Objective: To determine if the microbiota in the “lower” airways differs from the microbiota of the oropharynx in people with CF (PWCF) and healthy volunteers (HV). Methods: Matched sputum (SPU; induced for HV) and oropharyngeal rinse (OPR) samples were collected from PWCF (n = 41) and HV (n = 9). Microbial community profiles were determined by Illumina MiSeq sequencing and changes in alpha- and beta-diversity compared between groups. Results: At the phyla level, in CF-SPU, there was significant enrichment in the mean relative abundance (RA) of Proteobacteria (p = 1.00*10−16). Conversely, CF-OPR, HV-OPR and HV-SPU samples contained significantly higher levels of Firmicutes (p = 2.15*10−14), Bacteroidetes (p = 2.50*10−5) and Fusobacteria (p = 2.55*10−13) compared to CF-SPU. At the genus level, Pseudomonas spp. RA was significantly higher in CF-SPU samples (p = 1.10*10−9). Conversely, Streptococcus spp. (p = 3.80*10−6) and a number of common anaerobic taxa such as Prevotella spp. (p = 0.005) and Veillonella spp. (p = 0.001) showed a significantly higher RA in CF-OPR, HV-SPU and HV-OPR samples. Alpha-diversity showed significantly lower richness, Shannon-Wiener diversity and evenness (p = 8.76*10−11, p = 3.21*10−10 and p = 0.02, respectively) and higher dominance (p = 1.54*10−8) in CF-SPU compared to CF-ORP, HV-SPU and HV-OPR. For beta-diversity, we observed significant difference between CF-SPU and CF-OPR (ADONIS; Bray-Curtis; R2 = 0.241; p = 0.001; 999 permutations). In addition, there was a significant difference in community structure between the PWCF and HV (ADONIS; Bray-Curtis; R2 = 0.321; p = 0.001; 999 permutations). No difference was detected between communities of the “lower” airways and oropharynx in HV (p > 0.05). Conclusion: CF-SPU samples differ considerably in their microbial community composition and structure when compared to CF-OPR. Furthermore, composition of CF-OPR was significantly different compared to HV, indicating an independent acquisition of community structures in PWCF.
|Journal||Journal of Cystic Fibrosis|
|Publication status||Published - 01 Jun 2020|
|Event||European Cystic Fibrosis Conference: Cancelled due to COVID-19 pandemic - Lyon, Lyon, France|
Duration: 03 Jun 2020 → …