使用集成网络理论框架来描述Ocimum tenuiflorum的昼夜连接体
1Centre for Computational Biology and Bioinformatics, Central University of Himahcal Pradesh, Dharamshala, Himahcal Pradesh, 176206, India.
Scientific reports
|August 11, 2023
概括
本研究引入了一种网络理论方法,用于识别药用植物Ocimum tenuiflorum (Tulsi) 中的核心昼夜钟 (CC) 和相关蛋白质. 它成功地确定了66种假定的CC相关蛋白质,进步了我们对植物昼夜调节的理解.
科学领域:
- 植物分子生物学 植物分子生物学
- 系统生物学 系统生物学
- 生物信息学是一种生物信息学.
背景情况:
- 循环时钟通过预测环境线索来调节生命的所有领域的基本生理过程.
- 了解植物的核心昼夜钟 (CC) 和相关蛋白质对于农业和药物应用至关重要.
- (Tulsi) 是一种有价值的药用植物,具有很长的使用历史,需要详细的分子研究.
研究的目的:
- 开发和应用一个集成的网络理论方法论来表征整个基因组的核心生物钟和植物中相关的蛋白质.
- 为了确定核心时钟 (CC) 蛋白质,并预测Ocimum tenuiflorum (Tulsi) 中的新型CC相关蛋白质.
- 执行已识别的CC相关蛋白的功能注释.
主要方法:
- 在56个模板植物基因组中挖掘24个核心时钟 (CC) 蛋白质,以构建隐藏的马尔科夫模型 (HMM).
- 在O. tenuiflorum中使用开发的HMMs识别24个核心时钟蛋白.
- 在Tulsi蛋白相互作用网络上使用随机步行与重启和图形度向量来预测CC相关蛋白质.
- 通过对已识别的候选蛋白进行 permutation 和丰富测试进行统计验证.
主要成果:
- 在Ocimum tenuiflorum中成功识别了24个核心时钟蛋白.
- 通过网络分析,通过网络分析确定了总共66种假定核心时钟 (CC) 相关的蛋白质.
- 对已识别的66种蛋白质进行了功能性注释,揭示了它们在植物昼夜调节中的潜在作用.
结论:
- 综合网络理论方法对于对植物中全基因组核心昼夜钟和相关蛋白质的表征是有效的.
- 这项研究提供了Ocimum tenuiflorum中66种可谓的CC相关蛋白质的综合清单,扩展了其昼夜系统的已知组成部分.
- 这些发现有助于更深入地了解像图尔西这样的药用植物中昼夜钟的功能,这对未来的研究和应用有意义.
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