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Table 1 Summary of cystic fibrosis microbiota studies; type of sample, technique used and genus identified

From: The microbiome of the upper airways: focus on chronic rhinosinusitis

Author Year n Sample Techinque Achromobacter Actinomyces Atopobium Bacteroidetes Burkholderia Campylobacter Capnocytophaga Craurococcus Fusobacterium Granulicatella Haemophilus Lactobacillus Leptotrichia Ochrobactrum Peptostreptococcus Porphyromonas Prevotella Pseudomonas Rhizobium Rothia Staphylococcus Stenotrophomonas Streptococcus Veillonella Ref.
Salipante SJ * 2013 60 CF Sputum 16 s rRNA pyrosequencing            x        x     x x   [49]
Zemanick ET 2013 37 CF Sputum Conventional culture 16S rRNA pyrosequencing   x x    x x   x x   x x    x x x   x x   x x [35]
Delhaes L 2012 8 CF Sputum Conventional culture 16S rRNA pyrosequencing          x   x      x x x      x x [39]
Fodor AA 2012 23 CF Sputum 16S rRNA pyrosequencing      x             x x   x    x x [37]
Stressmann FA ** 2012 14 CF Sputum Conventional culture analysis T-RFLP                   x    x x x   [44]
Zhao J 2012 6 CF Sputum 16 s rRNA pyrosequencing          x         x x   x    x x [41]
Guss AM 2011 4 CF Sputum 16 s rRNA pyrosequencing   x   x      x        x x    x    x x [50]
Sibley CD 2011 6 CF Sputum Conventional culture T-RFLP 16S rRNA pyrosequencing x x   x x       x       x x    x x x x [51]
Cox MJ*** 2010 63 CF Sputum Throat swab Microarray                   x    x     [52]
J Harris JK **** 2007 28 CF 14 healthy Bronchoalveolar lavage fluid DGGE/TGGE            x        x    x   x   [53]
Rogers GB ***** 2004 34 CF Sputum T-RFLP         x       x x x x x x       [54]
  1. *Stenotrophomonas maltophilia, Streptococcus agalactiae, Haemophilus influenzae, Pseudomonas aeruginosa.
  2. **P. aeruginosa, Stenotrophomonas maltophili’, Staphylococcus aureus, Streptococcus Group F.
  3. ***S. aureus, P. aeruginosa.
  4. ****S. aureus, S. maltophilia, P. aeruginosa, Streptococcus mitis, H. influenza.
  5. *****P. aeruginosa, Porphyromonas endodontalis, P. gingivalis, Prevotella denticola, P. melaninogenica, P. nigrescens, P. veroralis, P. intermedia, P. loescheii, P. salivae, P. buccae, P. oris, Craurococcus roseus, Rhizobium loti, Ochrobactrum anthropi, Peptostreptococcus anaerobius.
  6. Asterisks indicate studies in which mentioned species were identified.