Journal article

Novel strain-level resolution of Crohn's disease mucosa-associated microbiota via an ex vivo combination of microbe culture and metagenomic sequencing.

JJ Teh, EM Berendsen, EC Hoedt, S Kang, J Zhang, F Zhang, Q Liu, AL Hamilton, A Wilson-O'Brien, J Ching, JJY Sung, J Yu, SC Ng, MA Kamm, M Morrison

The ISME Journal: Multidisciplinary Journal of Microbial Ecology | Springer Science and Business Media LLC | Published : 2021

Abstract

The mucosa-associated microbiota is widely recognized as a potential trigger for Crohn's disease pathophysiology but remains largely uncharacterised beyond its taxonomic composition. Unlike stool microbiota, the functional characterisation of these communities using current DNA/RNA sequencing approaches remains constrained by the relatively small microbial density on tissue, and the overwhelming amount of human DNA recovered during sample preparation. Here, we have used a novel ex vivo approach that combines microbe culture from anaerobically preserved tissue with metagenome sequencing (MC-MGS) to reveal patient-specific and strain-level differences among these communities in post-operative ..

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