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rhinotypeR 能够从 VP4/2 序列中进行可复制的犀牛病毒基因型赋值
Martha M Luka1, Ruth Nanjala2, Wafaa M Rashed3,4
1School of Biodiversity, One Health and Veterinary Medicine, University of Glasgow, Glasgow, G12 8QQ, UK.
Scientific reports
|February 11, 2026
概括
犀牛病毒 (RV) 基因型鉴定现在通过rhinotypeR,一个R包自动化序列分析,更加一致和可扩展. 这种工具提高了对这些常见的呼吸道病原体的分子监测的可重复性.
科学领域:
- 病毒学 病毒学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 犀牛病毒 (RVs) 是常见的呼吸道病原体,但它们的遗传类型在研究中不一致.
- 目前用于RV基因型的方法是分散的,阻碍了可复制性和可扩展性.
研究的目的:
- 推出rhinotypeR,一个开源的R包,用于标准化和自动化犀牛病毒基因定型.
- 为RVs的分子监控提供可重现和透明的工作流.
主要方法:
- 开发了RhinotypeR,一个R包,集成了对齐,距离计算,基因型赋值和可视化.
- 应用了标准化,特定物种的基因型分配门 (10.5%的HRV-A/C,9.5%的HRV-B).
- 使用覆盖90%以上已知的RV类型的数据集验证了该包.
主要成果:
- 与现有的工具相比,rhinotypeR精确地复制了与高相关性 (r=1.000,p=0.001) 的遗传距离.
- 与以前的基因型分配达到了80%的一致性,差异主要靠近分类值.
- 病毒载量 (Ct值) 似乎没有导致分配差异.
结论:
- rhinotypeR提供了一个整合的,自动化的框架,用于一致的犀牛病毒基因型定型.
- 该包增强了RVs分子监控的可重现性和可扩展性.
- rhinotypeR可通过生物导体用于研究和公共卫生应用.
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