Airway microbiome dynamics in exacerbations of chronic obstructive pulmonary disease

Huang, Yvonne J.; Sethi, Sanjay; Murphy, Timothy; Nariya, Snehal; Boushey, Homer A.; Lynch, Susan V.

doi:10.1128/jcm.00035-14

Cited by 323Chronic Obstructive Pulmonary Disease (COPD) ResearchOral microbiology and periodontitis researchAsthma and respiratory diseases

Airway microbiome dynamics in exacerbations of chronic obstructive pulmonary disease

Open access

Huang, Yvonne J., Sethi, Sanjay, Murphy, Timothy, Nariya, Snehal, Boushey, Homer A., Lynch, Susan V.·2014·Journal of Clinical Microbiology

DOI 10.1128/jcm.00035-14PMC PMC4136157

Open this paper in CoChat — free account Open PDF

Abstract

Specific bacterial species are implicated in the pathogenesis of exacerbations of chronic obstructive pulmonary disease (COPD). However, recent studies of clinically stable COPD patients have demonstrated a greater diversity of airway microbiota, whose role in acute exacerbations is unclear. In this study, temporal changes in the airway microbiome before, at the onset of, and after an acute exacerbation were examined in 60 sputum samples collected from subjects enrolled in a longitudinal study of bacterial infection in COPD. Microbiome composition and predicted functions were examined using 16S rRNA-based culture-independent profiling methods. Shifts in the abundance (≥ 2-fold, P < 0.05) of many taxa at exacerbation and after treatment were observed. Microbiota members that were increased at exacerbation were primarily of the Proteobacteria phylum, including nontypical COPD pathogens. Changes in the bacterial composition after treatment for an exacerbation differed significantly among the therapy regimens clinically prescribed (antibiotics only, oral corticosteroids only, or both). Treatment with antibiotics alone primarily decreased the abundance of Proteobacteria, with the prolonged suppression of some microbiota members being observed. In contrast, treatment with corticosteroids alone led to enrichment for Proteobacteria and members of other phyla. Predicted metagenomes of particular microbiota members involved in these compositional shifts indicated exacerbation-associated loss of functions involved in the synthesis of antimicrobial and anti-inflammatory products, alongside enrichment in functions related to pathogen-elicited inflammation. These trends reversed upon clinical recovery. Further larger studies will be necessary to determine whether specific compositional or functional changes detected in the airway microbiome could be useful indicators of exacerbation development or outcome.

Integrity signals

Registry

Crossref · 10.1128/jcm.00035-14

Cites

48 of 48 references verified0 citation errors · 0 not checkable

Statistics

Recomputing p-values needs the paper’s full text.

Claims the paper makes

We couldn’t retrieve this paper’s full text, so its claims and self-check weren’t run. The registry and citation checks still apply.

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

Culture-independent studies comparing bacterial communities at baseline and during exacerbations in the airways of patients with COPD, cystic fibrosis, or bronchiectasis consistently report no increase in bacterial burden and no decrease in community diversity during exacerbations.
“With remarkable consistency, all studies report no increase in bacterial burden and no decrease in community diversity during exacerbations.”
From The microbiome and critical illness (2016) · cites this paper as [132]

vegan: Community Ecology Package
Oksanen, J., Simpson, G. L., Blanchet, F. G., Kindt, R., Legendre, P., Minchin, P. R., O’Hara, R. B., Sólymos, P., Stevens, M. H. H., Szöcs, E., et al. (2001) · doi:10.32614/cran.package.vegan · Cited by 27,099 · see citing works
Global Strategy for the Diagnosis, Management, and Prevention of Chronic Obstructive Pulmonary Disease
Vestbo, J., Hurd, S. S., Agustí, A. G., Jones, P. W., Vogelmeier, C., Anzueto, A., Barnes, P. J., Fabbri, L. M., Martinez, F. J., Nishimura, M., et al. (2013) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201204-0596pp · Cited by 15,983 · see citing works
A new method for non-parametric multivariate analysis of variance
Anderson, M. J. (2001) · Austral Ecology · doi:10.1111/j.1442-9993.2001.01070.pp.x · Cited by 13,828 · see citing works
Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments
Smyth, G. K. (2004) · Statistical Applications in Genetics and Molecular Biology · doi:10.2202/1544-6115.1027 · Cited by 11,829 · see citing works
Statistical significance for genomewide studies
Storey, J. D., & Tibshirani, R. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1530509100 · Cited by 9,692 · see citing works
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
Langille, M. G. I., Zaneveld, J., Caporaso, J. G., McDonald, D., Knights, D., Reyes, J. A., Clemente, J. C., Burkepile, D. E., Vega Thurber, R. L., Knight, R., et al. (2013) · Nature Biotechnology · doi:10.1038/nbt.2676 · Cited by 9,116 · see citing works
UniFrac: a New Phylogenetic Method for Comparing Microbial Communities
Lozupone, C., & Knight, R. (2005) · Applied and Environmental Microbiology · doi:10.1128/aem.71.12.8228-8235.2005 · Cited by 8,227 · see citing works
Global Strategy for the Diagnosis, Management, and Prevention of Chronic Obstructive Pulmonary Disease
PAUWELS, R. A., Buist, A. S., CALVERLEY, P. M. A., Jenkins, C. R., & Hurd, S. S. (2001) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/ajrccm.163.5.2101039 · Cited by 6,529 · see citing works
Picante: R tools for integrating phylogenies and ecology
Kembel, S., Cowan, P. D., Helmus, M., Cornwell, W. K., Morlon, H., Ackerly, D., Blomberg, S., & Webb, C. O. (2010) · Bioinform. · doi:10.1093/bioinformatics/btq166 · Cited by 6,363 · see citing works
Conservation evaluation and phylogenetic diversity
Faith, D. (1992) · Biological Conservation · doi:10.1016/0006-3207(92)91201-3 · Cited by 5,495 · see citing works
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
McDonald, D. T., Price, M. N., Goodrich, J. K., Nawrocki, E. P., DeSantis, T. Z., Probst, A. J., Andersen, G. L., Knight, R. D., & Hugenholtz, P. (2011) · The ISME Journal · doi:10.1038/ismej.2011.139 · Cited by 5,010 · see citing works
Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria
Ivanov, I. I., Atarashi, K., Manel, N., Brodie, E. L., Shima, T., Karaoz, U., Wei, D., Goldfarb, K. C., Santee, C. A., Lynch, S. V., et al. (2009) · Cell · doi:10.1016/j.cell.2009.09.033 · Cited by 4,554 · see citing works
Induction of Colonic Regulatory T Cells by Indigenous <i>Clostridium</i> Species
Atarashi, K., Tanoue, T., Shima, T., Imaoka, A., Kuwahara, T., Momose, Y., Cheng, G., Yamasaki, S., Saito, T., Ohba, Y., et al. (2011) · Science · doi:10.1126/science.1198469 · Cited by 3,752 · see citing works
A Primer of Ecological Statistics
Ford, E. D. (2005) · The American Statistician · doi:10.1198/tas.2005.s32 · Cited by 1,551 · see citing works
Recent advances in understanding the antibacterial properties of flavonoids
Cushnie, T. P. T., & Lamb, A. J. (2011) · International Journal of Antimicrobial Agents · doi:10.1016/j.ijantimicag.2011.02.014 · Cited by 1,358 · see citing works
Infection in the Pathogenesis and Course of Chronic Obstructive Pulmonary Disease
Sethi, S., & Murphy, T. F. (2008) · New England Journal of Medicine · doi:10.1056/nejmra0800353 · Cited by 1,238 · see citing works
A Primer of Ecological Statistics
Gotelli, N. J., & Ellison, A. M. (2004) · Cited by 1,237 · see citing works
Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria
Hazen, T. C., Dubinsky, E. A., DeSantis, T. Z., Andersen, G. L., Piceno, Y. M., Singh, N., Jansson, J. K., Probst, A. J., Borglin, S. E., Fortney, J. L., et al. (2010) · Science · doi:10.1126/science.1195979 · Cited by 1,231 · see citing works
Low-Abundance Biofilm Species Orchestrates Inflammatory Periodontal Disease through the Commensal Microbiota and Complement
Hajishengallis, G., Liang, S., Payne, M. A., Hashim, A., Jotwani, R., Eskan, M. A., McIntosh, M. L., Alsam, A., Kirkwood, K. L., Lambris, J. D., et al. (2011) · Cell Host & Microbe · doi:10.1016/j.chom.2011.10.006 · Cited by 1,154 · see citing works
Genomics of Actinobacteria : Tracing the Evolutionary History of an Ancient Phylum
Ventura, M., Canchaya, C. A., Tauch, A., Chandra, G., Fitzgerald, G. F., Chater, K. F., & van Sinderen, D. (2007) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00005-07 · Cited by 1,093 · see citing works
Infections and Airway Inflammation in Chronic Obstructive Pulmonary Disease Severe Exacerbations
Papi, A., Bellettato, C. M., Braccioni, F., Romagnoli, M., Casolari, P., Caramori, G., Fabbri, L. M., & Johnston, S. L. (2006) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.200506-859oc · Cited by 1,072 · see citing works
New Strains of Bacteria and Exacerbations of Chronic Obstructive Pulmonary Disease
Sethi, S., Evans, N., Grant, B. J. B., & Murphy, T. F. (2002) · New England Journal of Medicine · doi:10.1056/nejmoa012561 · Cited by 1,046 · see citing works
Analysis of the lung microbiome in the “healthy” smoker and in COPD.
Erb-Downward, J. R., Thompson, D. L., Han, M. K., Freeman, C. M., McCloskey, L., Schmidt, L. A., Young, V. B., Toews, G. B., Curtis, J. L., Sundaram, B., et al. (2011) · PLoS ONE · doi:10.1371/journal.pone.0016384 · Cited by 973 · see citing works
Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma
Huang, Y. J., Nelson, C. E., Brodie, E., DeSantis, T. Z., Baek, M. S., Liu, J., Woyke, T., Allgaier, M., Bristow, J., Wiener-Kronish, J. P., et al. (2010) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2010.10.048 · Cited by 693 · see citing works
Decade-long bacterial community dynamics in cystic fibrosis airways
Zhao, J., Schloss, P. D., Kalikin, L. M., Carmody, L. A., Foster, B. K., Petrosino, J. F., Cavalcoli, J. D., VanDevanter, D. R., Murray, S., Li, J. Z., et al. (2012) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1120577109 · Cited by 599 · see citing works
The Lung Tissue Microbiome in Chronic Obstructive Pulmonary Disease
Sze, M. A., Dimitriu, P. A., Hayashi, S., Elliott, W. M., McDonough, J. E., Gosselink, J. V., Cooper, J. D., Sin, D. D., Mohn, W. W., & Hogg, J. C. (2012) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201111-2075oc · Cited by 552 · see citing works
Modulation of Pseudomonas aeruginosa gene expression by host microflora through interspecies communication
Duan, K., Dammel, C., Stein, J., Rabin, H. R., & Surette, M. G. (2003) · Molecular Microbiology · doi:10.1046/j.1365-2958.2003.03803.x · Cited by 510 · see citing works
High-Density Universal 16S rRNA Microarray Analysis Reveals Broader Diversity than Typical Clone Library When Sampling the Environment
DeSantis, T. Z., Brodie, E., Parker, J. M., Zubieta, I. X., Piceno, Y. M., & Andersen, G. L. (2007) · Microbial Ecology · doi:10.1007/s00248-006-9134-9 · Cited by 509 · see citing works
The lung microbiome in moderate and severe chronic obstructive pulmonary disease
Pragman, A. A., Kim, H. B., Reilly, C. S., Wendt, C., & Isaacson, R. E. (2012) · PLoS ONE · doi:10.1371/journal.pone.0047305 · Cited by 437 · see citing works
Application of a High-Density Oligonucleotide Microarray Approach To Study Bacterial Population Dynamics during Uranium Reduction and Reoxidation
Brodie, E., DeSantis, T. Z., Joyner, D. C., Baek, S. M., Larsen, J. T., Andersen, G. L., Hazen, T. C., Richardson, P. M., Herman, D. J., Tokunaga, T. K., et al. (2006) · Applied and Environmental Microbiology · doi:10.1128/aem.00246-06 · Cited by 437 · see citing works
Like Will to Like: Abundances of Closely Related Species Can Predict Susceptibility to Intestinal Colonization by Pathogenic and Commensal Bacteria
Stecher, B., Chaffron, S., Käppeli, R., Hapfelmeier, S., Freedrich, S., Weber, T. C., Kirundi, J., Suar, M., McCoy, K. D., von Mering, C., et al. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1000711 · Cited by 421 · see citing works
Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata
Sunagawa, S., DeSantis, T. Z., Piceno, Y. M., Brodie, E., DeSalvo, M. K., Voolstra, C. R., Weil, E. F., Andersen, G. L., & Medina, M. (2009) · The ISME Journal · doi:10.1038/ismej.2008.131 · Cited by 408 · see citing works
Outgrowth of the bacterial airway microbiome after rhinovirus exacerbation of chronic obstructive pulmonary disease
Molyneaux, P. L., Mallia, P., Cox, M. J., Footitt, J., Willis-Owen, S. A. G., Homola, D., Trujillo-Torralbo, M.-B., Elkin, S., Kon, O. M., Cookson, W. O. C., et al. (2013) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201302-0341oc · Cited by 390 · see citing works
The Microbiota Mediates Pathogen Clearance from the Gut Lumen after Non-Typhoidal Salmonella Diarrhea
Endt, K., Stecher, B., Chaffron, S., Slack, E. M. C., Tchitchek, N., Benecke, A., Maele, L. V., Sirard, J., Müller, A. J., Heikenwälder, M. F., et al. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1001097 · Cited by 340 · see citing works
Lung microbiota and bacterial abundance in patients with bronchiectasis when clinically stable and during exacerbation
Tunney, M. M., Einarsson, G. G., Wei, L., Drain, M., Klem, E. R., Cardwell, C., Ennis, M., Boucher, R. C., Wolfgang, M. C., & Elborn, J. S. (2013) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201210-1937oc · Cited by 316 · see citing works
Microbiologic Determinants of Exacerbation in Chronic Obstructive Pulmonary Disease
Rosell, A., Monsó, E., Soler, N., Torres, F., ANGRILL, J., Riise, G. C., Zalacaín, R., Morera, J., & Torres, A. (2005) · Archives of Internal Medicine · doi:10.1001/archinte.165.8.891 · Cited by 302 · see citing works
Pseudomonas aeruginosa in Chronic Obstructive Pulmonary Disease
Murphy, T. F., Brauer, A. L., Eschberger, K., Lobbins, P., Grove, L., Cai, X., & Sethi, S. (2008) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.200709-1413oc · Cited by 279 · see citing works
Discerning the Complexity of Community Interactions Using a Drosophila Model of Polymicrobial Infections
Sibley, C. D., Duan, K., Fischer, C. D., Parkins, M. D., Storey, D. G., Rabin, H. R., & Surette, M. G. (2008) · PLoS Pathogens · doi:10.1371/journal.ppat.1000184 · Cited by 261 · see citing works
A Persistent and Diverse Airway Microbiota Present during Chronic Obstructive Pulmonary Disease Exacerbations
Huang, Y. J., Kim, E., Cox, M. J., Brodie, E., Brown, R., Wiener-Kronish, J. P., & Lynch, S. V. (2010) · OMICS A Journal of Integrative Biology · doi:10.1089/omi.2009.0100 · Cited by 241 · see citing works
Indirect Pathogenicity of Haemophilus influenzae and Moraxella catarrhalis in Polymicrobial Otitis Media Occurs via Interspecies Quorum Signaling
Armbruster, C. E., Hong, W., Pang, B., Weimer, K. E. D., Juneau, R. A., Turner, J. D., & Swords, W. E. (2010) · mBio · doi:10.1128/mbio.00102-10 · Cited by 220 · see citing works
Microbiome Diversity in the Bronchial Tracts of Patients with Chronic Obstructive Pulmonary Disease
Cabrera‐Rubio, R., García-Núñez, M., Setó, L., Antó, J. M., Moyá, A., Monsó, E., & Mira, Á. (2012) · Journal of Clinical Microbiology · doi:10.1128/jcm.00767-12 · Cited by 213 · see citing works
Treatment of COPD by clinical phenotypes: putting old evidence into clinical practice
Miravitlles, M., Soler‐Cataluña, J. J., Rubio, M. C., & Soriano, J. B. (2012) · European Respiratory Journal · doi:10.1183/09031936.00118912 · Cited by 198 · see citing works
Loss of Bacterial Diversity during Antibiotic Treatment of Intubated Patients Colonized with <i>Pseudomonas aeruginosa</i>
Flanagan, J. L., Brodie, E. L., Weng, L., Lynch, S. V., Garcia, O., Brown, R., Hugenholtz, P., DeSantis, T. Z., Andersen, G. L., Wiener-Kronish, J. P., et al. (2007) · Journal of Clinical Microbiology · doi:10.1128/jcm.02187-06 · Cited by 180 · see citing works
Self-citation
Inflammatory Profile of New Bacterial Strain Exacerbations of Chronic Obstructive Pulmonary Disease
Sethi, S., Wrona, C. T., Eschberger, K., Lobbins, P., Cai, X., & Murphy, T. F. (2007) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.200708-1234oc · Cited by 177 · see citing works
Methicillin-resistant Staphylococcus aureus (MRSA) Pyruvate Kinase as a Target for Bis-indole Alkaloids with Antibacterial Activities
Zoraghi, R., Worrall, L. J., See, R. H., Strangman, W. K., Popplewell, W. L., Gong, H., Samaai, T., Swayze, R. D., Kaur, S., Vuckovic, M., et al. (2011) · Journal of Biological Chemistry · doi:10.1074/jbc.m111.289033 · Cited by 128 · see citing works
Antiradical, antimicrobial and cytotoxic activities of commercial beetroot pomace
Vulić, J., Ćebović, T. N., Čanadanović, V. M., Ćetković, G., Djilas, S., Čanadanović‐Brunet, J. M., Velićanski, A. S., Cvetković, D., & Šaponjac, V. T. (2013) · Food & Function · doi:10.1039/c3fo30315b · Cited by 115 · see citing works
Rapid quantification and taxonomic classification of environmental DNA from both prokaryotic and eukaryotic origins using a microarray
DeSantis, T. Z., Stone, C. E., Murray, S. R., Parker, J. M., & Andersen, G. L. (2005) · FEMS Microbiology Letters · doi:10.1016/j.femsle.2005.03.016 · Cited by 95 · see citing works
High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment
Handley, K. M., Wrighton, K. C., Piceno, Y. M., Andersen, G. L., DeSantis, T. Z., Williams, K. H., Wilkins, M. J., N’Guessan, A. L., Peacock, A. D., Bargar, J., et al. (2012) · FEMS Microbiology Ecology · doi:10.1111/j.1574-6941.2012.01363.x · Cited by 45 · see citing works

Flagged first, then by citations

Sorted by citations

The Microbiome and the Respiratory Tract
Dickson, R. P., Erb-Downward, J. R., Martinez, F. J., & Huffnagle, G. B. (2016) · Annual Review of Physiology · doi:10.1146/annurev-physiol-021115-105238 · Cited by 953 · see citing works
The Infant Nasopharyngeal Microbiome Impacts Severity of Lower Respiratory Infection and Risk of Asthma Development
Teo, S. M., Mok, D., Pham, K., Kusel, M., Serralha, M., Troy, N., Holt, B. J., Hales, B. J., Walker, M. L., Hollams, E., et al. (2015) · Cell Host & Microbe · doi:10.1016/j.chom.2015.03.008 · Cited by 953 · see citing works
From hairballs to hypotheses–biological insights from microbial networks
Röttjers, L., & Faust, K. (2018) · FEMS Microbiology Reviews · doi:10.1093/femsre/fuy030 · Cited by 721 · see citing works
Enrichment of the lung microbiome with oral taxa is associated with lung inflammation of a Th17 phenotype
Segal, L. N., Clemente, J. C., Tsay, J.-C. J., Koralov, S. B., Keller, B. C., Wu, B. G., Li, Y., Shen, N., Ghedin, E., Morris, A., et al. (2016) · Nature Microbiology · doi:10.1038/nmicrobiol.2016.31 · Cited by 685 · see citing works
The role of the microbiome in exacerbations of chronic lung diseases
Dickson, R. P., Martinez, F. J., & Huffnagle, G. B. (2014) · The Lancet · doi:10.1016/s0140-6736(14)61136-3 · Cited by 495 · see citing works
The airway microbiome in patients with severe asthma: Associations with disease features and severity
Huang, Y. J., Nariya, S., Harris, J. M., Lynch, S. V., Choy, D. F., Arron, J. R., & Boushey, H. A. (2015) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2015.05.044 · Cited by 522 · see citing works
Lung microbiome dynamics in COPD exacerbations
Wang, Z., Bafadhel, M., Haldar, K., Spivak, A., Mayhew, D. N., Miller, B. E., Tal‐Singer, R., Johnston, S. L., Ramsheh, M. Y., Barer, M. R., et al. (2016) · European Respiratory Journal · doi:10.1183/13993003.01406-2015 · Cited by 458 · see citing works
The microbiome and critical illness
Dickson, R. P. (2016) · The Lancet Respiratory Medicine · doi:10.1016/s2213-2600(15)00427-0 · Cited by 460 · see citing works
Functional effects of the microbiota in chronic respiratory disease
Budden, K. F., Shukla, S. D., Rehman, S. F., Bowerman, K. L., Keely, S., Hugenholtz, P., Armstrong-James, D. P. H., Adcock, I. M., Chotirmall, S. H., Chung, K. F., et al. (2019) · The Lancet Respiratory Medicine · doi:10.1016/s2213-2600(18)30510-1 · Cited by 450 · see citing works
Lung microbiome: new insights into the pathogenesis of respiratory diseases
Li, R., Li, J., & Zhou, X. (2024) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-023-01722-y · Cited by 466 · see citing works
Definition, Causes, Pathogenesis, and Consequences of Chronic Obstructive Pulmonary Disease Exacerbations
Ritchie, A. I., & Wedzicha, J. A. (2020) · Clinics in Chest Medicine · doi:10.1016/j.ccm.2020.06.007 · Cited by 403 · see citing works
The Lung Microbiome, Immunity, and the Pathogenesis of Chronic Lung Disease
O’Dwyer, D. N., Dickson, R. P., & Moore, B. B. (2016) · The Journal of Immunology · doi:10.4049/jimmunol.1600279 · Cited by 362 · see citing works
Acute exacerbation of COPD
Ko, F., Chan, K. P., Hui, D., Goddard, J., Shaw, J., Reid, D., & Yang, I. (2016) · Respirology (Carlton South. Print) · doi:10.1111/resp.12780 · Cited by 327 · see citing works
Inflammatory phenotypes in patients with severe asthma are associated with distinct airway microbiology
Taylor, S. L., Leong, L. E. X., Choo, J. M., Wesselingh, S., Yang, I. A., Upham, J. W., Reynolds, P. N., Hodge, S., James, A. L., Jenkins, C., et al. (2018) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2017.03.044 · Cited by 314 · see citing works
Longitudinal profiling of the lung microbiome in the AERIS study demonstrates repeatability of bacterial and eosinophilic COPD exacerbations
Mayhew, D. N., Devos, N., Lambert, C., Brown, J. R., Clarke, S. C., Kim, V. L., Magid-Slav, M., Miller, B. E., Ostridge, K., Patel, R. K., et al. (2018) · Thorax · doi:10.1136/thoraxjnl-2017-210408 · Cited by 286 · see citing works
The role of the local microbial ecosystem in respiratory health and disease
Piters, W. A. A. D. S., Sanders, E. A. M., & Bogaert, D. (2015) · Philosophical Transactions of the Royal Society B Biological Sciences · doi:10.1098/rstb.2014.0294 · Cited by 283 · see citing works
The microbiome in asthma
Huang, Y. J., & Boushey, H. A. (2015) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2014.11.011 · Cited by 272 · see citing works
The microbiome in respiratory medicine: current challenges and future perspectives
Faner, R., Sibila, O., Agustí, A., Bernasconi, E., Chalmers, J. D., Huffnagle, G. B., Manichanh, C., Molyneaux, P. L., Paredes, R., Pérez Brocal, V., et al. (2017) · European Respiratory Journal · doi:10.1183/13993003.02086-2016 · Cited by 247 · see citing works
Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age
Stearns, J. C., Davidson, C. J., McKeon, S., Whelan, F. J., Fontes, M. E., Schryvers, A. B., Bowdish, D. M. E., Kellner, J. D., & Surette, M. G. (2015) · The ISME Journal · doi:10.1038/ismej.2014.250 · Cited by 234 · see citing works
Novel aspects of pathogenesis and regeneration mechanisms in COPD
Aldonytė, R., Bagdonas, E., Raudoniūtė, J., & Bružauskaitė, I. (2015) · International Journal of COPD · doi:10.2147/copd.s82518 · Cited by 213 · see citing works
Airway dysbiosis: Haemophilus influenzae and Tropheryma in poorly controlled asthma
Simpson, J. L., Daly, J. N., Baines, K. J., Yang, I. A., Upham, J. W., Reynolds, P. N., Hodge, S. J., James, A. L., Hugenholtz, P., Willner, D. L., et al. (2015) · European Respiratory Journal · doi:10.1183/13993003.00405-2015 · Cited by 204 · see citing works
The role of acute and chronic respiratory colonization and infections in the pathogenesis of COPD
Leung, J. M., Tiew, P. Y., Aogáin, M. M., Budden, K. F., Yong, V. F. L., Thomas, S. S., Pethe, K., Hansbro, P. M., & Chotirmall, S. H. (2017) · Respirology · doi:10.1111/resp.13032 · Cited by 196 · see citing works
A prospective, observational cohort study of the seasonal dynamics of airway pathogens in the aetiology of exacerbations in COPD
Wilkinson, T. M. A., Aris, E., Bourne, S. C., Clarke, S. C., Peeters, M., Pascal, T. G., Schoonbroodt, S., Tuck, A. C., Kim, V., Ostridge, K., et al. (2017) · Thorax · doi:10.1136/thoraxjnl-2016-209023 · Cited by 196 · see citing works
Chronic obstructive pulmonary disease (COPD) and lung cancer: common pathways for pathogenesis
Parris, B. A., O’Farrell, H. E., Fong, K. M., & Yang, I. A. (2019) · Journal of Thoracic Disease · doi:10.21037/jtd.2019.10.54 · Cited by 193 · see citing works
The dynamics of the pulmonary microbiome during mechanical ventilation in the intensive care unit and the association with occurrence of pneumonia
