Uncoupling of mucosal gene regulation, mRNA, splicing and adherent microbiota signatures in inflammatory bowel disease

Inadequate host responses to the resident intestinal microbiota likely contribute to disease manifestation and progression in human inflammatory bowel disease (IBD). However, genomic approaches to depict the nature of the defective crosstalk and consequences for intestinal metabolic and immunological networks are lacking. Here, we assess mucosal transcript levels, splicing architecture and mucosa-attached microbial communities to present a comprehensive view on this previously undescribed interaction network and how it is altered in inflammatory bowel disease.