-
1
-
-
0025895183
-
Toward a science of metabolic engineering.
-
Bailey, J. E., Toward a science of metabolic engineering. Science 1991, 252, 1668-1675.
-
(1991)
Science
, vol.252
, pp. 1668-1675
-
-
Bailey, J.E.1
-
2
-
-
0025866296
-
Network rigidity and metabolic engineering in metabolite overproduction.
-
Stephanopoulos, G., Vallino, J. J., Network rigidity and metabolic engineering in metabolite overproduction. Science 1991, 252, 1675-1681.
-
(1991)
Science
, vol.252
, pp. 1675-1681
-
-
Stephanopoulos, G.1
Vallino, J.J.2
-
3
-
-
20544457864
-
Metabolic engineering in the -omics era: Elucidating and modulating regulatory networks.
-
Vemuri, G. N., Aristidou, A. A., Metabolic engineering in the -omics era: Elucidating and modulating regulatory networks. Microbiol. Mol. Biol. Rev. 2005, 69, 197-216.
-
(2005)
Microbiol. Mol. Biol. Rev.
, vol.69
, pp. 197-216
-
-
Vemuri, G.N.1
Aristidou, A.A.2
-
4
-
-
0031866040
-
Expression of ptsG, the gene for the major glucose PTS transporter in Escherichia coli, is repressed by Mlc and induced by growth on glucose.
-
Plumbridge, J., Expression of ptsG, the gene for the major glucose PTS transporter in Escherichia coli, is repressed by Mlc and induced by growth on glucose. Mol. Microbiol. 1998, 29, 1053-1063.
-
(1998)
Mol. Microbiol.
, vol.29
, pp. 1053-1063
-
-
Plumbridge, J.1
-
5
-
-
0024077485
-
The ptsH, ptsI and crr genes of the Escherichia coli phosphoenolpyruvate-dependent phosphotransferase system: A complex operon with several modes of transcription.
-
De Reuse, H., Danchin, A., The ptsH, ptsI and crr genes of the Escherichia coli phosphoenolpyruvate-dependent phosphotransferase system: A complex operon with several modes of transcription. J. Bacteriol. 1988, 179, 3827-3837.
-
(1988)
J. Bacteriol.
, vol.179
, pp. 3827-3837
-
-
De Reuse, H.1
Danchin, A.2
-
6
-
-
33646352736
-
A quantitative approach to catabolite repression in Escherichia coli.
-
Bettenbrock, K., Fischer, S., Klemling, A., Sauter, F. T. et al., A quantitative approach to catabolite repression in Escherichia coli. J. Biol. Chem. 2006, 281, 2578-2584.
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 2578-2584
-
-
Bettenbrock, K.1
Fischer, S.2
Klemling, A.3
Sauter, F.T.4
-
7
-
-
80855165379
-
-
The lac and gal operons today, in: Lin, E. C. C., Lynch, A. S. (Eds.), Regulation of Gene expression in Escherichia coli, Chap 9, Landes, Austin
-
Aiba, H., The lac and gal operons today, in: Lin, E. C. C., Lynch, A. S. (Eds.), Regulation of Gene expression in Escherichia coli, Chap 9, Landes, Austin 1995, pp. 182-200.
-
(1995)
, pp. 182-200
-
-
Aiba, H.1
-
8
-
-
33646570920
-
In vitro reconstruction of catabolite repression in Escherichia coli.
-
Park, Y. H., Lee, B. R., Seok, Y. J., Peterkofsky, A., In vitro reconstruction of catabolite repression in Escherichia coli. J. Biol. Chem. 2006, 281, 6448-6454.
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 6448-6454
-
-
Park, Y.H.1
Lee, B.R.2
Seok, Y.J.3
Peterkofsky, A.4
-
9
-
-
0034675924
-
A novel regulatory role of glucose transporter of Escherichia coli: Membrane sequestration of a global repressor Mlc.
-
Tanaka, Y., Kimata, K., Aiba, H., A novel regulatory role of glucose transporter of Escherichia coli: Membrane sequestration of a global repressor Mlc. EMBO J. 2000, 19, 5344-5352.
-
(2000)
EMBO J.
, vol.19
, pp. 5344-5352
-
-
Tanaka, Y.1
Kimata, K.2
Aiba, H.3
-
10
-
-
0034675992
-
Signal transduction between a membrane-bound transporter, PtsG, and a soluble transcription factor, Mlc, of Escherichia coli.
-
Lee, S. J., Boos, W., Bouché, J. P., Plumbridge, J., Signal transduction between a membrane-bound transporter, PtsG, and a soluble transcription factor, Mlc, of Escherichia coli. EMBO J. 2000, 19, 5353-5361.
-
(2000)
EMBO J.
, vol.19
, pp. 5353-5361
-
-
Lee, S.J.1
Boos, W.2
Bouché, J.P.3
Plumbridge, J.4
-
11
-
-
0346022968
-
Time hierarchies is the Escherichia coli carbohydrate uptake and metabolism.
-
Kremling, A., Fischer, S., Sauter, T., Bettenbrock, K. et al., Time hierarchies is the Escherichia coli carbohydrate uptake and metabolism. BioSystems. 2004, 73, 57-71.
-
(2004)
BioSystems.
, vol.73
, pp. 57-71
-
-
Kremling, A.1
Fischer, S.2
Sauter, T.3
Bettenbrock, K.4
-
12
-
-
0034805944
-
The organization of metabolic reaction networks. II. Signal processing in hierarchical structured functional units.
-
Kremling, A., Gilles, E. D., The organization of metabolic reaction networks. II. Signal processing in hierarchical structured functional units. Metab. Eng. 2001, 3, 138-150.
-
(2001)
Metab. Eng.
, vol.3
, pp. 138-150
-
-
Kremling, A.1
Gilles, E.D.2
-
13
-
-
80855165374
-
-
(Eds.), Microbial Physiology, John Wiley & Sons 2002.
-
Moat, A. G., Foster, J. W., Spector, M. P. (Eds.), Microbial Physiology, John Wiley & Sons 2002.
-
-
-
Moat, A.G.1
Foster, J.W.2
Spector, M.P.3
-
14
-
-
55449084318
-
Effect of cra gene knockout together with edd and iclR genes knockout on the metabolism in Escherichia coli.
-
Sarkar, D., Siddiquee, K. A., Araúzo-Bravo, M. J., Oba, T. et al., Effect of cra gene knockout together with edd and iclR genes knockout on the metabolism in Escherichia coli. Arch. Microbiol. 2008, 190, 559-571.
-
(2008)
Arch. Microbiol.
, vol.190
, pp. 559-571
-
-
Sarkar, D.1
Siddiquee, K.A.2
Araúzo-Bravo, M.J.3
Oba, T.4
-
15
-
-
0033655445
-
Integration of antagonistic signals in the regulation of nitrogen assimilation in Escherichia coli.
-
Ninfa, A. J., Jiang, P., Atkinson, M. R., Peliska, J. A., Integration of antagonistic signals in the regulation of nitrogen assimilation in Escherichia coli. Curr. Top. Cell Regul. 2000, 36, 31-75.
-
(2000)
Curr. Top. Cell Regul.
, vol.36
, pp. 31-75
-
-
Ninfa, A.J.1
Jiang, P.2
Atkinson, M.R.3
Peliska, J.A.4
-
16
-
-
33645878600
-
Regulatory links between carbon and nitrogen metabolism.
-
Commichau, F. M., Forchhammer, K., Stülke, J., Regulatory links between carbon and nitrogen metabolism. Curr. Opin. Microbiol. 2006, 9, 167-172.
-
(2006)
Curr. Opin. Microbiol.
, vol.9
, pp. 167-172
-
-
Commichau, F.M.1
Forchhammer, K.2
Stülke, J.3
-
17
-
-
34247146736
-
II-Ntr systems forms novel regulatory network between carbon metabolism and nitrogen assimilation in Escherichia coli.
-
II-Ntr systems forms novel regulatory network between carbon metabolism and nitrogen assimilation in Escherichia coli. Nucleic Acids Res. 2007, 35, 1432-1440.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 1432-1440
-
-
Mao, X.J.1
Huo, Y.X.2
Buck, M.3
Kolb, A.4
-
18
-
-
0345529074
-
Responses of the central carbon metabolism in Escherichia coli to phosphoglucose isomerase and glucose-6-phosphate dehydrogenase knockouts.
-
Hua, Q., Yang, C., Baba, T., Mori, H. et al., Responses of the central carbon metabolism in Escherichia coli to phosphoglucose isomerase and glucose-6-phosphate dehydrogenase knockouts. J. Bacteriol. 2003, 185, 7053-7067.
-
(2003)
J. Bacteriol.
, vol.185
, pp. 7053-7067
-
-
Hua, Q.1
Yang, C.2
Baba, T.3
Mori, H.4
-
19
-
-
41549140156
-
Cyclic AMP-dependent catabolite repression is the dominant control mechanism of metabolic fluxes under glucose limitation in Escherichia coli.
-
Nanchen, A., Schicker, A., Revelles, O., Sauer, U., Cyclic AMP-dependent catabolite repression is the dominant control mechanism of metabolic fluxes under glucose limitation in Escherichia coli. J. Bacteriol. 2008, 190, 2323-2330.
-
(2008)
J. Bacteriol.
, vol.190
, pp. 2323-2330
-
-
Nanchen, A.1
Schicker, A.2
Revelles, O.3
Sauer, U.4
-
20
-
-
77249124977
-
Metabolic regulation of Escherichia coli and its gdhA, glnL, gltB, D mutants under different carbon and nitrogen limitations in the continuous culture.
-
Kumar, R., Shimizu, K., Metabolic regulation of Escherichia coli and its gdhA, glnL, gltB, D mutants under different carbon and nitrogen limitations in the continuous culture. Microb. Cell Fact. 2010, 9, 8.
-
(2010)
Microb. Cell Fact.
, vol.9
, pp. 8
-
-
Kumar, R.1
Shimizu, K.2
-
21
-
-
0036302723
-
The glycolytic flux in Escherichia coli is controlled by the demand for ATP.
-
Koebmann, B. J., Westerhoff, H. V., Snoep, J. L., Nilsson, D. et al., The glycolytic flux in Escherichia coli is controlled by the demand for ATP. J. Bacteriol. 2002, 184, 3909-3916.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 3909-3916
-
-
Koebmann, B.J.1
Westerhoff, H.V.2
Snoep, J.L.3
Nilsson, D.4
-
22
-
-
36048991815
-
II signal transduction protein controlling nitrogen assimilation acts as a sensor of adenylate energy charge in vitro.
-
II signal transduction protein controlling nitrogen assimilation acts as a sensor of adenylate energy charge in vitro. Biochemistry 2007, 46, 12979-12996.
-
(2007)
Biochemistry
, vol.46
, pp. 12979-12996
-
-
Jiang, P.1
Ninfa, A.J.2
-
23
-
-
15744405123
-
II signal transduction proteins: Sensors of alpha-ketoglutarate that regulate nitrogen metabolism.
-
II signal transduction proteins: Sensors of alpha-ketoglutarate that regulate nitrogen metabolism. Curr. Opin. Microbiol. 2005, 8, 168-173.
-
(2005)
Curr. Opin. Microbiol.
, vol.8
, pp. 168-173
-
-
Ninfa, A.J.1
Jiang, P.2
-
24
-
-
72149115406
-
Metabolic regulation of Escherichia coli and its glnG and zwf mutants under nitrogen limitation.
-
Sukmarini, L., Shimizu, K., Metabolic regulation of Escherichia coli and its glnG and zwf mutants under nitrogen limitation. Biochem. Eng. J. 2010, 48, 230-236.
-
(2010)
Biochem. Eng. J.
