Dietary protein, fiber and coffee are associated with small intestine microbiome composition and diversity in patients with liver cirrhosis

Shehnaz K. Hussain, Tien S. Dong, Vatche Agopian, Joseph R. Pisegna, Francisco A. Durazo, Pedram Enayati, Vinay Sundaram, Jihane N. Benhammou, Mazen Noureddin, Gina Choi, Walid S. Ayoub, Venu Lagishetty, David Elashoff, Marc T. Goodman, Jonathan P. Jacobs

Research output: Contribution to journalArticlepeer-review

12 Scopus citations


The gut microbiome is a key factor in chronic liver disease progression. In prior research, we found that the duodenal microbiome was associated with sex, ethnicity, and cirrhosis complications. Here, we examined the association between diet and the duodenal microbiome in patients with liver cirrhosis. This study included 51 participants who completed a detailed food frequency questionnaire and donated duodenal biopsies for microbiome characterization by 16S ribosomal RNA gene sequencing. Data were analyzed for alpha diversity, beta diversity, and association of taxa abundance with diet quality and components using QIIME 2 pipelines. Diet quality was assessed through calculation of the Healthy Eating Index 2010. Participants with higher adherence to protein recommendations exhibited increased microbial richness and evenness (p = 0.03) and a different microbial profile compared to those with lower adherence (p = 0.03). Prevotella9 and Agathobacter were increased in association with increased protein adherence. Fiber consumption was also associated with the duodenal microbial profile (p = 0.01), with several taxa exhibiting significantly decreased or increased abundance in association with fiber intake. Coffee drinking was associated with microbial richness and evenness (p = 0.001), and there was a dose– response association between coffee drinking and relative abundance of Veillonella (p = 0.01). We conclude that protein, fiber, and coffee are associated with diversity and composition of the duodenal microbiome in liver cirrhosis.

Original languageEnglish (US)
Article number1395
Issue number5
StatePublished - May 2020


  • Diet
  • Duodenal microbiome
  • Liver cirrhosis

ASJC Scopus subject areas

  • Food Science
  • Nutrition and Dietetics


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