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Volumn 91, Issue 1078, 2015, Pages 463-470

Respiratory microbiota: Addressing clinical questions, informing clinical practice

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBIOTIC RESISTANCE; ANTIBIOTIC THERAPY; BACTERIAL VIRULENCE; BACTERIUM CONTAMINATION; BIOASSAY; BRONCHIECTASIS; CHRONIC OBSTRUCTIVE LUNG DISEASE; CLINICAL PRACTICE; DISEASE COURSE; DISEASE SEVERITY; DNA SEQUENCE; ENVIRONMENTAL FACTOR; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; HAEMOPHILUS INFLUENZAE; HUMAN; LUNG DISEASE; METABOLOMICS; MICROBIAL COLONIZATION; MICROFLORA; PATIENT CARE; PATIENT GUIDANCE; PHYLOGENY; PHYSICAL CHEMISTRY; RESPIRATORY TRACT DISEASE; RESPIRATORY TRACT INFECTION; REVIEW; SPECIES DISTRIBUTION; TUBERCULOSIS;

EID: 84940031606     PISSN: 00325473     EISSN: 14690756     Source Type: Journal    
DOI: 10.1136/postgradmedj-2014-205826rep     Document Type: Review
Times cited : (2)

References (40)
  • 1
    • 84893506260 scopus 로고    scopus 로고
    • Lung microbiome for clinicians. New discoveries about bugs in healthy and diseased lungs
    • Segal LN, Rom WN, Weiden MD. Lung microbiome for clinicians. New discoveries about bugs in healthy and diseased lungs. Ann Am Thorac Soc 2014; 11: 108-16.
    • (2014) Ann Am Thorac Soc , vol.11 , pp. 108-116
    • Segal, L.N.1    Rom, W.N.2    Weiden, M.D.3
  • 3
    • 8644256676 scopus 로고    scopus 로고
    • Characterization of bacterial community diversity in cystic fibrosis lung infections by use of 16S ribosomal DNA terminal restriction fragment length polymorphism profiling
    • Rogers GB, Carroll MP, Serisier DJ, et al. Characterization of bacterial community diversity in cystic fibrosis lung infections by use of 16S ribosomal DNA terminal restriction fragment length polymorphism profiling. J Clin Microbiol 2004; 42: 5176-83.
    • (2004) J Clin Microbiol , vol.42 , pp. 5176-5183
    • Rogers, G.B.1    Carroll, M.P.2    Serisier, D.J.3
  • 4
    • 42949105490 scopus 로고    scopus 로고
    • Detection of anaerobic bacteria in high numbers in sputum from patients with cystic fibrosis
    • Tunney MM, Field TR, Moriarty TF, et al. Detection of anaerobic bacteria in high numbers in sputum from patients with cystic fibrosis. Am J Respir Crit Care Med 2008; 177: 995-1001.
    • (2008) Am J Respir Crit Care Med , vol.177 , pp. 995-1001
    • Tunney, M.M.1    Field, T.R.2    Moriarty, T.F.3
  • 5
    • 84903478837 scopus 로고    scopus 로고
    • A novel microbiota stratification system predicts future exacerbations in bronchiectasis
    • Rogers GB, Zain NMM, Bruce KD, et al. A novel microbiota stratification system predicts future exacerbations in bronchiectasis. Ann Am Thorac Soc 2014; 11: 496-503.
    • (2014) Ann Am Thorac Soc , vol.11 , pp. 496-503
    • Rogers, G.B.1    Zain, N.M.M.2    Bruce, K.D.3
  • 6
    • 55449135547 scopus 로고    scopus 로고
    • Discerning the complexity of community interactions using a Drosophila model of polymicrobial infections
    • Sibley CD, Duan K, Fischer C, et al. Discerning the complexity of community interactions using a Drosophila model of polymicrobial infections. PLoS Pathog 2008; 4: e1000184.
    • (2008) PLoS Pathog , vol.4
    • Sibley, C.D.1    Duan, K.2    Fischer, C.3
  • 7
    • 84878450664 scopus 로고    scopus 로고
    • Interpreting infective microbiota: The importance of an ecological perspective
    • Rogers GB, Hoffman LR, Carroll MP, et al. Interpreting infective microbiota: the importance of an ecological perspective. Trends Microbiol 2013; 21: 271-6.
    • (2013) Trends Microbiol , vol.21 , pp. 271-276
    • Rogers, G.B.1    Hoffman, L.R.2    Carroll, M.P.3
  • 8
    • 84877918651 scopus 로고    scopus 로고
    • Lung microbiota and bacterial abundance in patients with bronchiectasis when clinically stable and during exacerbation
    • Tunney MM, Einarsson GG, Wei L, et al. Lung microbiota and bacterial abundance in patients with bronchiectasis when clinically stable and during exacerbation. Am J Respir Crit Care Med 2013; 187: 1118-26.
    • (2013) Am J Respir Crit Care Med , vol.187 , pp. 1118-1126
    • Tunney, M.M.1    Einarsson, G.G.2    Wei, L.3
  • 9
    • 84896368054 scopus 로고    scopus 로고
    • Modeling the impact of antibiotic exposure on human microbiota
    • Zhao J, Murray S, Lipuma JJ. Modeling the impact of antibiotic exposure on human microbiota. Sci Rep 2014; 4: 4345.
    • (2014) Sci Rep , vol.4 , pp. 4345
    • Zhao, J.1    Murray, S.2    Lipuma, J.J.3
  • 10
    • 77953554827 scopus 로고    scopus 로고
    • Relationship between cystic fibrosis respiratory tract bacterial communities and age, genotype, antibiotics and Pseudomonas aeruginosa
    • Klepac-Ceraj V, Lemon KP, Martin TR, et al. Relationship between cystic fibrosis respiratory tract bacterial communities and age, genotype, antibiotics and Pseudomonas aeruginosa. Environ Microbiol 2010; 12: 1293-303.
    • (2010) Environ Microbiol , vol.12 , pp. 1293-1303
    • Klepac-Ceraj, V.1    Lemon, K.P.2    Martin, T.R.3
  • 11
    • 84888884169 scopus 로고    scopus 로고
    • High throughput sequencing methods and analysis for microbiome research
    • Di Bella JM, Bao Y, Gloor GB, et al. High throughput sequencing methods and analysis for microbiome research. J Microbiol Methods 2013; 95: 401-14.
    • (2013) J Microbiol Methods , vol.95 , pp. 401-414
    • Di Bella, J.M.1    Bao, Y.2    Gloor, G.B.3
  • 12
    • 84865285995 scopus 로고    scopus 로고
    • Direct sampling of cystic fibrosis lungs indicates that DNA-based analyses of upper-airway specimens can misrepresent lung microbiota
    • Goddard AF, Staudinger BJ, Dowd SE, et al. Direct sampling of cystic fibrosis lungs indicates that DNA-based analyses of upper-airway specimens can misrepresent lung microbiota. Proc Natl Acad Sci USA 2012; 109: 13769-74.
    • (2012) Proc Natl Acad Sci USA , vol.109 , pp. 13769-13774
    • Goddard, A.F.1    Staudinger, B.J.2    Dowd, S.E.3
  • 13
    • 73949088945 scopus 로고    scopus 로고
    • Determining CF lung microbiology: A comparison of spontaneous and serially induced sputum samples using T-RFLP profiling
    • Rogers GB, Skelton S, Serisier DJ, et al. Determining CF lung microbiology: a comparison of spontaneous and serially induced sputum samples using T-RFLP profiling. J Clin Microbiol 2010; 48: 78-86.
    • (2010) J Clin Microbiol , vol.48 , pp. 78-86
    • Rogers, G.B.1    Skelton, S.2    Serisier, D.J.3
  • 14
    • 84859726078 scopus 로고    scopus 로고
    • Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples
    • Willner D, Daly J, Whiley D, et al. Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples. PLoS ONE 2012; 7: e34605.
    • (2012) PLoS ONE , vol.7
    • Willner, D.1    Daly, J.2    Whiley, D.3
  • 15
    • 84863229459 scopus 로고    scopus 로고
    • Impact of enhanced Staphylococcus DNA extraction on microbial community measures in cystic fibrosis sputum
    • Zhao J, Carmody LA, Kalikin LM, et al. Impact of enhanced Staphylococcus DNA extraction on microbial community measures in cystic fibrosis sputum. PLoS ONE 2012; 7: e33127.
    • (2012) PLoS ONE , vol.7
    • Zhao, J.1    Carmody, L.A.2    Kalikin, L.M.3
  • 16
    • 84871808499 scopus 로고    scopus 로고
    • Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
    • Klindworth A, Pruesse E, Schweer T, et al. Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res 2013; 41: e1.
