通过全基因组测序进行细菌基因分型在公共卫生实验室的疾病监测和疫情调查中起着至关重要的作用。这项研究评估了牛津纳米孔技术(ONT)测序在单核细胞增生李斯特菌和肠炎沙门氏菌基因分型中的有效性。我们的结果表明,ONT序列,使用R10.4.1流动池生成,并使用Dorado0.5.0超精确4.3模型进行基础处理,表现出与Illumina序列相当的准确性,有效区分来自爆发的细菌菌株。这些发现表明,ONT测序有可能成为公共卫生实验室中用于流行病学调查的细菌病原体快速全基因组测序的有希望的工具。
目的:这项研究揭示了牛津纳米孔技术测序,本身,在公共卫生实验室中具有作为基于全基因组测序的基因分型工具的潜力,能够对细菌分离株进行常规亚型分型,用于疾病监测和疫情调查。
Bacterial genotyping through whole-genome sequencing plays a crucial role in disease surveillance and outbreak investigations in public health laboratories. This study assessed the effectiveness of Oxford Nanopore Technologies (ONT) sequencing in the genotyping of Listeria monocytogenes and Salmonella enterica serovar Enteritidis. Our results indicated that ONT sequences, generated with the R10.4.1 flow cell and basecalled using the Dorado 0.5.0 Super Accurate 4.3 model, exhibited comparable accuracy to Illumina sequences, effectively discriminating among bacterial strains from outbreaks. These findings suggest that ONT sequencing has the potential to be a promising tool for rapid whole-genome sequencing of bacterial pathogens in public health laboratories for epidemiological investigations.
OBJECTIVE: This study unveils that Oxford Nanopore Technologies sequencing, by itself, holds the potential to serve as a whole-genome sequencing-based genotyping tool in public health laboratories, enabling routine subtyping of bacterial isolates for disease surveillance and outbreak investigations.