Microbiota profiling is currently a ‘hot topic’ of research in many fields of medicine and of interest to many different scientific disciplines. Advances in molecular technologies mean that it is now possible to detect a theoretically unlimited number of microorganisms, present in all kinds of microbial samples, using a culture-independent 16S rRNA gene next-generation sequencing (NGS) approach. Importantly however, these powerful methods have not yet made the transition from research tool to (clinical) diagnostic practice due to the lack of a standardized protocol and the requirement for expert bioinformaticians to analyse the NGS data obtained. In this thesis, the author describes the stepwise development of an standardized microbiota profiling platform (MYcrobiota), which consists of a novel micelle-based PCR amplification strategy coupled to a dedicated and easy-to-use bioinformatics pipeline. The MYcrobiota process has been validated and evaluated using a range of samples, including synthetic microbial community mixes, medical specimens and environmental samples.

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Keywords Microbiota, Micelle PCR, Bioinformatics, Clinical Diagnostics
Promotor J.W. Mouton (Johan) , J.P. Hays (John) , R. Jansen (Ruud)
Publisher Erasmus University Rotterdam
ISBN 978-94-6361-161-9
Persistent URL hdl.handle.net/1765/110422
Note For copyright reasons there is a partial embargo for this dissertation
Boers, S.A. (2018, November 14). Microbiota Analysis : From research tool to diagnostic applications. Erasmus University Rotterdam. Retrieved from http://hdl.handle.net/1765/110422