Next-generation fungal identification using target enrichment and Nanopore sequencing.

ABSTRACT:

Background

Rapid and accurate pathogen identification is required for disease management. Compared to sequencing entire genomes, targeted sequencing may be used to direct sequencing resources to genes of interest for microbe identification and mitigate the low resolution that single-locus molecular identification provides. This work describes a broad-spectrum fungal identification tool developed to focus high-throughput Nanopore sequencing on genes commonly employed for disease diagnostics and phylogenetic inference.

Results

Orthologs of targeted genes were extracted from 386 reference genomes of fungal species spanning six phyla to identify homologous regions that were used to design the baits used for enrichment. To reduce the cost of producing probes without diminishing t

SUBMITTER: Yu PL 

PROVIDER: S-EPMC10544392 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature