Sibley CD, Parkins MD, Rabin HR, Duan K, Norgaard JC, Surette MG: A polymicrobial perspective of pulmonary infections exposes an enigmatic pathogen in cystic fibrosis patients. Proc Natl Acad Sci U S A 2008, 105:15070–15075.PubMedCentralPubMedCrossRef 23. Foweraker JE, Wat D: Microbiology of non-CF bronchiectasis. Eur Respir Soc Mono 2011, 52:68–96. 24. Weinreich UM, Korsgaard J: Bacterial colonisation of lower airways in health and chronic lung disease. Clin Respir J 2008, 2:116–122.PubMedCrossRef 25. Stressmann FA, Rogers GB, Marsh P, Lilley AK, Daniels TW: Does bacterial density in cystic fibrosis sputum increase prior to pulmonary exacerbation?

SCH727965 in vitro J Cyst Fibros 2011, 10:357–365.PubMedCrossRef 26. Anwar GA, Bourke SC, Afolabi G, Middleton P, Ward C, Rutherford RM: Effects of long-term low-dose azithromycin in patients with non-CF bronchiectasis. Respir Med 2008, 102:1494–1496.PubMedCrossRef 27. Chalmers JD, Smith MP, McHugh BJ, Doherty C, Govan JR, Hill AT:

Short- and long-term antibiotic treatment reduces airway and systemic inflammation in non-cystic fibrosis bronchiectasis. Am J Respir Crit Care Med 1867, 2012:657–665. 28. Pasteur MC, Bilton D, Hill AT, British Thoracic Society Non-CF Bronchiectasis Guideline Group: British Thoracic Society guideline for non-CF PI3K inhibitor bronchiectasis. Thorax 2010, 65:577.PubMedCrossRef 29. van Veen SQ, Claas EC, Kuijper EJ: High-throughput identification of bacteria and yeast by matrix-assisted laser desorption ionization-time of flight mass spectrometry in conventional medical microbiology laboratories. J Clin Microbiol 2010, 48:900–907.PubMedCentralPubMedCrossRef 30. Muyzer G, de Waal EC, Uitterlinden

AG: Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified selleck chemicals llc genes coding for 16S rRNA. Appl Environ Microbiol 1993, 59:695–700.PubMedCentralPubMed 31. Dowd SE, Sun Y, Secor PR, Rhoads DD, Wolcott BM, James GA, Wolcott RD: Survey of bacterial diversity in chronic wounds using pyrosequencing, DGGE, and full ribosome shotgun sequencing. BMC Microbiol 2008, 8:43.PubMedCentralPubMedCrossRef 32. Caporaso JG, Kuczynski J, Stombaugh J: QIIME allows analysis of high-throughput community sequencing data. Nature 2010, 7:335–336. 33. Edgar RC: Search and clustering orders of magnitude faster than BLAST. LY2874455 Bioinformatics 2010, 26:2460–2461.PubMedCrossRef 34. Caporaso JG, Bittinger K: PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics 2010, 26:266–267.PubMedCentralPubMedCrossRef 35. Wang Q, Garrity GM, Tiedje JM, Cole JR: Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 2007, 73:5261–5267.PubMedCentralPubMedCrossRef 36. Price MN, Dehal PS, Arkin AP: FastTree 2-approximately maximum-likelihood trees for large alignments. PLoS One 2010, 5:e9490.PubMedCentralPubMedCrossRef 37.