Detailed Information on Publication Record

@article{54306,
   author = {Demko, Martin and Chrást, Lukáš and Dvořák, Pavel and Damborský, Jiří and Šafránek, David},
   article_location = {Basel},
   article_number = {11},
   doi = {http://dx.doi.org/10.3390/microorganisms7110553},
   keywords = {biodegradation; computational modelling; population growth; metabolic burden; environmental pollutants},
   language = {eng},
   issn = {2076-2607},
   journal = {Microorganisms},
   title = {Computational Modelling of Metabolic Burden and Substrate Toxicity in Escherichia coli Carrying a Synthetic Metabolic Pathway},
   url = {http://dx.doi.org/10.3390/microorganisms7110553},
   volume = {7},
   year = {2019}
}

TY  - JOUR
ID  - 54306
AU  - Demko, Martin - Chrást, Lukáš - Dvořák, Pavel - Damborský, Jiří - Šafránek, David
PY  - 2019
TI  - Computational Modelling of Metabolic Burden and Substrate Toxicity in Escherichia coli Carrying a Synthetic Metabolic Pathway
JF  - Microorganisms
VL  - 7
IS  - 11
SP  - 553-581
EP  - 553-581
PB  - MDPI
SN  - 2076-2607
KW  - biodegradation
KW  - computational modelling
KW  - population growth
KW  - metabolic burden
KW  - environmental pollutants
UR  - http://dx.doi.org/10.3390/microorganisms7110553
N2  - In our previous work, we have designed and implemented a synthetic metabolic pathway for 1,2,3-trichloropropane (TCP) biodegradation in Escherichia coli. Significant effects of metabolic burden and toxicity exacerbation were observed on single cell and population levels. Deeper understanding of mechanisms underlying these effects is extremely important for metabolic engineering of efficient microbial cell factories for biotechnological processes. In this paper, we present a novel mathematical model of the pathway. The model addresses for the first time the combined effects of toxicity exacerbation and metabolic burden in the context of bacterial population growth. The model is calibrated with respect to the real data obtained with our original synthetically modified E. coli strain. Using the model, we explore the dynamics of the population growth along with the outcome of the TCP biodegradation pathway considering the toxicity exacerbation and metabolic burden. On the methodological side, we introduce a unique computational workflow utilising algorithmic methods of computer science for the particular modelling problem.
ER  - 

DEMKO, Martin, Lukáš CHRÁST, Pavel DVOŘÁK, Jiří DAMBORSKÝ and David ŠAFRÁNEK. Computational Modelling of Metabolic Burden and Substrate Toxicity in Escherichia coli Carrying a Synthetic Metabolic Pathway. \textit{Microorganisms}. Basel: MDPI, 2019, vol.~7, No~11, p.~553-581. ISSN~2076-2607. Available from: https://dx.doi.org/10.3390/microorganisms7110553.