Features of the bronchial bacterial microbiome associated with atopy, asthma, and responsiveness to inhaled corticosteroid treatment
Juliana Durack,Susan V. Lynch,Snehal Nariya,Nirav R. Bhakta,Avraham Beigelman,Mario Castro,Anne Marie Dyer,Elliot Israel,Monica Kraft,Richard J. Martin,David T. Mauger,Sharon R. Rosenberg,Tonya Sharp-King,Steven R. White,Prescott G. Woodruff,Pedro C. Avila,Loren C. Denlinger,Fernando Holguin,Stephen C. Lazarus,Njira L Lugogo,Wendy C. Moore,Stephen P. Peters,Loretta G. Que,Lewis J. Smith,Christine A. Sorkness,Michael E. Wechsler,Sally E. Wenzel,Homer A. Boushey,Yvonne J. Huang +28 more
Reads0
Chats0
TLDR
Even in subjects with mild steroid‐naive asthma, differences in the bronchial microbiome are associated with immunologic and clinical features of the disease, suggesting possible microbiome targets for future approaches to asthma treatment or prevention.Abstract:
Background Compositional differences in the bronchial bacterial microbiota have been associated with asthma, but it remains unclear whether the findings are attributable to asthma, to aeroallergen sensitization, or to inhaled corticosteroid treatment. Objectives We sought to compare the bronchial bacterial microbiota in adults with steroid-naive atopic asthma, subjects with atopy but no asthma, and nonatopic healthy control subjects and to determine relationships of the bronchial microbiota to phenotypic features of asthma. Methods Bacterial communities in protected bronchial brushings from 42 atopic asthmatic subjects, 21 subjects with atopy but no asthma, and 21 healthy control subjects were profiled by using 16S rRNA gene sequencing. Bacterial composition and community-level functions inferred from sequence profiles were analyzed for between-group differences. Associations with clinical and inflammatory variables were examined, including markers of type 2–related inflammation and change in airway hyperresponsiveness after 6 weeks of fluticasone treatment. Results The bronchial microbiome differed significantly among the 3 groups. Asthmatic subjects were uniquely enriched in members of the Haemophilus , Neisseria , Fusobacterium , and Porphyromonas species and the Sphingomonodaceae family and depleted in members of the Mogibacteriaceae family and Lactobacillales order. Asthma-associated differences in predicted bacterial functions included involvement of amino acid and short-chain fatty acid metabolism pathways. Subjects with type 2–high asthma harbored significantly lower bronchial bacterial burden. Distinct changes in specific microbiota members were seen after fluticasone treatment. Steroid responsiveness was linked to differences in baseline compositional and functional features of the bacterial microbiome. Conclusion Even in subjects with mild steroid-naive asthma, differences in the bronchial microbiome are associated with immunologic and clinical features of the disease. The specific differences identified suggest possible microbiome targets for future approaches to asthma treatment or prevention.read more
Citations
More filters
Journal ArticleDOI
Long-term exposure to low-dose Haemophilus influenzae during allergic airway disease drives a steroid-resistant neutrophilic inflammation and promotes airway remodeling.
TL;DR: Findings indicate that in asthmatic patients, airway bacterial colonization may be a potential therapeutic target and Minimizing the pathogen burden in airway, such as Haemophilus influenzae, may be beneficial.
Journal ArticleDOI
Microbiome-focused asthma management strategies.
Shakti D. Shukla,Shastri,Wai Chin Chong,Kamal Dua,Kurtis F. Budden,Malik Quasir Mahmood,Nicole G. Hansbro,Simon Keely,Rajaraman Eri,Rahul P. Patel,Gregory M. Peterson,Philip M. Hansbro,Philip M. Hansbro +12 more
TL;DR: Recent advances in assessing the role of microbiome in asthma are reviewed and the challenges associated with the potential therapeutic utility of modifying microbiomes in management are presented.
Journal ArticleDOI
Whole lung tissue is the preferred sampling method for amplicon-based characterization of murine lung microbiota.
Jennifer M. Baker,Kevin J. Hinkle,Roderick A. McDonald,Christopher A. Brown,Nicole R. Falkowski,Gary B. Huffnagle,Robert P. Dickson +6 more
TL;DR: In this paper, the authors compared bacterial DNA from the lungs of healthy adult mice collected via two common sampling approaches: homogenized whole lung tissue and bronchoalveolar lavage (BAL) fluid.
Journal ArticleDOI
The Role of CD4+ T Cells and Microbiota in the Pathogenesis of Asthma.
Jiung Jeong,Heung Kyu Lee +1 more
Abstract: Asthma, a chronic respiratory disease involving variable airflow limitations, exhibits two phenotypes: eosinophilic and neutrophilic. The asthma phenotype must be considered because the prognosis and drug responsiveness of eosinophilic and neutrophilic asthma differ. CD4+ T cells are the main determinant of asthma phenotype. Th2, Th9 and Tfh cells mediate the development of eosinophilic asthma, whereas Th1 and Th17 cells mediate the development of neutrophilic asthma. Elucidating the biological roles of CD4+ T cells is thus essential for developing effective asthma treatments and predicting a patient’s prognosis. Commensal bacteria also play a key role in the pathogenesis of asthma. Beneficial bacteria within the host act to suppress asthma, whereas harmful bacteria exacerbate asthma. Recent literature indicates that imbalances between beneficial and harmful bacteria affect the differentiation of CD4+ T cells, leading to the development of asthma. Correcting bacterial imbalances using probiotics reportedly improves asthma symptoms. In this review, we investigate the effects of crosstalk between the microbiota and CD4+ T cells on the development of asthma.
Journal ArticleDOI
Urine Bacteria-Derived Extracellular Vesicles and Allergic Airway Diseases in Children.
TL;DR: Urine EVs could be an indicator for assessing allergic airway diseases in children and revealed dysbiosis in the CR, AR, and AS compared to the controls.
References
More filters
Journal ArticleDOI
QIIME allows analysis of high-throughput community sequencing data.
J. Gregory Caporaso,Justin Kuczynski,Jesse Stombaugh,Kyle Bittinger,Frederic D. Bushman,Elizabeth K. Costello,Noah Fierer,Antonio Gonzalez Peña,Julia K. Goodrich,Jeffrey I. Gordon,Gavin A. Huttley,Scott T. Kelley,Dan Knights,Jeremy E. Koenig,Ruth E. Ley,Catherine A. Lozupone,Daniel McDonald,Brian D. Muegge,Meg Pirrung,Jens Reeder,Joel Sevinsky,Peter J. Turnbaugh,William A. Walters,Jeremy Widmann,Tanya Yatsunenko,Jesse R. Zaneveld,Rob Knight,Rob Knight +27 more
TL;DR: An overview of the analysis pipeline and links to raw data and processed output from the runs with and without denoising are provided.
Journal ArticleDOI
Search and clustering orders of magnitude faster than BLAST
TL;DR: UCLUST is a new clustering method that exploits USEARCH to assign sequences to clusters and offers several advantages over the widely used program CD-HIT, including higher speed, lower memory use, improved sensitivity, clustering at lower identities and classification of much larger datasets.
Journal ArticleDOI
A new method for non-parametric multivariate analysis of variance
TL;DR: In this article, a non-parametric method for multivariate analysis of variance, based on sums of squared distances, is proposed. But it is not suitable for most ecological multivariate data sets.
Journal ArticleDOI
FLASH: Fast Length Adjustment of Short Reads to Improve Genome Assemblies
Tanja Magoc,Steven L. Salzberg +1 more
TL;DR: FLASH is a fast computational tool to extend the length of short reads by overlapping paired-end reads from fragment libraries that are sufficiently short and when FLASH was used to extend reads prior to assembly, the resulting assemblies had substantially greater N50 lengths for both contigs and scaffolds.
Journal ArticleDOI
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
Todd Z. DeSantis,Philip Hugenholtz,Neils Larsen,Mark Rojas,Eoin L. Brodie,Keith Keller,Thomas Huber,Daniel Dalevi,Ping Hu,Gary L. Andersen +9 more
TL;DR: A 16S rRNA gene database (http://greengenes.lbl.gov) was used to provide chimera screening, standard alignment, and taxonomic classification using multiple published taxonomies as mentioned in this paper.
Related Papers (5)
Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma.
Yvonne J. Huang,Craig E. Nelson,Eoin L. Brodie,Todd Z. DeSantis,Marshall S. Baek,Jane Liu,Tanja Woyke,Martin Allgaier,James Bristow,Jeanine P. Wiener-Kronish,E. Rand Sutherland,Tonya S. King,Nikolina Icitovic,Richard J. Martin,William J. Calhoun,Mario Castro,Loren C. Denlinger,Emily DiMango,Monica Kraft,Stephen P. Peters,Stephen I. Wasserman,Michael E. Wechsler,Homer A. Boushey,Susan V. Lynch +23 more