Modeling of Zymomonas mobilis central metabolism for novel metabolic engineering strategies

Uldis Kalnenieks; Agris Pentjuss; Reinis Rutkis; Egils Stalidzans; David A. Fell

doi:10.3389/fmicb.2014.00042

Modeling of Zymomonas mobilis central metabolism for novel metabolic engineering strategies

Uldis Kalnenieks (Corresponding Author), Agris Pentjuss, Reinis Rutkis, Egils Stalidzans, David A. Fell

Research output: Contribution to journal › Comment/debate

32 Citations (Scopus)

1 Downloads (Pure)

Abstract

Mathematical modeling of metabolism is essential for rational metabolic engineering. The present work focuses on several types of modeling approach to quantitative understanding of central metabolic network and energetics in the bioethanol-producing bacterium Zymomonas mobilis. Combined use of Flux Balance, Elementary Flux Mode, and thermodynamic analysis of its central metabolism, together with dynamic modeling of the core catabolic pathways, can help to design novel substrate and product pathways by systematically analyzing the solution space for metabolic engineering, and yields insights into the function of metabolic network, hardly achievable without applying modeling tools.

Original language	English
Article number	42
Journal	Frontiers in Microbiology
Volume	5
Issue number	FEB
DOIs	https://doi.org/10.3389/fmicb.2014.00042
Publication status	Published - 2014
Externally published	Yes

Keywords*

Central metabolism
Elementary flux modes
Entner-Doudoroff pathway
Kinetic modeling
Metabolic engineering
Stoichiometric modeling
Systems biology
Zymomonas mobilis

Field of Science*

3.1 Basic medicine
1.6 Biological sciences

Publication Type*

1.1. Scientific article indexed in Web of Science and/or Scopus database

Access to Document

10.3389/fmicb.2014.00042Licence: CC BY

modelingFinal published version, 1.31 MBLicence: CC BY

Cite this

@article{298635e9d4e94c58a257963275e2eaab,

title = "Modeling of Zymomonas mobilis central metabolism for novel metabolic engineering strategies",

abstract = "Mathematical modeling of metabolism is essential for rational metabolic engineering. The present work focuses on several types of modeling approach to quantitative understanding of central metabolic network and energetics in the bioethanol-producing bacterium Zymomonas mobilis. Combined use of Flux Balance, Elementary Flux Mode, and thermodynamic analysis of its central metabolism, together with dynamic modeling of the core catabolic pathways, can help to design novel substrate and product pathways by systematically analyzing the solution space for metabolic engineering, and yields insights into the function of metabolic network, hardly achievable without applying modeling tools.",

keywords = "Central metabolism, Elementary flux modes, Entner-Doudoroff pathway, Kinetic modeling, Metabolic engineering, Stoichiometric modeling, Systems biology, Zymomonas mobilis",

author = "Uldis Kalnenieks and Agris Pentjuss and Reinis Rutkis and Egils Stalidzans and Fell, {David A.}",

year = "2014",

doi = "10.3389/fmicb.2014.00042",

language = "English",

volume = "5",

journal = "Frontiers in Microbiology",

issn = "1664-302X",

publisher = "Frontiers Media SA",

number = "FEB",

}

TY - JOUR

T1 - Modeling of Zymomonas mobilis central metabolism for novel metabolic engineering strategies

AU - Kalnenieks, Uldis

AU - Pentjuss, Agris

AU - Rutkis, Reinis

AU - Stalidzans, Egils

AU - Fell, David A.

PY - 2014

Y1 - 2014

N2 - Mathematical modeling of metabolism is essential for rational metabolic engineering. The present work focuses on several types of modeling approach to quantitative understanding of central metabolic network and energetics in the bioethanol-producing bacterium Zymomonas mobilis. Combined use of Flux Balance, Elementary Flux Mode, and thermodynamic analysis of its central metabolism, together with dynamic modeling of the core catabolic pathways, can help to design novel substrate and product pathways by systematically analyzing the solution space for metabolic engineering, and yields insights into the function of metabolic network, hardly achievable without applying modeling tools.

AB - Mathematical modeling of metabolism is essential for rational metabolic engineering. The present work focuses on several types of modeling approach to quantitative understanding of central metabolic network and energetics in the bioethanol-producing bacterium Zymomonas mobilis. Combined use of Flux Balance, Elementary Flux Mode, and thermodynamic analysis of its central metabolism, together with dynamic modeling of the core catabolic pathways, can help to design novel substrate and product pathways by systematically analyzing the solution space for metabolic engineering, and yields insights into the function of metabolic network, hardly achievable without applying modeling tools.

KW - Central metabolism

KW - Elementary flux modes

KW - Entner-Doudoroff pathway

KW - Kinetic modeling

KW - Metabolic engineering

KW - Stoichiometric modeling

KW - Systems biology

KW - Zymomonas mobilis

UR - http://www.scopus.com/inward/record.url?scp=84897654403&partnerID=8YFLogxK

U2 - 10.3389/fmicb.2014.00042

DO - 10.3389/fmicb.2014.00042

M3 - Comment/debate

AN - SCOPUS:84897654403

SN - 1664-302X

VL - 5

JO - Frontiers in Microbiology

JF - Frontiers in Microbiology

IS - FEB

M1 - 42

ER -

Modeling of Zymomonas mobilis central metabolism for novel metabolic engineering strategies

Abstract

Keywords*

Field of Science*

Publication Type*

Access to Document

Other files and links

Fingerprint

Cite this