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Critically ill patients with COVID-19 show lung fungal dysbiosis with reduced microbial diversity in patients colonized with Candida spp

Authors :
Elisa Viciani
Paolo Gaibani
Andrea Castagnetti
Andrea Liberatore
Michele Bartoletti
Pierluigi Viale
Tiziana Lazzarotto
Simone Ambretti
Russell Lewis
Monica Cricca
Source :
International Journal of Infectious Diseases. 117:233-240
Publication Year :
2022
Publisher :
Elsevier BV, 2022.

Abstract

The COVID-19 pandemic has intensified interest in how the infection affects the lung microbiome of critically ill patients and how it contributes to acute respiratory distress syndrome (ARDS). We aimed to characterize the lower respiratory tract mycobiome of critically ill patients with COVID-19 in comparison to patients without COVID-19.We performed an internal transcribed spacer 2 (ITS2) profiling with the Illumina MiSeq platform on 26 respiratory specimens from patients with COVID-19 as well as from 26 patients with non-COVID-19 pneumonia.Patients with COVID-19 were more likely to be colonized with Candida spp. ARDS was associated with lung dysbiosis characterized by a shift to Candida species colonization and a decrease of fungal diversity. We also observed higher bacterial phylogenetic distance among taxa in colonized patients with COVID-19. In patients with COVID-19 not colonized with Candida spp., ITS2 amplicon sequencing revealed an increase of Ascomycota unassigned spp. and 1 Aspergillus spp.-positive specimen. In addition, we found that corticosteroid therapy was frequently associated with positive Galactomannan cell wall component of Aspergillus spp. among patients with COVID-19.Our study underpins that ARDS in patients with COVID-19 is associated with lung dysbiosis and that an increased density of Ascomycota unassigned spp. is present in patients not colonized with Candida spp.

Details

ISSN :
12019712
Volume :
117
Database :
OpenAIRE
Journal :
International Journal of Infectious Diseases
Accession number :
edsair.doi.dedup.....6f71f7d7f5b81299e904bdc042047b12