实施一个内部平台,快速查SARS-CoV-2基因组变异
Farzane Zare Ashrafi1, Marzieh Mohseni1,2, Maryam Beheshtian1,2
1Genetics Research Center, University of Social Welfare and Rehabilitation Sciences, Tehran, Iran.
Archives of Iranian medicine
|August 6, 2023
概括
一种新的桑格测序方法能够有效地追踪SARS-CoV-2变种,包括关键关注变种 (VOCs),在低资源环境中. 这种可访问的平台有助于全球流行病控制工作.
科学领域:
- 病毒学 病毒学
- 基因组学就是基因组学.
- 公共卫生 公共卫生
背景情况:
- 实时监测SARS-CoV-2变种对于控制COVID-19大流行至关重要.
- 低资源环境中的实验室在实施先进的基因组监测方面面临挑战.
- 现有的方法可能是昂贵的或需要广泛的基础设施.
研究的目的:
- 开发和验证一个基于桑格测序的平台,用于大规模的SARS-CoV-2变种跟踪.
- 评估这个平台在资源有限的实验室环境中的可行性和准确性.
- 为了快速识别SARS-CoV-2令人担忧的变种 (VOCs).
主要方法:
- 利用嵌套的RT-PCR和桑格测序,针对SARS-CoV-2尖端基因的930bp区域.
- 将内部平台的结果与全基因组测序 (WGS) 数据进行比较以进行验证.
- 应用了经过验证的方法来选2021年3月至9月期间收集的1028个临床样本.
主要成果:
- 与WGS相比,实现了突变检测的91.24%一致性和谱系分配的89.78%一致性.
- 已证明对关注变体 (VOC) 识别的100%一致性.
- 在1028个样本中检测到78种不同的突变,其中常见的突变包括S:D614G,S:P681R和S:L452R. 鉴定出Delta和Alpha变种作为流行的VOC.
结论:
- 开发的基于桑格的测定是一种可访问和有效的策略,用于在基础设施有限的环境中分配SARS-CoV-2血统.
- 这种方法有助于快速追踪SARS-CoV-2的VOC,为全球流行病监测做出贡献.
- 该平台提供了一种可行的解决方案,用于提高资源有限的地区的基因组流行病学能力.
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