2-Methylcitrate-dependent activation of the propionate catabolic operon (prpBCDE) of Salmonella enterica by the PrpR protein

Microbiology

Volumn 150, Issue 11, 2004, Pages 3877-3887

  Palacios, Sergio ^a,b   Escalante Semerena, Jorge C ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b UNIVERSITY OF IOWA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BETA GALACTOSIDASE; BINDING PROTEIN; CITRIC ACID; DEOXYRIBONUCLEASE I; DNA; MUTANT PROTEIN; PROPIONIC ACID; PRPR PROTEIN; PYRUVIC ACID; UNCLASSIFIED DRUG;

ALLELE; AMINO TERMINAL SEQUENCE; ANIMAL CELL; ARTICLE; BINDING AFFINITY; BINDING SITE; CONTROLLED STUDY; DNA FOOTPRINTING; ENZYME ACTIVITY; ENZYME ASSAY; GEL MOBILITY SHIFT ASSAY; IN VITRO STUDY; IN VIVO STUDY; NONHUMAN; OPERON; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN BINDING; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN ISOLATION; SALMONELLA ENTERICA; SALMONELLA TYPHIMURIUM; SEQUENCE ANALYSIS; SIGNAL TRANSDUCTION;

ADAPTATION, PHYSIOLOGICAL; ADENOSINE TRIPHOSPHATASES; BACTERIAL PROTEINS; CITRATES; DNA FOOTPRINTING; DNA MUTATIONAL ANALYSIS; DNA-BINDING PROTEINS; ENZYME ACTIVATORS; GENE EXPRESSION REGULATION, BACTERIAL; MUTATION; OPERON; PROMOTER REGIONS (GENETICS); PROPIONATES; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; SALMONELLA TYPHIMURIUM; SIGNAL TRANSDUCTION;

BACTERIA (MICROORGANISMS); SALMONELLA ENTERICA; SALMONELLA ENTERICA SUBSP. ENTERICA SEROVAR TYPHIMURIUM; TYPHIMURIUM;

EID: 9144231953     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.27299-0     Document Type: Article

References (42)

