Oliveira2020 - Extended E. coli Central Carbon Metabolism from Glucose

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Model Identifier
MODEL2010030001
Short description
The kinetic model of E. coli central carbon metabolism developed by Millard et al. 2016 was extended to include the production Glycerol, Malonyl-CoA, and Beta-Alanine. This model was then used as a base to insert three independent heterologous pathways for 3-hydroxypropionate and acrylic acid production.
Format
SBML (L2V4)
Related Publication
  • A kinetic model of the central carbon metabolism for acrylic acid production in Escherichia coli
  • Alexandre Oliveira, Joana Rodrigues, Eugénio Ferreira, Rodrigues LR, Oscar Dias
  • BioRxiv , 5/ 2020 , DOI: 10.1101/2020.05.13.093294
  • Centre of Biological Engineering - University of Minho
  • Acrylic acid is a value-added chemical used in industry to produce diapers, coatings, paints, and adhesives, among many others. Due to its economic importance, there is currently a need for new and sustainable ways to synthesise it. Recently, the focus has been laid in the use of Escherichia coli to express the full bio-based pathway using 3-hydroxypropionate as an intermediary through three distinct pathways (glycerol, malonyl-CoA, and β-alanine). Hence, the goals of this work were to use COPASI software to assess which of the three pathways has a higher potential for industrial-scale production, from either glucose or glycerol, and identify potential targets to improve the biosynthetic pathways yields. When compared to the available literature, the models developed during this work successfully predict the production of 3-hydroxypropionate, using glycerol as carbon source in the glycerol pathway, and using glucose as a carbon source in the malonyl-CoA and β-alanine pathways. Finally, this work allowed to identify four potential over-expression targets (glycerol-3-phosphate dehydrogenase (G3pD), acetyl-CoA carboxylase (AccC), aspartate aminotransferase (AspAT), and aspartate carboxylase (AspC)) that should, theoretically, result in higher AA yields.
Contributors
Alexandre Oliveira

Metadata information

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Curation status
Non-curated

Modelling approach(es)
Other

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Model files

CCM_ext_GLU.xml SBML L2V4 representation of Oliveira2020 - Extended E. coli Central Carbon Metabolism from Glucose 558.89 KB Preview | Download

Additional files

3_MCOAxPlot.png Variation of External Malonyl-CoA Concentration Over Time 9.87 KB Preview | Download
4_BAxPlot.png Variation of External Beta-Alanine Concentration Over Time 9.26 KB Preview | Download
2_GLYxPlot.png Variation of External Glycerol Concentration Over Time 8.01 KB Preview | Download
1_GLCxPlot.png Variation of External Glucose Concentration Over Time 8.61 KB Preview | Download

  • Model originally submitted by : Alexandre Oliveira
  • Submitted: Oct 3, 2020 3:39:14 PM
  • Last Modified: Oct 3, 2020 3:39:14 PM
Revisions
  • Version: 4 public model Download this version
    • Submitted on: Oct 3, 2020 3:39:14 PM
    • Submitted by: Alexandre Oliveira
    • With comment: Edited model metadata online.
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