MIRACLE: Mass Isotopomer Ratio Analysis of U-13C-Labeled Extracts. A New Method for Accurate Quantification of Changes in Concentrations of Intracellular Metabolites

Biotechnology and Bioengineering

Volumn 85, Issue 6, 2004, Pages 620-628

  Mashego, M R ^a   Wu, L ^a   Van Dam, J C ^a   Ras, C ^a   Vinke, J L ^a   Van Winden, W A ^a   Van Gulik, W M ^a   Heijnen, J J ^a  

^a KLUYVER CENTRE FOR GENOMICS OF INDUSTRIAL FERMENTATION   (Netherlands)

Author keywords

13C labeling; Chemostat; Liquid chromatography electrospray ionization mass spectrometry; Quantitative metabolomics; Saccharomyces cerevisiae

Indexed keywords

CHEMOSTATS; GLUCOSE; ISOTOPES; LIQUID CHROMATOGRAPHY;

MASS ISOTOPOMER RATIO ANALYSIS;

METABOLITES;

CARBON 13; GLUCOSE;

ACCURACY; ANIMAL CELL; ARTICLE; CHEMOSTAT; CONCENTRATION RESPONSE; CONTROLLED STUDY; ELECTROSPRAY MASS SPECTROMETRY; EXTRACTION; FUNGUS GROWTH; GROWTH RATE; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MEASUREMENT; METABOLITE; NONHUMAN; SACCHAROMYCES CEREVISIAE; STEADY STATE;

ALGORITHMS; CELL EXTRACTS; CHROMATOGRAPHY, LIQUID; FEASIBILITY STUDIES; GLUCOSE; GLYCOLYSIS; ISOTOPE LABELING; METABOLIC CLEARANCE RATE; RADIOISOTOPE DILUTION TECHNIQUE; REPRODUCIBILITY OF RESULTS; SACCHAROMYCES CEREVISIAE; SENSITIVITY AND SPECIFICITY; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION;

SACCHAROMYCES CEREVISIAE;

EID: 1442326111     PISSN: 00063592     EISSN: None     Source Type: Journal    
DOI: 10.1002/bit.10907     Document Type: Article

References (29)