, vol.48
, pp. 230-236
-
-
Sukmarini, L.1
Shimizu, K.2
-
25
-
-
79251538647
-
Transcriptional regulation of main metabolic pathways of cyoA, cydB, fnr, and fur gene knockout Escherichia coli in C-limited and N-limited aerobic continuous culture.
-
Kumar, R., Shimizu, K., Transcriptional regulation of main metabolic pathways of cyoA, cydB, fnr, and fur gene knockout Escherichia coli in C-limited and N-limited aerobic continuous culture. Microb. Cell Fact. 2011, 10, 3.
-
(2011)
Microb. Cell Fact.
, vol.10
, pp. 3
-
-
Kumar, R.1
Shimizu, K.2
-
26
-
-
0029975921
-
Signal transduction in the control of phosphate-regulated genes of Escherichia coli.
-
Wanner, B. L., Signal transduction in the control of phosphate-regulated genes of Escherichia coli. Kidney. Int. 1996, 49, 964-967.
-
(1996)
Kidney. Int.
, vol.49
, pp. 964-967
-
-
Wanner, B.L.1
-
27
-
-
0037767508
-
The phosphate starvation stimulon of Corynebacterium glutamicum determined by DNA microarray analyses.
-
Ishige, T., Krause, M., Bott, M., Wendisch, V. F. et al., The phosphate starvation stimulon of Corynebacterium glutamicum determined by DNA microarray analyses. J. Bacteriol. 2003, 185, 4519-4529.
-
(2003)
J. Bacteriol.
, vol.185
, pp. 4519-4529
-
-
Ishige, T.1
Krause, M.2
Bott, M.3
Wendisch, V.F.4
-
28
-
-
33749441282
-
Novel gene members in the Pho regulon of Escherichia coli.
-
Baek, J. H., Lee, S. Y., Novel gene members in the Pho regulon of Escherichia coli. FEMS Microbiol. Lett. 2006, 264, 104-109.
-
(2006)
FEMS Microbiol. Lett.
, vol.264
, pp. 104-109
-
-
Baek, J.H.1
Lee, S.Y.2
-
29
-
-
33746913914
-
Metabolic engineering of Escherichia coli and Corynebacterium glutamicum for biotechnological production of organic acids and amino acids.
-
Wendisch, V. F., Bott, M., Eikmanns, B. J., Metabolic engineering of Escherichia coli and Corynebacterium glutamicum for biotechnological production of organic acids and amino acids. Curr. Opin. Microbiol. 2006, 9, 268-274.
-
(2006)
Curr. Opin. Microbiol.
, vol.9
, pp. 268-274
-
-
Wendisch, V.F.1
Bott, M.2
Eikmanns, B.J.3
-
30
-
-
0027411096
-
Gene regulation by phosphate in enteric bacteria.
-
Wanner, B. L., Gene regulation by phosphate in enteric bacteria. J. Cell Biochem. 1993, 51, 47-54.
-
(1993)
J. Cell Biochem.
, vol.51
, pp. 47-54
-
-
Wanner, B.L.1
-
31
-
-
0024398149
-
Protein phosphorylation and regulation of adaptive responses in bacteria.
-
Stock, J. B., Ninfa, A. J., Stock, A. M., Protein phosphorylation and regulation of adaptive responses in bacteria. Microbiol. Rev. 1989, 53, 450-490.
-
(1989)
Microbiol. Rev.
, vol.53
, pp. 450-490
-
-
Stock, J.B.1
Ninfa, A.J.2
Stock, A.M.3
-
32
-
-
0027243652
-
Signal transduction schemes of bacteria.
-
Parkinson, J. S., Signal transduction schemes of bacteria. Cell 1993, 73, 857-871.
-
(1993)
Cell
, vol.73
, pp. 857-871
-
-
Parkinson, J.S.1
-
33
-
-
33947210693
-
Transcriptome analysis of phosphate starvation response in Escherichia coli.
-
Baek, J. H., Lee, S. Y., Transcriptome analysis of phosphate starvation response in Escherichia coli. J. Microbiol Biotechnol. 2007, 17, 244-252.
-
(2007)
J. Microbiol Biotechnol.
, vol.17
, pp. 244-252
-
-
Baek, J.H.1
Lee, S.Y.2
-
35
-
-
0032491829
-
A dynamic model of the Escherichia coli phosphate-starvation response.
-
van Dien, S. J., Keasling, J. D., A dynamic model of the Escherichia coli phosphate-starvation response. J. Theor. Biol. 1998, 190, 37-49.
-
(1998)
J. Theor. Biol.
, vol.190
, pp. 37-49
-
-
van Dien, S.J.1
Keasling, J.D.2
-
36
-
-
13244289800
-
Genome-wide expression analysis indicates that FNR of Escherichia coli K-12 regulates a large number of genes of unknown function.
-
Kang, Y., Weber, K. D., Qiu, Y., Kiley, P. J. et al., Genome-wide expression analysis indicates that FNR of Escherichia coli K-12 regulates a large number of genes of unknown function. J. Bacteriol. 2005, 187, 1135-1160.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 1135-1160
-
-
Kang, Y.1
Weber, K.D.2
Qiu, Y.3
Kiley, P.J.4
-
37
-
-
0026539733
-
Control of electron flow in Escherichia coli: Coordinated transcription of respiratory pathway genes.
-
Gunsalus, R. P., Control of electron flow in Escherichia coli: Coordinated transcription of respiratory pathway genes. J. Bacteriol. 1992, 174, 7069-7074.
-
(1992)
J. Bacteriol.
, vol.174
, pp. 7069-7074
-
-
Gunsalus, R.P.1
-
38
-
-
0037216801
-
Requirement of ArcA for redox regulation in Escherichia coli under microaerobic but not anaerobic or aerobic conditions.
-
Alexeeva, S., Hellingwerf, K. J., Teixeira de Mattos, M. J., Requirement of ArcA for redox regulation in Escherichia coli under microaerobic but not anaerobic or aerobic conditions. J. Bacteriol. 2003, 185, 204-209.
