Long read metagenomics-based precise tracking of bacterial strains and genomic changes after fecal microbiota transplantation.

ABSTRACT: Fecal microbiota transplantation (FMT) has revolutionized the treatment of recurrent Clostridioides difficile infection (rCDI) and is being evaluated across other diseases. Accurate tracking of bacterial strains that stably engraft in recipients is critical for understanding the determinants of strain engraftment, evaluating their correlation with clinical outcomes, and guiding the development of therapeutic bacterial consortia. While short-read sequencing has advanced FMT research, it faces challenges in strain-level de novo metagenomic assembly. In this study, we described a novel framework, LongTrack, which uses long-read metagenomic assemblies and rigorous informatics tailored for FMT strain tracking. We highlighted LongTrack's advantage over short-read approaches

SUBMITTER: Fan Y 

PROVIDER: S-EPMC12363690 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature