Analysis of biliary MICRObiota in hepatoBILIOpancreatic diseases compared to healthy people [MICROBILIO]: Study protocol.

Fernanda Sayuri Do Nascimento,João Victor Taba,Leonardo Zumerkorn Pipek,Wellington Andraus,Vitoria Carneiro De Mattos,Alberto Meyer,Milena Oliveira Suzuki,Eduardo Guimarães Hourneaux De Moura,Leandro Iuamoto,Eugênia Machado Carneiro D’Albuquerque,Luiz Augusto Carneiro-D’Albuquerque,João Renato Rebello Pinho,João Carlos Setubal,Gianfranco D Alpini

doi:10.1371/journal.pone.0242553

Abstract

The performance of the microbiota is observed in several digestive tract diseases. Therefore, reaching the biliary microbiota may suggest ways for studies of biomarkers, diagnoses, tests and therapies in hepatobiliopancreatic diseases. Bile samples will be collected in endoscopic retrograde cholangiopancreatography patients (case group) and living liver transplantation donors (control group). We will characterize the microbiome based on two types of sequence data: the V3/V4 regions of the 16S ribosomal RNA (rRNA) gene and total shotgun DNA. For 16S sequencing data a standard 16S processing pipeline based on the Amplicon Sequence Variant concept and the qiime2 software package will be employed; for shotgun data, for each sample we will assemble the reads and obtain and analyze metagenome-assembled genomes. The primary expected results of the study is to characterize the specific composition of the biliary microbiota in situations of disease and health. In addition, it seeks to demonstrate the existence of changes in the case of illness and also possible disease biomarkers, diagnosis, interventions and therapies in hepatobiliopancreatic diseases. NCT04391426. Registered 18 May 2020, https://clinicaltrials.gov/ct2/show/NCT04391426.

Highlights

Microbioma is the set of microorganisms that occurs naturally in a particular site, such as the human gastrointestinal tract
We will characterize the microbiome based on two types of sequence data: the V3/V4 regions of the 16S ribosomal RNA gene and total shotgun Deoxyribonucleic Acid (DNA)
The primary expected results of the study is to characterize the specific composition of the biliary microbiota in situations of disease and health

Summary

Introduction

Microbioma is the set of microorganisms that occurs naturally in a particular site, such as the human gastrointestinal tract. It has trillions of microbes, including fungi, viruses and bacteria [1], which coexist with human cells. The microbiome bacteria interact with the epithelial barrier, with immune cells modulating their response, in addition to influencing local metabolism through their own metabolites. This maintains homeostasis [2]. Reaching the biliary microbiota may suggest ways for studies of biomarkers, diagnoses, tests and therapies in hepatobiliopancreatic diseases

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