Applying metabolic profiling techniques for stimulus-response experiments: Chances and pitfalls

Advances in Biochemical Engineering/Biotechnology

Volumn 92, Issue , 2005, Pages 173-196

  Oldiges, M ^a   Takors, Ralf ^a  

^a FORSCHUNGSZENTRUM JÜLICH   (Germany)

Author keywords

Escherichia coli; Intracellular metabolites; LC MS MS; Metabolic profiling; Saccharomyces cerevisiae

Indexed keywords

ESCHERICHIA COLI; SACCHAROMYCES CEREVISIAE;

ESCHERICHIA COLI PROTEIN; PHENYLALANINE;

ALGORITHM; ARTICLE; BIOLOGICAL MODEL; BIOREACTOR; BIOSYNTHESIS; COMPARATIVE STUDY; ESCHERICHIA COLI; EVALUATION; FLOW INJECTION ANALYSIS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; METABOLISM; METHODOLOGY; MICROBIOLOGY; PHYSIOLOGY; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; SIGNAL TRANSDUCTION; STATISTICS;

ALGORITHMS; BIOREACTORS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; FLOW INJECTION ANALYSIS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; MODELS, BIOLOGICAL; PHENYLALANINE; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SIGNAL TRANSDUCTION; STOCHASTIC PROCESSES;

EID: 17144388277     PISSN: 07246145     EISSN: None     Source Type: Book Series    
DOI: 10.1007/b98913     Document Type: Review

References (61)

1. Allen J, Davey HM, Broadhurst D, Heald JK, Rowland JJ, Oliver SG, Kell DB (2003) Nature Biotechnology 21:692
2. Fiehn O (2002) Plant Molecular Biology 48:155
3. Fiehn O (2001) Comparative and Functional Genomics 2:155
4. Paschold H, Weuster-Botz D, Schäfer U, Boos W (1998) German Patent DE 197 05 289 C1
5. Schaefer U, Boos W, Takors R, Weuster-Botz D (1999) Analytical Biochemistry 270:88
6. Roels JA (1983) Energetics and kinetics in biotechnology. Elsevier Biomedical Press, Amsterdam New York Oxford
7. Buchholz A, Hurlebaus J, Wandrey C, Takors R (2002) Biomolecular Engineering 19:5
8. Theobald U, Mailinger W, Reuss M, Rizzi M (1993) Analytical Biochemistry 214:31
9. Theobald U, Mailinger W, Baltes M, Rizzi M, Reuss M (1997) Biotechnology and Bioengineering 55:305
10. Rizzi M, Baltes M, Theobald U, Reuss M (1997) Biotechnology and Bioengineering 55:592
11. Vaseghi S, Baumeister A, Rizzi M, Reuss M (1999) Metabolic Engineering 1:128
12. Mauch K, Vaseghi S, Reuss M (2000) In: Schügerl K, Bellgardt KH (eds) Bioreaction Engineering. Springer, Heidelberg Berlin New York
13. Lange HC, Eman M, van Zuijlen G, Visser D, van Dam JC, Frank J, de Mattos MJT, Heijnen JJ (2001) Biotechnology and Bioengineering 75:406
14. Ostergaard S, Olsson L, Nielsen J (2001) Biotechnology and Bioengineering 73:412
15. Weuster-Botz D, deGraaf AA (1996) Advances in Biochemical Engineering and Biotechnology, vol 54, p 76
16. WeusterBotz D (1997) Analytical Biochemistry 246:225
17. Sauter T, Kremling A, Bettenbrock K, Fischer S, Gilles ED (2002) Proceedings of the 5th German Workshop on Artificial Life. IOS Press
18. Chassagnole C, Noisommit-Rizzi N, Schmid JW, Mauch K, Reuss M (2002) Biotechnology and Bioengineering 79:53
19. Hurlebaus J, Buchholz A, Alt W, Wiechert W, Takors R (2002) In Silico Biology 2:1
20. Degenring D, Froemel C, Dikta G, Takors R (2003) Journal of Process Control (in press)
21. Dekoning W, Vandam K (1992) Analytical Biochemistry 204:118
22. Saez MJ, Lagunas R (1976) Molecular and Cellular Biochemistry 13:73
23. Jensen NBS, Jokumsen KV, Villadsen J (1999) Biotechnology and Bioengineering 63:356
24. Maharjan RP, Ferenci T (2003) Analytical Biochemistry 313:145
25. Buziol S, Bashir I, Baumeister A, Claassen W, Noisommit-Rizzi N, Mailinger W, Reuss M (2002) Biotechnology and Bioengineering 80:632
26. Visser D, van Zuylen GA, van Dam JC, Oudshoorn A, Eman MR, Ras C, van Gulik WM, Frank J, van Dedem GWK, Heijnen JJ (2002) Biotechnology and Bioengineering 79:674
27. Karl DM (1980) Microbiological Reviews 44:739
28. Gonzalez B, Francois J, Renaud M (1997) Yeast 13:1347
29. Buchholz A, TakorsR, Wandrey C (2001) Analytical Biochemistry 295:129
30. Meyer S, Noisommit-Rizzi N, Reuss M, Neubauer P (1999) Analytical Biochemistry 271:43
31. Schmid U, Schimz KL, Sahm H (1989) Analytical Biochemistry 180:17
32. Bagnara AS, Finch LR (1972) Analytical Biochemistry 45:24
33. Bergmeyer H (1984) Methods of Enzymatic Analysis. Verlag Chemie, Weinheim
34. Harvey DJ, Horning MG (1973) Journal of Chromatography 76:51
35. Katona ZF, Sass P, Molnar-Perl I (1999) Journal of Chromatography A 847:91
36. Ogino H (1982) Proc Natl Acad Sci, vol 79, USA p 5828
37. Teleman A, Richard P, Toivari M, Penttilla M (1999) Analytical Biochemistry 272:71
38. De Graaf AA, Striegel K, Wittig RM, Laufer B, Schmitz G, Wiechert W, Sprenger GA, Sahm H (1999) Archives of Microbiology 171:371
39. Bhattacharya M, Fuhrman L, Ingram A, Nickerson KW, Conway T (1995) Analytical Biochemistry 232:98
40. van Dam JC, Eman MR, Frank J, Lange HC, van Dedem GWK, Heijnen SJ (2002) Analytica Chimica Acta 460:209
41. Soga T, Ueno Y, Naraoka H, Ohashi Y, Tomita M, Nishioka T (2002) Analytical Chemistry 74:2233
42. Smits HP, Cohen A, Buttler T, Nielsen J, Olsson L (1998) Analytical Biochemistry 261:36
43. Christensen B, Nielsen J (1999) Metabolic Engineering 1:282
44. Dauner M, Sauer U (2000) Biotechnology Progress 16:642
45. Wiechert W, Takors R (2003) In: Westerhoff HV, Kholodenko BN (eds) Metabolic Engineering in a Post Genomic Era (in press)
46. Haunschild MD, Freisleben B, Wiechert W, Takors R (2002) 16th European Simulation Multiconference ESM'2002, vol Modelling and Simulation 2002. SCS Europe, Darmstadt, 03.-05.06. p 436
47. Mousdale DM, Coggins JR (1985) Journal of Chromatography 329:268
48. Mehdi S, Frost JW, Knowles J (1987) Metabolism of the Aromatic Amino Acids (Methods in Enzymology), vol 142, p 306
49. Dell KA, Frost JW (1993) Journal of the American Chemical Society 115:11581
50. Coggins JR, Boocock MR, Chaudhuri S, Lambert JM, Lumsden J, Nimmo GA, Smith DDS (1987) Metabolism of the Aromatic Amino Acids (Methods in Eynzmology), vol 142, p 325
51. Grewe R, Jeschke JP (1956) Chemische Berichte-Recueil 89:2080
52. Zimmer D (2003) Chromatographia 57:S325
53. Bader M (1980) Journal of Chemical Education 57:703
54. Schmitz M, Hirsch E, Bongaerts J, Takors R (2002) Biotechnology Progress 18:935
55. Oldiges M, Kunze M, Degenring D, Takors R (2003) (submitted)
56. Westerhoff HV (2001) Metabolic Engineering 3:207
57. Gerigk MR, Maass D, Kreutzer A, Sprenger G, Bongaerts J, Wubbolts M, Takors R (2002) Bioprocess and Biosystems Engineering 25:43
58. Mashego MR, Wu L, Van Dam JC, Ras C, Vinke JL, Van Winden WA, Van Gulik WM, Heijnen JJ (2004) Biotechnology and Bioengineering 85:620
59. Williams JF, Blackmore PF, Duke CC, Macleod JK (1980) International Journal of Biochemistry 12:339
60. Ruijter GJG, Visser J (1999) Biochimie 81:267
61. Takagi M, Nishio Y, Oh G, Yoshida T (1996) Biotechnology and Bioengineering 52:653