New insights on transcriptional responses of genes involved in carbon central metabolism, respiration and fermentation to low ATP levels in Escherichia coli

Journal of Basic Microbiology

Volumn 53, Issue 4, 2013, Pages 365-380

  Soria, Sandra ^a   de Anda, Ramón ^b   Flores, Noemí ^b   Romero Garcia, Susana ^c   Gosset, Guillermo ^b   Bolívar, Francisco ^b   Báez Viveros, José Luis ^a  

^a UNIVERSIDAD AUTÓNOMA DEL ESTADO DE MORELOS   (Mexico)

^b INSTITUTO DE BIOTECNOLOGÍA   (Mexico)

^c INSTITUTO NACIONAL DE ENFERMEDADES RESPIRATORIAS   (Mexico)

Author keywords

ATPase; Carbon central metabolism; Escherichia coli; QPCR; Transcriptional responses

Indexed keywords

ADENOSINE TRIPHOSPHATE; CARBON; OXYGEN;

ARTICLE; ENERGY METABOLISM; ESCHERICHIA COLI; FERMENTATION; GENE DELETION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; PHYSIOLOGY; REAL TIME POLYMERASE CHAIN REACTION;

ADENOSINE TRIPHOSPHATE; CARBON; ENERGY METABOLISM; ESCHERICHIA COLI; FERMENTATION; GENE DELETION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; METABOLIC NETWORKS AND PATHWAYS; OXYGEN; REAL-TIME POLYMERASE CHAIN REACTION;

ESCHERICHIA COLI;

EID: 84876473500     PISSN: 0233111X     EISSN: 15214028     Source Type: Journal    
DOI: 10.1002/jobm.201100525     Document Type: Article

References (38)

