Microbiotyping the Sinonasal Microbiome

Ahmed Bassiouni, Sathish Paramasivan, Arron Shiffer, Matthew R. Dillon, Emily K. Cope, Clare Cooksley, Mahnaz Ramezanpour, Sophia Moraitis, Mohammad Javed Ali, Benjamin S. Bleier, Claudio Callejas, Marjolein E. Cornet, Richard G. Douglas, Daniel Dutra, Christos Georgalas, Richard J. Harvey, Peter H. Hwang, Amber U. Luong, Rodney J. Schlosser, Pongsakorn TantilipikornMarc A. Tewfik, Sarah Vreugde, Peter John Wormald, J. Gregory Caporaso, Alkis J. Psaltis

Research output: Contribution to journalArticle

Abstract

This study offers a novel description of the sinonasal microbiome, through an unsupervised machine learning approach combining dimensionality reduction and clustering. We apply our method to the International Sinonasal Microbiome Study (ISMS) dataset of 410 sinus swab samples. We propose three main sinonasal “microbiotypes” or “states”: the first is Corynebacterium-dominated, the second is Staphylococcus-dominated, and the third dominated by the other core genera of the sinonasal microbiome (Streptococcus, Haemophilus, Moraxella, and Pseudomonas). The prevalence of the three microbiotypes studied did not differ between healthy and diseased sinuses, but differences in their distribution were evident based on geography. We also describe a potential reciprocal relationship between Corynebacterium species and Staphylococcus aureus, suggesting that a certain microbial equilibrium between various players is reached in the sinuses. We validate our approach by applying it to a separate 16S rRNA gene sequence dataset of 97 sinus swabs from a different patient cohort. Sinonasal microbiotyping may prove useful in reducing the complexity of describing sinonasal microbiota. It may drive future studies aimed at modeling microbial interactions in the sinuses and in doing so may facilitate the development of a tailored patient-specific approach to the treatment of sinus disease in the future.

Original languageEnglish (US)
Article number137
JournalFrontiers in Cellular and Infection Microbiology
Volume10
DOIs
StatePublished - Apr 8 2020

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Keywords

  • 16S rRNA gene
  • chronic rhinosinusitis
  • microbiome
  • microbiotype
  • next-generation sequencing
  • paranasal sinuses
  • sinus

ASJC Scopus subject areas

  • Microbiology
  • Immunology
  • Microbiology (medical)
  • Infectious Diseases

Cite this

Bassiouni, A., Paramasivan, S., Shiffer, A., Dillon, M. R., Cope, E. K., Cooksley, C., Ramezanpour, M., Moraitis, S., Ali, M. J., Bleier, B. S., Callejas, C., Cornet, M. E., Douglas, R. G., Dutra, D., Georgalas, C., Harvey, R. J., Hwang, P. H., Luong, A. U., Schlosser, R. J., ... Psaltis, A. J. (2020). Microbiotyping the Sinonasal Microbiome. Frontiers in Cellular and Infection Microbiology, 10, [137]. https://doi.org/10.3389/fcimb.2020.00137