Published in Metab Eng on June 05, 2008
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Establishment of a markerless mutation delivery system in Bacillus subtilis stimulated by a double-strand break in the chromosome. PLoS One (2013) 0.82
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Deficiency in glutamine but not glucose induces MYC-dependent apoptosis in human cells. J Cell Biol (2007) 6.54
Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli. Mol Syst Biol (2007) 4.61
A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology. Nat Biotechnol (2008) 4.55
Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis. Science (2012) 4.41
Metabolic flux profiling of Escherichia coli mutants in central carbon metabolism using GC-MS. Eur J Biochem (2003) 3.51
Identification and functional expression of the mitochondrial pyruvate carrier. Science (2012) 3.15
Multidimensional optimality of microbial metabolism. Science (2012) 3.09
Metabolic flux responses to pyruvate kinase knockout in Escherichia coli. J Bacteriol (2002) 3.06
Functional metabolic screen identifies 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 as an important regulator of prostate cancer cell survival. Cancer Discov (2012) 3.03
Large-scale in vivo flux analysis shows rigidity and suboptimal performance of Bacillus subtilis metabolism. Nat Genet (2005) 2.82
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High-throughput metabolic flux analysis based on gas chromatography-mass spectrometry derived 13C constraints. Anal Biochem (2004) 2.73
Impact of global transcriptional regulation by ArcA, ArcB, Cra, Crp, Cya, Fnr, and Mlc on glucose catabolism in Escherichia coli. J Bacteriol (2005) 2.70
Large-scale 13C-flux analysis reveals mechanistic principles of metabolic network robustness to null mutations in yeast. Genome Biol (2005) 2.68
Metabolic functions of duplicate genes in Saccharomyces cerevisiae. Genome Res (2005) 2.68
Metabolic control of adult neural stem cell activity by Fasn-dependent lipogenesis. Nature (2012) 2.54
Quantitative phosphoproteomics reveal mTORC1 activates de novo pyrimidine synthesis. Science (2013) 2.44
FiatFlux--a software for metabolic flux analysis from 13C-glucose experiments. BMC Bioinformatics (2005) 2.42
Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism. Science (2012) 2.38
Experimental identification and quantification of glucose metabolism in seven bacterial species. J Bacteriol (2005) 2.24
Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. J Biol Chem (2005) 2.10
A novel metabolic cycle catalyzes glucose oxidation and anaplerosis in hungry Escherichia coli. J Biol Chem (2003) 2.09
Ultrahigh performance liquid chromatography-tandem mass spectrometry method for fast and robust quantification of anionic and aromatic metabolites. Anal Chem (2010) 2.05
Experimental tests for an evolutionary trade-off between growth rate and yield in E. coli. Am Nat (2006) 1.99
Identification of furfural as a key toxin in lignocellulosic hydrolysates and evolution of a tolerant yeast strain. Microb Biotechnol (2008) 1.88
Ensemble modeling for analysis of cell signaling dynamics. Nat Biotechnol (2007) 1.84
Cross-platform comparison of methods for quantitative metabolomics of primary metabolism. Anal Chem (2009) 1.83
Determination of metabolic flux ratios from 13C-experiments and gas chromatography-mass spectrometry data: protocol and principles. Methods Mol Biol (2007) 1.76
Genetics. Getting closer to the whole picture. Science (2007) 1.73
Metabolic-flux and network analysis in fourteen hemiascomycetous yeasts. FEMS Yeast Res (2005) 1.65
Convergent peripheral pathways catalyze initial glucose catabolism in Pseudomonas putida: genomic and flux analysis. J Bacteriol (2007) 1.57
Large-scale 13C-flux analysis reveals distinct transcriptional control of respiratory and fermentative metabolism in Escherichia coli. Mol Syst Biol (2011) 1.55
Genome engineering reveals large dispensable regions in Bacillus subtilis. Mol Biol Evol (2003) 1.55
High-throughput, accurate mass metabolome profiling of cellular extracts by flow injection-time-of-flight mass spectrometry. Anal Chem (2011) 1.51
Tradeoff between enzyme and metabolite efficiency maintains metabolic homeostasis upon perturbations in enzyme capacity. Mol Syst Biol (2010) 1.50
Nonlinear dependency of intracellular fluxes on growth rate in miniaturized continuous cultures of Escherichia coli. Appl Environ Microbiol (2006) 1.50
PhoR autokinase activity is controlled by an intermediate in wall teichoic acid metabolism that is sensed by the intracellular PAS domain during the PhoPR-mediated phosphate limitation response of Bacillus subtilis. Mol Microbiol (2014) 1.47
Evolutionary engineering of Saccharomyces cerevisiae for anaerobic growth on xylose. Appl Environ Microbiol (2003) 1.45
Fumarate reductase activity maintains an energized membrane in anaerobic Mycobacterium tuberculosis. PLoS Pathog (2011) 1.45
TCA cycle activity in Saccharomyces cerevisiae is a function of the environmentally determined specific growth and glucose uptake rates. Microbiology (2004) 1.44
Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis. BMC Syst Biol (2008) 1.40
Fermentation performance of engineered and evolved xylose-fermenting Saccharomyces cerevisiae strains. Biotechnol Bioeng (2004) 1.38
High-throughput quantitative metabolomics: workflow for cultivation, quenching, and analysis of yeast in a multiwell format. Anal Chem (2009) 1.38
Systematic identification of allosteric protein-metabolite interactions that control enzyme activity in vivo. Nat Biotechnol (2013) 1.36
Metabolite identification and molecular fingerprint prediction through machine learning. Bioinformatics (2012) 1.36
Autoinducer 2 affects biofilm formation by Bacillus cereus. Appl Environ Microbiol (2006) 1.35
Comprehensive quantitative analysis of central carbon and amino-acid metabolism in Saccharomyces cerevisiae under multiple conditions by targeted proteomics. Mol Syst Biol (2011) 1.35
Metabolic-flux profiling of the yeasts Saccharomyces cerevisiae and Pichia stipitis. Eukaryot Cell (2003) 1.33
Systems biology of microbial metabolism. Curr Opin Microbiol (2010) 1.33
Automatic policing of biochemical annotations using genomic correlations. Nat Chem Biol (2009) 1.31
Bacterial swimmers that infiltrate and take over the biofilm matrix. Proc Natl Acad Sci U S A (2012) 1.30
Different biochemical mechanisms ensure network-wide balancing of reducing equivalents in microbial metabolism. J Bacteriol (2009) 1.30
Regulation of the central glycolytic genes in Bacillus subtilis: binding of the repressor CggR to its single DNA target sequence is modulated by fructose-1,6-bisphosphate. Mol Microbiol (2003) 1.26
Regulation and control of metabolic fluxes in microbes. Curr Opin Biotechnol (2011) 1.25
Novel biological insights through metabolomics and 13C-flux analysis. Curr Opin Microbiol (2009) 1.23
Molecular basis for anaerobic growth of Saccharomyces cerevisiae on xylose, investigated by global gene expression and metabolic flux analysis. Appl Environ Microbiol (2004) 1.20
A prototrophic deletion mutant collection for yeast metabolomics and systems biology. Nat Biotechnol (2012) 1.19
Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains. Nat Commun (2010) 1.18
CcpN (YqzB), a novel regulator for CcpA-independent catabolite repression of Bacillus subtilis gluconeogenic genes. Mol Microbiol (2005) 1.18
The Bacillus subtilis ywkA gene encodes a malic enzyme and its transcription is activated by the YufL/YufM two-component system in response to malate. Microbiology (2003) 1.18
Dissecting specific and global transcriptional regulation of bacterial gene expression. Mol Syst Biol (2013) 1.17
Aneuploid yeast strains exhibit defects in cell growth and passage through START. Mol Biol Cell (2013) 1.16
Biofilm formation and cell surface properties among pathogenic and nonpathogenic strains of the Bacillus cereus group. Appl Environ Microbiol (2009) 1.16
Global probabilistic annotation of metabolic networks enables enzyme discovery. Nat Chem Biol (2012) 1.15
Regulation of yeast central metabolism by enzyme phosphorylation. Mol Syst Biol (2012) 1.15
pBaSysBioII: an integrative plasmid generating gfp transcriptional fusions for high-throughput analysis of gene expression in Bacillus subtilis. Microbiology (2010) 1.14
Resistance of Saccharomyces cerevisiae to high concentrations of furfural is based on NADPH-dependent reduction by at least two oxireductases. Appl Environ Microbiol (2009) 1.14
Evolutionary engineering of multiple-stress resistant Saccharomyces cerevisiae. FEMS Yeast Res (2005) 1.13
Computational prediction and experimental verification of the gene encoding the NAD+/NADP+-dependent succinate semialdehyde dehydrogenase in Escherichia coli. J Bacteriol (2007) 1.13
An analytic and systematic framework for estimating metabolic flux ratios from 13C tracer experiments. BMC Bioinformatics (2008) 1.12
Intracellular carbon fluxes in riboflavin-producing Bacillus subtilis during growth on two-carbon substrate mixtures. Appl Environ Microbiol (2002) 1.11
Transcriptional regulation is insufficient to explain substrate-induced flux changes in Bacillus subtilis. Mol Syst Biol (2013) 1.11
Metabolic fluxes during strong carbon catabolite repression by malate in Bacillus subtilis. J Biol Chem (2009) 1.11
Transcriptional regulation of respiration in yeast metabolizing differently repressive carbon substrates. BMC Syst Biol (2010) 1.10
Cyclic AMP-dependent catabolite repression is the dominant control mechanism of metabolic fluxes under glucose limitation in Escherichia coli. J Bacteriol (2008) 1.09
Metabolic engineering of a phosphoketolase pathway for pentose catabolism in Saccharomyces cerevisiae. Appl Environ Microbiol (2004) 1.09
Collisional fragmentation of central carbon metabolites in LC-MS/MS increases precision of ¹³C metabolic flux analysis. Biotechnol Bioeng (2011) 1.09
D-xylose degradation pathway in the halophilic archaeon Haloferax volcanii. J Biol Chem (2009) 1.08
Regulation of CodY activity through modulation of intracellular branched-chain amino acid pools. J Bacteriol (2010) 1.07
Multiple and interconnected pathways for L-lysine catabolism in Pseudomonas putida KT2440. J Bacteriol (2005) 1.07
Efficient classification of complete parameter regions based on semidefinite programming. BMC Bioinformatics (2007) 1.06
Growth-related variations in the Bacillus cereus secretome. Proteomics (2007) 1.05
Limitations in xylose-fermenting Saccharomyces cerevisiae, made evident through comprehensive metabolite profiling and thermodynamic analysis. Appl Environ Microbiol (2010) 1.05
Oxygen- and glucose-dependent regulation of central carbon metabolism in Pichia anomala. Appl Environ Microbiol (2004) 1.05
Knockout of the high-coupling cytochrome aa3 oxidase reduces TCA cycle fluxes in Bacillus subtilis. FEMS Microbiol Lett (2003) 1.04
The spatial architecture of Bacillus subtilis biofilms deciphered using a surface-associated model and in situ imaging. PLoS One (2011) 1.03
Intracellular characterization of aerobic glucose metabolism in seven yeast species by 13C flux analysis and metabolomics. FEMS Yeast Res (2011) 1.02
Transient expression and flux changes during a shift from high to low riboflavin production in continuous cultures of Bacillus subtilis. Biotechnol Bioeng (2005) 1.02
YtsJ has the major physiological role of the four paralogous malic enzyme isoforms in Bacillus subtilis. J Bacteriol (2006) 1.02