varon, Jack
Arciniegas Rubio, Antonio
Englert, Joshua A.
Baron, Rebecca M.
Lee, Janet S.
Methé, Barbara
Benos, Panayiotis V.
Morris, Alison
McVerry, Bryan J.
author_sort Kitsios, Georgios D.
collection PubMed
description Uncertainty persists whether anaerobic bacteria represent important pathogens in aspiration pneumonia. In a nested case-control study of mechanically ventilated patients classified as macro-aspiration pneumonia (MAsP, n = 56), non-macro-aspiration pneumonia (NonMAsP, n = 91), and uninfected controls (n = 11), we profiled upper (URT) and lower respiratory tract (LRT) microbiota with bacterial 16S rRNA gene sequencing, measured plasma host-response biomarkers, analyzed bacterial communities by diversity and oxygen requirements, and performed unsupervised clustering with Dirichlet Multinomial Models (DMM). MAsP and NonMAsP patients had indistinguishable microbiota profiles by alpha diversity and oxygen requirements with similar host-response profiles and 60-day survival. Unsupervised DMM clusters revealed distinct bacterial clusters in the URT and LRT, with low-diversity clusters enriched for facultative anaerobes and typical pathogens, associated with higher plasma levels of SPD and sCD14 and worse 60-day survival. The predictive inter-patient variability in these bacterial profiles highlights the importance of microbiome study in patient sub-phenotyping and precision medicine approaches for severe pneumonia.
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spelling pubmed-102129682023-05-27 The upper and lower respiratory tract microbiome in severe aspiration pneumonia Kitsios, Georgios D. Nguyen, Vi D. Sayed, Khaled Al-Yousif, Nameer Schaefer, Caitlin Shah, Faraaz A. Bain, William Yang, Haopu Fitch, Adam Li, Kelvin Wang, Xiaohong Qin, Shulin Gentry, Heather Zhang, Yingze Varon, Jack Arciniegas Rubio, Antonio Englert, Joshua A. Baron, Rebecca M. Lee, Janet S. Methé, Barbara Benos, Panayiotis V. Morris, Alison McVerry, Bryan J. iScience Article Uncertainty persists whether anaerobic bacteria represent important pathogens in aspiration pneumonia. In a nested case-control study of mechanically ventilated patients classified as macro-aspiration pneumonia (MAsP, n = 56), non-macro-aspiration pneumonia (NonMAsP, n = 91), and uninfected controls (n = 11), we profiled upper (URT) and lower respiratory tract (LRT) microbiota with bacterial 16S rRNA gene sequencing, measured plasma host-response biomarkers, analyzed bacterial communities by diversity and oxygen requirements, and performed unsupervised clustering with Dirichlet Multinomial Models (DMM). MAsP and NonMAsP patients had indistinguishable microbiota profiles by alpha diversity and oxygen requirements with similar host-response profiles and 60-day survival. Unsupervised DMM clusters revealed distinct bacterial clusters in the URT and LRT, with low-diversity clusters enriched for facultative anaerobes and typical pathogens, associated with higher plasma levels of SPD and sCD14 and worse 60-day survival. The predictive inter-patient variability in these bacterial profiles highlights the importance of microbiome study in patient sub-phenotyping and precision medicine approaches for severe pneumonia. Elsevier 2023-05-06 /pmc/articles/PMC10212968/ /pubmed/37250794 http://dx.doi.org/10.1016/j.isci.2023.106832 Text en © 2023 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Article
Kitsios, Georgios D.
Nguyen, Vi D.
Sayed, Khaled
Al-Yousif, Nameer
Schaefer, Caitlin
Shah, Faraaz A.
Bain, William
Yang, Haopu
Fitch, Adam
Li, Kelvin
Wang, Xiaohong
Qin, Shulin
Gentry, Heather
Zhang, Yingze
Varon, Jack
Arciniegas Rubio, Antonio
Englert, Joshua A.
Baron, Rebecca M.
Lee, Janet S.
Methé, Barbara
Benos, Panayiotis V.
Morris, Alison
McVerry, Bryan J.
The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title_full The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title_fullStr The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title_full_unstemmed The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title_short The upper and lower respiratory tract microbiome in severe aspiration pneumonia
title_sort upper and lower respiratory tract microbiome in severe aspiration pneumonia
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10212968/
https://www.ncbi.nlm.nih.gov/pubmed/37250794
http://dx.doi.org/10.1016/j.isci.2023.106832
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