Real-time analysis of nanopore-based metagenomic sequencing from infected orthopaedic devices.

ABSTRACT:

Background

Prosthetic joint infections are clinically difficult to diagnose and treat. Previously, we demonstrated metagenomic sequencing on an Illumina MiSeq replicates the findings of current gold standard microbiological diagnostic techniques. Nanopore sequencing offers advantages in speed of detection over MiSeq. Here, we report a real-time analytical pathway for Nanopore sequence data, designed for detecting bacterial composition of prosthetic joint infections but potentially useful for any microbial sequencing, and compare detection by direct-from-clinical-sample metagenomic nanopore sequencing with Illumina sequencing and standard microbiological diagnostic techniques.

Results

DNA was extracted from the sonication fluids of seven explanted orthopaedic devices, and add

SUBMITTER: Sanderson ND 

PROVIDER: S-EPMC6161345 | biostudies-literature | 2018 Sep

REPOSITORIES: biostudies-literature