从植物和酵母中非转录因子蛋白中系统识别转录激活域
Niklas F C Hummel1, Kasey Markel2, Jordan Stefani3
1Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA; Feedstocks Division, Joint BioEnergy Institute, Emeryville, CA 94608, USA; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA; Department of Biology, Technische Universität Darmstadt, 64287 Darmstadt, Germany.
Cell systems
|June 12, 2024
概括
研究人员在植物和酵母中发现了许多非转录因子蛋白中的隐藏激活域. 这一发现扩大了我们对基因调节的理解,并为功能基因组学确定了新的协作激活剂.
科学领域:
- 分子生物学分子生物学
- 基因组学就是基因组学.
- 植物科学 植物科学
背景情况:
- 激活域对于转录因子来促进基因表达至关重要.
- 之前的全基因组屏幕主要在转录因子内映射了激活域.
- 关于非转录因子蛋白中的激活域,如染色体调节剂和协同激活剂,存在重大知识差距.
研究的目的:
- 系统地识别和分析非转录因子蛋白中的激活域.
- 研究这些域在不同物种的基因调节中的功能潜力.
- 为了使核蛋白在基因调节中具有以前未知的作用的核蛋白进行注释.
主要方法:
- 使用PADDLE (通过深度学习预测激活域) 工具来分析蛋白质组.
- 在Arabidopsis thaliana和Saccharomyces cerevisiae的800多个非转录因子基因中选了超过18,000个预测激活域.
- 分析了序列组成,以了解激活域活动的决定因素.
- 验证了在基因组工程应用中的有效性,确定了简短的"通用"激活域.
主要成果:
- 证实89%的候选非转录因子蛋白质含有活性片段,这表明其功能作用广泛.
- 他确定了数百种核蛋白质作为假定协作激活剂,其中许多具有未表征的功能,特别是在植物中.
- 证明在序列内的特定氨基酸分布与激活域活性相关.
- 经过验证的短激活域表现出与基因组工程中使用的既定域相当的性能.
结论:
- 该研究成功实现了非转录因子蛋白中激活域的全基因组发现和注释.
- 这些发现揭示了大量未开发的协作活性剂资源,在基因调节和合成生物学中具有潜在的应用.
- 开发的方法有助于识别各种真核生物系统中适用的功能激活域.
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