Overcoming Data Bottlenecks in Genomic Pathogen Surveillance.

ABSTRACT: Performing whole genome sequencing (WGS) for the surveillance of antimicrobial resistance offers the ability to determine not only the antimicrobials to which rates of resistance are increasing, but also the evolutionary mechanisms and transmission routes responsible for the increase at local, national, and global scales. To derive WGS-based outputs, a series of processes are required, beginning with sample and metadata collection, followed by nucleic acid extraction, library preparation, sequencing, and analysis. Throughout this pathway there are many data-related operations required (informatics) combined with more biologically focused procedures (bioinformatics). For a laboratory aiming to implement pathogen genomics, the informatics and bioinformatics activities can be a barrier to sta

SUBMITTER: Afolayan AO 

PROVIDER: S-EPMC8634317 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature