Oscillation dynamics of MeKS core module containing positive and negative feedback loops with time delay

Bacillus subtilis with competent states absorbs DNA and may improve the growth of bacteria by integrating new genetic material. Therefore, it is important to clarify how the genes interact in the circuit so that cells enter into a competent state or return to a vegetative state. The gene regulatory circuit consists of two positive feedback loops and one negative feedback loop. In this paper, a mathematical model is developed by considering transcription time delays to further study dynamic behavior of the B. subtilis competent gene regulatory network. Combined with theoretical calculation and numerical simulation, it is verified that the time delay in indirect transcription inhibition indeed has the effect of inducing the periodic oscillation of the B. subtilis competent system. In addition, some important chemical reaction rates can also regulate system dynamic behavior. However, under the control of time delay, the effects of the important chemical reaction rates have changed significantly. In particular, the time delay can advance critical value of the important chemical reaction rates where vibration occurs and can also weaken or even eliminate the effect of the important chemical reaction rates. These results will help us to analyze the competent state of B. subtilis.

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Oscillation dynamic mechanism driven by time delays in the competent gene regulatory circuit of B. subtilis

Zhao

Liu

Yan

2021

Int. J. Biomath.

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Algorithm for the Reconstruction of Mathematical Frame Models of Bacterial Transcription Regulation

et al. 2022

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Transcription regulation plays an important role in bacterial activity. The operon concept coined by François Jacob and Jacques Monod has had a considerable effect on investigations into gene expression regulation, including modeling. However, most such studies have considered the regulation models devised manually for one or several operons. For that reason, the objective of the present study was automated genome model reconstruction for different bacteria. The suggested algorithm accounted for all possible interactions of transcription factors and their binding sites in an operon’s promoter region. Transcription factor enumeration was performed using the deep-first search technique. The obtained models are of interest for those involved in the research of transcription factor regulatory effects on bacterial gene expression in microbiology and biotechnology.

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Oscillation dynamics of MeKS core module containing positive and negative feedback loops with time delay

Cited by 2 publications

References 35 publications

Oscillation dynamic mechanism driven by time delays in the competent gene regulatory circuit of B. subtilis

Oscillation dynamic mechanism driven by time delays in the competent gene regulatory circuit of B. subtilis

Algorithm for the Reconstruction of Mathematical Frame Models of Bacterial Transcription Regulation

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