[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 …

Iterative algorithm-guided design of massive strain libraries, applied to itaconic acid production in yeast

EM Young, Z Zhao, BEM Gielesen, L Wu… - Metabolic …, 2018 - Elsevier
Metabolic engineering requires multiple rounds of strain construction to evaluate alternative
pathways and enzyme concentrations. Optimizing multigene pathways stepwise or by …

Biochemical and spectroscopic characterization of the non-heme Fe (II)-and 2-oxoglutarate-dependent ethylene-forming enzyme from Pseudomonas syringae pv …

S Martinez, RP Hausinger - Biochemistry, 2016 - ACS Publications
The ethylene-forming enzyme (EFE) from Pseudomonas syringae pv. phaseolicola PK2 is a
member of the mononuclear non-heme Fe (II)-and 2-oxoglutarate (2OG)-dependent …

Complex systems in metabolic engineering

JD Winkler, K Erickson, A Choudhury… - Current opinion in …, 2015 - Elsevier
Metabolic engineers manipulate intricate biological networks to build efficient biological
machines. The inherent complexity of this task, derived from the extensive and often …

CRISPR gene perturbations provide insights for improving bacterial biofuel tolerance

PB Otoupal, A Chatterjee - Frontiers in bioengineering and …, 2018 - frontiersin.org
Economically-viable biofuel production is often limited by low levels of microbial tolerance to
high biofuel concentrations. Here we demonstrate the first application of deactivated …

Software applications for phenotype analysis and strain design of cellular systems

M Lakshmanan, L Koduru… - Emerging Areas in …, 2018 - Wiley Online Library
Constraint‐based reconstruction and analysis (COBRA) is one of the most widely used
modeling approaches for describing and simulating cellular systems in silico. It has been …

Metabolic modeling for design of cell factories

M Tian, P Kumar, STP Gupta, JL Reed - Systems Biology, 2017 - Wiley Online Library
There has been a steep rise in the number of genome‐scale metabolic models that are
available. These models have been a popular choice for designing cell factories given the …

Genome‐Scale Metabolic Modeling and In silico Strain Design of Escherichia coli

M Lakshmanan, NR Lee, DY Lee - Systems Biology, 2017 - Wiley Online Library
The Escherichia coli metabolism was modeled at the genome scale for the first time more
than a decade ago. Since then, the E. coli genome‐scale models (GEMs) have been …

Correction: CONSTRICTOR: Constraint Modification Provides Insight into Design of Biochemical Networks

PLOS ONE Staff - Plos one, 2014 - journals.plos.org
Correction: CONSTRICTOR: Constraint Modification Provides Insight into Design of
Biochemical Networks Page 1 Correction Correction: CONSTRICTOR: Constraint …

[PDF][PDF] IMPROVED DIFFERENTIAL SEARCH ALGORITHMS FOR METABOLIC NETWORK OPTIMIZATION

KBM DAUD - 2019 - eprints.utm.my
The capabilities of Escherichia coli and Zymomonas mobilis to efficiently converting
substrate into valuable metabolites have caught the attention of many industries. However …