    • (2013) Nucleic Acids Res , vol.41
    • Klindworth, A.1    Pruesse, E.2    Schweer, T.3
  • 17
    • 80054852473 scopus 로고    scopus 로고
    • Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics
    • Shah N, Tang H, Doak TG, et al. Comparing bacterial communities inferred from 16S rRNA gene sequencing and shotgun metagenomics. Pac Symp Biocomput 2011: 165-76.
    • (2011) Pac Symp Biocomput , pp. 165-176
    • Shah, N.1    Tang, H.2    Doak, T.G.3
  • 18
    • 84893041172 scopus 로고    scopus 로고
    • Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis
    • Lim YW, Evangelista JS III, Schmieder R, et al. Clinical insights from metagenomic analysis of sputum samples from patients with cystic fibrosis. J Clin Microbiol 2014; 52: 425-37.
    • (2014) J Clin Microbiol , vol.52 , pp. 425-437
    • Lim, Y.W.1    Evangelista, J.S.2    Schmieder, R.3
  • 19
    • 77952243141 scopus 로고    scopus 로고
    • QIIME allows analysis of high-throughput community sequencing data
    • Caporaso JG, Kuczynski J, Stombaugh J, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 2010; 7: 335-6.
    • (2010) Nat Methods , vol.7 , pp. 335-336
    • Caporaso, J.G.1    Kuczynski, J.2    Stombaugh, J.3
  • 20
    • 72949107142 scopus 로고    scopus 로고
    • Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss PD, Westcott SL, Ryabin T, et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 2009; 75: 7537-41.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 7537-7541
    • Schloss, P.D.1    Westcott, S.L.2    Ryabin, T.3
  • 21
    • 79955064481 scopus 로고    scopus 로고
    • Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities
    • van der Gast CJ, Walker AW, Stressmann FA, et al. Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities. ISME J 2011; 5: 780-91.
    • (2011) ISME J , vol.5 , pp. 780-791
    • van der Gast, C.J.1    Walker, A.W.2    Stressmann, F.A.3
  • 22
    • 35348933745 scopus 로고    scopus 로고
    • Multivariate analyses in microbial ecology
    • Ramette A. Multivariate analyses in microbial ecology. FEMS Microbiol Ecol 2007; 62: 142-60.
    • (2007) FEMS Microbiol Ecol , vol.62 , pp. 142-160
    • Ramette, A.1
  • 23
    • 84876427223 scopus 로고    scopus 로고
    • Phyloseq: An R package for reproducible interactive analysis and graphics of microbiome census data
    • McMurdie PJ, Holmes S. phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE 2013; 8: e61217.
    • (2013) PLoS ONE , vol.8
    • McMurdie, P.J.1    Holmes, S.2
  • 24
    • 0001463548 scopus 로고
    • Nonparametric estimation of the number of classes in a population
    • Chao A. Nonparametric estimation of the number of classes in a population. Scand J Stat 1984; 11: 265-70.
    • (1984) Scand J Stat , vol.11 , pp. 265-270
    • Chao, A.1
  • 25
    • 84945495487 scopus 로고
    • Estimating the number of classes via sample coverage
    • Chao A, Lee S. Estimating the number of classes via sample coverage. J Am Stat Assoc 1992; 87: 210-17.
    • (1992) J Am Stat Assoc , vol.87 , pp. 210-217
    • Chao, A.1    Lee, S.2
  • 27
    • 0014861528 scopus 로고
    • A test for comparing diversities based on the Shannon formula
    • Hutcheson K. A test for comparing diversities based on the Shannon formula. J Theor Biol 1970; 29: 151-4.
    • (1970) J Theor Biol , vol.29 , pp. 151-154
    • Hutcheson, K.1
  • 28
    • 84862197046 scopus 로고    scopus 로고
    • Analyses of the microbial diversity across the human microbiome
    • Li K, Bihan M, Yooseph S, et al. Analyses of the microbial diversity across the human microbiome. PLoS ONE 2012; 7: e32118.
    • (2012) PLoS ONE , vol.7
    • Li, K.1    Bihan, M.2    Yooseph, S.3
  • 29
    • 79551495183 scopus 로고    scopus 로고
    • Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma
    • e1-3
    • Huang YJ, Nelson CE, Brodie EL, et al. Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma. J Allergy Clin Immunol 2011; 127: 372-381. e1-3.
    • (2011) J Allergy Clin Immunol , vol.127 , pp. 372-381
    • Huang, Y.J.1    Nelson, C.E.2    Brodie, E.L.3
  • 31
    • 0024041593 scopus 로고
    • Molecular Koch's postulates applied to microbial pathogenicity
    • Falkow S. Molecular Koch's postulates applied to microbial pathogenicity. Rev Infect Dis 1988; 10(Suppl 2): S274-6.
    • (1988) Rev Infect Dis , vol.10 , pp. S274-S276
    • Falkow, S.1
  • 32
    • 84873372370 scopus 로고    scopus 로고
    • Cystic fibrosis therapy: A community ecology perspective
    • Conrad D, Haynes M, Salamon P, et al. Cystic fibrosis therapy: a community ecology perspective. Am J Respir Cell Mol Biol 2013; 48: 150-6.
    • (2013) Am J Respir Cell Mol Biol , vol.48 , pp. 150-156
    • Conrad, D.1    Haynes, M.2    Salamon, P.3
  • 33
    • 84902147234 scopus 로고    scopus 로고
    • The impact of azithromycin therapy on the airway microbiota in asthma
    • Slater M, Rivett DW, Williams L, et al. The impact of azithromycin therapy on the airway microbiota in asthma. Thorax 2014; 69: 673-4.
    • (2014) Thorax , vol.69 , pp. 673-674
    • Slater, M.1    Rivett, D.W.2    Williams, L.3
  • 34
    • 84884713908 scopus 로고    scopus 로고
    • Modulation of potential respiratory pathogens by pH1N1 viral infection
    • Leung RK, Zhou JW, Guan W, et al. Modulation of potential respiratory pathogens by pH1N1 viral infection. Clin Microbiol Infect 2013; 19: 930-5.
    • (2013) Clin Microbiol Infect , vol.19 , pp. 930-935
    • Leung, R.K.1    Zhou, J.W.2    Guan, W.3
  • 35
    • 77957258400 scopus 로고    scopus 로고
    • Changes through time: Integrating microorganisms into the study of succession
    • Fierer N, Nemergut D, Knight R, et al. Changes through time: integrating microorganisms into the study of succession. Res Microbiol 2010; 161: 635-42.
    • (2010) Res Microbiol , vol.161 , pp. 635-642
    • Fierer, N.1    Nemergut, D.2    Knight, R.3
  • 36
    • 84875883112 scopus 로고    scopus 로고
    • Fundamentals of microbial community resistance and resilience
    • Shade A, Peter H, Allison SD, et al. Fundamentals of microbial community resistance and resilience. Front Microbiol 2012; 3: 417.
    • (2012) Front Microbiol , vol.3 , pp. 417
    • Shade, A.1    Peter, H.2    Allison, S.D.3
  • 37
    • 84874003858 scopus 로고    scopus 로고
    • MALDI-TOF MS distinctly differentiates nontypable Haemophilus influenzae from Haemophilus haemolyticus
    • Zhu B, Xiao D, Zhang H, et al. MALDI-TOF MS distinctly differentiates nontypable Haemophilus influenzae from Haemophilus haemolyticus. PLoS ONE 2013; 8: e56139.
    • (2013) PLoS ONE , vol.8
    • Zhu, B.1    Xiao, D.2    Zhang, H.3
  • 38
    • 84872141736 scopus 로고    scopus 로고
    • Transcriptional response of mucoid Pseudomonas aeruginosa to human respiratory mucus
    • Cattoir V, Narasimhan G, Skurnik D, et al. Transcriptional response of mucoid Pseudomonas aeruginosa to human respiratory mucus. MBio 2013; 3: e00410-12.
    • (2013) MBio , vol.3 , pp. e00410-e00412
    • Cattoir, V.1    Narasimhan, G.2    Skurnik, D.3
  • 39
    • 84934441007 scopus 로고    scopus 로고
    • Proteomic analysis of the asthmatic airway
    • Wiktorowicz JE, Jamaluddin M. Proteomic analysis of the asthmatic airway. Adv Exp Med Biol 2014; 795: 221-32.
    • (2014) Adv Exp Med Biol , vol.795 , pp. 221-232
    • Wiktorowicz, J.E.1    Jamaluddin, M.2
  • 40
    • 84887989964 scopus 로고    scopus 로고
    • The impact of Pseudomonal growth on cystic fibrosis airway secretion composition in a metabolomic investigation
    • Kozlowska J, Rivett DW, Carroll MP, et al. The impact of Pseudomonal growth on cystic fibrosis airway secretion composition in a metabolomic investigation. Metabolomics 2013; 9: 1262-73.
    • (2013) Metabolomics , vol.9 , pp. 1262-1273
    • Kozlowska, J.1    Rivett, D.W.2    Carroll, M.P.3


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