Shallow metagenomic shotgun sequencing improves detection of pathogenic species in cystic fibrosis respiratory samples.

ABSTRACT:

Background

Chronic infection and inflammation of the lungs contribute significantly to disease progression in persons with cystic fibrosis (pwCF). Treatment regimens are largely based on isolating the putative causative pathogen(s) from respiratory samples using basic culturing methods. While this strategy has shown to be highly valuable in the management of CF, the approach is time-consuming and often misses detection of pathogenic microbes that are more difficult to culture, including Mycobacterium spp.

Methods

In our proof-of-concept study, we evaluated shallow metagenomic shotgun sequencing to detect potential infection-causing pathogens at species level in sputum, oropharyngeal and salivary samples of pwCF (n = 13), and compared it to culture results from the clinic and

SUBMITTER: Cauwenberghs E 

PROVIDER: S-EPMC12463681 | biostudies-literature | 2025 Sep

REPOSITORIES: biostudies-literature