Microbiotyping the sinonasal microbiome
Microbiotyping the sinonasal microbiome
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.
Vreugde Sarah、Bleier Benjamin、Tewfik Marc A、Tantilipikorn Pongsakorn、Psaltis Alkis J、Bassiouni Ahmed、Shiffer Arron、Dillon Matthew R、Cooksley Clare、Moraitis Sophia、Ali Mohammad Javed、Callejas Claudio、Douglas Richard G、Paramasivan Sathish、Georgalas Christos、Cornet Marjolein E、Dutra Daniel、Hwang Peter H、Schlosser Rodney J、Ramezanpour Mahnaz、Caporaso J Gregory、Cope Emily K、Luong Amber U、Harvey Richard J、Wormald Peter-John
Department of Otolaryngology, Head and Neck Surgery, University of AdelaideDepartment of OtolaryngologyDepartment of Otolaryngology - Head and Neck Surgery, McGill UniversityDepartment of Otorhinolaryngology, Faculty of Medicine, Siriraj Hospital, Mahidol UniversityDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaideDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaidePathogen and Microbiome Institute, Northern Arizona UniversityPathogen and Microbiome Institute, Northern Arizona UniversityDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaideDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaideDacryology Service, LV Prasad InstituteDepartment of Otolaryngology, Pontificia Universidad Catolica de ChileDepartment of Surgery, University of AucklandDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaideDepartment of OtorhinolaryngoloyDepartment of OtorhinolaryngoloyDepartment of Otorhinolaryngology, University of Sao PauloDepartment of Otolaryngology -Head and Neck Surgery, Stanford UniversityDepartment of Otolaryngology, Medical University of South CarolinaDepartment of Otolaryngology, Head and Neck Surgery, University of AdelaidePathogen and Microbiome Institute, Northern Arizona UniversityPathogen and Microbiome Institute, Northern Arizona UniversityDepartment of Otolaryngology -Head and Neck Surgery, University of TexasDepartment of Otolaryngology, Rhinology and Skull base, University of New South Wales||Faculty of Medicine and Health sciences, Macquarie UniversityDepartment of Otolaryngology, Head and Neck Surgery, University of Adelaide
耳鼻咽喉科学微生物学生物科学研究方法、生物科学研究技术
microbiomesinusnext-generation sequencing16S rRNA genechronic rhinosinusitismicrobiotype
Vreugde Sarah,Bleier Benjamin,Tewfik Marc A,Tantilipikorn Pongsakorn,Psaltis Alkis J,Bassiouni Ahmed,Shiffer Arron,Dillon Matthew R,Cooksley Clare,Moraitis Sophia,Ali Mohammad Javed,Callejas Claudio,Douglas Richard G,Paramasivan Sathish,Georgalas Christos,Cornet Marjolein E,Dutra Daniel,Hwang Peter H,Schlosser Rodney J,Ramezanpour Mahnaz,Caporaso J Gregory,Cope Emily K,Luong Amber U,Harvey Richard J,Wormald Peter-John.Microbiotyping the sinonasal microbiome[EB/OL].(2025-03-28)[2025-05-12].https://www.biorxiv.org/content/10.1101/549311.点此复制
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