Respiratory mycobiome and suggestion of inter-kingdom network during acute pulmonary exacerbation in cystic fibrosis
| Autor: | Perrine, Soret, Louise-Eva, Vandenborght, Florence, Francis, Noémie, Coron, Raphael, Enaud, Marta, Avalos, Thierry, Schaeverbeke, Patrick, Berger, Michael, Fayon, Rodolphe, Thiebaut, Laurence, Delhaes, Dominique, Turck |
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| Přispěvatelé: | Bordeaux population health (BPH), Université de Bordeaux (UB)-Institut de Santé Publique, d'Épidémiologie et de Développement (ISPED)-Institut National de la Santé et de la Recherche Médicale (INSERM), Statistics In System biology and Translational Medicine (SISTM), Inria Bordeaux - Sud-Ouest, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)- Bordeaux population health (BPH), Université de Bordeaux (UB)-Institut de Santé Publique, d'Épidémiologie et de Développement (ISPED)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Bordeaux (UB)-Institut de Santé Publique, d'Épidémiologie et de Développement (ISPED)-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre de recherche Cardio-Thoracique de Bordeaux [Bordeaux] (CRCTB), Université Bordeaux Segalen - Bordeaux 2-CHU Bordeaux [Bordeaux]-Institut National de la Santé et de la Recherche Médicale (INSERM), Genoscreen [Lille], Institut Pasteur de Lille, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), CHU Bordeaux [Bordeaux], Aquitaine’s Care and Research organisation for inflammatory and Immune-Mediated diseases [CHU Bordeaux] (FHU ACRONIM), CIC Bordeaux, Université Bordeaux Segalen - Bordeaux 2-Institut National de la Santé et de la Recherche Médicale (INSERM), Université de Lille, Centre Hospitalier Régional Universitaire [Lille] (CHRU Lille), Laurence Delhaes has received a research grant from 'Vaincre La Mucoviscidose' (RF20160501626), she is member of ESGHAMI and NGS-MycA working groups of ESCMID and ECCM respectively. Genoscreen Company provided support in the form of Louise-Eva Vandenborght’s salary (AST CT 2016-394)., The Mucofong Investigation Group, Epidémiologie et Biostatistique [Bordeaux], Université Bordeaux Segalen - Bordeaux 2-Institut de Santé Publique, d'Épidémiologie et de Développement (ISPED)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Bordeaux Segalen - Bordeaux 2-Institut de Santé Publique, d'Épidémiologie et de Développement (ISPED)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Inria Bordeaux - Sud-Ouest, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), Bodescot, Myriam |
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Male Mycobiota Cystic Fibrosis lcsh:Medicine Cystic fibrosis [SDV.MHEP.PSR]Life Sciences [q-bio]/Human health and pathology/Pulmonology and respiratory tract 0302 clinical medicine RNA Ribosomal 16S Respiratory function lcsh:Science Lung Respiratory Tract Infections [SDV.MP.MYC]Life Sciences [q-bio]/Microbiology and Parasitology/Mycology Candida Multidisciplinary biology Microbiota High-Throughput Nucleotide Sequencing SISTM medicine.anatomical_structure Aspergillus Acute Disease Disease Progression Female Malassezia Infection Adult Article Microbiology Scedosporium 03 medical and health sciences Young Adult Pseudomonas medicine Humans lcsh:R Sputum Sequence Analysis DNA Translational research biology.organism_classification medicine.disease [SDV.MP.MYC] Life Sciences [q-bio]/Microbiology and Parasitology/Mycology 030104 developmental biology 030228 respiratory system [SDV.MHEP.PSR] Life Sciences [q-bio]/Human health and pathology/Pulmonology and respiratory tract lcsh:Q Respiratory tract |
| Zdroj: | Scientific Reports Scientific Reports, Nature Publishing Group, 2020, 10 (1), pp.3589. ⟨10.1038/s41598-020-60015-4⟩ Scientific Reports, 2020, 10 (1), pp.3589. ⟨10.1038/s41598-020-60015-4⟩ Scientific Reports, Vol 10, Iss 1, Pp 1-14 (2020) |
| ISSN: | 2045-2322 |
| DOI: | 10.1038/s41598-020-60015-4⟩ |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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