Zakharkina, T., Martín‐Loeches, I., Matamoros, S., Póvoa, P. M. S. R., Torres, A., Kastelijn, J. B., Hofstra, J. J., de Wever, B., de Jong, M. D., Schultz, M. J., et al. (2017) · Thorax · doi:10.1136/thoraxjnl-2016-209158 · Cited by 181 · see citing works
Links Between Inflammatory Bowel Disease and Chronic Obstructive Pulmonary Disease
Raftery, A. L., Tsantikos, E., Harris, N. L., & Hibbs, M. L. (2020) · Frontiers in Immunology · doi:10.3389/fimmu.2020.02144 · Cited by 178 · see citing works
Biofilm Models of Polymicrobial Infection
Gabrilska, R. A., & Rumbaugh, K. P. (2015) · Future Microbiology · doi:10.2217/fmb.15.109 · Cited by 152 · see citing works
Airway host-microbiome interactions in chronic obstructive pulmonary disease
Wang, Z., Maschera, B., Lea, S., Kolsum, U., Michalovich, D., Horn, S. V., Traini, C., Brown, J. R., Hessel, E. M., & Singh, D. (2019) · Respiratory Research · doi:10.1186/s12931-019-1085-z · Cited by 155 · see citing works
Antimicrobial resistance in the respiratory microbiota of people with cystic fibrosis
Sherrard, L. J., Tunney, M. M., & Elborn, J. S. (2014) · The Lancet · doi:10.1016/s0140-6736(14)61137-5 · Cited by 153 · see citing works
COPD and the microbiome
Mammen, M. J., & Sethi, S. (2016) · Respirology · doi:10.1111/resp.12732 · Cited by 152 · see citing works
Risk factors of chronic obstructive pulmonary disease exacerbations
Hogea, P., Tudorache, E., Fildan, A. P., Firă-Mladinescu, O., Marc, M. S., & Oancea, C. I. (2019) · The Clinical Respiratory Journal · doi:10.1111/crj.13129 · Cited by 148 · see citing works
Sputum microbiome temporal variability and dysbiosis in chronic obstructive pulmonary disease exacerbations: an analysis of the COPDMAP study
Wang, Z., Singh, R., Miller, B. E., Tal‐Singer, R., Horn, S. V., Tomsho, L., Mackay, A. J., Allinson, J. P., Webb, A. J., Brookes, A. J., et al. (2017) · Thorax · doi:10.1136/thoraxjnl-2017-210741 · Cited by 143 · see citing works
Lung microbiome composition and bronchial epithelial gene expression in patients with COPD versus healthy individuals: a bacterial 16S rRNA gene sequencing and host transcriptomic analysis
Ramsheh, M. Y., Haldar, K., Esteve‐Codina, A., Purser, L., Richardson, M., Müller–Quernheim, J., Greulich, T., Nowiński, A., Barta, I., Stendardo, M., et al. (2021) · The Lancet Microbe · doi:10.1016/s2666-5247(21)00035-5 · Cited by 137 · see citing works
Biomarkers of progression of chronic obstructive pulmonary disease (COPD).
Shaw, J. G., Vaughan, A., Dent, A. G., O’Hare, P. E., Goh, F., Bowman, R., Fong, K. M., & Yang, I. A. (2014) · PubMed Central · doi:10.3978/j.issn.2072-1439.2014.11.33 · Cited by 132 · see citing works
Potential Candidates of Natural Antioxidants From Herbs for Treating Lung Disorders: Focus on Redox Balance and Natural Products
Chang, X., Zhou, S., Yan, Z., Zhang, Q., Liu, J., Wang, Y., Guan, X., Wu, Q., & Liu, R. (2025) · Phytotherapy Research · doi:10.1002/ptr.70008 · Cited by 134 · see citing works
Bacterial-Host Interactions: Physiology and Pathophysiology of Respiratory Infection
Håkansson, A., Orihuela, C. J., & Bogaert, D. (2018) · Physiological Reviews · doi:10.1152/physrev.00040.2016 · Cited by 126 · see citing works
The Impact of Immunosenescence on Pulmonary Disease
Murray, M., & Chotirmall, S. H. (2015) · Mediators of Inflammation · doi:10.1155/2015/692546 · Cited by 124 · see citing works
Microbiomes in respiratory health and disease: An Asia‐Pacific perspective
Chotirmall, S. H., Gellatly, S. L., Budden, K. F., Aogáin, M. M., Shukla, S. D., Wood, D., Hugenholtz, P., Pethe, K., & Hansbro, P. M. (2017) · Respirology · doi:10.1111/resp.12971 · Cited by 122 · see citing works
The Microbiome
Hoffmann, A. R., Proctor, L. M., Surette, M. G., & Suchodolski, J. S. (2015) · Veterinary Pathology · doi:10.1177/0300985815595517 · Cited by 112 · see citing works
Mechanistic insight into the function of the microbiome in lung diseases
Ubags, N. D. J., & Marsland, B. J. (2017) · European Respiratory Journal · doi:10.1183/13993003.02467-2016 · Cited by 109 · see citing works
A tale of two sites: how inflammation can reshape the microbiomes of the gut and lungs
Scales, B. S., Dickson, R. P., & Huffnagle, G. B. (2016) · Journal of Leukocyte Biology · doi:10.1189/jlb.3mr0316-106r · Cited by 109 · see citing works
The Interplay Between Immune Response and Bacterial Infection in COPD: Focus Upon Non-typeable Haemophilus influenzae
Su, Y.-C., Jalalvand, F., Thegerström, J., & Riesbeck, K. (2018) · Frontiers in Immunology · doi:10.3389/fimmu.2018.02530 · Cited by 107 · see citing works
The sputum microbiome is distinct between COPD and health, independent of smoking history
Haldar, K., George, L., Wang, Z., Mistry, V., Ramsheh, M. Y., Free, R. C., John, C., Reeve, N. F., Miller, B. E., Tal‐Singer, R., et al. (2020) · Respiratory Research · doi:10.1186/s12931-020-01448-3 · Cited by 107 · see citing works
Secretory IgA Deficiency in Individual Small Airways Is Associated with Persistent Inflammation and Remodeling
Polosukhin, V. V., Richmond, B. W., Du, R., Cates, J., Wu, P., Nian, H., Massion, P. P., Ware, L. B., Lee, J. W., Кононов, А. В., et al. (2017) · American Journal of Respiratory and Critical Care Medicine · doi:10.1164/rccm.201604-0759oc · Cited by 106 · see citing works
Dysbiosis of lower respiratory tract microbiome are associated with inflammation and microbial function variety
Li, K., Chen, Z., Huang, Y. H., Zhang, R., Luan, X.-Q., Lei, T., & Chen, L. (2019) · Respiratory Research · doi:10.1186/s12931-019-1246-0 · Cited by 103 · see citing works
COPD and Gut–Lung Axis: How Microbiota and Host Inflammasome Influence COPD and Related Therapeutics
Qu, L., Cheng, Q., Wang, Y., Mu, H., & Zhang, Y. (2022) · Frontiers in Microbiology · doi:10.3389/fmicb.2022.868086 · Cited by 104 · see citing works
Microbial Communities in the Upper Respiratory Tract of Patients with Asthma and Chronic Obstructive Pulmonary Disease
Park, H., Shin, J. W., Park, S.-G., & Kim, W. (2014) · PLoS ONE · doi:10.1371/journal.pone.0109710 · Cited by 100 · see citing works
A randomised, placebo-controlled trial of anti–interleukin-1 receptor 1 monoclonal antibody MEDI8968 in chronic obstructive pulmonary disease
Calverley, P. M. A., Sethi, S., Dawson, M., Ward, C. K., Finch, D. K., Penney, M., Newbold, P., & van der Merwe, R. (2017) · Respiratory Research · doi:10.1186/s12931-017-0633-7 · Cited by 100 · see citing works
Links between Infections, Lung Cancer, and the Immune System
Budişan, L., Zănoagă, O., Braicu, C., Pîrlog, R., Covaliu, B. F., Eşanu, V., Korban, S. S., & Berindan‐Neagoe, I. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms22179394 · Cited by 102 · see citing works
The microbiome and lung cancer
Maddi, A., Sabharwal, A., Violante, T., Manuballa, S., Genco, R. J., Patnaik, S. K., & Yendamuri, S. (2019) · Journal of Thoracic Disease · doi:10.21037/jtd.2018.12.88 · Cited by 95 · see citing works
Multi-omic meta-analysis identifies functional signatures of airway microbiome in chronic obstructive pulmonary disease
