All Stories

  1. Human airway organoids for bacterial-host interaction studies: methods, insights and translational promise

    Article • Thorax, February 2026, BMJ

    Dr Micheál Mac Aogáin

  2. Beyond ORBIT: Mapping the Constellation of Pseudomonas Endotypes in Bronchiectasis Clinical Trials

    Article • American Review of Respiratory Disease, August 2025, American Thoracic Society

    Dr Micheál Mac Aogáin

  3. Ever tried. Ever failed. No matter. The CFMATTERS study and the future of microbiome-directed trials in cystic fibrosis

    Article • European Respiratory Journal, August 2025, European Respiratory Society (ERS)

    Dr Micheál Mac Aogáin

  4. Accelerated Lung Function Decline and Mucus–Microbe Evolution in Chronic Obstructive Pulmonary Disease

    Article • American Review of Respiratory Disease, August 2024, American Thoracic Society

    Dr Micheál Mac Aogáin, Dr Lydia Finney

  5. Unsung Heroes? Decoding the Protective Effects of Airway Microbiota in Chronic Obstructive Pulmonary Disease

    Article • American Review of Respiratory Disease, July 2024, American Thoracic Society

    Dr Micheál Mac Aogáin

  6. Airway “Resistotypes” and Clinical Outcomes in Bronchiectasis

    Article • American Review of Respiratory Disease, July 2024, American Thoracic Society

    Dr Micheál Mac Aogáin

  7. Infection and the microbiome in bronchiectasis

    Article • European Respiratory Review, July 2024, European Respiratory Society (ERS)

    Dr Micheál Mac Aogáin

  8. Targeting respiratory microbiomes in COPD and bronchiectasis

    Article • Expert Review of Respiratory Medicine, April 2024, Taylor & Francis

    Dr Micheál Mac Aogáin

  9. Reply to Ward et al.

    Article • American Review of Respiratory Disease, September 2023, American Thoracic Society

    Dr Micheál Mac Aogáin

  10. Microbial Dysregulation of the Gut-Lung Axis in Bronchiectasis

    Article • American Review of Respiratory Disease, April 2023, American Thoracic Society

    Professor Krasimira Tsaneva-Atanasova, Dr Micheál Mac Aogáin

  11. Bronchiectasis

    Article • January 2022, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  12. Aspergillus-Associated Endophenotypes in Bronchiectasis

    Article • Seminars in Respiratory and Critical Care Medicine, July 2021, Thieme Publishing Group

    Dr Micheál Mac Aogáin

  13. Similarity network fusion (SNF) for the integration of multi-omics and microbiomes in respiratory disease

    Article • European Respiratory Journal, June 2021, European Respiratory Society (ERS)

    Professor Krasimira Tsaneva-Atanasova, Dr Micheál Mac Aogáin

  14. On Bugs and Blowholes: Why Is Aspiration the Rule, Not the Exception?

    Article • American Review of Respiratory Disease, May 2021, American Thoracic Society

    Dr Micheál Mac Aogáin

  15. Integrative microbiomics in bronchiectasis exacerbations

    Article • Nature Reports Stem Cells, April 2021, Springer Science + Business Media

    Professor Krasimira Tsaneva-Atanasova, Dr Micheál Mac Aogáin

  16. Metagenomics Reveals a Core Macrolide Resistome Related to Microbiota in Chronic Respiratory Disease

    Article • American Review of Respiratory Disease, August 2020, American Thoracic Society

    Professor Krasimira Tsaneva-Atanasova, Dr Micheál Mac Aogáin

  17. Increased Chitotriosidase Is Associated With Aspergillus and Frequent Exacerbations in South-East Asian Patients With Bronchiectasis

    Article • CHEST Journal, August 2020, Elsevier

    Dr Micheál Mac Aogáin

  18. “High-Risk” Clinical and Inflammatory Clusters in COPD of Chinese Descent

    Article • CHEST Journal, July 2020, Elsevier

    Professor Krasimira Tsaneva-Atanasova, Fanny Ko, Dr Micheál Mac Aogáin

  19. Environmental fungal sensitisation associates with poorer clinical outcomes in COPD

    Article • European Respiratory Journal, April 2020, European Respiratory Society (ERS)

    Fanny Ko, Dr Micheál Mac Aogáin

  20. Whole-Genome Sequencing of Aspergillus terreus Species Complex

    Article • Mycopathologia, February 2020, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  21. Reply to: Bacterial DNA in Fetal Lung Samples May Be Explained by Sample Contamination

    Article • American Review of Respiratory Disease, February 2020, American Thoracic Society

    Dr Micheál Mac Aogáin

  22. The Mycobiome in Health and Disease: Emerging Concepts, Methodologies and Challenges

    Article • Mycopathologia, January 2020, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  23. Airway microbiome composition correlates with lung function and arterial stiffness in an age-dependent manner

    Article • PLOS One, November 2019, PLOS

    Dr Micheál Mac Aogáin

  24. Optimisation and Benchmarking of Targeted Amplicon Sequencing for Mycobiome Analysis of Respiratory Specimens

    Article • International Journal of Molecular Sciences, October 2019, MDPI AG

    Dr Micheál Mac Aogáin

  25. MycopathologiaGENOMES: The New ‘Home’ for the Publication of Fungal Genomes

    Article • Mycopathologia, August 2019, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  26. Bronchiectasis and cough: An old relationship in need of renewed attention

    Article • Pulmonary Pharmacology & Therapeutics, August 2019, Elsevier

    Dr Micheál Mac Aogáin

  27. Distinct “Immunoallertypes” of Disease and High Frequencies of Sensitization in Non–Cystic Fibrosis Bronchiectasis

    Article • American Review of Respiratory Disease, April 2019, American Thoracic Society

    Dr Micheál Mac Aogáin

  28. Intercontinental translocation of latent multidrug‐resistant tuberculosis to Australia demonstrated by whole genome sequencing

    Article • The Medical Journal of Australia, February 2019, Wiley

    Dr Micheál Mac Aogáin

  29. Inhaled nanomaterials and the respiratory microbiome: clinical, immunological and toxicological perspectives

    Article • Particle and Fibre Toxicology, November 2018, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  30. Immunological corollary of the pulmonary mycobiome in bronchiectasis: the CAMEB study

    Article • European Respiratory Journal, June 2018, European Respiratory Society (ERS)

    Dr Micheál Mac Aogáin

  31. Antimicrobial resistance and molecular epidemiology using whole-genome sequencing of Neisseria gonorrhoeae in Ireland, 2014–2016: focus on extended-spectrum cephalosporins and azithromycin

    Article • European Journal of Clinical Microbiology & Infectious Diseases, June 2018, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  32. Geographic variation in the aetiology, epidemiology and microbiology of bronchiectasis

    Article • BMC Pulmonary Medicine, May 2018, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  33. Field of genes: using Apache Kafka as a bioinformatic data repository

    Article • GigaScience, April 2018, Oxford University Press (OUP)

    Dr Micheál Mac Aogáin

  34. The Microbial Endocrinology of Pseudomonas aeruginosa: Inflammatory and Immune Perspectives

    Article • Archivum Immunologiae et Therapiae Experimentalis, March 2018, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  35. Molecular epidemiology of tuberculosis in Tasmania and genomic characterisation of its first known multi-drug resistant case

    Article • PLOS One, February 2018, PLOS

    Dr Micheál Mac Aogáin

  36. Draft Genome Sequence of the First Confirmed Isolate of Multidrug-Resistant Mycobacterium tuberculosis in Tasmania

    Article • Genome Announcements, November 2017, ASM Journals

    Dr Micheál Mac Aogáin, Ronan O'Toole

  37. Fourteen Draft Genome Sequences for the First Reported Cases of Azithromycin-Resistant Neisseria gonorrhoeae in Ireland

    Article • Genome Announcements, June 2017, ASM Journals

    Dr Micheál Mac Aogáin

  38. Differential carriage of virulence-associated loci in the New Zealand Rangipo outbreak strain of Mycobacterium tuberculosis

    Article • Infectious Diseases, May 2017, Taylor & Francis

    Dr Micheál Mac Aogáin, Ronan O'Toole

  39. The role of acute and chronic respiratory colonization and infections in the pathogenesis of COPD

    Article • Respirology, March 2017, Wiley

    Dr Micheál Mac Aogáin

  40. Understanding COPD-overlap syndromes

    Article • Expert Review of Respiratory Medicine, March 2017, Taylor & Francis

    Dr Micheál Mac Aogáin

  41. Microbiomes in respiratory health and disease: An Asia-Pacific perspective

    Article • Respirology, January 2017, Wiley

    Dr Shakti Dhar Shukla, Dr Micheál Mac Aogáin

  42. Draft Genome Sequence of a New Zealand Rangipo Strain of Mycobacterium tuberculosis

    Article • Genome Announcements, July 2016, ASM Journals

    Dr Micheál Mac Aogáin

  43. Possible Interplay Between Hospital and Community Transmission of a Novel Clostridium Difficile Sequence Type 295 Recognized by Next-Generation Sequencing

    Article • Infection Control, April 2016, Cambridge University Press

    Dr Micheál Mac Aogáin

  44. Characterization of Escherichia coli bloodstream isolates associated with mortality

    Article • Journal of Medical Microbiology, January 2016, Society for General Microbiology

    Dr Micheál Mac Aogáin

  45. Identification of emergent blaCMY-2-carrying Proteus mirabilis lineages by whole-genome sequencing

    Article • New Microbes and New Infections, January 2016, Elsevier

    Dr Micheál Mac Aogáin

  46. A first glance at the genome of Mycobacterium chimeara - a pathogen of renewed clinical importance

    Article • Genome Announcements, December 2015, ASM Journals

    Dr Micheál Mac Aogáin

  47. Identification of a novel mutation at the primary dimer interface of GyrA conferring fluoroquinolone resistance in Clostridium difficile

    Article • Journal of Global Antimicrobial Resistance, December 2015, Elsevier

    Dr Micheál Mac Aogáin

  48. Typhlocolitis associated with Clostridium difficile ribotypes 078 and 110 in neonatal piglets from a commercial Irish pig herd

    Article • Irish Veterinary Journal, December 2015, Springer Science + Business Media

    Dr Micheál Mac Aogáin

  49. Enhanced Tracking of Nosocomial Transmission of Endemic Sequence Type 22 Methicillin-Resistant Staphylococcus aureus Type IV Isolates among Patients and Environmental Sites by Use of Whole-Genome Sequencing

    Article • Journal of Clinical Microbiology, November 2015, ASM Journals

    David C Coleman, Dr Micheál Mac Aogáin

  50. Memory Th1 Cells Are Protective in Invasive Staphylococcus aureus Infection

    Article • PLoS Pathogens, November 2015, PLOS

    Dr Micheál Mac Aogáin, Joan A Geoghegan

  51. Whole-genome sequencing improves discrimination of relapse from reinfection and identifies transmission events among patients with recurrent Clostridium difficile infections

    Article • Journal of Hospital Infection, June 2015, Elsevier

    Dr Micheál Mac Aogáin

  52. Draft Genome Sequence of a Drug-Susceptible New Zealand Isolate of Mycobacterium tuberculosis Lineage 3

    Article • Genome Announcements, May 2015, ASM Journals

    Dr Micheál Mac Aogáin, Ronan O'Toole

  53. Detailed characterization of the first high-level azithromycin-resistant Neisseria gonorrhoeae cases in Ireland: Table 1.

    Article • Journal of Antimicrobial Chemotherapy, April 2015, Oxford University Press (OUP)

    Dr Micheál Mac Aogáin

  54. Draft Genome Sequence of a Multidrug-Resistant New Zealand Isolate of Mycobacterium tuberculosis Lineage 3

    Article • Genome Announcements, October 2014, ASM Journals

    Dr Micheál Mac Aogáin, Ronan O'Toole

  55. Draft Genome Sequence of the First Isolate of Extensively Drug-Resistant Mycobacterium tuberculosis in Ireland

    Article • Genome Announcements, October 2014, ASM Journals

    Ms Emma Roycroft, Dr Micheál Mac Aogáin

  56. Draft Genome Sequence of the First Isolate of Extensively Drug-Resistant Mycobacterium tuberculosis in New Zealand

    Article • Genome Announcements, May 2014, ASM Journals

    Dr Micheál Mac Aogáin

  57. The non-classical ArsR-family repressor PyeR (PA4354) modulates biofilm formation in Pseudomonas aeruginosa

    Article • Microbiology, July 2012, Society for General Microbiology

    Dr Micheál Mac Aogáin

  58. Characterization of imipenem resistance mechanisms in Pseudomonas aeruginosa isolates from Turkey

    Article • Clinical Microbiology and Infection, July 2012, Elsevier

    Dr Micheál Mac Aogáin

  59. MexT Functions as a Redox-Responsive Regulator Modulating Disulfide Stress Resistance in Pseudomonas aeruginosa

    Article • Journal of Bacteriology, April 2012, ASM Journals

    Dr Micheál Mac Aogáin

  60. Emergence of extended-spectrum β-lactamase and fluoroquinolone resistance genes among Irish multidrug-resistant isolates

    Article • Diagnostic Microbiology and Infectious Disease, May 2010, Elsevier

    Dr Micheál Mac Aogáin

  61. Transcriptome profiling defines a novel regulon modulated by the LysR-type transcriptional regulator MexT in Pseudomonas aeruginosa

    Article • Nucleic Acids Research, October 2009, Oxford University Press (OUP)

    Dr Micheál Mac Aogáin

  62. MexT modulates virulence determinants in Pseudomonas aeruginosa independent of the MexEF-OprN efflux pump

    Article • Microbial Pathogenesis, October 2009, Elsevier

    Dr Micheál Mac Aogáin