人类乳头瘤病毒33型和58型的Codon使用偏差:全面分析
Xiaochun Tan1, Yucheng Xie1, Chaoyue Jiang1
1Department of Laboratory Medicine, The First Hospital of Jiaxing, Affiliated Hospital of Jiaxing University, Jiaxing, China.
Journal of basic microbiology
|February 12, 2024
概括
人类乳头瘤病毒 (HPV) 33型和58型表现出类似的编码器使用模式,偏爱以A/U结尾的编码器. 自然选择是主要的驱动因素,影响病毒进化,并可能影响HPV疫苗开发.
科学领域:
- 病毒学 病毒学
- 基因组学就是基因组学.
- 分子生物学分子生物学
背景情况:
- 子宫癌与特定的人类乳头瘤病毒 (HPV) 菌株,特别是HPV-33和HPV-58密切相关,这些菌株在中国普遍存在.
- 了解这些HPV类型的编码子使用偏差对于了解它们的分子生物学和进化至关重要.
研究的目的:
- 分析HPV-33和HPV-58的编码子使用模式.
- 为了确定影响这些HPV基因型中的codon偏好的关键因素.
- 探索在HPV-33和HPV-58中使用密码体的进化影响.
主要方法:
- 使用相对同义代码使用 (RSCU) 对代码使用偏差的分析.
- 评估GC3含量和二核酸丰度.
- 主要组件分析 (PCA) 的应用用于序列聚类.
- 使用有效编码子数图,平价规则2和中立性分析.
主要成果:
- 在HPV-33和HPV-58中,总体上表现出非显著的编码器使用偏差,对以A/U结尾的编码器有偏好.
- 针对HPV-33的GC3含量为25.43%±0.35%,而针对HPV-58的GC3含量为29.44%±0.57%.
- 主要成分分析揭示了HPV-33和HPV-58基因组的紧密聚类,表明类似的RSCU偏好.
- 自然选择被确定为代使用偏好的主要决定因素,受翻译选择和二核酸使用模式的影响.
- 这两种HPV类型都与人类共享了一组受限制的受欢迎的编码子,这可能会减少对翻译资源的竞争.
结论:
- 自然选择是决定HPV-33和HPV-58中代码子使用的主要因素.
- 观察到的编码子使用模式可能反映了对有效病毒复制和宿主病毒相互作用的适应.
- 这些发现为HPV-33和HPV-58的进化动态提供了洞察力,有助于开发向的HPV亚型疫苗.
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