-
(2003)
J. Bacteriol.
, vol.185
, pp. 204-209
-
-
Alexeeva, S.1
Hellingwerf, K.J.2
Teixeira de Mattos, M.J.3
-
39
-
-
0034123699
-
Phosphorelay as the sole physiological route of signal transmission by the arc two-component system of Escherichia coli.
-
Kwon, O., Georgellis, D., Lin, E. C., Phosphorelay as the sole physiological route of signal transmission by the arc two-component system of Escherichia coli. J. Bacteriol. 2000, 182, 3858-3862.
-
(2000)
J. Bacteriol.
, vol.182
, pp. 3858-3862
-
-
Kwon, O.1
Georgellis, D.2
Lin, E.C.3
-
40
-
-
0029858049
-
Transcriptional control mediated by the ArcA two-component response regulator protein of Escherichia coli: Characterization of DNA binding at target promoters.
-
Lynch, A. S., Lin, E. C., Transcriptional control mediated by the ArcA two-component response regulator protein of Escherichia coli: Characterization of DNA binding at target promoters. J. Bacteriol. 1996, 178, 6238-6249.
-
(1996)
J. Bacteriol.
, vol.178
, pp. 6238-6249
-
-
Lynch, A.S.1
Lin, E.C.2
-
41
-
-
33749493377
-
Effect of the global redox sensing/regulation networks on Escherichia coli and metabolic flux distribution based on C-13 labeling experiments.
-
Zhu, J., Shalel-Levanon, S., Bennett, G., San, K. Y., Effect of the global redox sensing/regulation networks on Escherichia coli and metabolic flux distribution based on C-13 labeling experiments. Metab. Eng. 2006, 8, 619-627.
-
(2006)
Metab. Eng.
, vol.8
, pp. 619-627
-
-
Zhu, J.1
Shalel-Levanon, S.2
Bennett, G.3
San, K.Y.4
-
42
-
-
15244361841
-
Effect of a single-gene knockout mutant on the metabolic regulation in Escherichia coli for D-lactate production under microaerobic condition.
-
Zhu, J., Shimizu, K., Effect of a single-gene knockout mutant on the metabolic regulation in Escherichia coli for D-lactate production under microaerobic condition. Metab. Eng. 2005, 7, 104-115.
-
(2005)
Metab. Eng.
, vol.7
, pp. 104-115
-
-
Zhu, J.1
Shimizu, K.2
-
43
-
-
2442545374
-
2004. The effect of pfl gene knockout on the metabolism for optically pure D-lactate production by Escherichia coli.
-
Zhu, J., Shimizu, K., 2004. The effect of pfl gene knockout on the metabolism for optically pure D-lactate production by Escherichia coli. Appl. Microbiol. Biotechnol. 2004, 64, 367-375.
-
(2004)
Appl. Microbiol. Biotechnol.
, vol.64
, pp. 367-375
-
-
Zhu, J.1
Shimizu, K.2
-
44
-
-
61449092651
-
Effects of arcA and arcB genes knockout on the metabolism in Escherichia coli under aerobic condition.
-
Nizam, S. A., Zhu, J., Ho, P. Y., Shimizu, K., Effects of arcA and arcB genes knockout on the metabolism in Escherichia coli under aerobic condition. Biochem. Eng. J. 2009, 44, 240-250.
-
(2009)
Biochem. Eng. J.
, vol.44
, pp. 240-250
-
-
Nizam, S.A.1
Zhu, J.2
Ho, P.Y.3
Shimizu, K.4
-
45
-
-
33646578756
-
Overflow metabolism in Escherichia coli during steady-state growth: Transcriptional regulation and effect of the redox ratio.
-
Vemuri, G. N., Altman, E., Sangurdekar, D. P., Khodursky, A. B. et al., Overflow metabolism in Escherichia coli during steady-state growth: Transcriptional regulation and effect of the redox ratio. Appl. Environ. Microbiol. 2006, 72, 3653-3661.
-
(2006)
Appl. Environ. Microbiol.
, vol.72
, pp. 3653-3661
-
-
Vemuri, G.N.1
Altman, E.2
Sangurdekar, D.P.3
Khodursky, A.B.4
-
46
-
-
33745186217
-
Increased recombinant protein production in Escherichia coli strains with overexpressed water-forming NADH oxidase and a deleted ArcA regulatory protein.
-
Vemuri, G. N., Eiteman, M. A., Altman, E., Increased recombinant protein production in Escherichia coli strains with overexpressed water-forming NADH oxidase and a deleted ArcA regulatory protein. Biotechnol. Bioeng. 2006, 94, 538-542.
-
(2006)
Biotechnol. Bioeng.
, vol.94
, pp. 538-542
-
-
Vemuri, G.N.1
Eiteman, M.A.2
Altman, E.3
-
47
-
-
52049107371
-
Effects of arcA and arcB genes knockout on the metabolism in Escherichia coli under anaerobic and microaerobic conditions.
-
Nizam, S. A., Shimizu, K., Effects of arcA and arcB genes knockout on the metabolism in Escherichia coli under anaerobic and microaerobic conditions. Biochem. Eng. J. 2008, 42, 229-236.
-
(2008)
Biochem. Eng. J.
, vol.42
, pp. 229-236
-
-
Nizam, S.A.1
Shimizu, K.2
-
48
-
-
0024343602
-
A global response induced in Escherichia coli by redox-cycling agents overlaps with that induced by peroxide stress.
-
Greenberg, J. T., Demple, B., A global response induced in Escherichia coli by redox-cycling agents overlaps with that induced by peroxide stress. J. Bacteriol. 1989, 171, 3933-3939.
-
(1989)
J. Bacteriol.
, vol.171
, pp. 3933-3939
-
-
Greenberg, J.T.1
Demple, B.2
-
49
-
-
0035283587
-
Redox-operated genetic switches: The SoxR and OxyR transcription factors.
