通过培养独立的多重安普利康和元基因组测序来解读Bordetella pertussis的流行病学
Laurence Don Wai Luu1,2, Raisa Rafique1, Michael Payne1
1School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia.
Journal of clinical microbiology
|November 4, 2024
概括
百日咳的基因组监测现在可以直接从使用多重PCR amplicon测序的呼吸道抽样中进行. 这种方法准确地追踪波多特拉百日咳菌株,包括澳大利亚4号流行病系的扩散.
科学领域:
- 基因组流行病学基因组流行病学
- 微生物监测 微生物监测
- 传染病的动态传染病的动态
背景情况:
- 尽管疫苗接种率很高,但百日咳在全球范围内再次出现.
- 百日咳 Bordetella 的基因适应疫苗需要基因组监测.
- 增加的PCR诊断限制了传统的基于培养的隔离剂的可用性.
研究的目的:
- 评估针对性的多重PCR (mPCR) 片序列测序,以独立于培养的Bordetella pertussis类型.
- 评估枪元基因组测序以确定B. pertussis的基因型,直接从呼吸道抽样中获得.
- 监测流通的B. pertussis血统,并确定澳大利亚的共感染情况.
主要方法:
- 开发并验证了一种用于B. pertussis血统类型的9个目标mPCR片试验.
- 在临床呼吸器样本中应用了mPCR amplicon测序和shotgun metagenomic测序.
- 分析了2010-2012年和2019年的178个残余标本,用于B. pertussis的基因定型.
主要成果:
- mPCR amplicon测序显示出高灵敏度 (检测极限为4.6个副本).
- 快枪元基因组测序成功地在84%的标本中确定了B. pertussis的基因型 (PCR Ct < 24).
- 从2010-2012年到2019年,在澳大利亚发现了4 (EL4) 流行病系的扩散,并检测到了Bordetella holmesii的共感染.
结论:
- 独立于培养的mPCR安普利康和元基因组测序对于B. pertussis监测是有效的.
- 这些方法为COVID-19大流行病之前的百日咳流行病学提供了关键的见解.
- 在PCR诊断时代,为B. pertussis和其他病原体的基因组监测铺平了道路.
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