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Analysis of the Airway Microbiota of Healthy Individuals and Patients with Chronic Obstructive Pulmonary Disease by T-RFLP and Clone Sequencing

Author

Listed:
  • Tetyana Zakharkina
  • Elke Heinzel
  • Rembert A Koczulla
  • Timm Greulich
  • Katharina Rentz
  • Josch K Pauling
  • Jan Baumbach
  • Mathias Herrmann
  • Christiane Grünewald
  • Hendrik Dienemann
  • Lutz von Müller
  • Robert Bals

Abstract

Chronic obstructive pulmonary disease (COPD) is a progressive, inflammatory lung disease that affects a large number of patients and has significant impact. One hallmark of the disease is the presence of bacteria in the lower airways. Objective: The aim of this study was to analyze the detailed structure of microbial communities found in the lungs of healthy individuals and patients with COPD. Nine COPD patients as compared and 9 healthy individuals underwent flexible bronchoscopy and BAL was performed. Bacterial nucleic acids were subjected to terminal restriction fragment (TRF) length polymorphism and clone library analysis. Overall, we identified 326 T-RFLP band, 159 in patients and 167 in healthy controls. The results of the TRF analysis correlated partly with the data obtained from clone sequencing. Although the results of the sequencing showed high diversity, the genera Prevotella, Sphingomonas, Pseudomonas, Acinetobacter, Fusobacterium, Megasphaera, Veillonella, Staphylococcus, and Streptococcus constituted the major part of the core microbiome found in both groups. A TRF band possibly representing Pseudomonas sp. monoinfection was associated with a reduction of the microbial diversity. Non-cultural methods reveal the complexity of the pulmonary microbiome in healthy individuals and in patients with COPD. Alterations of the microbiome in pulmonary diseases are correlated with disease.

Suggested Citation

  • Tetyana Zakharkina & Elke Heinzel & Rembert A Koczulla & Timm Greulich & Katharina Rentz & Josch K Pauling & Jan Baumbach & Mathias Herrmann & Christiane Grünewald & Hendrik Dienemann & Lutz von Mülle, 2013. "Analysis of the Airway Microbiota of Healthy Individuals and Patients with Chronic Obstructive Pulmonary Disease by T-RFLP and Clone Sequencing," PLOS ONE, Public Library of Science, vol. 8(7), pages 1-11, July.
    • Handle: RePEc:plo:pone00:0068302
    DOI: 10.1371/journal.pone.0068302
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    1. Tanya Yatsunenko & Federico E. Rey & Mark J. Manary & Indi Trehan & Maria Gloria Dominguez-Bello & Monica Contreras & Magda Magris & Glida Hidalgo & Robert N. Baldassano & Andrey P. Anokhin & Andrew C, 2012. "Human gut microbiome viewed across age and geography," Nature, Nature, vol. 486(7402), pages 222-227, June.
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