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

PloS One
Fernanda Sayuri do NascimentoLuiz Augusto Carneiro-D'Albuquerque

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.

References

Oct 10, 2015·Nutrition in Clinical Practice : Official Publication of the American Society for Parenteral and Enteral Nutrition·Gail A Cresci, Emmy Bawden
Jan 11, 2016·Journal of Gastroenterology·Marion LenoirLuis G Bermúdez-Humarán
May 24, 2016·Nature Methods·Benjamin J CallahanSusan P Holmes
May 27, 2016·PloS One·Carmen HaroAntonio Camargo
Jun 28, 2016·Nucleic Acids Research·Tatiana TatusovaJames Ostell
May 22, 2017·Cancer Letters·Kosuke MimaHideo Baba
Aug 26, 2018·Clinical Gastroenterology and Hepatology : the Official Clinical Practice Journal of the American Gastroenterological Association·Venkata S AkshintalaMichael Goggins
Aug 28, 2018·Nature Biotechnology·Donovan H ParksPhilip Hugenholtz
Sep 17, 2018·Microbiome·Gherman V UritskiyJames Taylor
May 15, 2019·Molecular Aspects of Medicine·Ester SausToni Gabaldón
Aug 10, 2019·Cell·Erick RiquelmeFlorencia McAllister
Sep 27, 2019·Nature Reviews. Gastroenterology & Hepatology·Sunny H Wong, Jun Yu
Nov 30, 2019·Genome Biology·Derrick E WoodBen Langmead

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Methods Mentioned

BETA
sedation
pregnancy test
PCA

Clinical Trials Mentioned

NCT04391426

Software Mentioned

eHOMD
R
metaWrap
ANOSIM
deblur
SPSS
MICROBILIO
ANCOM
Python
PERMANOVA

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