In silico model-driven cofactor engineering strategies for improving the overall NADP(H) turnover in microbial cell factories

Optimal cofactor swapping can increase the theoretical yield for chemical production in Escherichia coli and Saccharomyces cerevisiae

(2014) Zachary A. King et al.   METABOLIC ENGINEERING

Optimizing genome-scale network reconstructions

(2014) Jonathan Monk et al.   NATURE BIOTECHNOLOGY

Constraint-based models predict metabolic and associated cellular functions

(2014) Aarash Bordbar et al.   NATURE REVIEWS GENETICS

Engineering of NADPH regenerators in Escherichia coli for enhanced biotransformation

(2013) Won-Heong Lee et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Cofactor engineering for advancing chemical biotechnology

(2013) Yipeng Wang et al.   CURRENT OPINION IN BIOTECHNOLOGY

Advances in metabolic pathway and strain engineering paving the way for sustainable production of chemical building blocks

(2013) Yun Chen et al.   CURRENT OPINION IN BIOTECHNOLOGY

In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories

(2013) Evamaria Gruchattka et al.   Microbial Cell Factories

General approach to reversing ketol-acid reductoisomerase cofactor dependence from NADPH to NADH

(2013) S. Brinkmann-Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

COFACTOR MODIFICATION ANALYSIS: A COMPUTATIONAL FRAMEWORK TO IDENTIFY COFACTOR SPECIFICITY ENGINEERING TARGETS FOR STRAIN IMPROVEMENT

(2013) MEIYAPPAN LAKSHMANAN et al.   Journal of Bioinformatics and Computational Biology

Software applications for flux balance analysis

(2012) M. Lakshmanan et al.   BRIEFINGS IN BIOINFORMATICS

Genome-scale in silico modeling and analysis for designing synthetic terpenoid-producing microbial cell factories

(2012) Bevan Kai-Sheng Chung et al.   CHEMICAL ENGINEERING SCIENCE

Computational tools for the synthetic design of biochemical pathways

(2012) Marnix H. Medema et al.   NATURE REVIEWS MICROBIOLOGY

Enhanced production of GDP-l-fucose by overexpression of NADPH regenerator in recombinant Escherichia coli

(2011) Won-Heong Lee et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

NADPH-dependent pgi-gene knockout Escherichia coli metabolism producing shikimate on different carbon sources

(2011) Jungoh Ahn et al.   FEMS MICROBIOLOGY LETTERS

Engineered ketol-acid reductoisomerase and alcohol dehydrogenase enable anaerobic 2-methylpropan-1-ol production at theoretical yield in Escherichia coli

(2011) Sabine Bastian et al.   METABOLIC ENGINEERING

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Genome-Scale Consequences of Cofactor Balancing in Engineered Pentose Utilization Pathways in Saccharomyces cerevisiae

(2011) Amit Ghosh et al.   PLoS One

Systems metabolic engineering for chemicals and materials

(2011) Jeong Wook Lee et al.   TRENDS IN BIOTECHNOLOGY

The biomass objective function

(2010) Adam M Feist et al.   CURRENT OPINION IN MICROBIOLOGY

Intracellular characterization of aerobic glucose metabolism in seven yeast species by 13C flux analysis and metabolomics

(2010) Stefan Christen et al.   FEMS YEAST RESEARCH

High NADPH/NADP+ ratio improves thymidine production by a metabolically engineered Escherichia coli strain

(2010) Hyeon Cheol Lee et al.   JOURNAL OF BIOTECHNOLOGY

Genome-scale metabolic reconstruction and in silico analysis of methylotrophic yeast Pichia pastoris for strain improvement

(2010) Bevan KS Chung et al.   Microbial Cell Factories

What is flux balance analysis?

(2010) Jeffrey D Orth et al.   NATURE BIOTECHNOLOGY

Overexpression of NAD kinase in recombinant Escherichia coli harboring the phbCAB operon improves poly(3-hydroxybutyrate) production

(2009) Zheng-Jun Li et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Flux-sum analysis: a metabolite-centric approach for understanding the metabolic network

(2009) Bevan Chung et al.   BMC Systems Biology

Connecting extracellular metabolomic measurements to intracellular flux states in yeast

(2009) Monica L Mo et al.   BMC Systems Biology

Different Biochemical Mechanisms Ensure Network-Wide Balancing of Reducing Equivalents in Microbial Metabolism

(2009) T. Fuhrer et al.   JOURNAL OF BACTERIOLOGY

Improving NADPH availability for natural product biosynthesis in Escherichia coli by metabolic engineering

(2009) Joseph A. Chemler et al.   METABOLIC ENGINEERING

Analysis of NADPH supply during xylitol production by engineeredEscherichia coli

(2008) Jonathan W. Chin et al.   BIOTECHNOLOGY AND BIOENGINEERING

Replacing Escherichia coli NAD-dependent glyceraldehyde 3-phosphate dehydrogenase (GAPDH) with a NADP-dependent enzyme from Clostridium acetobutylicum facilitates NADPH dependent pathways

(2008) Irene Martínez et al.   METABOLIC ENGINEERING