1. Exclusive enteral nutrition initiates individual protective microbiome changes to induce remission in pediatric Crohn's disease.
- Author
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Häcker, Deborah, Siebert, Kolja, Smith, Byron J., Köhler, Nikolai, Riva, Alessandra, Mahapatra, Aritra, Heimes, Helena, Nie, Jiatong, Metwaly, Amira, Hölz, Hannes, Manz, Quirin, De Zen, Federica, Heetmeyer, Jeannine, Socas, Katharina, Le Thi, Giang, Meng, Chen, Kleigrewe, Karin, Pauling, Josch K., Neuhaus, Klaus, and List, Markus
- Abstract
Exclusive enteral nutrition (EEN) is a first-line therapy for pediatric Crohn's disease (CD), but protective mechanisms remain unknown. We established a prospective pediatric cohort to characterize the function of fecal microbiota and metabolite changes of treatment-naive CD patients in response to EEN (German Clinical Trials DRKS00013306). Integrated multi-omics analysis identified network clusters from individually variable microbiome profiles, with Lachnospiraceae and medium-chain fatty acids as protective features. Bioorthogonal non-canonical amino acid tagging selectively identified bacterial species in response to medium-chain fatty acids. Metagenomic analysis identified high strain-level dynamics in response to EEN. Functional changes in diet-exposed fecal microbiota were further validated using gut chemostat cultures and microbiota transfer into germ-free Il10 -deficient mice. Dietary model conditions induced individual patient-specific strain signatures to prevent or cause inflammatory bowel disease (IBD)-like inflammation in gnotobiotic mice. Hence, we provide evidence that EEN therapy operates through explicit functional changes of temporally and individually variable microbiome profiles. [Display omitted] • EEN induces remission in patients with pediatric Crohn's disease • EEN creates temporally and individually variable microbiome profiles • Medium-chain fatty acids link EEN to changes in the microbiota of CD patients • Protective microbiota functions are validated in chemostat and gnotobiotic models Häcker et al. showed that exclusive enteral nutrition (EEN) in pediatric Crohn's disease (CD) creates temporally and individually variable microbiome profiles. They showed that medium-chain fatty acids link EEN to changes in the microbiota of CD patients. Finally, protective microbiota functions were validated in transfer model systems. [ABSTRACT FROM AUTHOR]
- Published
- 2024
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