Precise metabolic flux analysis of coryneform bacteria by gas chromatography-mass spectrometry and verification by nuclear magnetic resonance

Journal of Bioscience and Bioengineering

Volumn 102, Issue 5, 2006, Pages 413-424

  Shirai, Tomokazu ^a   Matsuzaki, Kunihiro ^a   Kuzumoto, Masanori ^a   Nagahisa, Keisuke ^a   Furusawa, Chikara ^a   Shioya, Suteaki ^a   Shimizu, Hiroshi ^a  

^a OSAKA UNIVERSITY   (Japan)

Author keywords

coryneform bacteria; gas chromatography mass spectrometry; metabolic flux analysis; nuclear magnetic resonance

Indexed keywords

GAS CHROMATOGRAPHY; GROWTH KINETICS; MASS SPECTROMETRY; METABOLISM; NUCLEAR MAGNETIC RESONANCE;

COEFFICIENT OF VARIANCE (CV); CORYNEFORM BACTERIA; METABOLIC FLUX ANALYSIS; METABOLIC PATHWAY;

BACTERIA;

ACTINOMYCETALES; ARTICLE; BACTERIAL GROWTH; BACTERIAL METABOLISM; CORYNEBACTERIUM EFFICIENS; CORYNEBACTERIUM GLUTAMICUM; GAS CHROMATOGRAPHY; MASS SPECTROMETRY; NUCLEAR MAGNETIC RESONANCE;

ACTINOMYCETALES; GAS CHROMATOGRAPHY-MASS SPECTROMETRY; MAGNETIC RESONANCE SPECTROSCOPY; NADP;

BACTERIA (MICROORGANISMS); CORYNEBACTERIACEAE; CORYNEBACTERIUM GLUTAMICUM;

EID: 33845611853     PISSN: 13891723     EISSN: None     Source Type: Journal    
DOI: 10.1263/jbb.102.413     Document Type: Article

References (42)

1. Takiguchi N., Shimizu H., and Shioya S. An on-line physiological state recognition system for the lysine fermentation process based on a metabolic reaction model. Biotechnol. Bioeng. 55 (1997) 170-181
2. Adachi E., Torigoe M., Sugiyama M., Nikawa J., and Shimizu K. Modification of pathways of Saccharomyces cerevisiae by the expression of lactate dehydrogenase and deletion of pyruvate decarboxylase genes for lactic acid fermentation at low pH value. J. Ferment. Bioeng. 86 (1998) 284-289
3. Zhao J., and Shimizu K. Metabolic flux analysis of Escherichia coli K12 grown on 13C-labeled acetate and glucose using GC-MS and powerful flux calculation method. J. Biotechnol. 101 (2003) 101-117
4. Dauner M., Bailey J.E., and Sauer U. Metabolic flux analysis with a comprehensive isotopomer model in Bacillus subtilis. Biotechnol. Bioeng. 76 (2001) 144-156
5. Vallino J.J., and Stephanopoulos G. Metabolic flux distributions in Corynebacterium glutamicum during growth and lysine overproduction. Biotechnol. Bioeng. 41 (1993) 633-646
6. Yang C., Hua Q., and Shimizu K. Quantitative analysis of intracellular metabolic fluxes using GC-MS and two-dimensional NMR spectroscopy. J. Biosci. Bioeng. 93 (2002) 78-87
7. Shimizu H., Tanaka H., Nakato A., Nagahisa K., Kimura E., and Shioya S. Effects of the changes in enzyme activities on metabolic flux redistribution around the 2-oxoglutarate branch in glutamate production by Corynebacterium glutamicum. Bioprocess Biosyst. Eng. 25 (2003) 291-298
8. Shirai T., Nakato A., Izutani N., Nagahisa K., Shioya S., Kimura E., Kawarabayashi Y., Yamagishi A., Gojobori T., and Shimizu H. Comparative study of flux redistribution of metabolic pathway in glutamate production by two coryneform bacteria. Metab. Eng. 7 (2005) 59-69
9. Liebl W., Klamer R., and Schleifer K.H. Requirement of chelating compounds for the growth of Corynebacterium glutamicum in synthetic media. Appl. Microbiol. Biotechnol. 32 (1989) 205-210
10. Marx A., de Graaf A.A., Wiechert W., Eggeling L., and Sahm H. Determination of the fluxes in the central metabolism of Corynebacterium glutamicum by nuclear magnetic resonance spectroscopy combined with metabolite balancing. Biotechnol. Bioeng. 49 (1996) 111-129
11. 13C-labeled glucose. Metab. Eng. 4 (2002) 202-216
12. Mawhinny T.P., Robinett R.S.R., Atalay A., and Madson M.A. Analysis of amino acids as their tert-butyldimethylsilyl derivatives by gas-liquid chromatography and mass spectrometry. J. Chromatogr. 358 (1986) 231-242
13. MacKenzie S.L., Tenaschuk D., and Fortier G. Analysis of amino acids by gas-liquid chromatography as tert-butyldimethylsilyl derivatives: preparation of derivatives in single reaction. J. Chromatogr. 387 (1987) 241-253
14. Dauner M., and Sauer U. GC-MS analysis of amino acids rapidly provides rich information for isotopomer balancing. Biotechnol. Prog. 16 (2000) 642-649
15. Chaves das Neves H.J. Capillary gas chromatography of amino acids, including asparagines and glutamine: sensitive gas chromatographic-mass spectrometric and selected ion monitoring gas chromatographic-mass spectrometric detection of the N,O(S)-tert-butyldimethylsilyl derivatives. J. Chromatogr. 392 (1987) 249-258
16. Bentley R., Saha N.C., and Sweeley C.C. Separation of protinum and deuterium forms of carbohydrates by gas chromatography. Anal. Chem. 37 (1965) 1118-1122
17. Goromaru T., and Maeda H. Isotopic fractionation of isopropylantipyrine and its deuterated analogues by capillary gas chromatography. Biol. Pharm Bull. 17 (1994) 1635-1639
18. 13C-labeling of proteinogenic amino acids-an efficient analytical tool to investigate intermediary metabolism. Eur. J. Biochem. 232 (1995) 433-448
19. 13C-labeling. J. Biomol. NMR 2 (1992) 323-334
20. Shiio I., Otsuka S.I., and Tsunoda T. Glutamic acid formation from glucose by bacteria. I. Enzymes of the Embden-Meyerhof-Parnas pathway, the Krebs cycle, and the glyoxylate bypass in cell extracts of Brevibacterium flavum. J. Biochem. 46 (1959) 1303-1311
21. Otsuka S.I., Miyajima R., and Shiio R. Comparative studies on the mechanism of microbial glutamate formation. I. Pathways of glutamate formation from glucose in Brevibacterium flavum and in Mirococcus glutamicus. J. Gen. Appl. Microbiol. 11 (1965) 285-294
22. Shiio I., and Ujikawa K. Enzymes of the glutamate and aspartate synthetic pathways in a glutamate-producing bacterium, Brevibacterium flavum. J. Biochem. 84 (1978) 647-657
23. Ozaki H., and Shiio I. Regulation of the TCA and glyoxylate cycles in Brevibacterium flavum. II. Regulation of phosphoenolpyruvate carboxylase and pyruvate kinase. J. Biochem. 66 (1969) 297-311
24. Mori M., and Shiio I. Purification and some properties of phosphoenolpyruvate carboxylase from Brevibacterium flavum and its aspartate-overproducing mutant. J. Biochem. 97 (1985) 1119-1128
25. Peters-Wendisch P.G., Wendisch V.F., Paul S., Eikmanns B.J., and Sahm H. Pyruvate carboxylase as an anaplerotic enzyme in Corynebacterium glutamicum. Microbiology 143 (1997) 1095-1103
26. Jetten M.S.M., and Sinskey A.J. Characterization of phosphoenolpyruvate carboxykinase from Corynebacterium glutamicum. FEMS Microbiol. Lett. 111 (1993) 183-188
27. Jetten M.S.M., and Sinskey A.J. Purification and properties of oxaloacetate decarboxylase from Corynebacterium glutamicum. Antonie van Leeuwenhoek 67 (1995) 221-227
28. Cocaign-Bousquet M., Guyonvarch A., and Lindley N.D. Growth rate-dependent modulation of carbon flux through central metabolism and the kinetic consequences for glucose-limited chemostat cultures of Corynebacterium glutamicum. Appl. Environ. Microbiol. 62 (1996) 429-436
29. Fraser J., and Newman E.B. Derivation of glycine from threonine in Escherichia coli K-12 mutants. J. Bacteriol. 122 (1975) 810-817
30. Liu J.Q., Dairi T., Itoh N., Kataoka M., Shimizu S., and Yamada H. Gene cloning, biochemical characterization and physiological role of a thermostable low-specificity 1-threonine aldolase from Escherichia coli. Eur. J. Biochem. 255 (1998) 220-226
31. Fischer E., and Sauer U. Metabolic flux profiling of Escherichia coli mutants in central carbon metabolism using GC-MS. Eur. J. Biochem. 270 (2003) 880-891
32. Soga T., Ohashi Y., Ueno Y., Naraoka H., Tomita M., and Nishioka T. Quantitative metabolome analysis using capillary electroporesis mass spectrometry. J. Proteom. Res. 2 (2003) 488-494
33. Schmidt K., Carlsen M., Nielsen J., and Villadsen J. Modeling isotopomer distributions in biochemical networks using isotopomer mapping matrices. Biotechnol. Bioeng. 55 (1997) 831-840
34. Wiechert W., Siefke C., de Graaf A.A., and Marx A. Bidirectional reaction steps in metabolic engineering. II. Flux estimation and statistical analysis. Biotechnol. Bioeng. 55 (1997) 118-135
35. Klapa M.I., Aont J.C., and Stephanopoulos G. Systematic quantification of complex metabolic flux networks using stable isotopes and mass spectrometory. Eur. J. Biochem. 270 (2003) 3525-3542
36. Sauer U., Lasko D.R., Fiaux J., Hochuli M., Glaser R., Szyperski T., Wüthrich K., and Bailey J.E. Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism. J. Bacteriol. 181 (1999) 6679-6688
37. Blank L.M., and Sauer U. TCA cycle activity in Saccharomyces cerevisiae is a function of the environmentally determined specific growth and glucose uptake rates. Microbiology 150 (2004) 1085-1093
38. Wendisch V.F., de Graaf A.A., Sahm H., and Eikmanns B.J. Quantitative determination of metabolic fluxes during coutilization of two carbon sources: comparative analyses with Corynebacterium glutamicum during growth on acetate and/or glucose. J. Bacteriol. 182 (2000) 3088-3096
39. Moritz B., Striegel K., de Graaf A.A., and Sahm H. Changes of pentose phosphate pathway flux in vivo in Corynebacterium glutamicum during leucine-limited batch cultivation as determined from intracellular metabolite concentration measurements. Metab. Eng. 4 (2002) 295-305
40. Wittmann C., Kim H.M., and Heinzle E. Metabolic network analysis of lysine producing Corynebacterium glutamicum at a miniaturized scale. Biotechnol. Bioeng. 87 (2004) 1-6
41. Marx A., Eikmanns B.J., Sahm H., de Graaf A.A., and Eggeling L. Response of the central metabolism in Corynebacterium glutamicum to the use of an NADH-dependent glutamate dehydrogenase. Metab. Eng. 1 (1999) 35-48
42. Wittmann C., and Heinzle E. Genealogy profiling through strain improvement by using metabolic network analysis: metabolic flux genealogy of several generations of lysine-producing corynebacteria. Appl. Environ. Microbiol. 68 (2002) 5843-5859