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- Title
Respiratory mycobiome and suggestion of inter-kingdom network during acute pulmonary exacerbation in cystic fibrosis.
- Authors
Soret, Perrine; Vandenborght, Louise-Eva; Francis, Florence; Coron, Noémie; Enaud, Raphael; Avalos, Marta; Schaeverbeke, Thierry; Berger, Patrick; Fayon, Michael; Thiebaut, Rodolphe; Delhaes, Laurence; The Mucofong Investigation Group; Chabe, Magali; Audebert, Christophe; Durand-Joly, Isabelle; Boldron, Amale; Pin, Isabelle; Cognet, Odile; Pelloux, Herve; Prevotat, Anne
- Abstract
Lung infections play a critical role in cystic fibrosis (CF) pathogenesis. CF respiratory tract is now considered to be a polymicrobial niche and advances in high-throughput sequencing allowed to analyze its microbiota and mycobiota. However, no NGS studies until now have characterized both communities during CF pulmonary exacerbation (CFPE). Thirty-three sputa isolated from patients with and without CFPE were used for metagenomic high-throughput sequencing targeting 16S and ITS2 regions of bacterial and fungal rRNA. We built inter-kingdom network and adapted Phy-Lasso method to highlight correlations in compositional data. The decline in respiratory function was associated with a decrease in bacterial diversity. The inter-kingdom network revealed three main clusters organized around Aspergillus, Candida, and Scedosporium genera. Using Phy-Lasso method, we identified Aspergillus and Malassezia as relevantly associated with CFPE, and Scedosporium plus Pseudomonas with a decline in lung function. We corroborated in vitro the cross-domain interactions between Aspergillus and Streptococcus predicted by the correlation network. For the first time, we included documented mycobiome data into a version of the ecological Climax/Attack model that opens new lines of thoughts about the physiopathology of CF lung disease and future perspectives to improve its therapeutic management.
- Subjects
LUNG infections; MYCOBIOME; DISEASE exacerbation; CYSTIC fibrosis; RIBOSOMAL RNA
- Publication
Scientific Reports, 2020, Vol 10, Issue 1, p1
- ISSN
2045-2322
- Publication type
Article
- DOI
10.1038/s41598-020-60015-4