-
Pomposiello, P. J., Demple, B., Redox-operated genetic switches: The SoxR and OxyR transcription factors. Trends Biotechnol. 2001, 19, 109-114.
-
(2001)
Trends Biotechnol.
, vol.19
, pp. 109-114
-
-
Pomposiello, P.J.1
Demple, B.2
-
50
-
-
0029790760
-
SoxR, a [2Fe-2S] transcription factor, is active only in its oxidized form.
-
Gaudu, P., Weiss, B., SoxR, a [2Fe-2S] transcription factor, is active only in its oxidized form. Proc. Natl. Acad. Sci. USA. 1996, 93, 10094-10098.
-
(1996)
Proc. Natl. Acad. Sci. USA.
, vol.93
, pp. 10094-10098
-
-
Gaudu, P.1
Weiss, B.2
-
51
-
-
0025816912
-
Molecular characterization of the soxRS genes of Escherichia coli: Two genes control a superoxide stress regulon.
-
Amábile-Cuevas, C. F., Demple, B., Molecular characterization of the soxRS genes of Escherichia coli: Two genes control a superoxide stress regulon. Nucleic Acids Res. 1991, 19, 4479-4484.
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 4479-4484
-
-
Amábile-Cuevas, C.F.1
Demple, B.2
-
52
-
-
33646141853
-
Investigation into the effect of soxR and soxS genes deletion on the central metabolism of Escherichia coli based on gene expressions and enzyme activities.
-
Kabir, M. M., Shimizu, K., Investigation into the effect of soxR and soxS genes deletion on the central metabolism of Escherichia coli based on gene expressions and enzyme activities. Biochem. Eng. J. 2006, 30, 39-47.
-
(2006)
Biochem. Eng. J.
, vol.30
, pp. 39-47
-
-
Kabir, M.M.1
Shimizu, K.2
-
53
-
-
0015915083
-
Properties of a mutant of Escherichia coli defective in bacteriophage lambda head formation (groE). II. The propagation of phage lambda.
-
Sternberg, N., Properties of a mutant of Escherichia coli defective in bacteriophage lambda head formation (groE). II. The propagation of phage lambda. J. Mol. Biol. 1973, 76, 25-44.
-
(1973)
J. Mol. Biol.
, vol.76
, pp. 25-44
-
-
Sternberg, N.1
-
54
-
-
0024298706
-
70K heat shock related proteins stimulate protein translocation into microsomes.
-
Chirico, W. J., Waters, M. G., Blobel, G., 70K heat shock related proteins stimulate protein translocation into microsomes. Nature 1988, 332, 805-810.
-
(1988)
Nature
, vol.332
, pp. 805-810
-
-
Chirico, W.J.1
Waters, M.G.2
Blobel, G.3
-
55
-
-
0021712959
-
Heat shock regulatory gene htpR influences rates of protein degradation and expression of the lon gene in Escherichia coli.
-
Goff, S. A., Casson, L. P., Goldberg, A. L., Heat shock regulatory gene htpR influences rates of protein degradation and expression of the lon gene in Escherichia coli. Proc. Natl. Acad. Sci. USA 1984, 81, 6647-6651.
-
(1984)
Proc. Natl. Acad. Sci. USA
, vol.81
, pp. 6647-6651
-
-
Goff, S.A.1
Casson, L.P.2
Goldberg, A.L.3
-
56
-
-
0020665584
-
Gene for heat-include lysyl-tRNA synthetase (lysU) maps near cadA in Escherichia coli.
-
VanBogelen, R. A., Vaughn, V., Neidhardt, F. C., Gene for heat-include lysyl-tRNA synthetase (lysU) maps near cadA in Escherichia coli. J. Bacteriol. 1983, 153, 1066-1068.
-
(1983)
J. Bacteriol.
, vol.153
, pp. 1066-1068
-
-
VanBogelen, R.A.1
Vaughn, V.2
Neidhardt, F.C.3
-
57
-
-
0027385183
-
Regulation of the heat-shock response in bacteria.
-
Yura, T., Nagai, H., Mori, H., Regulation of the heat-shock response in bacteria. Annu. Rev. Microbiol. 1993, 47, 321-350.
-
(1993)
Annu. Rev. Microbiol.
, vol.47
, pp. 321-350
-
-
Yura, T.1
Nagai, H.2
Mori, H.3
-
58
-
-
0027186528
-
Characterization of twenty-six new heat shock genes of Escherichia coli.
-
Chuang, S. E., Blattner, F. R., Characterization of twenty-six new heat shock genes of Escherichia coli. J. Bacteriol. 1993, 175, 5242-5252.
-
(1993)
J. Bacteriol.
, vol.175
, pp. 5242-5252
-
-
Chuang, S.E.1
Blattner, F.R.2
-
59
-
-
0042733148
-
Refolding of substrate bound to small Hsps relies on a disaggregation reaction mediated most efficiently by ClpB/DnaK.
-
Mogk, A., Schlieker, C., Friedrich, K. L., Schönfeld, H. J. et al., Refolding of substrate bound to small Hsps relies on a disaggregation reaction mediated most efficiently by ClpB/DnaK. J. Biol. Chem. 2003, 278, 31033-31042.
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 31033-31042
-
-
Mogk, A.1
Schlieker, C.2
Friedrich, K.L.3
Schönfeld, H.J.4
-
60
-
-
0037071907
-
Prevention and reversion of protein aggregation by molecular chaperones in the E. coli cytosol: Implications for their applicability in biotechnology.
-
Schlieker, C., Bukau, B., Mogk, A., Prevention and reversion of protein aggregation by molecular chaperones in the E. coli cytosol: Implications for their applicability in biotechnology. J. Biotechnol. 2002, 96, 13-21.
-
(2002)
J. Biotechnol.
, vol.96
, pp. 13-21
-
-
Schlieker, C.1
Bukau, B.2
Mogk, A.3
-
61
-
-
0036315595
-
Escherichia coli small heat shock proteins, lbpA and lbpB, protect enzymes from inactivation by heat and oxidants.
