Using nanopore sequencing to identify bacterial infection in joint replacements: a preliminary study.

ABSTRACT: This project investigates if third-generation genomic sequencing can be used to identify the species of bacteria causing prosthetic joint infections (PJIs) at the time of revision surgery. Samples of prosthetic fluid were taken during revision surgery from patients with known PJIs. Samples from revision surgeries from non-infected patients acted as negative controls. Genomic sequencing was performed using the MinION device and the rapid sequencing kit from Oxford Nanopore Technologies. Bioinformatic analysis pipelines to identify bacteria included Basic Local Alignment Search Tool, Kraken2 and MinION Detection Software, and the results were compared with standard of care microbiological cultures. Furthermore, there was an attempt to predict antibiotic resistance using computational tools i

SUBMITTER: Wilkinson H 

PROVIDER: S-EPMC11428152 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature