Literature DB >> 21563979

Boolean models can explain bistability in the lac operon.

Alan Veliz-Cuba1, Brandilyn Stigler.   

Abstract

The lac operon in Escherichia coli has been studied extensively and is one of the earliest gene systems found to undergo both positive and negative control. The lac operon is known to exhibit bistability, in the sense that the operon is either induced or uninduced. Many dynamical models have been proposed to capture this phenomenon. While most are based on complex mathematical formulations, it has been suggested that for other gene systems network topology is sufficient to produce the desired dynamical behavior. We present a Boolean network as a discrete model for the lac operon. Our model includes the two main glucose control mechanisms of catabolite repression and inducer exclusion. We show that this Boolean model is capable of predicting the ON and OFF steady states and bistability. Further, we present a reduced model which shows that lac mRNA and lactose form the core of the lac operon, and that this reduced model exhibits the same dynamics. This work suggests that the key to model qualitative dynamics of gene systems is the topology of the network and Boolean models are well suited for this purpose.

Entities:  

Mesh:

Substances:

Year:  2011        PMID: 21563979     DOI: 10.1089/cmb.2011.0031

Source DB:  PubMed          Journal:  J Comput Biol        ISSN: 1066-5277            Impact factor:   1.479


  17 in total

1.  A practical guide to mechanistic systems modeling in biology using a logic-based approach.

Authors:  Anna Niarakis; Tomáš Helikar
Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 11.622

2.  A boolean model of the cardiac gene regulatory network determining first and second heart field identity.

Authors:  Franziska Herrmann; Alexander Groß; Dao Zhou; Hans A Kestler; Michael Kühl
Journal:  PLoS One       Date:  2012-10-02       Impact factor: 3.240

3.  Logical-continuous modelling of post-translationally regulated bistability of curli fiber expression in Escherichia coli.

Authors:  Kaveh Pouran Yousef; Adam Streck; Christof Schütte; Heike Siebert; Regine Hengge; Max von Kleist
Journal:  BMC Syst Biol       Date:  2015-07-23

4.  Molecular network control through boolean canalization.

Authors:  David Murrugarra; Elena S Dimitrova
Journal:  EURASIP J Bioinform Syst Biol       Date:  2015-11-04

5.  Estimating Propensity Parameters Using Google PageRank and Genetic Algorithms.

Authors:  David Murrugarra; Jacob Miller; Alex N Mueller
Journal:  Front Neurosci       Date:  2016-11-11       Impact factor: 4.677

6.  Inference of biological pathway from gene expression profiles by time delay boolean networks.

Authors:  Tung-Hung Chueh; Henry Horng-Shing Lu
Journal:  PLoS One       Date:  2012-08-31       Impact factor: 3.240

7.  An Extended, Boolean Model of the Septation Initiation Network in S.Pombe Provides Insights into Its Regulation.

Authors:  Anastasia Chasapi; Paulina Wachowicz; Anne Niknejad; Philippe Collin; Andrea Krapp; Elena Cano; Viesturs Simanis; Ioannis Xenarios
Journal:  PLoS One       Date:  2015-08-05       Impact factor: 3.240

8.  Angiogenic activity of breast cancer patients' monocytes reverted by combined use of systems modeling and experimental approaches.

Authors:  Nicolas Guex; Isaac Crespo; Sylvian Bron; Assia Ifticene-Treboux; Eveline Faes-Van't Hull; Solange Kharoubi; Robin Liechti; Patricia Werffeli; Mark Ibberson; Francois Majo; Michäel Nicolas; Julien Laurent; Abhishek Garg; Khalil Zaman; Hans-Anton Lehr; Brian J Stevenson; Curzio Rüegg; George Coukos; Jean-François Delaloye; Ioannis Xenarios; Marie-Agnès Doucey
Journal:  PLoS Comput Biol       Date:  2015-03-13       Impact factor: 4.475

9.  Steady state analysis of Boolean molecular network models via model reduction and computational algebra.

Authors:  Alan Veliz-Cuba; Boris Aguilar; Franziska Hinkelmann; Reinhard Laubenbacher
Journal:  BMC Bioinformatics       Date:  2014-06-26       Impact factor: 3.169

10.  Identification of control targets in Boolean molecular network models via computational algebra.

Authors:  David Murrugarra; Alan Veliz-Cuba; Boris Aguilar; Reinhard Laubenbacher
Journal:  BMC Syst Biol       Date:  2016-09-23
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.