一个生物信息学管道,用于病原体监测多重复数安普利康测序测试试验
Lynn M Osikowicz1, Andrias Hojgaard1, Sarah Maes1
1Division of Vector-Borne Diseases, National Center for Emerging and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, Fort Collins, CO, United States.
Ticks and tick-borne diseases
|May 29, 2023
概括
一个新的生物信息学管道增强了使用下一代测序来检测传播的病原体. 这种工具可以改善对莱姆病等疾病的监测,为公共卫生提供可重复和自动化的分析.
科学领域:
- 载体传播疾病监测监测 载体传播疾病监测
- 生物信息学是一种生物信息学.
- 基因组测序技术 基因组测序技术
背景情况:
- 疾病控制和预防中心 (CDC) 在美国监测传播的病原体,以了解疾病的分布和风险.
- 下一代测序 (NGS) 与传统方法相比,可以更好地检测传播的病原体.
研究的目的:
- 开发和验证一个高通量生物信息管道,用于多重PCR片测序 (MPAS) 试验.
- 为了使大规模监测数据的有效和可重复分析.
主要方法:
- 开发一个便携式和可重复的生物信息管道,用于MPAS数据分析.
- 简要报告的自动化,BLAST分析和家族遗传分析.
- 通过将管道结果与现有工作流进行比较来验证175只 Ixodes scapularis nymphs 的数据集.
主要成果:
- 该MPAS管道在不同的计算环境中展示了可重现性和灵活性.
- 与之前的分析相比,Anaplasma phagocytophilum和Babesia物种的检测率相同.
- 增强Borrelia burgdorferi sensu lato同时感染的样本的测序分辨率.
结论:
- MPAS管道是用于高通量病原体监测的强大而有效的工具.
- 管道的自动化和增强的分辨率支持公共卫生努力,了解和控制传播疾病.
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