1. Austin, S. & Dixon, R. (1992). The prokaryotic enhancer binding protein NTRC has an ATPase activity which is phosphorylation and DNA dependent. EMBO J 11, 2219-2228.
2. Ausubel, F. A., Brent, R., Kingston, R. E., Moore, D. D., Seidman, J. G., Smith, J. A. & Struhl, K. (1989). Current Protocols in Molecular Biology. New York, NY: Greene Publishing Associates & Wiley Interscience.
3. Bargo, F., Muller, L. D., Varga, G. A., Delahoy, J. E. & Cassidy, T. W. (2002). Ruminal digestion and fermentation of high-producing dairy cows with three different feeding systems combining pasture and total mixed rations. J Dairy Sci 85, 2964-2973.
4. Barnes, E. M., Impey, C. S. & Stevens, B. J. (1979). Factors affecting the incidence and anti-salmonella activity of the anaerobic caecal flora of the young chick. J Hyg (Lond) 82, 263-283.
5. Berger, S. L. (1984). The use of Cerenkov radiation for monitoring reactions performed in minute volumes: examples from recombinant DNA technology. Anal Biochem 136, 515-519.
6. Berkowitz, D., Hushon, J. M., Whitfield, H. J., Roth, J. & Ames, B. N. (1968). Procedure for identifying nonsense mutations. J Bacteriol 96, 215-220.
7. Brock M., Fischer, R., Linder, D. & Buckel, W. (2000). Methylcitrate synthase from Aspergillus nidulans: implications for propionate as an antifungal agent. Mol Microbiol 35, 961-973.
8. Bryant, M. (1997). Introduction to gastrointestinal microbial ecology. In Gastrointestinal Microbiology, pp. 3-10. Edited by R. Mackie, B. White & R. Isaacson. New York: Chapman and Hall.
9. Buckel, W. (1999). Anaerobic energy metabolism. In Biology of the Procaryotes, pp. 278-326. Edited by J. W. Lengler, G. Drews & H. G. Chlegel. Stuttgart, Germany: Thieme.
10. Busch, M., Stein, G., Poppitz, W., Hein, G. & Muller, A. (2002). Validated capillary gas chromatographic-mass spectrometric assay to determine 2-methylcitric acid I and II levels in human serum by using a pulsed splitless injection procedure. J Chromatogr B Analyt Technol Biomed Life Sci 775, 215-223.
11. Byrne, B. M. & Dankert, J. (1979). Volatile fatty acids and aerobic flora in the gastrointestinal tract of mice under various conditions. Infect Immun 23, 559-563.
12. Castilho, B. A., Olfson, P. & Casadaban, M. J. (1984). Plasmid insertion mutagenesis and lac gene fusions with mini-Mu bacteriophage transposons. J Bacteriol 158, 488-495.
13. Chaney, M. & Buck, M. (1999). The sigma 54 DNA-binding domain includes a determinant of enhancer responsiveness. Mol Microbiol 33, 1200-1209.
14. Collier, L. S., Gaines, G. L., 3rd & Neidle, E. L. (1998). Regulation of benzoate degradation in Acinetobacter sp. strain ADP1 by BenM, a LysR-type transcriptional activator. J Bacteriol 180, 2493-2501.
15. Cummings, J. H. (1995). Short chain fatty acids. In Human Colonic Bacteria: Role in Nutrition, Physiology and Pathology, pp. 101-105. Edited by G. Gibson & G. Macfarlane. London: CRC Press.
16. Escalante-Semerena, J. C. & Roth, J. R. (1987). Regulation of cobalamin biosynthetic operons in Salmonella typhimurium. J Bacteriol 169, 2251-2258.
17. Fernandez, S., de Lorenzo, V. & Perez-Martin, J. (1995). Activation of the transcriptional regulator XylR of Pseudomonas putida by release of repression between functional domains. Mol Microbiol 16, 205-213.
18. Garmendia, J. & de Lorenzo, V. (2000). The role of the interdomain B linker in the activation of the XylR protein of Pseudomonas putida. Mol Microbiol 38, 401-410.
19. Horswill, A. R. & Escalante-Semerena, J. C. (1997). Propionate catabolism in Salmonella typhimurium LT2: two divergently transcribed units comprise the prp locus at 8.5 centisomes, prPR encodes a member of the sigma-54 family of activators, and the prpBCDE genes constitute an operon. J Bacteriol 179, 928-940.
20. Horswill, A. R. & Escalante-Semerena, J. C. (2001). In vitro conversion of propionate to pyruvate by Salmonella enterica enzymes: 2-methylcitrate dehydratase (PrpD) and aconitase enzymes catalyze the conversion of 2-methylcitrate to 2-methylisocitrate. Biochemistry 40, 4703-4713.
