Hari Kishore, Harlapur Pradyumna, Gopalan Aditi, Ullanat Varun, Duddu Atchuta Srinivas, Jolly Mohit Kumar
Centre for BioSystems Science and Engineering, Indian Institute of Science, Bengaluru, India.
J Biosci. 2022;47.
Understanding the dynamical hallmarks of network motifs is one of the fundamental aspects of systems biology. Positive feedback loops constituting one or two nodes - self-activation, toggle switch, and double activation loops - are the commonly observed motifs in regulatory networks underlying cell-fate decision systems. Their individual dynamics are well studied; they are capable of exhibiting bistability. However, studies across various biological systems suggest that such positive feedback loops are interconnected with one another, and design principles of coupled bistable motifs remain unclear. What happens to the bistability or multistability traits and the phenotypic space (collection of phenotypes exhibited by a system) due to the couplings? In this study, we explore a set of such interactions using discrete and continuous simulation methods. Our results suggest that the most frequent states in coupled networks follow the 'rules' within a motif (double activation, toggle switch) and those across the two motifs in terms of how the two motifs have been coupled. Moreover, 'hybrid' states can be observed, too, where one of the above-mentioned 'rules' can be compromised, leading to a more diverse phenotypic repertoire. Furthermore, adding direct and indirect selfactivations to these coupled networks can increase the frequency of multistability. Thus, our observations revealed specific dynamical traits exhibited by various coupled bistable motifs.
理解网络基序的动态特征是系统生物学的基本方面之一。由一两个节点构成的正反馈回路——自我激活、拨动开关和双重激活回路——是细胞命运决定系统潜在调控网络中常见的基序。它们各自的动态特性已得到充分研究;它们能够表现出双稳态。然而,对各种生物系统的研究表明,此类正反馈回路相互连接,而耦合双稳态基序的设计原则仍不清楚。由于耦合作用,双稳态或多稳态特征以及表型空间(系统展现的一系列表型)会发生什么变化?在本研究中,我们使用离散和连续模拟方法探索了一组此类相互作用。我们的结果表明,耦合网络中最常见的状态遵循一个基序内(双重激活、拨动开关)以及两个基序之间关于它们如何耦合的“规则”。此外,也能观察到“混合”状态,即上述“规则”之一可能会受到影响,从而导致更多样化的表型库。此外,在这些耦合网络中添加直接和间接的自我激活可以增加多稳态的频率。因此,我们的观察揭示了各种耦合双稳态基序所展现的特定动态特征。