Wang, Z., Yang, Y., Yan, Z., Liu, H., Chen, B., Liang, Z., Wang, F., Miller, B. E., Tal‐Singer, R., Yi, X., et al. (2020) · The ISME Journal · doi:10.1038/s41396-020-0727-y · Cited by 92 · see citing works
The impact of lung microbiota dysbiosis on inflammation
Yang, D., Xing, Y., Song, X., & Qian, Y. (2019) · Immunology · doi:10.1111/imm.13139 · Cited by 92 · see citing works
Transcriptionally Active Lung Microbiome and Its Association with Bacterial Biomass and Host Inflammatory Status
Ren, L., Zhang, R., Rao, J. Y., Xiao, Y., Zhang, Z., Yang, B., Cao, D., Zhong, H., Ning, P., Shang, Y., et al. (2018) · mSystems · doi:10.1128/msystems.00199-18 · Cited by 90 · see citing works
Nutritional immunity: the impact of metals on lung immune cells and the airway microbiome during chronic respiratory disease
Healy, C. M., Muñoz‐Wolf, N., Strydom, J., Faherty, L., Williams, N. C., Kenny, S., Donnelly, S. C., & Cloonan, S. M. (2021) · Respiratory Research · doi:10.1186/s12931-021-01722-y · Cited by 89 · see citing works
How inhaled corticosteroids target inflammation in COPD
Lea, S., Higham, A., Beech, A. S., & Singh, D. (2023) · European Respiratory Review · doi:10.1183/16000617.0084-2023 · Cited by 89 · see citing works
Comparative analysis of the alveolar microbiome in COPD, ECOPD, Sarcoidosis, and ILD patients to identify respiratory illnesses specific microbial signatures
Gupta, S., Shariff, M., Chaturvedi, G., Sharma, A., Goel, N., Yadav, M., Mortensen, M. S., Sørensen, S. J., Mukerji, M., & Chauhan, N. S. (2021) · Scientific Reports · doi:10.1038/s41598-021-83524-2 · Cited by 83 · see citing works
Ammonia induce lung tissue injury in broilers by activating NLRP3 inflammasome via Escherichia/Shigella
Liu, Q. X., Zhou, Y. Q., Li, X. M., Ma, D. D., Xing, S. J., Feng, J. H., & Zhang, M. H. (2020) · Poultry Science · doi:10.1016/j.psj.2020.03.019 · Cited by 81 · see citing works
Understanding the role of the microbiome in chronic obstructive pulmonary disease: principles, challenges, and future directions
Huang, Y. J., Erb‐Downward, J. R., Dickson, R. P., Curtis, J. L., Huffnagle, G. B., & Han, M. K. (2016) · Translational research · doi:10.1016/j.trsl.2016.06.007 · Cited by 79 · see citing works
The airway microbiome in COPD, bronchiectasis and bronchiectasis‐COPD overlap
Tiew, P. Y., Jaggi, T. K., Chan, L., & Chotirmall, S. H. (2020) · The Clinical Respiratory Journal · doi:10.1111/crj.13294 · Cited by 77 · see citing works
Effects of different antibiotic classes on airway bacteria in stable COPD using culture and molecular techniques: a randomised controlled trial
Brill, S., Law, M. W.-M., El‐Emir, E., Allinson, J. P., James, P. L., Maddox, V., Donaldson, G. C., McHugh, T. D., Cookson, W., Moffatt, M. F., et al. (2015) · Thorax · doi:10.1136/thoraxjnl-2015-207194 · Cited by 76 · see citing works
Bacterial infections in acute exacerbation of chronic obstructive pulmonary disease: a systematic review and meta-analysis
Moghoofei, M., Jamalkandi, S. A., Moein, M., Salimian, J., & Ahmadi, A. (2019) · Infection · doi:10.1007/s15010-019-01350-1 · Cited by 76 · see citing works
Linking microbiota and respiratory disease
Hauptmann, M., & Schaible, U. E. (2016) · FEBS Letters · doi:10.1002/1873-3468.12421 · Cited by 75 · see citing works
COPD as a Disease of Immunosenescence
Cho, W., Lee, C. G., & Kim, L. K. (2019) · Yonsei Medical Journal · doi:10.3349/ymj.2019.60.5.407 · Cited by 79 · see citing works
Role of Lung Microbiome in Innate Immune Response Associated With Chronic Lung Diseases
Paudel, K. R., Dharwal, V., Patel, V. K., Galvão, I., Wadhwa, R., Malyla, V., Shen, S., Budden, K. F., Hansbro, N. G., Vaughan, A., et al. (2020) · Frontiers in Medicine · doi:10.3389/fmed.2020.00554 · Cited by 74 · see citing works
The gut microbiome is a significant risk factor for future chronic lung disease
Liu, Y., Teo, S. M., Méric, G., Tang, H. H. F., Zhu, Q., Sanders, J. G., Vázquez‐Baeza, Y., Verspoor, K. M., Vartiainen, V. A., Jousilahti, P., et al. (2022) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2022.12.810 · Cited by 73 · see citing works
Lower airway bacterial microbiome may influence recurrence after resection of early-stage non–small cell lung cancer
Patnaik, S. K., Gomez, E. C., Kannisto, E. D., Punnanitinont, A., Dhillon, S. S., Liu, S., & Yendamuri, S. (2020) · Journal of Thoracic and Cardiovascular Surgery · doi:10.1016/j.jtcvs.2020.01.104 · Cited by 72 · see citing works
Lung Microbiota: Its Relationship to Respiratory System Diseases and Approaches for Lung-Targeted Probiotic Bacteria Delivery
Yüksel, N., Gelmez, B., & Yıldız-Peköz, A. (2023) · Molecular Pharmaceutics · doi:10.1021/acs.molpharmaceut.3c00323 · Cited by 73 · see citing works
Lower airway colonization and inflammatory response in COPD: a focus on Haemophilus influenzae
Mallia, P., Finney, L., Ritchie, A. I., Pollard, E., & Johnston, S. L. (2014) · International Journal of COPD · doi:10.2147/copd.s54477 · Cited by 71 · see citing works
A Refined View of Airway Microbiome in Chronic Obstructive Pulmonary Disease at Species and Strain-Levels
Wang, Z., Liu, H., Wang, F., Yang, Y., Wang, X., Chen, B., Stämpfli, M. R., Zhou, H., Shu, W., Brightling, C. E., et al. (2020) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.01758 · Cited by 71 · see citing works
Airway microbiota signals anabolic and catabolic remodeling in the transplanted lung
Mouraux, S., Bernasconi, E., Pattaroni, C., Koutsokera, A., Aubert, J.-D., Claustre, J., Pison, C. M., Royer, P., Magnan, A., Kessler, R., et al. (2017) · Journal of Allergy and Clinical Immunology · doi:10.1016/j.jaci.2017.06.022 · Cited by 69 · see citing works
COPD is characterized by increased detection of H aemophilus influenzae, S treptococcus pneumoniae and a deficiency of B acillus species
Simpson, J. L., Baines, K. J., Horvat, J. C., Essilfie, A., Brown, A. C., Tooze, M., McDonald, V. M., Gibson, P. G., & Hansbro, P. M. (2016) · Respirology · doi:10.1111/resp.12734 · Cited by 68 · see citing works
Update on non-typeable Haemophilus influenzae- mediated disease and vaccine development
Jalalvand, F., & Riesbeck, K. (2018) · Expert Review of Vaccines · doi:10.1080/14760584.2018.1484286 · Cited by 67 · see citing works
Approach to the diagnosis and management of dysbiosis
Alagiakrishnan, K., Morgadinho, J., & Halverson, T. (2024) · Frontiers in Nutrition · doi:10.3389/fnut.2024.1330903 · Cited by 74 · see citing works
The lung microbiome: clinical and therapeutic implications
Fabbrizzi, A., Amedei, A., Lavorini, F., Renda, T., & Fontana, G. A. (2019) · Internal and Emergency Medicine · doi:10.1007/s11739-019-02208-y · Cited by 67 · see citing works
The Microbiome and Sustainable Healthcare
Dietert, R. R., & Dietert, J. M. (2015) · Healthcare · doi:10.3390/healthcare3010100 · Cited by 67 · see citing works
Scientific rationale for the possible inhaled corticosteroid intraclass difference in the risk of pneumonia in COPD
Janson, C., Stratelis, G., Miller‐Larsson, A., Harrison, T. W., & Larsson, K. (2017) · International Journal of COPD · doi:10.2147/copd.s143656 · Cited by 63 · see citing works
Acute exacerbations of COPD: risk factors for failure and relapse
Mantero, M., Rogliani, P., Pasquale, M. D., Polverino, E., Crisafulli, E., Guerrero, M., Gramegna, A., Cazzola, M., & Blasi, F. (2017) · International Journal of COPD · doi:10.2147/copd.s145253 · Cited by 61 · see citing works
Past, Present, and Future Research on the Lung Microbiome in Inflammatory Airway Disease
Caverly, L. J., Huang, Y. J., & Sze, M. A. (2019) · CHEST Journal · doi:10.1016/j.chest.2019.05.011 · Cited by 61 · see citing works
Understanding Persistent Bacterial Lung Infections
Pragman, A. A., Berger, J. P., & Williams, B. J. (2016) · Clinical Pulmonary Medicine · doi:10.1097/cpm.0000000000000108 · Cited by 60 · see citing works
The lung microbiome and exacerbations of COPD
Dy, R. V., & Sethi, S. (2016) · Current Opinion in Pulmonary Medicine · doi:10.1097/mcp.0000000000000268 · Cited by 60 · see citing works
Role of the Lung Microbiome in the Pathogenesis of Chronic Obstructive Pulmonary Disease
Wang, L., Hao, K., Yang, T., & Wang, C. (2017) · Chinese Medical Journal · doi:10.4103/0366-6999.211452 · Cited by 60 · see citing works
Sputum Bacterial and Fungal Dynamics during Exacerbations of Severe COPD
Su, J., Liu, H., Tan, X.-L., Ji, Y. I., Jiang, Y., Prabhakar, M., Rong, Z., Zhou, H., & Zhang, G. (2015) · PLoS ONE · doi:10.1371/journal.pone.0130736 · Cited by 59 · see citing works
Documento de consenso sobre el diagnóstico y tratamiento de la infección bronquial crónica en la enfermedad pulmonar obstructiva crónica
de la Rosa, D., López-Campos, J. L., Navarrete, B. A., Rubio, M. C., Moreno, R. C., Rivero, J. L. G., Carro, L. M., Fuster, C. O., Martínez‐García, M. Á., Callejas, F. J., et al. (2020) · Archivos de Bronconeumología · doi:10.1016/j.arbres.2020.04.023 · Cited by 57 · see citing works
Association of exacerbation phenotype with the sputum microbiome in chronic obstructive pulmonary disease patients during the clinically stable state
Yang, C.-Y., Li, S.-W., Chin, C.-Y., Hsu, C., Lee, C., Yeh, Y., & Wu, K.-A. (2021) · Journal of Translational Medicine · doi:10.1186/s12967-021-02788-4 · Cited by 57 · see citing works
A ferret model of COPD-related chronic bronchitis
Raju, S. V., Kim, H., Byzek, S. A., Tang, L. P., Trombley, J. E., Jackson, P. L., Rasmussen, L. W., Wells, J. M., Libby, E. F., Dohm, E. D., et al. (2016) · JCI Insight · doi:10.1172/jci.insight.87536 · Cited by 57 · see citing works
The Lung Microbiome: A New Frontier for Lung and Brain Disease
Chen, J., Li, T., Ye, C., Zhong, J., Huang, J., Ke, Y., & Sun, H. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms24032170 · Cited by 55 · see citing works
Exploring the microbiome in health and disease
Scotti, E., Boué, S., Sasso, G. L., Zanetti, F., Belcastro, V., Poussin, C., Sierro, N., Battey, J. N. D., Gimalac, A., Ivanov, N. V., et al. (2017) · Toxicology Research and Application · doi:10.1177/2397847317741884 · Cited by 55 · see citing works
The porcine respiratory microbiome: recent insights and future challenges
Pirolo, M., Espinosa‐Gongora, C., Bogaert, D., & Guardabassi, L. (2021) · Animal Microbiome · doi:10.1186/s42523-020-00070-4 · Cited by 54 · see citing works
Nontypeable Haemophilus influenzae and chronic obstructive pulmonary disease: a review for clinicians
Sriram, K. B., Cox, A. J., Clancy, R. L., Slack, M., & Cripps, A. W. (2017) · Critical Reviews in Microbiology · doi:10.1080/1040841x.2017.1329274 · Cited by 54 · see citing works
Chronic obstructive pulmonary disease upper airway microbiota alpha diversity is associated with exacerbation phenotype: a case-control observational study
Pragman, A. A., Knutson, K. A., Gould, T. J., Isaacson, R. E., Reilly, C., & Wendt, C. H. (2019) · Respiratory Research · doi:10.1186/s12931-019-1080-4 · Cited by 54 · see citing works
Non-typeable Haemophilus influenzae protein vaccine in adults with COPD: A phase 2 clinical trial
Wilkinson, T. M. A., Schembri, S., Brightling, C. E., Bakerly, N. D., Lewis, K. E., MacNee, W., Rombo, L., Hedner, J. A., Allen, M. B., Walker, P. P., et al. (2019) · Vaccine · doi:10.1016/j.vaccine.2019.07.100 · Cited by 54 · see citing works
Lung microbiome and cytokine profiles in different disease states of COPD: a cohort study
Xue, Q., Xie, Y., He, Y., Yu, Y., Fang, G., Yu, W., Wu, J., Li, J., Zhao, L., Deng, X., et al. (2023) · Scientific Reports · doi:10.1038/s41598-023-32901-0 · Cited by 53 · see citing works
Heterogeneity of chronic obstructive pulmonary disease exacerbations: a two-axes classification proposal
López-Campos, J. L., & Agustí, A. G. N. (2015) · The Lancet Respiratory Medicine · doi:10.1016/s2213-2600(15)00242-8 · Cited by 51 · see citing works
Excess Costs of Comorbidities in Chronic Obstructive Pulmonary Disease: A Systematic Review
Huber, M. B., Wacker, M. E., Vogelmeier, C. F., & Leidl, R. (2015) · PLoS ONE · doi:10.1371/journal.pone.0123292 · Cited by 51 · see citing works
The lung microbiome dynamics between stability and exacerbation in chronic obstructive pulmonary disease (COPD): Current perspectives
Dima, E., Kyriakoudi, A., Kaponi, M., Vasileiadis, I., Stamou, P., Koutsoukou, A., Koulouris, N. G., & Rovina, N. (2019) · Respiratory Medicine · doi:10.1016/j.rmed.2019.08.012 · Cited by 53 · see citing works
Sputum microbiome profiling in COPD: beyond singular pathogen detection
Ditz, B., Christenson, S. A., Rossen, J. W. A., Brightling, C. E., Kerstjens, H. A. M., van den Berge, M., & Faiz, A. (2020) · Thorax · doi:10.1136/thoraxjnl-2019-214168 · Cited by 52 · see citing works
Oral and nasal probiotic administration for the prevention and alleviation of allergic diseases, asthma and chronic obstructive pulmonary disease
Jamalkandi, S. A., Ahmadi, A., Ahrari, I., Salimian, J., Karimi, M., & Ghanei, M. (2020) · Nutrition Research Reviews · doi:10.1017/s0954422420000116 · Cited by 51 · see citing works
Role of infection in exacerbations of chronic obstructive pulmonary disease
Miravitlles, M., & Anzueto, A. (2015) · Current Opinion in Pulmonary Medicine · doi:10.1097/mcp.0000000000000154 · Cited by 49 · see citing works
The Effect of Influenza Virus on the Human Oropharyngeal Microbiome
Ramos‐Sevillano, E., Wade, W. G., Mann, A., Gilbert, A., Lambkin‐Williams, R., Killingley, B., Nguyen‐Van‐Tam, J. S., & Tang, C. M. (2018) · Clinical Infectious Diseases · doi:10.1093/cid/ciy821 · Cited by 48 · see citing works
Gut microbiome and response to checkpoint inhibitors in non-small cell lung cancer—A review
Nagasaka, M., Sexton, R. E., Alhasan, R., Rahman, S. B., Azmi, A. S., & Sukari, A. W. (2019) · Critical Reviews in Oncology/Hematology · doi:10.1016/j.critrevonc.2019.102841 · Cited by 49 · see citing works

