Metrological evaluation of DNA extraction method effects on the bacterial microbiome and resistome in sputum.

ABSTRACT: Targeted high-throughput sequencing (HTS) has revolutionized the way we look at bacterial communities. It can be used for the species-specific detection of bacteria as well as for the determination of the microbiome and resistome and can be applied to samples from almost any environment. However, the results of targeted HTS can be influenced by many factors, which poses a major challenge for its use in clinical diagnostics. In this study, we investigated the impact of the DNA extraction method on the determination of the bacterial microbiome and resistome by targeted HTS using principles from metrology and diagnostics such as repeatability and analytical sensitivity. Sputum samples spiked with Acinetobacter baumannii, Klebsiella pneumoniae, and Pseudomonas aeruginosa a

SUBMITTER: Bencic A 

PROVIDER: S-EPMC11406916 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature