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Volumn 16, Issue 3, 2011, Pages 419-437

Re-examination of Metabolic Fluxes in Escherichia coli during Anaerobic Fermentation of Glucose Using 13C Labeling Experiments and 2-dimensional Nuclear Magnetic Resonance (NMR) Spectroscopy

Author keywords

Anaerobic; Escherichia coli; Identifiability; Metabolic flux analysis

Indexed keywords

ACCURATE ESTIMATION; ANAEROBIC; ANAEROBIC FERMENTATION; ENTNER-DOUDOROFF; EXTRACELLULAR; FLUX ANALYSIS; GLYOXYLATE; IDENTIFIABILITY; IDENTIFIABILITY ANALYSIS; METABOLIC FLUX; METABOLIC FLUX ANALYSIS; NETWORK TOPOLOGY; PENTOSE PHOSPHATE PATHWAY; STATISTICAL QUALITY; TRICARBOXYLIC ACID CYCLE;

EID: 80052441741     PISSN: 12268372     EISSN: 19763816     Source Type: Journal    
DOI: 10.1007/s12257-010-0449-5     Document Type: Article
Times cited : (17)

References (43)
  • 2
    • 33745454890 scopus 로고    scopus 로고
    • Glycolysis and flux control
    • A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.), ASM Press, Washington DC, USA
    • Romeo, T. and J. L. Snoep (2005) Glycolysis and flux control. In: A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.). EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology. ASM Press, Washington DC, USA.
    • (2005) EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology
    • Romeo, T.1    Snoep, J.L.2
  • 3
    • 0347506028 scopus 로고    scopus 로고
    • It Is All about Metabolic Fluxes
    • DOI 10.1128/JB.185.24.7031-7035.2003
    • Nielsen, J. (2003) It is all about metabolic fluxes. J. Bacteriol. 185: 7031-7035. (Pubitemid 37521234)
    • (2003) Journal of Bacteriology , vol.185 , Issue.24 , pp. 7031-7035
    • Nielsen, J.1
  • 4
    • 0032600888 scopus 로고    scopus 로고
    • Metabolic Fluxes and Metabolic Engineering
    • DOI 10.1006/mben.1998.0101, PII S109671769890101X
    • Stephanopoulos, G. (1999) Metabolic fluxes and metabolic engineering. Metab. Eng. 1: 1-11. (Pubitemid 129499367)
    • (1999) Metabolic Engineering , vol.1 , Issue.1 , pp. 1-11
    • Stephanopoulos, G.1
  • 5
    • 0033585824 scopus 로고    scopus 로고
    • Metabolite and isotopomer balancing in the analysis of metabolic cycles: I. Theory
    • DOI 10.1002/(SICI)1097-0290(19990220)62:4<375::AID-BIT1>3.0.CO;2-O
    • Klapa, M. I., S. M. Park, A. J. Sinskey, and G. Stephanopoulos (1999) Metabolite and isotopomer balancing in the analysis of metabolic cycles: I. Theory. Biotechnol. Bioeng. 62: 375-391. (Pubitemid 29052873)
    • (1999) Biotechnology and Bioengineering , vol.62 , Issue.4 , pp. 375-391
    • Klapa, M.I.1    Park, S.M.2    Sinskey, A.J.3    Stephanopoulos, G.4
  • 7
    • 0029146299 scopus 로고
    • 13Clabeling of proteinogenic amino acids: An efficient analytical tool to investigate intermediary metabolism
    • 13Clabeling of proteinogenic amino acids: An efficient analytical tool to investigate intermediary metabolism. Eur. J. Biochem. 232: 433-448.
    • (1995) Eur. J. Biochem. , vol.232 , pp. 433-448
    • Szyperski, T.1
  • 8
    • 58549113371 scopus 로고    scopus 로고
    • NMR for microbiology. In vivo and in situ applications
    • Grivet, J. P. (2009) NMR for microbiology: In vivo and in situ applications. Prog. Nucl. Mag. Res. Sp. 54: 1-53.
    • (2009) Prog. Nucl. Mag. Res. Sp. , vol.54 , pp. 1-53
    • Grivet, J.P.1
  • 10
    • 0037335931 scopus 로고    scopus 로고
    • Metabolic flux profiling of Escherichia coli mutants in central carbon metabolism using GC-MS
    • DOI 10.1046/j.1432-1033.2003.03448.x
    • Fischer, E. and U. Sauer (2003) Metabolic flux profiling of Escherichia coli mutants in central carbon metabolism using GCMS. Eur. J. Biochem. 270: 880-891. (Pubitemid 36315331)
    • (2003) European Journal of Biochemistry , vol.270 , Issue.5 , pp. 880-891
    • Fischer, E.1    Sauer, U.2
  • 11
    • 20044375201 scopus 로고    scopus 로고
    • Large-scale in vivo flux analysis shows rigidity and suboptimal performance of Bacillus subtilis metabolism
    • DOI 10.1038/ng1555
    • Fischer, E. and U. Sauer (2005) Large-scale in vivo flux analysis shows rigidity and suboptimal performance of Bacillus subtilis metabolism. Nat. Genet. 37: 636-640. (Pubitemid 40770420)
    • (2005) Nature Genetics , vol.37 , Issue.6 , pp. 636-640
    • Fischer, E.1    Sauer, U.2
  • 14
    • 1542265814 scopus 로고    scopus 로고
    • 13C-labeling experiments together with measurements of enzyme activities and intracellular metabolite concentrations
    • DOI 10.1007/s00253-003-1357-9
    • 13C-labeling experiments together with measurements of enzyme activities and intracellular metabolite concentrations. Appl. Microbiol. Biotechnol. 63: 407-417. (Pubitemid 38134779)
    • (2004) Applied Microbiology and Biotechnology , vol.63 , Issue.4 , pp. 407-417
    • Al Zaid Siddiquee, K.1    Arauzo-Bravo, M.J.2    Shimizu, K.3
  • 15
    • 0037422210 scopus 로고    scopus 로고
    • 13C-labeled acetate and glucose using GC-MS and powerful flux calculation method
    • DOI 10.1016/S0168-1656(02)00316-4, PII S0168165602003164
    • 13C-labeled acetate and glucose using GC-MS and powerful flux calculation method. J Biotechnol. 101: 101-117. (Pubitemid 36144197)
    • (2003) Journal of Biotechnology , vol.101 , Issue.2 , pp. 101-117
    • Zhao, J.1    Shimizu, K.2
  • 16
    • 34447523907 scopus 로고    scopus 로고
    • Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli
    • Schuetz, R., L. Kuepfer, and U. Sauer (2007) Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli. Mol. Syst. Biol. 3: 119.
    • (2007) Mol. Syst. Biol. , vol.3 , pp. 119
    • Schuetz, R.1    Kuepfer, L.2    Sauer, U.3
  • 17
    • 0032753923 scopus 로고    scopus 로고
    • Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism
    • Sauer, U., D. R. Lasko, J. Fiaux, M. Hochuli, R. Glaser, T. Szyperski, K. Wuthrich, and J. E. Bailey (1999) Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism. J. Bacteriol. 181: 6679-6688. (Pubitemid 29517982)
    • (1999) Journal of Bacteriology , vol.181 , Issue.21 , pp. 6679-6688
    • Sauer, U.1    Lasko, D.R.2    Fiaux, J.3    Hochuli, M.4    Glaser, R.5    Szyperski, T.6    Wuthrich, K.7    Bailey, J.E.8
  • 18
    • 1342325419 scopus 로고    scopus 로고
    • The Soluble and Membrane-bound Transhydrogenases UdhA and PntAB Have Divergent Functions in NADPH Metabolism of Escherichia coli
    • DOI 10.1074/jbc.M311657200
    • Sauer, U., F. Canonaco, S. Heri, A. Perrenoud, and E. Fischer (2004) The soluble and membrane-bound transhydrogenases UdhA and PntAB have divergent functions in NADPH metabolism of Escherichia coli. J. Biol. Chem. 279: 6613-6619. (Pubitemid 38248798)
    • (2004) Journal of Biological Chemistry , vol.279 , Issue.8 , pp. 6613-6619
    • Sauer, U.1    Canonaco, F.2    Heri, S.3    Perrenoud, A.4    Fischer, E.5
  • 19
    • 33144472889 scopus 로고    scopus 로고
    • Nonlinear dependency of intracellular fluxes on growth rate in miniaturized continuous cultures of Escherichia coli
    • DOI 10.1128/AEM.72.2.1164-1172.2006
    • Nanchen, A., A. Schicker, and U. Sauer (2006) Nonlinear dependency of intracellular fluxes on growth rate in miniaturized continuous cultures of Escherichia coli. Appl. Environ. Microbiol. 72: 1164-1172. (Pubitemid 43271223)
    • (2006) Applied and Environmental Microbiology , vol.72 , Issue.2 , pp. 1164-1172
    • Nanchen, A.1    Schicker, A.2    Sauer, U.3
  • 20
    • 33646362289 scopus 로고    scopus 로고
    • Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes
    • DOI 10.1074/jbc.M510016200
    • Fong, S. S., A. Nanchen, B. O. Palsson, and U. Sauer (2006) Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. J. Biol. Chem. 281: 8024-8033. (Pubitemid 43847420)
    • (2006) Journal of Biological Chemistry , vol.281 , Issue.12 , pp. 8024-8033
    • Fong, S.S.1    Nanchen, A.2    Palsson, B.O.3    Sauer, U.4
  • 22
    • 0344443759 scopus 로고    scopus 로고
    • A Novel Metabolic Cycle Catalyzes Glucose Oxidation and Anaplerosis in Hungry Escherichia coli
    • DOI 10.1074/jbc.M307968200
    • Fischer, E. and U. Sauer (2003) A novel metabolic cycle catalyzes glucose oxidation and anaplerosis in hungry Escherichia coli. J. Biol. Chem. 278: 46446-46451. (Pubitemid 37452216)
    • (2003) Journal of Biological Chemistry , vol.278 , Issue.47 , pp. 46446-46451
    • Fischer, E.1    Sauer, U.2
  • 23
    • 0032838693 scopus 로고    scopus 로고
    • Quantitative analysis of metabolite fluxes in Escherichia coli, using twodimensional NMR spectroscopy and complete isotopomer models
    • Schmidt, K., J. Nielsen, and J. Villadsen (1999) Quantitative analysis of metabolite fluxes in Escherichia coli, using twodimensional NMR spectroscopy and complete isotopomer models. J. Biotechnol. 71: 175-190.
    • (1999) J. Biotechnol. , vol.71 , pp. 175-190
    • Schmidt, K.1    Nielsen, J.2    Villadsen, J.3
  • 26
    • 0031594984 scopus 로고    scopus 로고
    • 13C-NMR MS and metabolic ux balancing in biotechnology research
    • 13C-NMR, MS and metabolic ux balancing in biotechnology research. Q. Rev. Biophys. 31: 41-106.
    • (1998) Q. Rev. Biophys. , vol.31 , pp. 41-106
    • Szypreski, T.1
  • 27
    • 34249765651 scopus 로고
    • NMR View: A computer program for the visualization and analysis of NMR data
    • Johnson, B. A. and R. A. Blevins (1994) NMR View: A computer program for the visualization and analysis of NMR data. J. Biomol. NMR. 4: 603-614.
    • (1994) J. Biomol. NMR. , vol.4 , pp. 603-614
    • Johnson, B.A.1    Blevins, R.A.2
  • 28
    • 34547655298 scopus 로고    scopus 로고
    • 13C labeling and comprehensive bondomer balancing
    • DOI 10.1016/j.phytochem.2007.04.009, PII S0031942207002385
    • Sriram, G., D. B. Fulton, and J. V. Shanks (2007) Flux quantification in central carbon metabolism of Catharanthus roseus hairy roots by C-13 labeling and comprehensive bondomer balancing. Phytochem. 68: 2243-2257. (Pubitemid 47211187)
    • (2007) Phytochemistry , vol.68 , Issue.16-18 , pp. 2243-2257
    • Sriram, G.1    Fulton, D.B.2    Shanks, J.V.3
  • 32
    • 0141763770 scopus 로고    scopus 로고
    • An improved method for statistical analysis of metabolic flux analysis using isotopomer mapping matrices with analytical expressions
    • DOI 10.1016/S0168-1656(03)00169-X
    • Arauzo-Bravo, M. J. and K. Shimizu (2003) An improved method for statistical analysis of metabolic flux analysis using isotopomer mapping matrices with analytical expressions. J. Biotechnol. 105: 117-133. (Pubitemid 37159319)
    • (2003) Journal of Biotechnology , vol.105 , Issue.1-2 , pp. 117-133
    • Arauzo-Bravo, M.J.1    Shimizu, K.2
  • 33
    • 4243829380 scopus 로고    scopus 로고
    • Bidirectional reaction steps in metabolic networks: IV. Optimal design of isotopomer labeling experiments
    • Mollney, M., W. Wiechert, D. Kownatzki, and A. A. de Graaf (2006) Bidirectional reaction steps in metabolic networks: IV. Optimal design of isotopomer labeling experiments. Biotechnol. Bioeng. 66: 86-103.
    • (2006) Biotechnol. Bioeng. , vol.66 , pp. 86-103
    • Mollney, M.1    Wiechert, W.2    Kownatzki, D.3    De Graaf, A.A.4
  • 34
    • 33747123465 scopus 로고    scopus 로고
    • Fermentative pyruvate and acetyl-coenzyme A metabolism
