Protocol for microbial profiling of low-biomass upper respiratory tract samples

Protocol for microbial profiling of low-biomass upper respiratory tract samples

Summary: The upper respiratory tract (URT) microbiota plays a role in both acute and chronic respiratory health outcomes and consists of multiple ecologically distinct niches, all of which have low bacterial biomass. Here, we present a protocol for microbial profiling of low-biomass URT samples. We...

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Main Authors: Mari-Lee Odendaal, Mei Ling J.N. Chu, Kayleigh Arp, Gina J. van Beveren, Giske Biesbroek, Justyna Binkowska, Thijs Bosch, James A. Groot, Raiza Hasrat, Sjoerd Kuiling, Elske M. van Logchem, Paula Lusarreta Parga, Wouter A.A. de Steenhuijsen Piters, Debby Bogaert
Format: Article
Language:English
Published: Elsevier 2025-06-01
Series:STAR Protocols
Subjects:
Bioinformatics
Sequence analysis
Health Sciences
Sequencing
Microbiology
Molecular Biology
Online Access:http://www.sciencedirect.com/science/article/pii/S2666166725001467
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Summary:Summary: The upper respiratory tract (URT) microbiota plays a role in both acute and chronic respiratory health outcomes and consists of multiple ecologically distinct niches, all of which have low bacterial biomass. Here, we present a protocol for microbial profiling of low-biomass URT samples. We describe steps for collecting, storing, and extracting DNA. We then detail procedures for performing 16S rRNA sequencing, using an Illumina MiSeq platform, to characterize microbial communities.For complete details on the use and execution of this protocol, please refer to Odendaal et al.1 : Publisher’s note: Undertaking any experimental protocol requires adherence to local institutional guidelines for laboratory safety and ethics.
ISSN:2666-1667

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