4.5 Article

Reconstruction of a high-quality metabolic model enables the identification of gene overexpression targets for enhanced antibiotic production in Streptomyces coelicolor A3(2)

Related references

Note: Only part of the references are listed.
Review Biotechnology & Applied Microbiology

Systems biology and biotechnology of Streptomyces species for the production of secondary metabolites

Kyu-Sang Hwang et al.

BIOTECHNOLOGY ADVANCES (2014)

Article Biochemical Research Methods

GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data

Brian J. Schmidt et al.

BIOINFORMATICS (2013)

Article Biochemical Research Methods

Genomically and biochemically accurate metabolic reconstruction of Methanosarcina barkeri Fusaro, iMG746

Matthew C. Gonnerman et al.

BIOTECHNOLOGY JOURNAL (2013)

Review Biochemistry & Molecular Biology

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli

Douglas McCloskey et al.

MOLECULAR SYSTEMS BIOLOGY (2013)

Article Biotechnology & Applied Microbiology

A community-driven global reconstruction of human metabolism

Ines Thiele et al.

NATURE BIOTECHNOLOGY (2013)

Article Biotechnology & Applied Microbiology

Engineering precursor metabolite pools for increasing production of antitumor mithramycins in Streptomyces argillaceus

Daniel Zabala et al.

METABOLIC ENGINEERING (2013)

Article Biotechnology & Applied Microbiology

Genome-scale metabolic network guided engineering of Streptomyces tsukubaensis for FK506 production improvement

Di Huang et al.

MICROBIAL CELL FACTORIES (2013)

Review Microbiology

Molecular Regulation of Antibiotic Biosynthesis in Streptomyces

Gang Liu et al.

MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2013)

Article Mathematical & Computational Biology

Version 6 of the consensus yeast metabolic network refines biochemical coverage and improves model performance

Benjamin D. Heavner et al.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2013)

Article Biotechnology & Applied Microbiology

Characterization of a new ScbR-like γ-butyrolactone binding regulator (SlbR) in Streptomyces coelicolor

Yung-Hun Yang et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2012)

Article Biotechnology & Applied Microbiology

In silico aided metabolic engineering of Streptomyces roseosporus for daptomycin yield improvement

Di Huang et al.

APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2012)

Review Biotechnology & Applied Microbiology

Fifteen years of large scale metabolic modeling of yeast: Developments and impacts

Tobias Osterlund et al.

BIOTECHNOLOGY ADVANCES (2012)

Article Biotechnology & Applied Microbiology

Combined in silico modeling and metabolomics analysis to characterize fed-batch CHO cell culture

Suresh Selvarasu et al.

BIOTECHNOLOGY AND BIOENGINEERING (2012)

Review Biochemical Research Methods

Recent advances in reconstruction and applications of genome-scale metabolic models

Tae Yong Kim et al.

CURRENT OPINION IN BIOTECHNOLOGY (2012)

Article Biotechnology & Applied Microbiology

Genome-scale metabolic flux analysis of Streptomyces lividans growing on a complex medium

Pieter-Jan D'Huys et al.

JOURNAL OF BIOTECHNOLOGY (2012)

Article Biotechnology & Applied Microbiology

Amino acid uptake profiling of wild type and recombinant Streptomyces lividans TK24 batch fermentations

Pieter-Jan D'Huys et al.

JOURNAL OF BIOTECHNOLOGY (2011)

Article Biochemistry & Molecular Biology

Economics of membrane occupancy and respiro-fermentation

Kai Zhuang et al.

MOLECULAR SYSTEMS BIOLOGY (2011)

Article Biochemistry & Molecular Biology

A comprehensive genome-scale reconstruction of Escherichia coli metabolism-2011

Jeffrey D. Orth et al.

MOLECULAR SYSTEMS BIOLOGY (2011)

Article Biochemical Research Methods

Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

Jan Schellenberger et al.

NATURE PROTOCOLS (2011)

Article Biotechnology & Applied Microbiology

EMILiO: A fast algorithm for genome-scale strain design

Laurence Yang et al.

METABOLIC ENGINEERING (2011)

Article Biotechnology & Applied Microbiology

In Silico Identification of Gene Amplification Targets for Improvement of Lycopene Production

Hyung Seok Choi et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2010)

Article Biochemical Research Methods

BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions

Jan Schellenberger et al.

BMC BIOINFORMATICS (2010)

Article Biotechnology & Applied Microbiology

Metabolic modeling and analysis of the metabolic switch in Streptomyces coelicolor

Mohammad T. Alam et al.

BMC GENOMICS (2010)

Article Mathematical & Computational Biology

OptFlux: an open-source software platform for in silico metabolic engineering

Isabel Rocha et al.

BMC SYSTEMS BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

What is flux balance analysis?

Jeffrey D. Orth et al.

NATURE BIOTECHNOLOGY (2010)

Article Biochemical Research Methods

A protocol for generating a high-quality genome-scale metabolic reconstruction

Ines Thiele et al.

NATURE PROTOCOLS (2010)

Article Biochemical Research Methods

BLAST plus : architecture and applications

Christiam Camacho et al.

BMC BIOINFORMATICS (2009)

Article Biotechnology & Applied Microbiology

Branched-chain amino acid catabolism provides precursors for the Type II polyketide antibiotic, actinorhodin, via pathways that are nutrient dependent

Karen Stirrett et al.

JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY (2009)

Article Biotechnology & Applied Microbiology

iBsu1103: a new genome-scale metabolic model of Bacillus subtilis based on SEED annotations

Christopher S. Henry et al.

GENOME BIOLOGY (2009)

Article Biochemistry & Molecular Biology

Antibiotic overproduction in Streptomyces coelicolor A3(2) mediated by phosphofructokinase deletion

Irina Borodina et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2008)

Article Biotechnology & Applied Microbiology

Selection of objective function in genome scale flux balance analysis for process feed development in antibiotic production

Chiraphan Khannapho et al.

METABOLIC ENGINEERING (2008)

Article Multidisciplinary Sciences

An alternative menaquinone biosynthetic pathway operating in microorganisms

Tomoshige Hiratsuka et al.

SCIENCE (2008)

Article Biotechnology & Applied Microbiology

Genome-scale analysis of Mannheimia succiniciproducens metabolism

Tae Yong Kim et al.

BIOTECHNOLOGY AND BIOENGINEERING (2007)

Article Biotechnology & Applied Microbiology

Engineering of primary carbohydrate metabolism for increased production of actinorhodin in Streptomyces coelicolor

Yong-Gu Ryu et al.

APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)

Article Biochemistry & Molecular Biology

Genome-scale analysis of Streptomyces coelicolor A3(2) metabolism

I Borodina et al.

GENOME RESEARCH (2005)

Article Biochemistry & Molecular Biology

Expansion of the BioCyc collection of pathway/genome databases to 160 genomes

PD Karp et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Biotechnology & Applied Microbiology

OptKnock: A bilevel programming framework for identifying gene knockout strategies for microbial strain optimization

AP Burgard et al.

BIOTECHNOLOGY AND BIOENGINEERING (2003)

Article Biotechnology & Applied Microbiology

An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)

JL Reed et al.

GENOME BIOLOGY (2003)

Article Multidisciplinary Sciences

Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2)

SD Bentley et al.

NATURE (2002)

Article Biochemistry & Molecular Biology

KEGG: Kyoto Encyclopedia of Genes and Genomes

M Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2000)