The Sputum Microbiome in Chronic Obstructive Pulmonary Disease Exacerbations
Huang, Y. J., & Boushey, H. A. (2015) · Annals of the American Thoracic Society · doi:10.1513/annalsats.201506-319aw · Cited by 31 · see citing works
Exacerbation induces a microbiota shift in sputa of COPD patients
Jubinville, É., Veillette, M., Milot, J., Maltais, F., Comeau, A., Lévesque, R. C., & Duchaine, C. (2018) · PLoS ONE · doi:10.1371/journal.pone.0194355 · Cited by 45 · see citing works
Clinical endotypes of exacerbation are associated with differences in microbial composition and diversity in COPD
Keir, H. R., Dicker, A., Lonergan, M. E., Crichton, M. L., Miller, B. E., Tal‐Singer, R., & Chalmers, J. D. (2020) · European Respiratory Journal · doi:10.1183/13993003.00391-2020 · Cited by 25 · see citing works
The lung microbiome and exacerbations of COPD
Dy, R. V., & Sethi, S. (2016) · Current Opinion in Pulmonary Medicine · doi:10.1097/mcp.0000000000000268 · Cited by 60 · see citing works
A Persistent and Diverse Airway Microbiota Present during Chronic Obstructive Pulmonary Disease Exacerbations
Huang, Y. J., Kim, E., Cox, M. J., Brodie, E., Brown, R., Wiener-Kronish, J. P., & Lynch, S. V. (2010) · OMICS A Journal of Integrative Biology · doi:10.1089/omi.2009.0100 · Cited by 241 · see citing works

