Revised Definitions of Invasive Fungal Disease from the European Organization for Research and Treatment of Cancer/Invasive Fungal Infections Cooperative Group and the National Institute of Allergy and Infectious Diseases Mycoses Study Group (EORTC/MSG) Consensus Group, Clinical Infectious Diseases, vol.46, issue.12, pp.1813-1834, 2008. ,
DOI : 10.1086/588660
Epidemiological trends in invasive aspergillosis in France: the SAIF network (2005???2007), Clinical Microbiology and Infection, vol.17, issue.12, pp.1882-1891, 2005. ,
DOI : 10.1111/j.1469-0691.2011.03548.x
URL : https://hal.archives-ouvertes.fr/hal-00680990
Invasive infections due to filamentous fungi other than Aspergillus: epidemiology and determinants of mortality, Clinical Microbiology and Infection, vol.21, issue.5, pp.490-491, 2015. ,
DOI : 10.1016/j.cmi.2014.12.021
Clinical epidemiology of 960 patients with invasive aspergillosis from the PATH Alliance registry, Journal of Infection, vol.65, issue.5, pp.453-64, 2012. ,
DOI : 10.1016/j.jinf.2012.08.003
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi, Proceedings of the National Academy of Sciences, vol.109, issue.16, pp.6241-6247, 2012. ,
DOI : 10.1073/pnas.1117018109
Emerging fungal threats to animal, plant and ecosystem health, Nature, vol.3, issue.7393, pp.186-94, 2012. ,
DOI : 10.1038/nature10947
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3821985
A fatal case of disseminated aspergillosis caused by a non-sporulating strain of Aspergillus fumigatus, Journal of Clinical Pathology, vol.57, issue.9, pp.991-993, 2004. ,
DOI : 10.1136/jcp.2003.014449
ECIL-3 classical diagnostic procedures for the diagnosis of invasive fungal diseases in patients with leukaemia, Bone Marrow Transplantation, vol.106, issue.8, pp.1030-1075, 2012. ,
DOI : 10.1038/bmt.2011.246
AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS, PCR Protocols: A Guide to Methods and Applications, pp.315-337, 1990. ,
DOI : 10.1016/B978-0-12-372180-8.50042-1
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, Nucleic Acids Research, vol.22, issue.22, pp.4673-80, 1994. ,
DOI : 10.1093/nar/22.22.4673
Correlation between galactomannan antigen levels in serum and neutrophil counts in haematological patients with invasive aspergillosis, Clinical Microbiology and Infection, vol.15, issue.1, pp.81-87, 2009. ,
DOI : 10.1111/j.1469-0691.2008.02122.x
Invasive aspergillosis in allogeneic stem cell transplant recipients: changes in epidemiology and risk factors, Blood, vol.100, issue.13, pp.4358-66, 2002. ,
DOI : 10.1182/blood-2002-05-1496
Breakthrough invasive fungal disease in patients receiving posaconazole primary prophylaxis: a 4-year study, Clinical Microbiology and Infection, vol.20, issue.11, pp.952-961, 2014. ,
DOI : 10.1111/1469-0691.12688
Recognizing filamentous basidiomycetes as agents of human disease: A review, Medical Mycology, vol.52, issue.8, pp.782-97, 2014. ,
DOI : 10.1093/mmy/myu047
Molds: Hyalohyphomycosis, Phaeohyphomycosis, and Zygomycosis, Clinics in Chest Medicine, vol.30, issue.2, pp.337-53, 2009. ,
DOI : 10.1016/j.ccm.2009.02.009
Azole Preexposure Affects the Aspergillus fumigatus Population in Patients, Antimicrobial Agents and Chemotherapy, vol.56, issue.9, pp.4948-50, 2012. ,
DOI : 10.1128/AAC.05990-11
URL : https://hal.archives-ouvertes.fr/pasteur-01405250
Usefulness of genotyping with microsatellite markers to investigate hospital-acquired invasive aspergillosis, Journal of Hospital Infection, vol.42, issue.4, pp.321-328, 1999. ,
DOI : 10.1053/jhin.1998.0590
The human mycobiome in health and disease, Genome Medicine, vol.5, issue.7, p.63, 2013. ,
DOI : 10.1016/S1286-4579(00)00313-0
Characterization of the oral fungal microbiome (mycobiome) in healthy individuals Differences in fungi present in induced sputum samples from asthma patients and non-atopic controls: a community based case control study, PLoS Pathog BMC Infect Dis, vol.6, issue.13, p.69, 2010. ,
The Airway Microbiota in Cystic Fibrosis: A Complex Fungal and Bacterial Community???Implications for Therapeutic Management, PLoS ONE, vol.8, issue.Database issue, p.36313, 2012. ,
DOI : 10.1371/journal.pone.0036313.s009
URL : https://hal.archives-ouvertes.fr/hal-00806782
Lung-enriched Organisms and Aberrant Bacterial and Fungal Respiratory Microbiota after Lung Transplant, American Journal of Respiratory and Critical Care Medicine, vol.186, issue.6, pp.536-581, 2012. ,
DOI : 10.1164/rccm.201204-0693OC
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3480531
Significance of the isolation of Candida species from airway samples in critically ill patients: a prospective, autopsy study, Intensive Care Medicine, vol.72, issue.9, pp.1526-1557, 2009. ,
DOI : 10.1007/s00134-009-1482-8
Candida albicans Airway Exposure Primes the Lung Innate Immune Response against Pseudomonas aeruginosa Infection through Innate Lymphoid Cell Recruitment and Interleukin-22-Associated Mucosal Response, Infection and Immunity, vol.82, issue.1, pp.306-321, 2014. ,
DOI : 10.1128/IAI.01085-13
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3911865
Candida spp. airway colonization could promote antibiotic-resistant bacteria selection in patients with suspected ventilator-associated pneumonia, Intensive Care Medicine, vol.58, issue.8, pp.1272-1281, 2012. ,
DOI : 10.1007/s00134-012-2584-2
Role of the Mycobiome in Human Acute Graft-versus-Host Disease, Biology of Blood and Marrow Transplantation, vol.19, issue.2, pp.329-361, 2013. ,
DOI : 10.1016/j.bbmt.2012.11.008