-
Kitagawa, M., Miyakawa, M., Matsumura, Y., Tsuchido, T., Escherichia coli small heat shock proteins, lbpA and lbpB, protect enzymes from inactivation by heat and oxidants. Eur. J. Biochem. 2002, 269, 2907-2917.
-
(2002)
Eur. J. Biochem.
, vol.269
, pp. 2907-2917
-
-
Kitagawa, M.1
Miyakawa, M.2
Matsumura, Y.3
Tsuchido, T.4
-
62
-
-
13644262805
-
Soluble expression of recombinant proteins in the cytoplasm of Escherichia coli.
-
Sørensen, H. P., Mortensen, K. K., Soluble expression of recombinant proteins in the cytoplasm of Escherichia coli. Microb. Cell Fact. 2005, 4, 1.
-
(2005)
Microb. Cell Fact.
, vol.4
, pp. 1
-
-
Sørensen, H.P.1
Mortensen, K.K.2
-
63
-
-
70449460728
-
Effect of temperature up-shift on fermentation and metabolic characteristics in view of gene expressions in Escherichia coli.
-
Hasan, C. M. M., Shimizu, K., Effect of temperature up-shift on fermentation and metabolic characteristics in view of gene expressions in Escherichia coli. Microb. Cell Fact. 2008, 7, 35.
-
(2008)
Microb. Cell Fact.
, vol.7
, pp. 35
-
-
Hasan, C.M.M.1
Shimizu, K.2
-
64
-
-
0033000806
-
Control of acid resistance in Escherichia coli.
-
Castanie-Cornet, M. P., Penfound, T. A., Smith, D., Elliott, J. F. et al., Control of acid resistance in Escherichia coli. J. Biotechnol. 1999, 181, 3525-3535.
-
(1999)
J. Biotechnol.
, vol.181
, pp. 3525-3535
-
-
Castanie-Cornet, M.P.1
Penfound, T.A.2
Smith, D.3
Elliott, J.F.4
-
65
-
-
0033037702
-
The response to stationary-phase stress conditions in Escherichia coli: Role and regulation of the glutamic acid decarboxylase system.
-
De Biase, D., Tramonti, A., Bossa, F., Visca, P., The response to stationary-phase stress conditions in Escherichia coli: Role and regulation of the glutamic acid decarboxylase system. Mol. Microbiol. 1999, 32, 1198-1211.
-
(1999)
Mol. Microbiol.
, vol.32
, pp. 1198-1211
-
-
De Biase, D.1
Tramonti, A.2
Bossa, F.3
Visca, P.4
-
66
-
-
0036231445
-
Expression of the Escherichia coli yfiD gene responds to intracellular pH and reduces the accumulation of acidic metabolic end products.
-
Wyborn, N. R., Messenger, S. L., Henderson, R. A., Sawers, G. et al., Expression of the Escherichia coli yfiD gene responds to intracellular pH and reduces the accumulation of acidic metabolic end products. Microbiol. 2002, 148, 1015-1026.
-
(2002)
Microbiol.
, vol.148
, pp. 1015-1026
-
-
Wyborn, N.R.1
Messenger, S.L.2
Henderson, R.A.3
Sawers, G.4
-
67
-
-
0344428134
-
The acid-inducible asr gene in Escherichia coli: Transcriptional control by the phoBR operon.
-
Suziedeliené, E., Suziedelis, K., Garbenciuté, V., Normak, S., The acid-inducible asr gene in Escherichia coli: Transcriptional control by the phoBR operon. J. Bacteriol. 1999, 181, 2084-2093.
-
(1999)
J. Bacteriol.
, vol.181
, pp. 2084-2093
-
-
Suziedeliené, E.1
Suziedelis, K.2
Garbenciuté, V.3
Normak, S.4
-
68
-
-
80855165375
-
-
III, Ingraham, J. L., Lin, E. C. C. et al. (Eds.), Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd edn., ASM Press, Washington, D.C.
-
Hengge-Aronis, R., Regulation of gene expression during entry into stationary phase, in: Neidhardt, F. C., Curtiss, R. III, Ingraham, J. L., Lin, E. C. C. et al. (Eds.), Escherichia coli and Salmonella: Cellular and Molecular Biology, 2nd edn., ASM Press, Washington, D.C. 1996, pp.1497-1512.
-
(1996)
, pp. 1996
-
-
Hengge-Aronis, R.1
-
69
-
-
41549121869
-
Growth phase-dependent changes in the expression of global regulatory genes and associated metabolic pathways in Escherichia coli.
-
Rahman, M., Hasan, M. R., Shimizu, K., Growth phase-dependent changes in the expression of global regulatory genes and associated metabolic pathways in Escherichia coli. Biotechnol. Lett. 2008, 30, 853-860.
-
(2008)
Biotechnol. Lett.
, vol.30
, pp. 853-860
-
-
Rahman, M.1
Hasan, M.R.2
Shimizu, K.3
-
70
-
-
38349115629
-
Altered acetate metabolism and biomass production in several Escherichia coli mutants lacking rpoS-dependent metabolic pathway genes.
-
Rahman, M., Shimizu, K., Altered acetate metabolism and biomass production in several Escherichia coli mutants lacking rpoS-dependent metabolic pathway genes. Mol. Biosyst. 2008, 4, 160-169.
-
(2008)
Mol. Biosyst.
, vol.4
, pp. 160-169
-
-
Rahman, M.1
Shimizu, K.2
-
71
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12.
-
Blattner, F. R., Plunkett, G. 3rd, Bloch, C. A., Perna, N. T. et al., The complete genome sequence of Escherichia coli K-12. Science 1997, 277, 1453-1462.
-
(1997)
Science
, vol.277
, pp. 1453-1462
-
-
Blattner, F.R.1
Plunkett 3rd, G.2
Bloch, C.A.3
Perna, N.T.4
-
72
-
-
0343963178
-
The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12.
-
Pérez-Rueda, E., Collado-Vides, J., The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12. Nucleic Acids Res. 2000, 28, 1838-1847.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 1838-1847
-
-
Pérez-Rueda, E.1
Collado-Vides, J.2
-
73
-
-
9144270496
-
RegulonDB (version 4.0): Transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12.
-
Salgado, H., Gama-Castro, S., Martínez-Antonio, A., Díaz-Peredo, E. et al., RegulonDB (version 4.0): Transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12. Nucleic Acids Res. 2004, 32, 303-306.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 303-306
-
-
Salgado, H.1
Gama-Castro, S.2
Martínez-Antonio, A.3
Díaz-Peredo, E.4
-
74
-
-
0242386460
-
Identifying global regulators in transcriptional regulatory networks in bacteria.
-
Martínez-Antonio, A., Collado-Vides, J., Identifying global regulators in transcriptional regulatory networks in bacteria. Curr. Opin. Microbiol. 2003, 6, 482-489.
-
(2003)
Curr. Opin. Microbiol.
, vol.6
, pp. 482-489
-
-
Martínez-Antonio, A.1
Collado-Vides, J.2
-
75
-
-
0242407438
-
Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles.
-
Gutiérrez-Ríos, R. M., Rosenblueth, D. A., Loza, J. A., Huerta, A. M. et al., Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles. Genome Res. 2003, 13, 2435-2443.
-
(2003)
Genome Res.
, vol.13
, pp. 2435-2443
-
-
Gutiérrez-Ríos, R.M.1
Rosenblueth, D.A.2
Loza, J.A.3
Huerta, A.M.4
-
76
-
-
27744573112
-
A global regulatory role of gluconeogenic genes in Escherichia coli revealed by transcriptome network analysis.
-
Kao, K. C., Tran, L. M., Liao, J. C., A global regulatory role of gluconeogenic genes in Escherichia coli revealed by transcriptome network analysis. J. Biol. Chem. 2005, 280, 36079-36087.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 36079-36087
-
-
Kao, K.C.1
Tran, L.M.2
Liao, J.C.3
-
77
-
-
0345824737
-
Network component analysis: Reconstruction of regulatory signals in biological systems.
-
Liao, J. C., Boscolo, R., Yang, Y. L., Tran, L. M. et al., Network component analysis: Reconstruction of regulatory signals in biological systems. Proc. Natl. Acad. Sci. USA 2003, 100, 15522-15527.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, pp. 15522-15527
-
-
Liao, J.C.1
Boscolo, R.2
Yang, Y.L.3
Tran, L.M.4
-
78
-
-
15244338624
-
gNCA: A framework for determining transcription factor activity based on transcriptome: Identifiability and numerical implementation.
-
Tran, L. M., Brynildsen, M. P., Kao, K. C., Suen, J. K. et al., gNCA: A framework for determining transcription factor activity based on transcriptome: Identifiability and numerical implementation. Metab. Eng. 2005, 7, 128-141.
-
(2005)
Metab. Eng.
, vol.7
, pp. 128-141
-
-
Tran, L.M.1
Brynildsen, M.P.2
Kao, K.C.3
Suen, J.K.4
-
79
-
-
24044458903
-
Determination of functional interactions among signaling pathways in Escherichia coli K-12.
-
Yang, Y. L., Liao, J. C., Determination of functional interactions among signaling pathways in Escherichia coli K-12. Metab. Eng. 2005, 7, 280-290.
-
(2005)
Metab. Eng.
, vol.7
, pp. 280-290
-
-
Yang, Y.L.1
Liao, J.C.2
-
80
-
-
0343907200
-
In vivo analysis of metabolic dynamic in Saccharomyces cerevisiae: II. Mathematical model.
-
Rizzi, M., Baltes, M., Theobald, U., Reuss, M., In vivo analysis of metabolic dynamic in Saccharomyces cerevisiae: II. Mathematical model. Biotechnol. Bioeng. 1997, 55, 592-608.
-
(1997)
Biotechnol. Bioeng.
, vol.55
, pp. 592-608
-
-
Rizzi, M.1
Baltes, M.2
Theobald, U.3
Reuss, M.4
-
81
-
-
0343471961
-
In vivo analysis of metabolic dynamic in Saccharomyces cerevisiae: I. Experimental observations.
-
Theobald, U., Mailinger, W., Baltes, M., Rizzi, M. et al., In vivo analysis of metabolic dynamic in Saccharomyces cerevisiae: I. Experimental observations. Biotechnol. Bioeng. 1997, 55, 305-316.
-
(1997)
Biotechnol. Bioeng.
, vol.55
, pp. 305-316
-
-
Theobald, U.1
Mailinger, W.2
Baltes, M.3
Rizzi, M.4
-
82
-
-
0033107539
-
In vivo dynamics of the pentose phosphate pathway in Saccharomyces cerevisiae.
-
Vaseghi, S., Baumeister, A., Rizzi, M., Reuss, M., In vivo dynamics of the pentose phosphate pathway in Saccharomyces cerevisiae. Metab. Eng. 1999, 1, 128-140.
-
(1999)
Metab. Eng.
, vol.1
, pp. 128-140
-
-
Vaseghi, S.1
Baumeister, A.2
Rizzi, M.3
Reuss, M.4
-
83
-
-
0037146827
-
A new bioreactor coupled rapid stopped-flow sampling technique for measurements of metabolite dynamics on a subsecond time scale.
-
Buziol, S., Bashir, I., Baumeister, A., Claassen, W. et al., A new bioreactor coupled rapid stopped-flow sampling technique for measurements of metabolite dynamics on a subsecond time scale. Biotechnol. Bioeng. 2002, 80, 632-636.
-
(2002)
Biotechnol. Bioeng.
, vol.80
, pp. 632-636
-
-
Buziol, S.1
Bashir, I.2
Baumeister, A.3
Claassen, W.4
-
84
-
-
80855144604
-
-
Buziol, S., Bashir, I., Baumeister, A., Claassen, W., et al., A new bioreactor coupled rapid stopped-flow sampling technique for measurement of transient metabolites in time windows of milliseconds, in: Proceeding of the Fourth International Congress on Biochemical Engineering. Fraunhofer IRB, Stuttgart 200079-83.
