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Title: Airway Microbiota and Pathogen Abundance in Age-Stratified Cystic Fibrosis Patients

Journal Article · · PLoS ONE
 [1];  [2];  [2];  [2];  [3];  [4];  [5];  [5];  [2];  [1];  [6];  [7];  [3];  [3];  [6];  [5];  [1]
  1. Univ. of California, San Francisco, CA (United States). Dept. of Medicine
  2. Univ. of California, San Francisco, CA (United States). Dept. of Anesthesia and Perioperative Care
  3. Univ. of California, San Francisco, CA (United States). Dept. of Medicine; Univ. of California, San Francisco, CA (United States). Adult Cystic Fibrosis Program
  4. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Ecology Dept.; Univ. of California, Berkeley, CA (United States). Dept. of Plant and Microbial Biology
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Ecology Dept.
  6. Univ. of California, San Francisco, CA (United States). Dept. of Medicine; Univ. of California, San Francisco, CA (United States). Pediatric Cystic Fibrosis Program
  7. Univ. of California, San Francisco, CA (United States). Pediatric Cystic Fibrosis Program
+ Show Author Affiliations

Bacterial communities in the airways of cystic fibrosis (CF) patients are, as in other ecological niches, influenced by autogenic and allogenic factors. However, our understanding of microbial colonization in younger versus older CF airways and the association with pulmonary function is rudimentary at best. Using a phylogenetic microarray, we examine the airway microbiota in age stratified CF patients ranging from neonates (9 months) to adults (72 years). From a cohort of clinically stable patients, we demonstrate that older CF patients who exhibit poorer pulmonary function possess more uneven, phylogenetically-clustered airway communities, compared to younger patients. Using longitudinal samples collected form a subset of these patients a pattern of initial bacterial community diversification was observed in younger patients compared with a progressive loss of diversity over time in older patients. We describe in detail the distinct bacterial community profiles associated with young and old CF patients with a particular focus on the differences between respective ‘‘early’’ and ‘‘late’’ colonizing organisms. Finally we assess the influence of Cystic Fibrosis Transmembrane Regulator (CFTR) mutation on bacterial abundance and identify genotype-specific communities involving members of the Pseudomonadaceae, Xanthomonadaceae, Moraxellaceae and Enterobacteriaceae amongst others. Data presented here provides insights into the CF airway microbiota, including initial diversification events in younger patients and establishment of specialized communities of pathogens associated with poor pulmonary function in older patient populations.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division
Grant/Contract Number:
AC02-05CH11231
OSTI ID:
1627410
Journal Information:
PLoS ONE, Vol. 5, Issue 6; ISSN 1932-6203
Publisher:
Public Library of ScienceCopyright Statement
Country of Publication:
United States
Language:
English

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Cystic fibrosis lung microbiome: Opportunities to reconsider management of airway infection: Cystic Fibrosis Lung Microbiome journal September 2015
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The Role of the Lung Microbiome in Health and Disease. A National Heart, Lung, and Blood Institute Workshop Report journal June 2013
Cystic Fibrosis Therapy: A Community Ecology Perspective journal February 2013
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Influence of the lung microbiome on antibiotic susceptibility of cystic fibrosis pathogens journal June 2019
Gender differences in bronchiectasis: a real issue? journal May 2018
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Effects of smoking on the lower respiratory tract microbiome in mice journal December 2018
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Middle ear microbiome differences in indigenous Filipinos with chronic otitis media due to a duplication in the A2ML1 gene journal November 2016
Bolus Weekly Vitamin D3 Supplementation Impacts Gut and Airway Microbiota in Adults With Cystic Fibrosis: A Double-Blind, Randomized, Placebo-Controlled Clinical Trial journal November 2017
Chapter 12: Human Microbiome Analysis journal December 2012
Mechanistic Model of Rothia mucilaginosa Adaptation toward Persistence in the CF Lung, Based on a Genome Reconstructed from Metagenomic Data journal May 2013
Microbiota and Metabolite Profiling Reveal Specific Alterations in Bacterial Community Structure and Environment in the Cystic Fibrosis Airway during Exacerbation journal December 2013
Comparison of Microbiomes from Different Niches of Upper and Lower Airways in Children and Adolescents with Cystic Fibrosis journal January 2015
Normal and Cystic Fibrosis Human Bronchial Epithelial Cells Infected with Pseudomonas aeruginosa Exhibit Distinct Gene Activation Patterns journal October 2015
Pyrosequencing Unveils Cystic Fibrosis Lung Microbiome Differences Associated with a Severe Lung Function Decline journal June 2016
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Time between Collection and Storage Significantly Influences Bacterial Sequence Composition in Sputum Samples from Cystic Fibrosis Respiratory Infections journal June 2014
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