Optimizing next-generation sequencing efficiency in clinical settings: analysis of read length impact on cost and performance.

ABSTRACT:

Background

The expansion of sequencing technologies as a result of the response to the COVID-19 pandemic enabled pathogen (meta)genomics to be deployed as a routine component of surveillance in many countries. Scaling genomic surveillance, however, comes with associated costs in both equipment and sequencing reagents, which should be optimized. Here, we evaluate the cost efficiency and performance of different read lengths in identifying pathogens in metagenomic samples. We carefully evaluated performance metrics, costs, and time requirements relative to choices of 75, 150 and 300 base pairs (bp) read lengths in pathogen identification.

Results

Our findings revealed that moving from 75 bp to 150 bp read length approximately doubles both the cost and sequencing time. Opting f

SUBMITTER: Meirelles PM 

PROVIDER: S-EPMC11396997 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature