Environmental Interactions and Epistasis Are Revealed in the Proteomic Responses to Complex Stimuli.
Environmental Interactions and Epistasis Are Revealed in the Proteomic Responses to Complex Stimuli.
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DOI：
10.1371/journal.pone.0134099
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发表时间：
2015
期刊：
影响因子：
3.7
通讯作者：
Link AJ
中科院分区：
文献类型：
--
作者：
Samir P;Rahul;Slaughter JC;Link AJ
最终，细胞的基因型及其与环境的相互作用决定了细胞的生化状态。虽然细胞对单一刺激的反应已被广泛研究，但对同时施加的多个环境刺激的影响进行建模的概念框架还没有得到很好的发展。在这项研究中，我们发展了环境相互作用和上位性的概念来解释S。酿酒酵母蛋白质组对同时环境刺激的反应。我们假设，作为一种抽象，环境刺激可以被视为类似的遗传因素。这将允许使用为研究基因相互作用而开发的概念和工具来模拟多种刺激的影响。我们的研究结果表明，环境的相互作用在决定蛋白质组的状态中起着至关重要的作用。我们表明，个人和复杂的环境刺激的行为类似于遗传因素在调节细胞对刺激的反应，包括显性和抑制的现象。有趣的是，我们观察到，如果对刺激的反应涉及蛋白质，则刺激对蛋白质的影响比其他刺激占主导地位。使用公开的转录组数据，我们发现，环境相互作用和上位性调节转录组反应以及。
Ultimately, the genotype of a cell and its interaction with the environment determine the cell’s biochemical state. While the cell’s response to a single stimulus has been studied extensively, a conceptual framework to model the effect of multiple environmental stimuli applied concurrently is not as well developed. In this study, we developed the concepts of environmental interactions and epistasis to explain the responses of the S. cerevisiae proteome to simultaneous environmental stimuli. We hypothesize that, as an abstraction, environmental stimuli can be treated as analogous to genetic elements. This would allow modeling of the effects of multiple stimuli using the concepts and tools developed for studying gene interactions. Mirroring gene interactions, our results show that environmental interactions play a critical role in determining the state of the proteome. We show that individual and complex environmental stimuli behave similarly to genetic elements in regulating the cellular responses to stimuli, including the phenomena of dominance and suppression. Interestingly, we observed that the effect of a stimulus on a protein is dominant over other stimuli if the response to the stimulus involves the protein. Using publicly available transcriptomic data, we find that environmental interactions and epistasis regulate transcriptomic responses as well.