构成人类和老鼠ORFeome的基因和途径显示了不同的Codon偏差特征,可以调节蛋白质水平
Evan T Davis1,2,3,4,5, Rahul Raman1,2,3, Shane R Byrne3
1The RNA Institute, University at Albany, Albany, NY.
bioRxiv : the preprint server for biology
|February 20, 2025
概括
对人类和小鼠基因的计算分析揭示了与特定生物通路相关的编码偏差特征. 转录因子中的极端密码子偏差可以调节蛋白质水平,影响免疫反应和发育.
科学领域:
- 基因组学和分子生物学
- 计算生物学 计算生物学
- 翻译条例 翻译条例
背景情况:
- 带偏差,特别是涉及氨酸,谷氨酸和氨酸,影响mRNA对压力反应,细胞循环和转录调节中的蛋白质的翻译.
- 在基因网络中识别编码子偏差可以在翻译控制下发现额外的途径.
研究的目的:
- 通过计算分析人类和小鼠的ORFeomes,以表征基因和生物过程中代码的使用和偏差.
- 为了识别多个codon偏见的签名和它们与特定的生物通路和基因网络的关联.
主要方法:
- 对人类 (19,711) 和老鼠 (22,138) 开放式读取框架 (ORF) 的全基因组分析.
- 应用ORFeome-wide聚类的编码频率数据.
- 编码子过度使用本体学映射和等级聚类的开发.
- 在特定的转录因子中对子使用的实验性重新设计.
主要成果:
- 整个ORFeome的聚类确定了丰富的生物过程,包括两种物种的发育和免疫程序.
- 多个codon偏差签名与信号传递,发育,线粒体和新陈代谢有关.
- 在人类皮肤发育/RNA代谢和小鼠嗅觉转导/核糖体通路中发现了不同的特征.
- 在转录因子和基因组变异中观察到极端的编码子偏差,重新工程影响了蛋白质水平.
结论:
- 多个codon偏差签名与特定的生物学途径有关.
- 转录因子中的极端密码子偏差表明了免疫反应和发育的调节潜力.
- 这项研究强调了特定物种的转化调节机制.
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