Analysis of Airway Microbiota in Adults from a Brazilian Cystic Fibrosis Center

Overview

Journal Braz J Microbiol

Specialty Microbiology

Date 2020 Sep 18

PMID 32944872

Citations 3

Authors

Cassiana Costa Ferreira Leite

Flavia Alvim Dutra de Freitas

Monica De Cassia Firmida

Robson Souza Leao

Rodolpho Mattos Albano

Elizabeth Andrade Marques

Affiliations

Soon will be listed here.

Abstract

The application of next-generation sequencing tools revealed that the cystic fibrosis respiratory tract is a polymicrobial environment. We have characterized the airway bacterial microbiota of five adult patients with cystic fibrosis during a 14-month period by 16S rRNA tag sequencing using the Illumina technology. Microbial diversity, estimated by the Shannon index, varied among patient samples collected throughout the follow-up period. The beta diversity analysis revealed that the composition of the airway microbiota was highly specific for each patient, showing little variation among the samples of each patient analyzed over time. The composition of the bacterial microbiota did not reveal any emerging pathogen predictor of pulmonary disease in cystic fibrosis or of its unfavorable clinical progress, except for unveiling the presence of anaerobic microorganisms, even without any established clinical association. Our results could potentialy help us to translate and develop strategies in response to the pathobiology of this disease, particularly because it represents an innovative approach for CF centers in Brazil.

Citing Articles

Comparative microbiome analysis in cystic fibrosis and non-cystic fibrosis bronchiectasis.

Motta H, Reuwsaat J, Lopes F, Viezzer G, Volpato F, Barth A Respir Res. 2024; 25(1):211.

PMID: 38762736 PMC: 11102160. DOI: 10.1186/s12931-024-02835-w.

Exploring the dynamics of mixed-species biofilms involving Candida spp. and bacteria in cystic fibrosis.

Gourari-Bouzouina K, Boucherit-Otmani Z, Halla N, Seghir A, Baba Ahmed-Kazi Tani Z, Boucherit K Arch Microbiol. 2024; 206(6):255.

PMID: 38734793 DOI: 10.1007/s00203-024-03967-9.

[An updated review of the mechanism of fibrosis in acquired laryngotrachealstenosis].

Hu B, Chen J, Li W, Wang J, Li X Lin Chuang Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2022; 36(4):310-314.

PMID: 35511628 PMC: 10128174. DOI: 10.13201/j.issn.2096-7993.2022.04.016.

References

Coburn B, Wang P, Diaz Caballero J, Clark S, Brahma V, Donaldson S . Lung microbiota across age and disease stage in cystic fibrosis. Sci Rep. 2015; 5:10241. PMC: 4431465. DOI: 10.1038/srep10241. View

Filkins L, OToole G . Cystic Fibrosis Lung Infections: Polymicrobial, Complex, and Hard to Treat. PLoS Pathog. 2016; 11(12):e1005258. PMC: 4700991. DOI: 10.1371/journal.ppat.1005258. View

Stressmann F, Rogers G, van der Gast C, Marsh P, Vermeer L, Carroll M . Long-term cultivation-independent microbial diversity analysis demonstrates that bacterial communities infecting the adult cystic fibrosis lung show stability and resilience. Thorax. 2012; 67(10):867-73. DOI: 10.1136/thoraxjnl-2011-200932. View

Schloss P, Westcott S, Ryabin T, Hall J, Hartmann M, Hollister E . Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol. 2009; 75(23):7537-41. PMC: 2786419. DOI: 10.1128/AEM.01541-09. View

Whelan F, Heirali A, Rossi L, Rabin H, Parkins M, Surette M . Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis. PLoS One. 2017; 12(3):e0172811. PMC: 5333848. DOI: 10.1371/journal.pone.0172811. View

Cox M, Allgaier M, Taylor B, Baek M, Huang Y, Daly R . Airway microbiota and pathogen abundance in age-stratified cystic fibrosis patients. PLoS One. 2010; 5(6):e11044. PMC: 2890402. DOI: 10.1371/journal.pone.0011044. View

