Rapid identification of pathogens associated with ventilator-associated pneumonia by Nanopore sequencing.

ABSTRACT:

Background

Aetiology detection is crucial in the diagnosis and treatment of ventilator-associated pneumonia (VAP). However, the detection method needs improvement. In this study, we used Nanopore sequencing to build a quick detection protocol and compared the efficiency of different methods for detecting 7 VAP pathogens.

Methods

The endotracheal aspirate (ETA) of 83 patients with suspected VAP from Peking University Third Hospital (PUTH) was collected, saponins were used to deplete host genomes, and PCR- or non-PCR-amplified library construction methods were used and compared. Sequence was performed with MinION equipment and local data analysis methods were used for sequencing and data analysis.

Results

Saponin depletion effectively removed 11 of 12 human genomes, whi

SUBMITTER: Wu N 

PROVIDER: S-EPMC8665642 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature