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dc.contributor.authorHaak, Bastiaan W.-
dc.contributor.authorBrands, Xanthe-
dc.contributor.authorDavids, Mark-
dc.contributor.authorPeters-Sengers, Hessel-
dc.contributor.authorKullberg, Robert F. J.-
dc.contributor.authorHoudt, Robin van-
dc.contributor.authorHugenholtz, Floor-
dc.contributor.authorFaber, Daniël R.-
dc.contributor.authorZaaijer, Hans L.-
dc.contributor.authorScicluna, Brendon P.-
dc.contributor.authorPoll, Tom van der-
dc.contributor.authorJoost Wiersinga, W.-
dc.identifier.citationHaak, B. W., Brands, X., Davids, M., Peters-Sengers, H., Kullberg, R. F., van Houdt, R., ... & Joost Wiersinga, W. (2022). Bacterial and viral respiratory tract microbiota and host characteristics in adults with lower respiratory tract infections: a case-control study. Clinical Infectious Diseases, 74(5), 776-784.en_GB
dc.description.abstractBackground: Viruses and bacteria from the nasopharynx are capable of causing community-acquired pneumonia (CAP), which can be difficult to diagnose. We aimed to investigate whether shifts in the composition of these nasopharyngeal microbial communities can be used as diagnostic biomarkers for CAP in adults.en_GB
dc.description.abstractMethods: We collected nasopharyngeal swabs from adult CAP patients and controls without infection in a prospective multicenter case-control study design. We generated bacterial and viral profiles using 16S ribosomal RNA gene sequencing and multiplex polymerase chain reaction (PCR), respectively. Bacterial, viral, and clinical data were subsequently used as inputs for extremely randomized trees classification models aiming to distinguish subjects with CAP from healthy controls.en_GB
dc.description.abstractResults: We enrolled 117 cases and 48 control subjects. Cases displayed significant beta diversity differences in nasopharyngeal microbiota (P = .016, R2 = .01) compared to healthy controls. Our extremely randomized trees classification models accurately discriminated CAP caused by bacteria (area under the curve [AUC] .83), viruses (AUC .95) or mixed origin (AUC .81) from healthy control subjects. We validated this approach using a dataset of nasopharyngeal samples from 140 influenza patients and 38 controls, which yielded highly accurate (AUC .93) separation between cases and controls.en_GB
dc.description.abstractConclusions: Relative proportions of different bacteria and viruses in the nasopharynx can be leveraged to diagnose CAP and identify etiologic agent(s) in adult patients. Such data can inform the development of a microbiota-based diagnostic panel used to identify CAP patients and causative agents from nasopharyngeal samples, potentially improving diagnostic specificity, efficiency, and antimicrobial stewardship practices.en_GB
dc.publisherOxford University Pressen_GB
dc.subjectNucleotide sequenceen_GB
dc.subjectCommunity-acquired pneumoniaen_GB
dc.subjectInfluenza -- Diagnosisen_GB
dc.titleBacterial and viral respiratory tract microbiota and host characteristics in adults with lower respiratory tract infections : a case-control studyen_GB
dc.rights.holderThe copyright of this work belongs to the author(s)/publisher. The rights of this work are as defined by the appropriate Copyright Legislation or as modified by any successive legislation. Users may access this work and can make use of the information contained in accordance with the Copyright Legislation provided that the author must be properly acknowledged. Further distribution or reproduction in any format is prohibited without the prior permission of the copyright holderen_GB
dc.publication.titleClinical Infectious Diseasesen_GB
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