1. Yuroff, A.S., Sabat, G., Hickey, W.J., 2003. Transporter-mediated uptake of 2-chloro- and 2-hydroxybenzoate by Pseudomonas huttiensis strain D1. Appl. Environ. Microbiol., 69, 7401-7408.
2. Kragol, G., Lovas, S., Varadi, G., Condie, B.A. et al., 2001. The antibacterial peptide pyrrhocoricin inhibits the ATPase actions of DnaK and prevents chaperone-assisted protein folding. Biochem., 40, 3016-3026.
3. Frankel, D.G., 1996. Glycolysis in Escherichia coli and Salmonella Cellular and Molecular Biology (2nd ed.), Neidhart, F.C., ed. Amer. Soc. Microbiol., Washington, D.C., USA, 1, 189-198.
4. Klipp, E., Nordlander, B., Kruger, R., Gennemark, P., Hohmann, S., 2005. Integrative model of the response of yeast to osmotic shock. Nat. Biotechnol., 23, 975-982.
5. Boldogh, I.R., Pon, L.A., 2006. Interactions of mitochondria with the actin cytoskeleton. BBA-Mol. Cell. Res., 1763, 450-462.
6. Zhou, J., Liu, L., Shi, Z., Du, G., Chen, J., 2009. ATP in current biotechnology: Regulation, applications and perspectives. Biotechnol. Adv., 27(1), 94-101.
7. 0-ATPase, is required for NaCl tolerance in Saccharomyces cerevisiae. FEMS Microbiol. Lett., 208, 227-232.
8. Harrison, D.E., Maitra, P., 1968. The role of ATP in the control of energy metabolism in growing bacteria. J. Gen. Microbiol., 53(1), 7-8.
9. Jensen, P.R., Michelsen, O., 1992. Carbon and energy metabolism of atp mutant of Escherichia coli. J. Bacteriol., 174(23), 7635-7641.
10. Koebmann, B.J., Westerhoff, H.V., Snoep, J.L., Nilsson, D., Jensen, P.R., 2002. The glycolytic flux in Escherichia coli is controlled by the demand for ATP. J. Bacteriol., 184(14), 3909-3916.
11. Kolb, A., Busby, S., Buc, H., Garges, S., Adhya, S., 1993. Transcriptional regulation by cAMP and its receptor protein. Annu. Rev. Biochem., 62, 749-795.
12. Zheng, D., Constantinidou, C., Hobman, J.L., Minchin, S.D., 2004. Identification of the CRP regulon using in vitro and in vivo transcriptional profiling. Nucleic Acids Res., 32(19), 5874-5893.
13. Gosset, G., Zhang, Z., Nayyar, S., Cuevas, W.A., Saier, M.H. Jr., 2004. Transcriptome analysis of Crp-dependent catabolite control of gene expression in Escherichia coli. J. Bacteriol., 186(11), 3516-3524.
14. Keseler, I.M., Collado-Vides, J., Gama-Castro, S., Ingraham, J. et al., 2005. EcoCyc: a comprehensive database resource for Escherichia coli. Nucleic Acids Res., 1(33), 334-337.
15. Keseler, I.M., Bonavides-Martínez, C., Collado-Vides, J., Gama-Castro, S. et al., 2009. EcoCyc: a comprehensive view of Escherichia coli biology. Nucleic Acids Res., 37, 464-470.
16. Cases, I, de Lorenzo, V., Ouzounis, C.A., 2003. Transcription regulation and environmental adaptation in bacteria. Trends Microbiol., 11, 248-253.
17. Yura, T., Nakahigashi, K., 1999. Regulation of the heat-shock response. Curr. Opin Microbiol., 2(2), 153-158.
18. Benes, V., Castoldi, M., 2010. Review: Expression profiling of microRNA using real-time quantitative PCR, how to use it and what is available. Methods, 50, 244-249.
19. Holm, A.K., Blank, L.M., Oldiges, M., Schmid, A. et al., 2010. Metabolic and transcriptional response to cofactor perturbations in Escherichia coli. J. Biol. Chem., 285(23), 17498-17506.
20. Amann, E., Ochs, B., Abel, K.J., 1988. Tightly regulated tac promoter vectors useful for the expression of unfused and fused proteins in Escherichia coli. Gene, 30 69(2), 301-315.
21. Datsenko, K.A., Wanner, B.L., 2000. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl. Acad. Sci., 6(12), 6640-6645.
22. Bolívar, F., Rodríguez, R.L., Greene, P.J., Betlach, M.C., Heynecker, H.L., Boyer, H.W., Crosa, O.J.H., Falkow, S., 1977. Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene, 2, 95-113.
23. Flores, N., Flores, S., Escalante, A., de Anda, R. et al., 2005. Adaptation for fast growth on glucose by differential expression of central carbon metabolism and gal regulon genes in an Escherichia coli strain lacking the phosphoenolpyruvate: carbohydrate phosphotransferase system. Metab. Eng., 7, 70-87.
24. -ΔΔCT method. Methods, 25, 402-408.
25. Liu, X., Ferenci, T., 1998. Regulation of porin-mediated outer membrane permeability by nutrient limitation in Escherichia coli. J. Bacteriol., 180(15), 3917-3922.
26. Liu, X., Ferenci, T., 2001. An analysis of multifactorial influences on the transcriptional control of ompF and ompC porin expression under nutrient limitation. Microbiol., 147, 2981-2989.
27. Ferenci, T., 1999. Regulation by nutrient limitation. Curr. Opin. Microbiol., 2(2), 208-213.
28. Postma, P.W., Lengeler, J.W., Jacobson, G.R., 1993. Phosphoenolpyruvate: Carbohydrate phosphotransferase systems. Microbiol Rev., 57, 543-594.
29. Postma, P.W., Lengeler, J.W., Jacobson, G.R., 1996. Phosphoenolpyruvate: carbohydrate phosphotransferase systems in Neidhardt FC. Escherichia coli and Salmonella. Cellular and Molecular Biology. Washington, Amer. Soc. Microbiol., 1, 1149-1174.
30. Neidhardt, F.C., Curtiss III, R., Ingraham, J.L., Lin, E.C.C. et al., 1996. Escherichia coli and Salmonella, Cellular and Molecular Biology (Second Edition). Amer. Soc. Microbiol., Washington, D.C.
31. 1-ATPase. J. Bacteriol., 188, 6869-6876.
32. Iuchi, S., Matzuda, Z., Fujiwara, T., Lin, E.C., 1990. The arcB gene of Escherichia coli encodes a sensor-regulator protein for anaerobic repression of the arc modulon. Mol. Microbiol., 4, 715-727.
33. Georgellis, D., Kwon, O., Lin, E.C., 1999. Amplification of signaling activity of the arc two-component system of Escherichia coli by anaerobic metabolites. An in vitro study with different protein modules. J. Biol. Chem., 274, 35950-35954.
34. Kwon, O., Georgellis, D., Lin, E.C., 2000. Phosphorelay as the sole physiological route of signal transmission by the arc two-component system of Escherichia coli. J. Bacteriol., 182, 3858-3862.
35. Rodriguez, C., Kwon, O., Georgellis, D., 2004. Effect of D-lactate on the physiological activity of the ArcB sensor kinase in Escherichia coli. J. Bacteriol., 186, 2085-2090.
36. Georgellis, D., Lynch, A.S., Lin, E.C., 1997. In vitro phosphorylation study of the arc twocomponent signal transduction system of Escherichia coli. J. Bacteriol., 179, 5429-5435.
37. Malpica, R., Franco, B., Rodríguez, C., Kwon, O., Georgellis, D., 2004. Identification of a quinone-sensitive redox switch in the ArcB sensor kinase. Proc. Natl. Acad. Sci. USA, 101, 13318-13323.
38. 2 and reducing conditions. J. Mol. Microbiol. Biotechnol., 4(3), 263-268.