Computational modeling and dynamical analysis for B. subtilis competence genic regulation circuit with multiple time delays and external noisy regulation
Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal regulatory mechanisms. This study proposes a six-dimensional continuous delay differential equation (DDE) model incorporating two-time delays...
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| Published in: | Journal of bioinformatics and computational biology Vol. 23; no. 2; p. 2550005 |
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| Main Authors: | , , |
| Format: | Journal Article |
| Language: | English |
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Singapore
01.04.2025
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| ISSN: | 1757-6334, 1757-6334 |
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| Abstract | Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal regulatory mechanisms. This study proposes a six-dimensional continuous delay differential equation (DDE) model incorporating two-time delays and a stochastic model that accounts for noise, aimed at delving deeper into the dynamic behaviors of the B. subtilis competence gene regulation circuit. Our investigation reveals that time delays play a crucial role in inducing oscillatory behavior within the continuous DDE model. Analyzing the dynamics of multiple time delays proves to be more intricate than studying a single delay. Furthermore, certain parameter adjustments significantly influence the system's dynamic characteristics. The introduction of noise also triggers oscillations, with the irregular oscillation patterns closely aligning with real-world observations. Intriguingly, the effects of parameters and noise regulation undergo significant changes when time delays are jointly considered. This analysis offers a fresh perspective on understanding B. subtilis competence and provides essential theoretical support for subsequent experimental endeavors in this domain of biomathematics. |
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| AbstractList | Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal regulatory mechanisms. This study proposes a six-dimensional continuous delay differential equation (DDE) model incorporating two-time delays and a stochastic model that accounts for noise, aimed at delving deeper into the dynamic behaviors of the B. subtilis competence gene regulation circuit. Our investigation reveals that time delays play a crucial role in inducing oscillatory behavior within the continuous DDE model. Analyzing the dynamics of multiple time delays proves to be more intricate than studying a single delay. Furthermore, certain parameter adjustments significantly influence the system's dynamic characteristics. The introduction of noise also triggers oscillations, with the irregular oscillation patterns closely aligning with real-world observations. Intriguingly, the effects of parameters and noise regulation undergo significant changes when time delays are jointly considered. This analysis offers a fresh perspective on understanding B. subtilis competence and provides essential theoretical support for subsequent experimental endeavors in this domain of biomathematics. Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal regulatory mechanisms. This study proposes a six-dimensional continuous delay differential equation (DDE) model incorporating two-time delays and a stochastic model that accounts for noise, aimed at delving deeper into the dynamic behaviors of the B. subtilis competence gene regulation circuit. Our investigation reveals that time delays play a crucial role in inducing oscillatory behavior within the continuous DDE model. Analyzing the dynamics of multiple time delays proves to be more intricate than studying a single delay. Furthermore, certain parameter adjustments significantly influence the system's dynamic characteristics. The introduction of noise also triggers oscillations, with the irregular oscillation patterns closely aligning with real-world observations. Intriguingly, the effects of parameters and noise regulation undergo significant changes when time delays are jointly considered. This analysis offers a fresh perspective on understanding B. subtilis competence and provides essential theoretical support for subsequent experimental endeavors in this domain of biomathematics.Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal regulatory mechanisms. This study proposes a six-dimensional continuous delay differential equation (DDE) model incorporating two-time delays and a stochastic model that accounts for noise, aimed at delving deeper into the dynamic behaviors of the B. subtilis competence gene regulation circuit. Our investigation reveals that time delays play a crucial role in inducing oscillatory behavior within the continuous DDE model. Analyzing the dynamics of multiple time delays proves to be more intricate than studying a single delay. Furthermore, certain parameter adjustments significantly influence the system's dynamic characteristics. The introduction of noise also triggers oscillations, with the irregular oscillation patterns closely aligning with real-world observations. Intriguingly, the effects of parameters and noise regulation undergo significant changes when time delays are jointly considered. This analysis offers a fresh perspective on understanding B. subtilis competence and provides essential theoretical support for subsequent experimental endeavors in this domain of biomathematics. |
| Author | Yan, Fang Liu, Haihong Zhao, Na |
| Author_xml | – sequence: 1 givenname: Na orcidid: 0000-0001-7775-1599 surname: Zhao fullname: Zhao, Na organization: Department of Mathematics, Yunnan Normal University, Kunming 650500, P. R. China – sequence: 2 givenname: Haihong orcidid: 0000-0002-2666-7933 surname: Liu fullname: Liu, Haihong organization: Yunnan Key Laboratory of Modern Analytical Mathematics and Applications, Kunming 650500, P. R. China – sequence: 3 givenname: Fang orcidid: 0000-0001-6624-9720 surname: Yan fullname: Yan, Fang organization: Yunnan Key Laboratory of Modern Analytical Mathematics and Applications, Kunming 650500, P. R. China |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/40494664$$D View this record in MEDLINE/PubMed |
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| Keywords | noise oscillation B. subtilis Competence time delays Hopf bifurcation |
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| Snippet | Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal... Bacillus subtilis (B. subtilis), a bacterium known to enter a competent state spontaneously, has garnered significant attention due to its intricate internal... |
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| SubjectTerms | Bacillus subtilis - genetics Bacterial Proteins - genetics Computational Biology Computer Simulation Gene Expression Regulation, Bacterial Gene Regulatory Networks Models, Biological Models, Genetic Stochastic Processes |
| Title | Computational modeling and dynamical analysis for B. subtilis competence genic regulation circuit with multiple time delays and external noisy regulation |
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