Limited value of Nanopore adaptive sampling in a long-read metagenomic profiling workflow of clinical sputum samples.

ABSTRACT:

Background

Oxford Nanopore adaptive sampling (NAS) is a method by which the long-read sequencing flowcell accepts or rejects DNA molecules that are actively being sequenced based on their initial ~ 500 bp sequences, selectively increasing target data output. NAS promises up to 5-10 × enrichment of target sequencing yield without additional sample preparation, but this optimal performance is dependent on ideal sample parameters which may be difficult to achieve under many real-world use-cases. We evaluated the use of NAS for profiling clinical sputum metagenomes.

Methods

We sequenced DNA extracted from clinical sputa and spike-in controls of a mock community of bacterial respiratory pathogens, using the current R10.4.1 MinION flowcell chemistry.

Results

We achieved at

SUBMITTER: Xu W 

PROVIDER: S-EPMC12797978 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature