• Je něco špatně v tomto záznamu ?

Computational Modelling of Metabolic Burden and Substrate Toxicity in Escherichia coli Carrying a Synthetic Metabolic Pathway

M. Demko, L. Chrást, P. Dvořák, J. Damborský, D. Šafránek,

. 2019 ; 7 (11) : . [pub] 20191111

Jazyk angličtina Země Švýcarsko

Typ dokumentu časopisecké články

Perzistentní odkaz   https://www.medvik.cz/link/bmc19044053

Grantová podpora
CZ.02.1.01/0.0/0.0/1_026/0008451 Czech Ministry of Education
CZ.02.1.01/0.0/0.0/16_019/000086 Czech Ministry of Education
LM2015047 Czech Ministry of Education
LM2015055 Czech Ministry of Education
GA18-00178S Grant Agency of Czech Republic
720776 Horizon 2020 Framework Programme
722610 Seventh Framework Programme

In our previous work, we 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.

Citace poskytuje Crossref.org

000      
00000naa a2200000 a 4500
001      
bmc19044053
003      
CZ-PrNML
005      
20210310104525.0
007      
ta
008      
200107s2019 sz f 000 0|eng||
009      
AR
024    7_
$a 10.3390/microorganisms7110553 $2 doi
035    __
$a (PubMed)31718036
040    __
$a ABA008 $b cze $d ABA008 $e AACR2
041    0_
$a eng
044    __
$a sz
100    1_
$a Demko, Martin $u Systems Biology Laboratory, Faculty of Informatics, Masaryk University, Botanická 68a, 602 00 Brno, Czech Republic.
245    10
$a Computational Modelling of Metabolic Burden and Substrate Toxicity in Escherichia coli Carrying a Synthetic Metabolic Pathway / $c M. Demko, L. Chrást, P. Dvořák, J. Damborský, D. Šafránek,
520    9_
$a In our previous work, we 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.
655    _2
$a časopisecké články $7 D016428
700    1_
$a Chrást, Lukáš $u Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5, Bld. A13, 625 00 Brno, Czech Republic.
700    1_
$a Dvořák, Pavel $u Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, Bld. A25, 625 00 Brno, Czech Republic.
700    1_
$a Damborský, Jiří $u Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5, Bld. A13, 625 00 Brno, Czech Republic.
700    1_
$a Šafránek, David $u Systems Biology Laboratory, Faculty of Informatics, Masaryk University, Botanická 68a, 602 00 Brno, Czech Republic.
773    0_
$w MED00198767 $t Microorganisms $x 2076-2607 $g Roč. 7, č. 11 (2019)
856    41
$u https://pubmed.ncbi.nlm.nih.gov/31718036 $y Pubmed
910    __
$a ABA008 $b sig $c sign $y a $z 0
990    __
$a 20200107 $b ABA008
991    __
$a 20210310104521 $b ABA008
999    __
$a ind $b bmc $g 1480642 $s 1082723
BAS    __
$a 3
BAS    __
$a PreBMC
BMC    __
$a 2019 $b 7 $c 11 $e 20191111 $i 2076-2607 $m Microorganisms $n Microorganisms $x MED00198767
GRA    __
$a CZ.02.1.01/0.0/0.0/1_026/0008451 $p Czech Ministry of Education
GRA    __
$a CZ.02.1.01/0.0/0.0/16_019/000086 $p Czech Ministry of Education
GRA    __
$a LM2015047 $p Czech Ministry of Education
GRA    __
$a LM2015055 $p Czech Ministry of Education
GRA    __
$a GA18-00178S $p Grant Agency of Czech Republic
GRA    __
$a 720776 $p Horizon 2020 Framework Programme
GRA    __
$a 722610 $p Seventh Framework Programme
LZP    __
$a Pubmed-20200107

Najít záznam

Citační ukazatele

Možnosti archivace