Adiabatic and Non-Adiabatic Non-Equilibrium Stochastic Dynamics of Single Regulating Genes
Adiabatic and Non-Adiabatic Non-Equilibrium Stochastic Dynamics of Single Regulating Genes
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DOI：
10.1021/jp109036y
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发表时间：
2011-02-10
影响因子：
3.3
通讯作者：
Wang, Jin
中科院分区：
文献类型：
--
作者：
Feng, Haidong;Han, Bo;Wang, Jin
我们探索的随机动力学的自我调节基因的分子数量的波动和开关开关的基因状态，由于调节蛋白结合/不结合的基因。我们发现，当结合/解结合相对快（慢）相比，在绝热（非绝热）的情况下，蛋白质的合成/降解的自我调节可以表现出一个或两个峰（双峰）的蛋白质浓度分布。这种现象也可以通过Fano因子来量化。这表明，即使具有相同的结构（布线拓扑结构），网络也可以具有完全不同的功能（表型），这与最近的单分子单基因实验一致。我们进一步发现，抑制和激活曲线是一致的与以前的结果（单体结合）在绝热制度，但在非绝热制度，显示显着不同的行为与以前的预测（单体结合）。这种差异是由于缓慢的（非绝热）二聚体结合/解结合效应，这是以前从未报道过的。导出了绝热区和非绝热区的单稳态和双稳态非平衡相图。我们研究了自我调节基因在底层景观中的动态轨迹。非绝热绝热的绝热极限，我们提供了一个全球性的理解和电子转移问题的类比。我们研究了系统的稳定性和鲁棒性，通过平均第一通过时间（MFPT）从一个峰值（吸引盆）到另一个，并发现单调和非单调的周转行为从绝热到非绝热制度。我们第一次探讨了熵产生的全局耗散以及与束缚/解束缚过程的关系。我们对稳态峰、Fano因子、抑制/激活曲线和MFPT的理论预测可以从实验中探索和检验
We explore the stochastic dynamics of self-regulative genes from fluctuations of molecular numbers and of on and off switching of gene states due to regulatory protein binding/unbinding to the genes. We found when the binding/unbinding is relatively fast (slow) compared with the synthesis/degradation of proteins in adiabatic (nonadiabatic) case the self-regulators can exhibit one or two peak (two peak) distributions in protein concentrations. This phenomena can also be quantified through Fano factors. This shows that even with the same architecture (topology of wiring) networks can have quite different functions (phenotypes), consistent with recent single molecule single gene experiments. We further found the inhibition and activation curves to be consistent with previous results (monomer binding) in adiabatic regime, but, in nonadiabatic regimes, show significantly different behaviors with previous predictions (monomer binding). Such difference is due to the slow (nonadiabatic) dimer binding/unbinding effect, and it has never been reported before. We derived the nonequilibrium phase diagrams of monostability and bistability in adiabatic and nonadiabatic regimes. We studied the dynamical trajectories of the self-regulating genes on the underlying landscapes from. nonadiabatic to adiabatic limit, and we provide a global picture of understanding and show an analogy to the electron transfer problem. We studied the stability and robustness of the systems through mean first passage time (MFPT) from one peak (basin of attraction) to another and found both monotonic and nonmonotonic turnover behavior from adiabatic to nonadiabatic regimes. For the first time, we explore global dissipation by entropy production and the relation with binding/unbinding processes. Our theoretical predictions for steady state peaks, fano factos, inhibition/activation curves, and MFPT can be probed and tested from experiments