2018-11-14
Microbiota Analysis : From research tool to diagnostic applications
Publication
Publication
Microbiota analyse : van onderzoek naar diagnostische toepassingen
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.
| Additional Metadata | |
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| , , , | |
| J.W. Mouton (Johan) , J.P. Hays (John) , R. Jansen (Ruud) | |
| Erasmus University Rotterdam | |
| hdl.handle.net/1765/110422 | |
| Organisation | Department of Medical Microbiology and Infectious Diseases |
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Boers, S. (2018, November 14). Microbiota Analysis : From research tool to diagnostic applications. Retrieved from http://hdl.handle.net/1765/110422 |
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| Additional Files | |
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| Cover.png Cover Image , 185kb | |
| Stellingen.pdf , 59kb | |
| 110422_Appendices-Dankwoord_Curriculum_Vitae_List_of_publ.pdf Final Version , 234kb | |
| 110422_Chapter_1-General_introduction-_aim_and_outline_of.pdf Final Version , 1mb | |
| 110422_Chapter_2-Suddenly_everyone_is_a_microbiota_specia.pdf Final Version , 195kb | |
| 110422_Chapter_3-Micelle_PCR_reduces_chimera_formation_in.pdf Final Version , 298kb | |
| 110422_Chapter_4-Novel_micelle_PCR-based_method_for_accur.pdf Final Version , 335kb | |
| 110422_Chapter_5-Galaxy_mothur_Toolset.pdf Final Version , 425kb | |
| 110422_Chapter_6-Development_and_evaluation_of_a_culture-.pdf Final Version , 441kb | |
| 110422_Chapter_7-Detection_of_bacterial_DNA_in_septic_art.pdf Final Version , 209kb | |
| 110422_Chapter_8-Monitoring_of_microbial_dynamics_in_a_dr.pdf Final Version , 436kb | |
| 110422_Chapter_9-Summarizing_discussion-_conclusions-_and.pdf Final Version , 336kb | |
| 110422_Chapter_10-Nederlandse_samenvatting.pdf Final Version , 182kb | |