1. Buchholz A, Takors R, Wandrey C. 2001. Quantification of intracellular metabolites in Escherichia coli K12 using liquid chromatographic-electrospray ionization tandem mass spectrometric techniques. Anal Biochem 295:129-137.
2. Buchholz A, Hurlebaus J, Wandrey C, Takors R. 2002. Metabolomics: quantification of intracellular metabolite dynamics. Biomol Eng 19: 5-15.
3. Buziol S, Bashir I, Baumeister A, Claassen W, Noisommit-Rizzi N, Mailinger W, Reuss M. 2002. New bioreactor-coupled rapid stopped flow sampling technique for measurements of metabolite dynamics on a sub-second time scale. Biotechnol Bioeng 80:632-636.
4. Castrillo JI, Hayes A, Mohammed S, Gaskell SJ, Oliver SG. 2003. An optimized protocol for metabolome analysis in yeast using direct infusion electrospray mass spectrometry. Phytochemistry 62:929-937.
5. De Koning W, Van Dam K. 1992. A method for the determination of changes of glycolytic metabolites in yeast on a sub-second time scale using extraction at neutral pH. Anal Biochem 204:118-123.
6. De Leenheer AP, Thienpont LM. 1992. Applications of isotope dilution-mass spectrometry in clinical chemistry, pharmacokinetics and toxicology. Mass Spectrom Rev 11:249-307.
7. Francois J and Parrou JL. 2001. Reserve carbohydrates metabolism in the Yeast Saccharomyces cerevisiae, FEMS Microbiol Rev 25:125-145.
8. Freisleben A, Schieberle P, Rychlik M. 2003. Specific and sensitive quantification of folate vitamers in foods by stable isotope dilution assays using high-performance liquid chromatography-tandem mass spectrometry. Anal Bioanal Chem 376:149-156.
9. Gonzalez B, Francois J, Renaud M. 1997. A rapid and reliable method for metabolite extraction in yeast using boiling buffered ethanol. Yeast 13:1347-1356.
10. Govorun VM, Archakov AI. 2002. Proteomic technologies in modern biomedical science. Biochemistry (Moscow) 67:1341-1359.
11. Griffin TJ, Aebersold R. 2001. Advances in proteome analysis by mass spectrometry. J Biol Chem 276:45497-45500.
12. Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R. 1999. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat Biotechnol 17:994-999.
13. Hajjaj H, Blanc PJ, Goma J. 1998. Sampling techniques and comparative extraction procedures for quantitative determination of intra- and extracellular metabolites in filamentous fungi. FEMS Microbiol Lett 164:195-200.
14. Ideker T, Thorsson V, Ranish JA, Christmas R, Buhler J, Eng JK, Bumgamer R, Goodlett DR, Aebersold R, Hood L. 2001. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292:929-934.
15. Lange HC, Eman M, van Zuijlen G, Visser D, van Dam JC, Frank J, Teixeria de Mattos MJ, Heijnen JJ. 2001. Improved rapid sampling for in vivo kinetics of intracellular metabolites in Saccharomyces cerevisiae. Biotechnol Bioeng 75:406-415.
16. Nyman TA. 2001. The role of mass spectrometry in proteome studies. Biomolecular Engineering 18:221-227.
17. Paalman JWG, Verwaal R, Slofstra SH, Verkleij AJ, Boonstra J, Verrips CT. 2003. Trehalose and glycogen accumulation is related to the duration of the G1 phase in Saccharomyces cerevisiae. FEMS Yeast Res 3:261-268.
18. Ruijter GJG, Visser J. 1996. Determination of intermediary metabolites in Aspergillus niger. J Microbiol Methods 25:295-302.
19. Schaefer U, Boos W, Takors R, Weuster-Botz D. 1999. Automated sampling device for monitoring intracellular metabolite dynamics. Anal Biochem 270:88-96.
20. Schmitz M, Hirsch E, Bongaerts J, Takors R. 2002. Pulse experiments as a prerequisites for the quantification of in vivo enzyme kinetics in aromatic amino acid pathway of Escherichia coli. Biotechnol Prog 18:935-941.
21. Shi G. 2003. Application of co-eluting structural analog internal standards for expanded linear dynamic range in liquid chromatography/electrospray mass spectrometry. Rapid Commun Mass Spectrom 17: 202-206.
22. Sillje HHW, Paalman JWG, Ter Schure EG, Olsthoom SQB, Verkleij AJ, Boonstra J, Verrips CT. 1999. Function of trehalose and glycogen in cell cycle progression and cell viability in Saccharomyces cerevisiae. J Bacteriol 181:396-400.
23. Theobald U, Mailinger W, Reuss M, Rizzi M. 1993. In vivo analysis of glucose-induced fast changes in yeast adenine nucleotide pool applying a rapid sampling technique. Anal Biochem 214:31-37.
24. Theobald U, Mailinger W, Baltes M, Reuss M, Rizzi M. 1997. In vivo analysis of metabolic dynamics in Saccharomyces cerevisiae. I. Experimental observations. Biotechnol Bioeng 55:305-316.
25. Van Dam JC, Eman MR, Frank J, Lange HC, van Dedem GWK, Heijnen JJ. 2002. Analysis of glycolytic metabolites in Saccharomyces cerevisiae using anion exchange chromatography and electrospray ionization with tandem mass spectrometric detection. Anal Chem Acta 460:209-218.
26. 13C-Labeling technique for metabolic network and flux analysis, theory and application. PhD Thesis, Technical University of Delft.
27. Verduyn C, Postma E, Scheffers WA, Van Dijken JP. 1992. Effect of benzoic acid on metabolic fluxes in yeasts: a continuous culture study on the regulation of respiration and alcoholic fermentation. Yeast 8:501-517.
28. Visser D, van Zuylen GA, van Dam JC, Oudshoom A, Eman MR, Ras C, van Gulik WM, Frank J, van Dedem GW, Heijnen JJ. 2002. Rapid sampling for analysis of in vivo kinetics using the bioscope: a system for continuous pulse experiments. Biotechnology 79:674-681.
29. Weibel KE, Mor JR, Fiechter A. 1974. Rapid sampling of yeast cells and automated assays of adenylate, citrate, pyruvate and glucose-6-phosphate pools. Anal Biochem 58:208-216.