Lab of Control and Systems Biology, Department of Electrical Engineering, National Tsing Hua University, Hsinchu, Taiwan, Republic of China.
Evol Bioinform Online. 2014 Feb 16;10:17-38. doi: 10.4137/EBO.S13227. eCollection 2014.
In this study, a population of evolutionary biological networks is described by a stochastic dynamic system with intrinsic random parameter fluctuations due to genetic variations and external disturbances caused by environmental changes in the evolutionary process. Since information on environmental changes is unavailable and their occurrence is unpredictable, they can be considered as a game player with the potential to destroy phenotypic stability. The biological network needs to develop an evolutionary strategy to improve phenotypic stability as much as possible, so it can be considered as another game player in the evolutionary process, ie, a stochastic Nash game of minimizing the maximum network evolution level caused by the worst environmental disturbances. Based on the nonlinear stochastic evolutionary game strategy, we find that some genetic variations can be used in natural selection to construct negative feedback loops, efficiently improving network robustness. This provides larger genetic robustness as a buffer against neutral genetic variations, as well as larger environmental robustness to resist environmental disturbances and maintain a network phenotypic traits in the evolutionary process. In this situation, the robust phenotypic traits of stochastic biological networks can be more frequently selected by natural selection in evolution. However, if the harbored neutral genetic variations are accumulated to a sufficiently large degree, and environmental disturbances are strong enough that the network robustness can no longer confer enough genetic robustness and environmental robustness, then the phenotype robustness might break down. In this case, a network phenotypic trait may be pushed from one equilibrium point to another, changing the phenotypic trait and starting a new phase of network evolution through the hidden neutral genetic variations harbored in network robustness by adaptive evolution. Further, the proposed evolutionary game is extended to an n-tuple evolutionary game of stochastic biological networks with m players (competitive populations) and k environmental dynamics.
在这项研究中,由于遗传变异引起的内在随机参数波动和进化过程中环境变化引起的外部干扰,通过具有固有随机参数波动的随机动态系统来描述进化生物网络种群。由于环境变化的信息不可用,而且它们的发生是不可预测的,因此可以将其视为具有破坏表型稳定性潜力的博弈参与者。生物网络需要制定进化策略,尽可能提高表型稳定性,因此可以将其视为进化过程中的另一个博弈参与者,即最大限度地减少由最坏环境干扰引起的网络进化水平的随机纳什博弈。基于非线性随机进化博弈策略,我们发现一些遗传变异可以被用于自然选择来构建负反馈回路,从而有效地提高网络鲁棒性。这提供了更大的遗传鲁棒性作为对中性遗传变异的缓冲,以及更大的环境鲁棒性以抵抗环境干扰并在进化过程中维持网络表型特征。在这种情况下,随机生物网络的稳健表型特征可以在进化中更频繁地被自然选择所选择。然而,如果所承载的中性遗传变异积累到足够大的程度,并且环境干扰足够强烈以至于网络鲁棒性不能再赋予足够的遗传鲁棒性和环境鲁棒性,那么表型鲁棒性可能会崩溃。在这种情况下,网络表型特征可能会从一个平衡点被推到另一个平衡点,通过网络鲁棒性中所承载的隐藏中性遗传变异,通过自适应进化改变表型特征并启动网络进化的新阶段。此外,所提出的进化博弈被扩展到具有 m 个参与者(竞争群体)和 k 个环境动态的随机生物网络的 n 元进化博弈。