Carmody L, Zhao J, Kalikin L, LeBar W, Simon R, Venkataraman A . The daily dynamics of cystic fibrosis airway microbiota during clinical stability and at exacerbation. Microbiome. 2015; 3:12. PMC: 4381400. DOI: 10.1186/s40168-015-0074-9. View

LiPuma J . The changing microbial epidemiology in cystic fibrosis. Clin Microbiol Rev. 2010; 23(2):299-323. PMC: 2863368. DOI: 10.1128/CMR.00068-09. View

Pereira C, Sato T, Rodrigues S . New reference values for forced spirometry in white adults in Brazil. J Bras Pneumol. 2007; 33(4):397-406. DOI: 10.1590/s1806-37132007000400008. View

10.

Ahmed B, Cox M, Cuthbertson L, James P, Cookson W, Davies J . Longitudinal development of the airway microbiota in infants with cystic fibrosis. Sci Rep. 2019; 9(1):5143. PMC: 6435666. DOI: 10.1038/s41598-019-41597-0. View

11.

Layeghifard M, Li H, Wang P, Donaldson S, Coburn B, Clark S . Microbiome networks and change-point analysis reveal key community changes associated with cystic fibrosis pulmonary exacerbations. NPJ Biofilms Microbiomes. 2019; 5(1):4. PMC: 6341074. DOI: 10.1038/s41522-018-0077-y. View

12.

Fodor A, Klem E, Gilpin D, Elborn J, Boucher R, Tunney M . The adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbations. PLoS One. 2012; 7(9):e45001. PMC: 3458854. DOI: 10.1371/journal.pone.0045001. View

13.

Caverly L, Zhao J, LiPuma J . Cystic fibrosis lung microbiome: opportunities to reconsider management of airway infection. Pediatr Pulmonol. 2015; 50 Suppl 40:S31-8. DOI: 10.1002/ppul.23243. View

14.

Carmody L, Caverly L, Foster B, Rogers M, Kalikin L, Simon R . Fluctuations in airway bacterial communities associated with clinical states and disease stages in cystic fibrosis. PLoS One. 2018; 13(3):e0194060. PMC: 5844593. DOI: 10.1371/journal.pone.0194060. View

15.

Rossi G, Morelli P, Galietta L, Colin A . Airway microenvironment alterations and pathogen growth in cystic fibrosis. Pediatr Pulmonol. 2019; 54(4):497-506. DOI: 10.1002/ppul.24246. View

16.

Hauser A, Jain M, Bar-Meir M, McColley S . Clinical significance of microbial infection and adaptation in cystic fibrosis. Clin Microbiol Rev. 2011; 24(1):29-70. PMC: 3021203. DOI: 10.1128/CMR.00036-10. View

17.

Zhao J, Schloss P, Kalikin L, Carmody L, Foster B, Petrosino J . Decade-long bacterial community dynamics in cystic fibrosis airways. Proc Natl Acad Sci U S A. 2012; 109(15):5809-14. PMC: 3326496. DOI: 10.1073/pnas.1120577109. View

18.

Field T, Sibley C, Parkins M, Rabin H, Surette M . The genus Prevotella in cystic fibrosis airways. Anaerobe. 2010; 16(4):337-44. DOI: 10.1016/j.anaerobe.2010.04.002. View

19.

Delhaes L, Monchy S, Frealle E, Hubans C, Salleron J, Leroy S . The airway microbiota in cystic fibrosis: a complex fungal and bacterial community--implications for therapeutic management. PLoS One. 2012; 7(4):e36313. PMC: 3338676. DOI: 10.1371/journal.pone.0036313. View

20.

Sibley C, Parkins M, Rabin H, Duan K, Norgaard J, Surette M . A polymicrobial perspective of pulmonary infections exposes an enigmatic pathogen in cystic fibrosis patients. Proc Natl Acad Sci U S A. 2008; 105(39):15070-5. PMC: 2567494. DOI: 10.1073/pnas.0804326105. View