21. Horswill, A. R., Dudding, A. R. & Escalante-Semerena, J. C. (2001). Studies of propionate toxicity in Salmonella enterica identify 2-methylcitrate as a potent inhibitor of cell growth. J Biol Chem 276, 19094-19101.
22. Laemmli, U. K. (1970). Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227, 680-685.
23. Lee, J. H., Scholl, D., Nixon, B. T. & Hoover, T. R. (1994). Constitutive ATP hydrolysis and transcription activation by a stable, truncated form of Rhizobium meliloti DCTD, a sigma 54-dependent transcriptional activator. J Biol Chem 269, 20401-20409.
24. Lee, S. Y., De La Torre, A., Yan, D., Kustu, S., Nixon, B. T. & Wemmer, D. E. (2003). Regulation of the transcriptional activator NtrCl: structural studies of the regulatory and AAA+ ATPase domains. Genes Dev 17, 2552-2563.
25. Lupas, A., Van Dyke, M. & Stock, J. (1991). Predicting coiled coils from protein sequences. Science 252, 1162-1164.
26. Man, W.-J., Li, Y., Connor, C. D. & Wilton, D. C. (1995). The binding of propionyl-CoA and carboxymethyl-CoA to Escherichia coli citrate synthase. Biochim Biophys Acta 1250, 69-75.
27. Maruyama, K. & Kitamura, H. (1985). Mechanisms of growth inhibition by propionate and restoration of the growth by sodium bicarbonate or acetate in Rhodopseudomonas sphaeroides S. J Biochem (Tokyo) 98, 819-824.
28. 54 bacterial enhancer-binding protein family: mechanism of action and phylogenetic relationship of their functional domains. J Bacteriol 175, 6067-6074.
29. O'Neill, E., Ng, L. C., Sze, C. C. & Shingler, V. (1998). Aromatic ligand binding and intramolecular signalling of the phenol-responsive sigma54-dependent regulator DmpR. Mol Microbiol 28, 131-141.
30. O'Neill, E., Wikstrom, P. & Shingler, V. (2001). An active role for a structured B-linker in effector control of the sigma54-dependent regulator DmpR. EMBO J 20, 819-827.
31. Palacios, S. & Escalante-Semerena, J. C. (2000). prpR, ntrA, and ihf functions are required for expression of the prpBCDE operon, encoding enzymes that catabolize propionate in Salmonella enterica serovar typhimurium LT2. J Bacteriol 182, 905-910.
32. Perez-Martin, J. & De Lorenzo, V. (1995). The amino-terminal domain of the prokaryotic enhancer-binding protein XylR is a specific intramolecular repressor. Proc Natl Acad Sci U S A 92, 9392-9396.
33. Sasse, J. (1991). Detection of proteins. In Current Protocols in Molecular Biology, pp. 10.16.11-10.16.18. Edited by F. A. Ausubel, R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith & K. Struhl. New York: Wiley Interscience.
34. Schneider, D. A., Gaal, T. & Gourse, R. L. (2002). NTP-sensing by rRNA promoters in Escherichia coli is direct. Proc Natl Acad Sci U S A 99, 8602-8607.
35. Tang, X., Nakata, Y., Li, H.-O., Zhang, M., Gao, H., Fujita, A., Sakatsume, O., Ohta, T. & Yokoyama, K. (1994). The optimization of preparations of competent cells for transformation of E. coli. Nucleic Acid Res 22, 2857-2858.
36. Tsai, S. P., Hartin, R. J. & Ryu, J. (1989). Transformation in restriction-deficient Salmonella typhimurium LT2. J Gen Microbiol 135, 2561-2567.
37. Tsang, A. W., Horswill, A. R. & Escalante-Semerena, J. C. (1998). Studies of regulation of expression of the propionate ( prpBCDE) operon provide insights into how Salmonella typhimurium LT2 integrates its 1,2-propanediol and propionate catabolic pathways. J Bacteriol 180, 6511-6518.
38. Vale, R. D. (2000). AAA proteins. Lords of the ring. J Cell Biol 150, F13-19.
39. Weiss, D. S., Batut, J., Klose, K. E., Keener, J. & Kustu, S. (1991). The phosphorylated form of the enhancer-binding protein NTRC has an ATPase activity that is essential for activation of transcription. Cell 67, 155-167.
40. Wyman, C., Rombel, L, North, A. K., Bustamante, C. & Kustu, S. (1997). Unusual oligornerization required for activity of NtrC, a bacterial enhancer-binding protein. Science 275, 1658-1661.
41. Xu, H. & Hoover, T. R. (2001). Transcriptional regulation at a distance in bacteria. Curr Opin Microbiol 4, 138-144.
42. Zhang, X., Chaney, M., Wigneshweraraj, S. R., Schumacher, J., Bordes, P., Cannon, W. & Buck, M. (2002). Mechanochemical ATPases and transcriptional activation. Mol Microbiol 45, 895-903.