Cultivation and Genomics Prove Long-Term Colonization of Donor's Bifidobacteria in RecurrentClostridioides difficilePatients Treated With Fecal Microbiota Transplantation

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Jouhten , H , Ronkainen , A , Aakko , J , Salminen , S , Mattila , E , Arkkila , P & Satokari , R 2020 , ' Cultivation and Genomics Prove Long-Term Colonization of Donor's Bifidobacteria in RecurrentClostridioides difficilePatients Treated With Fecal Microbiota Transplantation ' , Frontiers in Microbiology , vol. 11 , 1663 . https://doi.org/10.3389/fmicb.2020.01663

Title: Cultivation and Genomics Prove Long-Term Colonization of Donor's Bifidobacteria in RecurrentClostridioides difficilePatients Treated With Fecal Microbiota Transplantation
Author: Jouhten, Hanne; Ronkainen, Aki; Aakko, Juhani; Salminen, Seppo; Mattila, Eero; Arkkila, Perttu; Satokari, Reetta
Contributor: University of Helsinki, HUMI - Human Microbiome Research
University of Helsinki, HUMI - Human Microbiome Research
University of Helsinki, HUS Internal Medicine and Rehabilitation
University of Helsinki, HUS Abdominal Center
University of Helsinki, Reetta Maria Satokari / Principal Investigator
Date: 2020-07-15
Language: eng
Number of pages: 13
Belongs to series: Frontiers in Microbiology
ISSN: 1664-302X
URI: http://hdl.handle.net/10138/319219
Abstract: Fecal microbiota transplantation (FMT) is an effective treatment for recurrentClostridioides difficileinfection (rCDI) and it's also considered for treating other indications. Metagenomic studies have indicated that commensal donor bacteria may colonize FMT recipients, but cultivation has not been employed to verify strain-level colonization. We combined molecular profiling ofBifidobacteriumpopulations with cultivation, molecular typing, and whole genome sequencing (WGS) to isolate and identify strains that were transferred from donors to recipients. SeveralBifidobacteriumstrains from two donors were recovered from 13 recipients during the 1-year follow-up period after FMT. The strain identities were confirmed by WGS and comparative genomics. Our results show that specific donor-derived bifidobacteria can colonize rCDI patients for at least 1 year, and thus FMT may have long-term consequences for the recipient's microbiota and health. Conceptually, we demonstrate that FMT trials combined with microbial profiling can be used as a platform for discovering and isolating commensal strains with proven colonization capacity for potential therapeutic use.
Subject: C
difficile
stool transplantation
intestinal microbiota
strain tracking
whole genome sequencing
comparative genomics
therapeutic bacteria
next-generation probiotics
CLOSTRIDIUM-DIFFICILE
ENGRAFTMENT
DIVERSITY
ALIGNMENT
BACTERIAL
STRAINS
11832 Microbiology and virology
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