-
Buziol, S., Bashir, I., Baumeister, A., Claassen, W., et al., A new bioreactor coupled rapid stopped-flow sampling technique for measurement of transient metabolites in time windows of milliseconds, in: Proceeding of the Fourth International Congress on Biochemical Engineering. Fraunhofer IRB, Stuttgart 2000, pp.79-83.
-
-
-
-
85
-
-
0027380246
-
In vivo analysis of glucose induced fast changes in yeast adenine nucleotide pool applying a rapid sampling technique.
-
Theobald, U., Mailinger, W., Reuss, M., Rizzi, M., In vivo analysis of glucose induced fast changes in yeast adenine nucleotide pool applying a rapid sampling technique. Anal. Biochem. 1993, 214, 31-37.
-
(1993)
Anal. Biochem.
, vol.214
, pp. 31-37
-
-
Theobald, U.1
Mailinger, W.2
Reuss, M.3
Rizzi, M.4
-
86
-
-
0037025146
-
Dynamic modeling of the central carbon metabolism of Eschrichia coli.
-
Chassagnole, C., Noisommit-Rizzi, N., Schmid, J. W., Mauch, K. et al., Dynamic modeling of the central carbon metabolism of Eschrichia coli. Biotechnol. Bioeng. 2002, 79, 53-73.
-
(2002)
Biotechnol. Bioeng.
, vol.79
, pp. 53-73
-
-
Chassagnole, C.1
Noisommit-Rizzi, N.2
Schmid, J.W.3
Mauch, K.4
-
87
-
-
78649975647
-
Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification.
-
Kadir, T. A., Mannan, A. A., Kierzek, A. M., McFadden, J. et al., Modeling and simulation of the main metabolism in Escherichia coli and its several single-gene knockout mutants with experimental verification. Microb. Cell Fact. 2010, 9, 88.
-
(2010)
Microb. Cell Fact.
, vol.9
, pp. 88
-
-
Kadir, T.A.1
Mannan, A.A.2
Kierzek, A.M.3
McFadden, J.4
-
88
-
-
77949385752
-
Bacterial adaptation through distributed sensing of metabolic fluxes.
-
Kotte, O., Zaugg, J. B., Heinemann, M., Bacterial adaptation through distributed sensing of metabolic fluxes. Mol. Sys. Biol. 2010, 6, 355.
-
(2010)
Mol. Sys. Biol.
, vol.6
, pp. 355
-
-
Kotte, O.1
Zaugg, J.B.2
Heinemann, M.3
-
89
-
-
77951978451
-
Dynamic modeling of Escherichia coli metabolic and regulatory systems for amino-acid production.
-
Usuda, Y., Nishio, Y., Iwatani, S., Van Dien, S. J. et al., Dynamic modeling of Escherichia coli metabolic and regulatory systems for amino-acid production. J. Biotech. 2010, 147, 17-30.
-
(2010)
J. Biotech.
, vol.147
, pp. 17-30
-
-
Usuda, Y.1
Nishio, Y.2
Iwatani, S.3
Van Dien, S.J.4
-
90
-
-
33846061120
-
13C-based flux analysis.
-
13C-based flux analysis. Mol. Syst. Biol. 2006, 2, 62.
-
(2006)
Mol. Syst. Biol.
, vol.2
, pp. 62
-
-
Sauer, U.1
-
91
-
-
78149478671
-
13C-metabolic flux analysis and future perspectives.
-
13C-metabolic flux analysis and future perspectives. Process Biochem. 2010, 45, 1873-1881.
-
(2010)
Process Biochem.
, vol.45
, pp. 1873-1881
-
-
Matsuoka, Y.1
Shimizu, K.2
-
92
-
-
16544366784
-
13C labeling experiments and integration of the information with gene and protein expression patterns.
-
13C labeling experiments and integration of the information with gene and protein expression patterns. Adv. Biochem. Biotechnol. 2004, 91, 1-49.
-
(2004)
Adv. Biochem. Biotechnol.
, vol.91
, pp. 1-49
-
-
Shimizu, K.1
-
93
-
-
77956969126
-
13C-metabolic flux analysis for batch culture of Escherichia coli and its Pyk and Pgi gene knockout mutants based on mass isotopomer distribution of intracellular metabolites.
-
13C-metabolic flux analysis for batch culture of Escherichia coli and its Pyk and Pgi gene knockout mutants based on mass isotopomer distribution of intracellular metabolites. Biotechnol. Prog. 2010, 26, 975-992.
-
(2010)
Biotechnol. Prog.
, vol.26
, pp. 975-992
-
-
Toya, Y.1
Ishii, N.2
Nakahigashi, K.3
Hirasawa, T.4
-
94
-
-
67651083634
-
Toward systematic metabolic engineering based on the analysis of metabolic regulation by the integration of different levels of information.
-
Shimizu, K., Toward systematic metabolic engineering based on the analysis of metabolic regulation by the integration of different levels of information. Biochem. Eng. J. 2009, 46, 235-251.
-
(2009)
Biochem. Eng. J.
, vol.46
, pp. 235-251
-
-
Shimizu, K.1
-
95
-
-
33847691476
-
Fluxome analysis using GC-MS.
-
Wittmann, C., Fluxome analysis using GC-MS. Microb. Cell Fact. 2007, 6, 6.
-
(2007)
Microb. Cell Fact.
, vol.6
, pp. 6
-
-
Wittmann, C.1
-
96
-
-
77954699474
-
Systems metabolic engineering: Genome-scale models and beyond.
-
Blazeck, J., Alper, H., Systems metabolic engineering: Genome-scale models and beyond. Biotechnol. J. 2010, 5, 647-659.
-
(2010)
Biotechnol. J.
, vol.5
, pp. 647-659
-
-
Blazeck, J.1
Alper, H.2
|