The lower respiratory tract microbiome of critically ill patients with COVID-19

Abstract COVID-19 infection may predispose to secondary bacterial infection which is associated with poor clinical outcome especially among critically ill patients. We aimed to characterize the lower respiratory tract bacterial microbiome of COVID-19 critically ill patients in comparison to COVID-19...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Paolo Gaibani, Elisa Viciani, Michele Bartoletti, Russell E. Lewis, Tommaso Tonetti, Donatella Lombardo, Andrea Castagnetti, Federica Bovo, Clara Solera Horna, Marco Ranieri, Pierluigi Viale, Maria Carla Re, Simone Ambretti
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e865db79ecc6435cb50c8af93034831e
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:e865db79ecc6435cb50c8af93034831e
record_format	dspace
spelling	oai:doaj.org-article:e865db79ecc6435cb50c8af93034831e2021-12-02T16:50:27ZThe lower respiratory tract microbiome of critically ill patients with COVID-1910.1038/s41598-021-89516-62045-2322https://doaj.org/article/e865db79ecc6435cb50c8af93034831e2021-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-89516-6https://doaj.org/toc/2045-2322Abstract COVID-19 infection may predispose to secondary bacterial infection which is associated with poor clinical outcome especially among critically ill patients. We aimed to characterize the lower respiratory tract bacterial microbiome of COVID-19 critically ill patients in comparison to COVID-19-negative patients. We performed a 16S rRNA profiling on bronchoalveolar lavage (BAL) samples collected between April and May 2020 from 24 COVID-19 critically ill subjects and 24 patients with non-COVID-19 pneumonia. Lung microbiome of critically ill patients with COVID-19 was characterized by a different bacterial diversity (PERMANOVA on weighted and unweighted UniFrac Pr(> F) = 0.001) compared to COVID-19-negative patients with pneumonia. Pseudomonas alcaligenes, Clostridium hiranonis, Acinetobacter schindleri, Sphingobacterium spp., Acinetobacter spp. and Enterobacteriaceae, characterized lung microbiome of COVID-19 critically ill patients (LDA score > 2), while COVID-19-negative patients showed a higher abundance of lung commensal bacteria (Haemophilus influenzae, Veillonella dispar, Granulicatella spp., Porphyromonas spp., and Streptococcus spp.). The incidence rate (IR) of infections during COVID-19 pandemic showed a significant increase of carbapenem-resistant Acinetobacter baumannii (CR-Ab) infection. In conclusion, SARS-CoV-2 infection and antibiotic pressure may predispose critically ill patients to bacterial superinfection due to opportunistic multidrug resistant pathogens.Paolo GaibaniElisa VicianiMichele BartolettiRussell E. LewisTommaso TonettiDonatella LombardoAndrea CastagnettiFederica BovoClara Solera HornaMarco RanieriPierluigi VialeMaria Carla ReSimone AmbrettiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Paolo Gaibani Elisa Viciani Michele Bartoletti Russell E. Lewis Tommaso Tonetti Donatella Lombardo Andrea Castagnetti Federica Bovo Clara Solera Horna Marco Ranieri Pierluigi Viale Maria Carla Re Simone Ambretti The lower respiratory tract microbiome of critically ill patients with COVID-19
description	Abstract COVID-19 infection may predispose to secondary bacterial infection which is associated with poor clinical outcome especially among critically ill patients. We aimed to characterize the lower respiratory tract bacterial microbiome of COVID-19 critically ill patients in comparison to COVID-19-negative patients. We performed a 16S rRNA profiling on bronchoalveolar lavage (BAL) samples collected between April and May 2020 from 24 COVID-19 critically ill subjects and 24 patients with non-COVID-19 pneumonia. Lung microbiome of critically ill patients with COVID-19 was characterized by a different bacterial diversity (PERMANOVA on weighted and unweighted UniFrac Pr(> F) = 0.001) compared to COVID-19-negative patients with pneumonia. Pseudomonas alcaligenes, Clostridium hiranonis, Acinetobacter schindleri, Sphingobacterium spp., Acinetobacter spp. and Enterobacteriaceae, characterized lung microbiome of COVID-19 critically ill patients (LDA score > 2), while COVID-19-negative patients showed a higher abundance of lung commensal bacteria (Haemophilus influenzae, Veillonella dispar, Granulicatella spp., Porphyromonas spp., and Streptococcus spp.). The incidence rate (IR) of infections during COVID-19 pandemic showed a significant increase of carbapenem-resistant Acinetobacter baumannii (CR-Ab) infection. In conclusion, SARS-CoV-2 infection and antibiotic pressure may predispose critically ill patients to bacterial superinfection due to opportunistic multidrug resistant pathogens.
format	article
author	Paolo Gaibani Elisa Viciani Michele Bartoletti Russell E. Lewis Tommaso Tonetti Donatella Lombardo Andrea Castagnetti Federica Bovo Clara Solera Horna Marco Ranieri Pierluigi Viale Maria Carla Re Simone Ambretti
author_facet	Paolo Gaibani Elisa Viciani Michele Bartoletti Russell E. Lewis Tommaso Tonetti Donatella Lombardo Andrea Castagnetti Federica Bovo Clara Solera Horna Marco Ranieri Pierluigi Viale Maria Carla Re Simone Ambretti
author_sort	Paolo Gaibani
title	The lower respiratory tract microbiome of critically ill patients with COVID-19
title_short	The lower respiratory tract microbiome of critically ill patients with COVID-19
title_full	The lower respiratory tract microbiome of critically ill patients with COVID-19
title_fullStr	The lower respiratory tract microbiome of critically ill patients with COVID-19
title_full_unstemmed	The lower respiratory tract microbiome of critically ill patients with COVID-19
title_sort	lower respiratory tract microbiome of critically ill patients with covid-19
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/e865db79ecc6435cb50c8af93034831e
work_keys_str_mv	AT paologaibani thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT elisaviciani thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT michelebartoletti thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT russellelewis thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT tommasotonetti thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT donatellalombardo thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT andreacastagnetti thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT federicabovo thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT clarasolerahorna thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT marcoranieri thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT pierluigiviale thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT mariacarlare thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT simoneambretti thelowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT paologaibani lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT elisaviciani lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT michelebartoletti lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT russellelewis lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT tommasotonetti lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT donatellalombardo lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT andreacastagnetti lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT federicabovo lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT clarasolerahorna lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT marcoranieri lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT pierluigiviale lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT mariacarlare lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19 AT simoneambretti lowerrespiratorytractmicrobiomeofcriticallyillpatientswithcovid19
_version_	1718383072672481280

The lower respiratory tract microbiome of critically ill patients with COVID-19

Ejemplares similares