在单细胞分辨率下高效准确地检测病毒序列,揭示了干扰宿主基因表达的假定新型病毒
Laura Luebbert1, Delaney K Sullivan1,2, Maria Carilli1
1Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, California.
bioRxiv : the preprint server for biology
|January 3, 2024
概括
一种新方法快速检测大量和单细胞数据中的各种病毒序列,使用保存的氨基酸域. 这种方法有助于理解病毒与疾病的联系和宿主反应,这对于公共卫生监测至关重要.
科学领域:
- 病毒学 病毒学
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 哺乳动物病毒构成重大威胁,估计有30万种能够引起传染病的病毒.
- 准确的病毒检测对于了解疾病影响和预防流行病至关重要.
- 高通量测序为病毒监测提供了潜力,但目前的方法有局限性.
研究的目的:
- 引入一种用于快速准确检测转录组学数据中的病毒序列的新方法.
- 为了能够检测广泛的RNA病毒,包括新型物种.
- 在单细胞分辨率下对宿主病毒和宿主反应进行表征.
主要方法:
- 开发了一种利用高度保守的氨基酸域用于病毒序列识别的方法.
- 将该方法应用于批量和单细胞转录组学数据.
- 启用了对病毒存在和宿主基因表达的并行分析.
主要成果:
- 该方法准确且快速检测病毒序列,覆盖超过10万种病毒物种.
- 启用了宿主病毒体的表征和病毒热带的识别.
- 在 rhesus macaque 外周血液单核细胞 (PBMC) 数据中鉴定出潜在的新型病毒,具有细胞类型特异性和相关的宿主基因表达变化.
结论:
- 新方法克服了基于参考的方法的局限性,并保留了单细胞分辨率.
- 促进了全面的病毒体特征和理解病毒与宿主相互作用.
- 为传染病监测和研究提供了强大的工具.
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