Coffee Consumption Modulates Amoxicillin-Induced Dysbiosis in the Murine Gut Microbiome

Abstract

The microbiome is essential for host health, and perturbations resulting from antibiotic use can lead to dysbiosis and disease. Diet can be a powerful modulator of microbiome composition and function, with the potential to mitigate the negative effects of antibiotic use. Thus, it is necessary to study the impacts of diet and drug interactions on the gut microbiome. Coffee is a commonly consumed beverage containing many compounds that have the potential to affect the microbiome, including caffeine, polyphenols, and fiber. We supplemented mice with caffeinated and decaffeinated coffee in conjunction with amoxicillin, and used 16S rRNA amplicon sequencing of fecal samples to investigate changes in diversity and composition of the murine fecal microbiome. We found that antibiotics, regardless of coffee supplementation, caused significant disruption to the murine fecal microbiome, enriching for Proteobacteria, Verrucomicrobia, and Bacteroidetes, but reducing Firmicutes. While we found that coffee alone did not have a significant impact on the composition of the fecal microbiome, coffee supplementation did significantly affect relative abundance metrics in mice treated with amoxicillin. After caffeinated coffee supplementation, mice treated with amoxicillin showed a smaller increase in Proteobacteria, specifically of the family Burkholderiaceae. Correspondingly we found that in vitro, Burkholderia cepacia was highly resistant to amoxicillin, and that it was inhibited by concentrations of caffeine and caffeinated coffee comparable to levels of caffeine in murine ceca. Overall, this work shows that coffee, and possibly the caffeine component, can impact both the microbiome and microbiome members during antibiotic exposure.

Identification of Causal Pathways among Gut Microbiota, Food Intake and Telomere Length: A Mendelian Randomization Study

“…For the third pathway, the TL affected the intake of ground coffee, and further influenced the relative abundance of Acidaminococcaceae. Coffee was made up of a variety of ingredients, including caffeine, polyphenols and fiber, and each of them had the potential to alter the gut microbiota [55]. Previous studies had investigated the coffee consumption was associated with Firmicutes [55], which was consistent with our results.…”

“…Coffee was made up of a variety of ingredients, including caffeine, polyphenols and fiber, and each of them had the potential to alter the gut microbiota [55]. Previous studies had investigated the coffee consumption was associated with Firmicutes [55], which was consistent with our results. The reason for the association between coffee and gut microbiota might be that the several putative stimuli (such as caffeine, polyphenol and melanoidin) could potentially stimulate gut epithelial cells, further influenced gut microbiota [56,57].…”

“…CC-BY-NC-ND 4.0 International license It is made available under a is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. (which was not certified by peer review) preprint was made up of a variety of ingredients, including caffeine, polyphenols and fiber, and each of them had the potential to alter the gut microbiota [55]. Previous studies had investigated the coffee consumption was associated with Firmicutes [55], which was consistent with our results.…”

Identification of Causal Pathways among Gut Microbiota, Food Intake and Telomere Length: A Mendelian Randomization Study

“…For the third pathway, the TL affected the intake of ground coffee, and further in uenced the relative abundance of Acidaminococcaceae. Coffee was made up of a variety of ingredients, including caffeine, polyphenols and ber, and each of them had the potential to alter the gut microbiota [55]. Previous studies had investigated the coffee consumption was associated with Firmicutes [55], which was consistent with our results.…”

“…Coffee was made up of a variety of ingredients, including caffeine, polyphenols and ber, and each of them had the potential to alter the gut microbiota [55]. Previous studies had investigated the coffee consumption was associated with Firmicutes [55], which was consistent with our results. The reason for the association between coffee and gut microbiota might be that the several putative stimuli (such as caffeine, polyphenol and melanoidin) could potentially stimulate gut epithelial cells, further in uenced gut microbiota [56,57].…”