Authors: Huang, Y. J., Sethi, S., Murphy, T., Nariya, S., Boushey, H. A., & Lynch, S. V.
Affiliations: University of California, San Francisco (US)
Buffalo VA Medical Center (US)
University at Buffalo, State University of New York (US)
ORCID: Huang, Yvonne J.
Sethi, Sanjay
Murphy, Timothy
Boushey, Homer A.
Lynch, Susan V.
Venue: Journal of Clinical Microbiology
Publisher: American Society for Microbiology
Published: 2014-08
Volume: 52
Issue: 8
Pages: 2813-2823
ISSN: 0095-1137 (ISSN-L)
1098-660X
DOI: 10.1128/jcm.00035-14
PMC: PMC4136157
OpenAlex: W2135623379
Cited by: 323
References: 48
Citations by year: 2026: 11 · 2025: 12 · 2024: 25 · 2023: 25 · 2022: 30 · 2021: 33 · 2020: 35 · 2019: 28 · 2018: 24 · 2017: 38 · 2016: 27 · 2015: 29 · 2014: 6
FWCI: 26.69
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: journals.asm.org/non-commercial-tdm-license (tdm)
Locations: Journal of Clinical Microbiology (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
eScholarship (California Digital Library) (submittedVersion)
Funders: National Heart, Lung, and Blood Institute (K23HL105572, HL105572)
Topics: Health Sciences › Medicine › Pulmonary and Respiratory Medicine › Chronic Obstructive Pulmonary Disease (COPD) Research
Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
Health Sciences › Medicine › Physiology › Asthma and respiratory diseases
Keywords: chronic obstructive pulmonary disease, COPD exacerbations, airway microbiome, sputum microbiota, Proteobacteria, antibiotic therapy, oral corticosteroids, inflammation
MeSH terms: Aged, Aged, 80 and over, DNA, Bacterial, DNA, Ribosomal, Humans, Longitudinal Studies, Male, Middle Aged, Phylogeny, Respiratory System, RNA, Ribosomal, 16S, Sputum, Cluster Analysis, Sequence Analysis, DNA, Proteobacteria, Pulmonary Disease, Chronic Obstructive, Microbiota

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review

Airway microbiome dynamics in exacerbations of chronic obstructive pulmonary disease

Abstract

Integrity signals

Claims the paper makes

Claims other papers make about this one

Cites

Cited by

Related

Record

About these checks