Identification of Prosthetic Joint Infection Pathogens Using a Shotgun Metagenomics Approach.

ABSTRACT:

Background

Metagenomic shotgun sequencing has the potential to change how many infections, particularly those caused by difficult-to-culture organisms, are diagnosed. Metagenomics was used to investigate prosthetic joint infections (PJIs), where pathogen detection can be challenging.

Methods

Four hundred eight sonicate fluid samples generated from resected hip and knee arthroplasties were tested, including 213 from subjects with infections and 195 from subjects without infection. Samples were enriched for microbial DNA using the MolYsis basic kit, whole-genome amplified, and sequenced using Illumina HiSeq 2500 instruments. A pipeline was designed to screen out human reads and analyze remaining sequences for microbial content using the Livermore Metagenomics Analysis Toolkit

SUBMITTER: Thoendel MJ 

PROVIDER: S-EPMC6186856 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature