Importance of Considering the Isotonic System Hypothesis When Modelling the Self-Control of Gene Expression Regulatory Modules in Living Cells

Gheorghe Maria, Cristiana Luminiţa Gîjiu, Cristina Maria and Carmen Tociu
Additional contact information
Cristiana Luminiţa Gîjiu: Department of Chemical & Biochemical Engineering, University Politehnica of Bucharest, Romania
Carmen Tociu: National Institute for Research and Development in Environmental Protection, Romania

Current Trends in Biomedical Engineering & Biosciences, 2018, vol. 12, issue 2, 29-48

Abstract: Systems Biology is one of the modern tools, which uses advanced mathematical simulation models for in-silico design microorganisms that possess desired characteristics. The deterministic models developed to simulate the cell metabolism biochemistry, are based on a hypothetical (reduced) reaction mechanism, of known kinetics and stoichiometry. A central part of such models concerns the adequate simulation of the protein synthesis homeostatic self-regulation present in any gene expression regulatory module (GERM) that produces enzymes controlling the whole cell metabolism with negative feedback loops and rapid adjustments of the enzymatic activity. However, classical formulations by using the default Constant Volume Whole-Cell (CVWC) continuous variable ordinary differential (ODE) dynamic models do not explicitly consider the cell volume exponential increase during the cell growth leading to biased and distorted conclusions on GERM regulatory performances. This paper exemplifies the overwhelming importance of using a holistic variable-volume whole-cell (VVWC) modelling framework with explicitly including constraints accounting for the cell-volume growth while preserving a constant osmotic pressure and membrane integrity. To point-out the discrepancy between the two simulation approaches, the comparison is made in the case of a simple generic GERM from the E. coli cell, by mimicking the cell homeostasis and its response to dynamic perturbations.

Keywords: juniper publishers group; juniper publishers Biomedical Engineering journals; Biomedical Engineering journals list; medical devices journals; peer reviewed Biomedical Engineering journals; open access Biomedical Engineering journals; Biomedical Engineering journals impact factor; Biomedical Engineering scientific journals; Biomedical Engineering articles; scholarly Biomedical Engineering journals; juniper publishers reivew (search for similar items in EconPapers)
Date: 2018
References: View references in EconPapers View complete reference list from CitEc
Citations:

Downloads: (external link)
https://juniperpublishers.com/ctbeb/pdf/CTBEB.MS.ID.555833.pdf (application/pdf)
https://juniperpublishers.com/ctbeb/CTBEB.MS.ID.555833.php (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:adp:jctbeb:v:12:y:2018:i:2:p:29-48

DOI: 10.19080/CTBEB.2018.12.555833

Access Statistics for this article

Current Trends in Biomedical Engineering & Biosciences is currently edited by Sophia Mathis

More articles in Current Trends in Biomedical Engineering & Biosciences from Juniper Publishers Inc.
Bibliographic data for series maintained by Robert Thomas ().