    • A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.), ASM Press, Washington DC, USA
    • Sawers, R. G. and D. P. Clark (2004) Fermentative pyruvate and acetyl-coenzyme A metabolism. In: A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.). EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology. ASM Press, Washington DC, USA.
    • (2004) EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology
    • Sawers, R.G.1    Clark, D.P.2
  • 35
    • 70149124825 scopus 로고    scopus 로고
    • Anaerobic formate and hydrogen metabolism
    • A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.), ASM Press, Washington DC, USA
    • Sawers, R. G., M. Blokesch, and A. Bock (2004) Anaerobic formate and hydrogen metabolism. In: A. Bock, R. Curtiss III, J. B. Kaper, P. D. Karp, F. C. Neidhardt, T. Nystrom, J. M. Slauch, C. L. Squires, and D. Ussery (eds.). EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology. ASM Press, Washington DC, USA.
    • (2004) EcoSal-Escherichia coli and Salmonella: Cellular and Molecular Biology
    • Sawers, R.G.1    Blokesch, M.2    Bock, A.3
  • 36
    • 0031782955 scopus 로고    scopus 로고
    • Regulation of acetate metabolism by protein phosphorylation in enteric bacteria
    • DOI 10.1146/annurev.micro.52.1.127
    • Cozzone, A. J. (1998) Regulation of acetate metabolism by protein phosphorylation in enteric bacteria. Annu. Rev. Microbiol. 52: 127-164. (Pubitemid 28481190)
    • (1998) Annual Review of Microbiology , vol.52 , pp. 127-164
    • Cozzone, A.J.1
  • 38
    • 1842582933 scopus 로고    scopus 로고
    • Transcription levels of key metabolic genes are the cause for different glucose utilization pathways in E. coli B (BL21) and E. coli K (JM109)
    • DOI 10.1016/j.jbiotec.2003.10.038, PII S0168165604000227
    • Phue, J. N. and J. Shiloach (2004) Transcription levels of key metabolic genes are the cause for different glucose utilization pathways in E. coli B (BL21) and E. coli K (JM109). J. Biotechnol. 109: 21-30. (Pubitemid 38452568)
    • (2004) Journal of Biotechnology , vol.109 , Issue.1-2 , pp. 21-30
    • Phue, J.-N.1    Shiloach, J.2
  • 39
    • 0032484705 scopus 로고    scopus 로고
    • Proposed mechanism of acetate accumulation in two recombinant Escherichia coli strains during high density fermentation
    • DOI 10.1002/(SICI)1097-0290(19980105)57:1<71::AID-BIT9>3.0.CO;2-S
    • Van de Walle, M. and J. Shiloach (1998) Proposed mechanism of acetate accumulation in two recombinant Escherichia coli strains during high density fermentation. Biotechnol. Bioeng. 57: 71-78. (Pubitemid 27514702)
    • (1998) Biotechnology and Bioengineering , vol.57 , Issue.1 , pp. 71-78
    • Van De Walle, M.1    Shiloach, J.2
  • 40
    • 0034847930 scopus 로고    scopus 로고
    • Metabolic flux analysis with a comprehensice isotopomer model in Bacillus subtilis
    • Dauner, M., J. E. Bailey, and U. Sauer (2000) Metabolic flux analysis with a comprehensice isotopomer model in Bacillus subtilis. Biotechnol. Bioeng. 76: 144-156.
    • (2000) Biotechnol. Bioeng. , vol.76 , pp. 144-156
    • Dauner, M.1    Bailey, J.E.2    Sauer, U.3
  • 43
    • 17644375240 scopus 로고    scopus 로고
    • The PEP-pyruvate-oxaloacetate node as the switch point for carbon flux distribution in bacteria
    • DOI 10.1016/j.femsre.2004.11.002, PII S0168644504000853
    • Sauer, U. and B. J. Eikmanns (2005) The PEP-pyruvate-oxaloacetate node as the switch point for carbon flux distribution in bacteria. FEMS Microbiol. Rev. 29: 765-794. (Pubitemid 41149049)
    • (2005) FEMS Microbiology Reviews , vol.29 , Issue.4 , pp. 765-794
    • Sauer, U.1    Eikmanns, B.J.2


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