Apr 12, 2020

Computational Modeling of the Gut Microbiota Predicts Metabolic Mechanisms of Recurrent Clostridioides difficile Infection

BioRxiv : the Preprint Server for Biology
Michael A. Henson

Abstract

Approximately 30% of patients who have a Clostridioides difficile infection (CDI) will suffer at least one incident of reinfection. While the underlying causes of CDI recurrence are poorly understood, interactions between C. difficile and other commensal gut bacteria are thought to play an important role. In this study, an in silico metagenomics pipeline was used to process taxa abundance data from 225 CDI patient stool samples into sample-specific models of bacterial community metabolism. The predicted metabolite production capabilities of each community were shown to provide improved recurrence prediction compared to direct use of taxa abundance data. More specifically, clustered metabolite synthesis rates generated from post-diagnosis samples produced a high Enterobacteriaceae cluster with disproportionate numbers of recurrent samples and patients. This cluster was predicted to have significantly reduced capabilities for secondary bile acid synthesis but elevated capabilities for aromatic amino acid catabolism. When applied to 40 samples from fecal microbiota transplantation (FMT) patients and their donors, community modeling generated a high Enterobacteriaceae cluster with a disproportionate number of pre-FMT samples. This ...Continue Reading

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Mentioned in this Paper

TBCK gene
Monomeric GTP-Binding Proteins
Brain Diseases
Cerebral Atrophy
Specimen Type - Fibroblasts
TBCK protein, human
Mice, Inbred BALB C
RASA1 gene
Hypoplasia
Brain

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