In Silico Constraint-Based Strain Optimization Methods: the Quest for Optimal Cell Factories

P Maia, M Rocha, I Rocha - Microbiology and Molecular Biology …, 2016 - Am Soc Microbiol
Shifting from chemical to biotechnological processes is one of the cornerstones of 21st
century industry. The production of a great range of chemicals via biotechnological means is …

Computational methods in metabolic engineering for strain design

MR Long, WK Ong, JL Reed - Current opinion in biotechnology, 2015 - Elsevier
Highlights•Computational tools identify new biological routes to chemicals.•Genome-scale
models suggest genetic engineering strategies to improve production.•Methods that …

[HTML][HTML] Growth-coupled overproduction is feasible for almost all metabolites in five major production organisms

A von Kamp, S Klamt - Nature communications, 2017 - nature.com
Computational modelling of metabolic networks has become an established procedure in
the metabolic engineering of production strains. One key principle that is frequently used to …

Systems biology based metabolic engineering for non-natural chemicals

A Biz, S Proulx, Z Xu, K Siddartha, AM Indrayanti… - Biotechnology …, 2019 - Elsevier
Production of chemicals in microorganisms is no longer restricted to products arising from
native metabolic potential. In this review, we highlight the evolution of metabolic engineering …

[HTML][HTML] Co-evolution of strain design methods based on flux balance and elementary mode analysis

D Machado, MJ Herrgård - Metabolic Engineering Communications, 2015 - Elsevier
More than a decade ago, the first genome-scale metabolic models for two of the most
relevant microbes for biotechnology applications, Escherichia coli and Saccaromyces …

Metabolic assessment of E. coli as a Biofactory for commercial products

X Zhang, CJ Tervo, JL Reed - Metabolic engineering, 2016 - Elsevier
Metabolic engineering uses microorganisms to synthesize chemicals from renewable
resources. Given the thousands of known metabolites, it is unclear what valuable chemicals …

[HTML][HTML] Increased 3-hydroxypropionic acid production from glycerol, by modification of central metabolism in Escherichia coli

K Tokuyama, S Ohno, K Yoshikawa, T Hirasawa… - Microbial cell …, 2014 - Springer
Abstract Background 3-hydroxypropionic acid (3HP) is an important chemical precursor for
the production of bioplastics. Microbial production of 3HP from glycerol has previously been …

Adaptive laboratory evolution for growth coupled microbial production

A Godara, KC Kao - World Journal of Microbiology and Biotechnology, 2020 - Springer
Adaptive laboratory evolution (ALE) is a powerful tool to select for strains with growth-
coupled phenotypes. When coupled with next-generation sequencing and omic …

Metabolic pathway design for growth-associated phenylalanine production using synthetically designed mutualism

R Kawai, Y Toya, H Shimizu - Bioprocess and Biosystems Engineering, 2022 - Springer
Combination of growth-associated pathway engineering based on flux balance analysis
(FBA) and adaptive laboratory evolution (ALE) is a powerful approach to enhance the …

Application of adaptive laboratory evolution to overcome a flux limitation in an Escherichia coli production strain

K Tokuyama, Y Toya, T Horinouchi… - Biotechnology and …, 2018 - Wiley Online Library
Gene deletion strategies using flux balance analysis (FBA) have improved the growth‐
coupled production of various compounds. However, the productivities were often below the …