The fungal airway microbiome in cystic fibrosis and non-cystic fibrosis bronchiectasis.

Journal of Cystic Fibrosis : Official Journal of the European Cystic Fibrosis Society
Leah CuthbertsonMiriam F Moffatt

Abstract

The prevalence of fungal disease in cystic fibrosis (CF) and non-CF bronchiectasis is increasing and the clinical spectrum is widening. Poor sensitivity and a lack of standard diagnostic criteria renders interpretation of culture results challenging. In order to develop effective management strategies, a more accurate and comprehensive understanding of the airways fungal microbiome is required. The study aimed to use DNA sequences from sputum to assess the load and diversity of fungi in adults with CF and non-CF bronchiectasis. Next generation sequencing of the ITS2 region was used to examine fungal community composition (n = 176) by disease and underlying clinical subgroups including allergic bronchopulmonary aspergillosis, chronic necrotizing pulmonary aspergillosis, non-tuberculous mycobacteria, and fungal bronchitis. Patients with no known active fungal disease were included as disease controls. ITS2 sequencing greatly increased the detection of fungi from sputum. In patients with CF fungal diversity was lower, while burden was higher than those with non-CF bronchiectasis. The most common operational taxonomic unit (OTU) in patients with CF was Candida parapsilosis (20.4%), whereas in non-CF bronchiectasis sputum Candida al...Continue Reading

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Citations

Sep 15, 2020·Chest·Nur A'tikah Binte Mohamed AliSanjay H Chotirmall
Oct 17, 2020·The Clinical Respiratory Journal·Pei Yee TiewSanjay H Chotirmall
Mar 18, 2021·MBio·Fabrice Jean-PierreGeorge A O'Toole
Jun 3, 2021·Pathogens·T Spencer PooreEdith T Zemanick
Jan 2, 2022·BMJ Case Reports·Mary Bryson PiechowiakShalika Basnayake Katugaha

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Software Mentioned

BWA
DESeq2
R package Phyloseq
QIIME
indicspecies
vegan

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