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Dietary carbohydrates regulate intestinal colonization and dissemination of Klebsiella pneumoniae
Aaron L. Hecht, Lisa C. Harling, Elliot S. Friedman, Ceylan Tanes, Junhee Lee, Jenni Firrman, Fuhua Hao, Vincent Tu, LinShu Liu, Andrew D. Patterson, Kyle Bittinger, Mark Goulian, Gary D. Wu
Aaron L. Hecht, Lisa C. Harling, Elliot S. Friedman, Ceylan Tanes, Junhee Lee, Jenni Firrman, Fuhua Hao, Vincent Tu, LinShu Liu, Andrew D. Patterson, Kyle Bittinger, Mark Goulian, Gary D. Wu
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Research Article Gastroenterology

Dietary carbohydrates regulate intestinal colonization and dissemination of Klebsiella pneumoniae

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Abstract

Bacterial translocation from the gut microbiota is a source of sepsis in susceptible patients. Previous work suggests that overgrowth of gut pathobionts, including Klebsiella pneumoniae, increases the risk of disseminated infection. Our data from a human dietary intervention study found that, in the absence of fiber, K. pneumoniae bloomed during microbiota recovery from antibiotic treatment. We thus hypothesized that dietary nutrients directly support or suppress colonization of this gut pathobiont in the microbiota. Consistent with our study in humans, complex carbohydrates in dietary fiber suppressed the colonization of K. pneumoniae and allowed for recovery of competing commensals in mouse models. In contrast, through ex vivo and in vivo modeling, we identified simple carbohydrates as a limiting resource for K. pneumoniae in the gut. As proof of principle, supplementation with lactulose, a nonabsorbed simple carbohydrate and an FDA-approved therapy, increased colonization of K. pneumoniae. Disruption of the intestinal epithelium led to dissemination of K. pneumoniae into the bloodstream and liver, which was prevented by dietary fiber. Our results show that dietary simple and complex carbohydrates were critical not only in the regulation of pathobiont colonization but also disseminated infection, suggesting that targeted dietary interventions may offer a preventative strategy in high-risk patients.

Authors

Aaron L. Hecht, Lisa C. Harling, Elliot S. Friedman, Ceylan Tanes, Junhee Lee, Jenni Firrman, Fuhua Hao, Vincent Tu, LinShu Liu, Andrew D. Patterson, Kyle Bittinger, Mark Goulian, Gary D. Wu

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Figure 1

A defined formula diet favors K. pneumoniae growth in humans.

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A defined formula diet favors K. pneumoniae growth in humans.
(A) Diagra...
(A) Diagram of the FARMM study design. Patients were randomized to a FF diet (EEN) or an omnivore diet; a third group remained on a vegan diet throughout the study. Recovery of the microbiome was monitored after antibiotic and PEG depletion. (B) Relative abundance of K. pneumoniae as a percentage of the microbiome determined via shotgun metagenomic sequencing, stratified by dietary group. (C) Heatmap of average stool amino acid concentrations during the microbiome recovery phase (day 14) of the FARMM study, stratified by diet. Black boxes denote a statistically significant difference of amino acid concentration between the indicated dietary groups. (D and E) Quantification of stool urea (D) and ammonia (E) at each phase of the FARMM study in samples from individuals with a high or low relative abundance of K. pneumoniae (defined as >20% K. pneumoniae by relative abundance during the recovery phase). Data are presented as the mean ± SEM. n = 10 participants per dietary group. *P < 0.05 and **P < 0.01, by 1-way ANOVA with Holm-Šidák’s correction for multiple comparisons (B), comparing the EEN versus omnivore and the EEN versus vegan groups on day 15, (D) multiple Mann-Whitney U test with the FDR method of Benjamini, Krueger, Yokutieli (C), or Kruskal-Wallis test with Dunn’s multiple-comparison test (E). Abx, antibiotics.

Copyright © 2026 American Society for Clinical Investigation
ISSN: 0021-9738 (print), 1558-8238 (online)

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