Zorzan Irene, Del Favero Simone, Giaretta Alberto, Manganelli Riccardo, Di Camillo Barbara, Schenato Luca
Department of Information Engineering, University of Padova, 35131, Padova, Italy.
Department of Molecular Medicine, University of Padova, 35121, Padova, Italy.
BMC Bioinformatics. 2021 Nov 19;22(1):558. doi: 10.1186/s12859-021-04372-5.
The ability to rapidly adapt to adverse environmental conditions represents the key of success of many pathogens and, in particular, of Mycobacterium tuberculosis. Upon exposition to heat shock, antibiotics or other sources of stress, appropriate responses in terms of genes transcription and proteins activity are activated leading part of a genetically identical bacterial population to express a different phenotype, namely to develop persistence. When the stress response network is mathematically described by an ordinary differential equations model, development of persistence in the bacterial population is associated with bistability of the model, since different emerging phenotypes are represented by different stable steady states.
In this work, we develop a mathematical model of SigE stress response network that incorporates interactions not considered in mathematical models currently available in the literature. We provide, through involved analytical computations, accurate approximations of the system's nullclines, and exploit the obtained expressions to determine, in a reliable though computationally efficient way, the number of equilibrium points of the system.
Theoretical analysis and perturbation experiments point out the crucial role played by the degradation pathway involving RseA, the anti-sigma factor of SigE, for coexistence of two stable equilibria and the emergence of bistability. Our results also indicate that a fine control on RseA concentration is a necessary requirement in order for the system to exhibit bistability.
能够快速适应不利环境条件是许多病原体,尤其是结核分枝杆菌成功的关键。在受到热休克、抗生素或其他应激源刺激时,细菌会在基因转录和蛋白质活性方面激活适当反应,导致部分基因相同的细菌群体表达不同表型,即形成持留菌。当应激反应网络用常微分方程模型进行数学描述时,细菌群体中持留菌的形成与模型的双稳态相关,因为不同的新兴表型由不同的稳定稳态表示。
在这项工作中,我们开发了一个SigE应激反应网络的数学模型,该模型纳入了文献中现有数学模型未考虑的相互作用。我们通过复杂的解析计算,提供了系统零倾线的精确近似,并利用所得表达式以可靠且计算高效的方式确定系统平衡点的数量。
理论分析和扰动实验指出,涉及SigE的抗σ因子RseA的降解途径对于两个稳定平衡点的共存和双稳态的出现起着关键作用。我们的结果还表明,对RseA浓度进行精细控制是系统表现出双稳态的必要条件。