Longitudinal microbiome analysis of single donor fecal microbiota transplantation in patients with recurrent Clostridium difficile infection and/or ulcerative colitis
| Autor: | Ellen Li, Breana Channer, Anupama Chawla, Joseph F. LaComb, Shanawaj Khair, Farah Monzur, Jiyhe Park, Jonathan M. Buscaglia, Juan Carlos Bucobo, Michael Mintz, Suman Grewal, Charlie E Robertson, Daniel N. Frank, Jie Yang, Ramona Rajapakse |
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| Rok vydání: | 2018 |
| Předmět: |
0301 basic medicine
genetic structures lcsh:Medicine Pathology and Laboratory Medicine Polymerase Chain Reaction Biochemistry Gastroenterology Inflammatory bowel disease Feces Recurrence Medicine and Health Sciences Longitudinal Studies Prospective Studies lcsh:Science Multidisciplinary biology Organic Compounds Microbiota Genomics Fecal Microbiota Transplantation Clostridium difficile Colitis Ulcerative colitis Bacterial Pathogens Nucleic acids Chemistry Treatment Outcome Ribosomal RNA Medical Microbiology Physical Sciences Steroids Pathogens Research Article Cell biology medicine.medical_specialty Cellular structures and organelles Clostridium Difficile Firmicutes Surgical and Invasive Medical Procedures Gastroenterology and Hepatology Microbial Genomics Microbiology 03 medical and health sciences Internal medicine Genetics medicine Humans Ulcerative Colitis Microbiome Non-coding RNA Microbial Pathogens Clostridium Bacteria Clostridioides difficile business.industry lcsh:R Inflammatory Bowel Disease Gut Bacteria Organic Chemistry Lachnospiraceae Organisms Chemical Compounds Biology and Life Sciences Endoscopy Fusobacteria medicine.disease biology.organism_classification 030104 developmental biology Clostridium Infections RNA lcsh:Q Colitis Ulcerative business Ribosomes |
| Zdroj: | PLoS ONE PLoS ONE, Vol 13, Iss 1, p e0190997 (2018) |
| ISSN: | 1932-6203 |
| DOI: | 10.1371/journal.pone.0190997 |
| Popis: | Background Studies of colonoscopic fecal microbiota transplant (FMT) in patients with recurrent CDI, indicate that this is a very effective treatment for preventing further relapses. In order to provide this service at Stony Brook University Hospital, we initiated an open-label prospective study of single colonoscopic FMT among patients with ≥ 2 recurrences of CDI, with the intention of monitoring microbial composition in the recipient before and after FMT, as compared with their respective donor. We also initiated a concurrent open label prospective trial of single colonoscopic FMT of patients with ulcerative colitis (UC) not responsive to therapy, after obtaining an IND permit (IND 15642). To characterize how FMT alters the fecal microbiota in patients with recurrent Clostridia difficile infections (CDI) and/or UC, we report the results of a pilot microbiome analysis of 11 recipients with a history of 2 or more recurrences of C. difficile infections without inflammatory bowel disease (CDI-only), 3 UC recipients with recurrent C. difficile infections (CDI + UC), and 5 UC recipients without a history of C. difficile infections (UC-only). Method V3V4 Illumina 16S ribosomal RNA (rRNA) gene sequencing was performed on the pre-FMT, 1-week post-FMT, and 3-months post-FMT recipient fecal samples along with those collected from the healthy donors. Fitted linear mixed models were used to examine the effects of Group (CDI-only, CDI + UC, UC-only), timing of FMT (Donor, pre-FMT, 1-week post-FMT, 3-months post-FMT) and first order Group*FMT interactions on the diversity and composition of fecal microbiota. Pairwise comparisons were then carried out on the recipient vs. donor and between the pre-FMT, 1-week post-FMT, and 3-months post-FMT recipient samples within each group. Results Significant effects of FMT on overall microbiota composition (e.g., beta diversity) were observed for the CDI-only and CDI + UC groups. Marked decreases in the relative abundances of the strictly anaerobic Bacteroidetes phylum, and two Firmicutes sub-phyla associated with butyrate production (Ruminococcaceae and Lachnospiraceae) were observed between the CDI-only and CDI + UC recipient groups. There were corresponding increases in the microaerophilic Proteobacteria phylum and the Firmicutes/Bacilli group in the CDI-only and CDI + UC recipient groups. At a more granular level, significant effects of FMT were observed for 81 genus-level operational taxonomic units (OTUs) in at least one of the three recipient groups (p |
| Databáze: | OpenAIRE |
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