Modeling genome-wide by environment interactions through omnigenic interactome networks
Modeling genome-wide by environment interactions through omnigenic interactome networks
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DOI：
10.1016/j.celrep.2021.109114
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发表时间：
2021-05-11
期刊：
影响因子：
8.8
通讯作者：
Wu, Rongling
中科院分区：
文献类型：
--
作者：
Wang, Haojie;Ye, Meixia;Wu, Rongling
基因如何与环境相互作用形成表型变异和进化是各个领域生物学家感兴趣的一个基本问题。建立在单基因基础上的现有线性模型不足以揭示基因-环境(G-E)相互作用的复杂性。在这里，我们发展了一个概念模型，通过整合以前分离的理论和方法来机械地剖析G-E相互作用。在这种集成下，进化博弈论、发展模块化理论和变量选择方法使我们能够重建环境诱导的、信息量最大的、稀疏的和随意的多层遗传网络。为了验证模型的生物学应用，我们设计并进行了两个以沙漠适应树种为例的测绘实验。该模型确定了以前未被描述的调节树木对盐分胁迫反应的分子机制。我们的模型提供了一个工具来理解性状变异和进化的遗传结构，并追踪每个基因在全基因网络中朝向表型的信息流。
How genes interact with the environment to shape phenotypic variation and evolution is a fundamental question intriguing to biologists from various fields. Existing linear models built on single genes are inadequate to reveal the complexity of genotype-environment (G-E) interactions. Here, we develop a conceptual model for mechanistically dissecting G-E interplay by integrating previously disconnected theories and methods. Under this integration, evolutionary game theory, developmental modularity theory, and a variable selection method allow us to reconstruct environment-induced, maximally informative, sparse, and casual multilayer genetic networks. We design and conduct two mapping experiments by using a desert-adapted tree species to validate the biological application of the model proposed. The model identifies previously uncharacterized molecular mechanisms that mediate trees' response to saline stress. Our model provides a tool to comprehend the genetic architecture of trait variation and evolution and trace the information flow of each gene toward phenotypes within omnigenic networks.