解读基于体脱聚合酶和细菌表面甘氨酸与深度学习的关联的体宿主特异性
Yiyan Yang1, Keith Dufault-Thompson1, Wei Yan1
1National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.
bioRxiv : the preprint server for biology
|July 28, 2023
概括
我们开发了SpikeHunter,这是一种使用人工智能识别菌体尾尖蛋白的新方法,对于确定细菌宿主特异性至关重要. 这种工具通过将蛋白质与细菌血清型联系起来,有助于发现新的菌体疗法.
科学领域:
- 微生物学 微生物学
- 生物信息学是一种生物信息学.
- 结构生物学 结构生物学
背景情况:
- 菌体尾尖蛋白是菌体宿主特异性的关键决定因素,向细菌表面的糖基.
- 鉴定这些蛋白质是具有挑战性的,因为它们的高序列多样性.
研究的目的:
- 开发一种新的计算方法来识别菌体尾尖蛋白.
- 在多种物种中分析尾尖蛋白和细菌血清型之间的关联.
主要方法:
- 开发SpikeHunter,一种利用ESM-2蛋白语言模型的方法.
- 从五种常见病原体的165,365个基因组中对8,434,494个prophages进行大规模查.
- 对宿主血清型关联的尾尖蛋白序列和域结构的分析.
主要成果:
- 鉴定了231,965个尾尖蛋白,其中143,035个显示出强烈的血清型关联.
- 在具有相关血清型的物种中发现非常相似的尾尖蛋白.
- 对广泛的域互换的观察,特别是在C端域中,与宿主血清型相关.
结论:
- 斯派克亨特有效地识别了菌体尾尖蛋白及其血清型协会.
- 尾尖蛋白域,特别是C终端,在确定菌体宿主范围方面发挥着重要作用.
- 这些发现为推进菌体治疗和生物技术应用提供了宝贵的见解.
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