{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Aggarwala V"],"funding":["NIDDK NIH HHS","Crohn's & Colitis Foundation","NCI NIH HHS"],"pagination":["1309-1318"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC8993687"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["6(10)"],"pubmed_abstract":["Fecal microbiota transplantation (FMT) has been successfully applied to treat recurrent Clostridium difficile infection in humans, but a precise method to measure which bacterial strains stably engraft in recipients and evaluate their association with clinical outcomes is lacking. We assembled a collection of >1,000 different bacterial strains that were cultured from the fecal samples of 22 FMT donors and recipients. Using our strain collection combined with metagenomic sequencing data from the same samples, we developed a statistical approach named Strainer for the detection and tracking of bacterial strains from metagenomic sequencing data. We applied Strainer to evaluate a cohort of 13 FMT longitudinal clinical interventions and detected stable engraftment of 71% of donor microbiota str"],"journal":["Nature microbiology"],"pubmed_title":["Precise quantification of bacterial strains after fecal microbiota transplantation delineates long-term engraftment and explains outcomes."],"pmcid":["PMC8993687"],"funding_grant_id":["U24 CA224319","R01 DK123749","580924","R01 DK112978","R01 DK124133","U01 DK124165"],"pubmed_authors":["Chen-Liaw A","Colombel JF","Mogno I","Mitcham J","Yang C","Grinspan A","Li Z","Faith J","Bongers G","Gevers D","Britton GJ","Aggarwala V","Clemente JC"],"additional_accession":[]},"is_claimable":false,"name":"Precise quantification of bacterial strains after fecal microbiota transplantation delineates long-term engraftment and explains outcomes.","description":"Fecal microbiota transplantation (FMT) has been successfully applied to treat recurrent Clostridium difficile infection in humans, but a precise method to measure which bacterial strains stably engraft in recipients and evaluate their association with clinical outcomes is lacking. We assembled a collection of >1,000 different bacterial strains that were cultured from the fecal samples of 22 FMT donors and recipients. Using our strain collection combined with metagenomic sequencing data from the same samples, we developed a statistical approach named Strainer for the detection and tracking of bacterial strains from metagenomic sequencing data. We applied Strainer to evaluate a cohort of 13 FMT longitudinal clinical interventions and detected stable engraftment of 71% of donor microbiota str","dates":{"release":"2021-01-01T00:00:00Z","publication":"2021 Oct","modification":"2026-05-31T01:09:50.632Z","creation":"2025-04-03T22:51:50.708Z"},"accession":"S-EPMC8993687","cross_references":{"pubmed":["34580445"],"doi":["10.1038/s41564-021-00966-0"]}}