The LysR-type transcriptional regulator CbbR controlling autotrophic CO2 fixation by Xanthobacter flavus is an NADPH sensor

Journal of Bacteriology

Volumn 180, Issue 6, 1998, Pages 1411-1417

  Van Keulen, G ^a   Girbal, L ^a   Van Den Bergh, E R E ^a   Dijkhuizen, L ^a   Meijer, W G ^a,b  

^a UNIVERSITY OF GRONINGEN   (Netherlands)

^b UNIVERSITY COLLEGE DUBLIN   (Ireland)

Author keywords

[No Author keywords available]

Indexed keywords

DNA FRAGMENT; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE;

ARTICLE; BACTERIAL GROWTH; CARBON DIOXIDE FIXATION; DNA BINDING; DNA PROTEIN COMPLEX; DNA SEQUENCE; ESCHERICHIA COLI; GENE EXPRESSION; GENETIC TRANSCRIPTION; NONHUMAN; PHOTOTROPHIC BACTERIUM; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; TRANSCRIPTION REGULATION; XANTHOBACTER;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA; PHOTOBACTERIA; TRIXIS; XANTHOBACTER FLAVUS;

EID: 0031941631     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.180.6.1411-1417.1998     Document Type: Article

References (43)

1. Birnboim, H. C., and J. Doly. 1979. A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res. 7:1513-1523.
2. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 73:248-254.
3. Chang, M., and I. P. Crawford. 1990. The roles of indoleglycerol phosphate and the TrpI protein in the expression of trpBA from Pseudomonas aeruginosa. Nucleic Acids Res. 18:979-988.
4. Croes, L. M., W. G. Meijer, and L. Dijkhuizen. 1991. Regulation of methanol oxidation and carbon dioxide fixation in Xanthobacter strain 25a grown in continuous culture. Arch. Microbiol. 155:159-163.
5. 2 fixation gene expression in a ribulose 1,5-bisphosphate carboxylase-oxygenase deletion strain of Rhodospirillum rubrum. J. Bacteriol. 175:5066-5077.
6. Gibson, J. L., and F. R. Tabita. 1993. Nucleotide sequence and functional analysis of CbbR, a positive regulator of the Calvin cycle operons of Rhodobacter sphaeroides. J. Bacteriol. 175:5778-5784.
7. Goethals, K., M. van Montagu, and M. Holsters. 1992. Conserved motifs in a divergent nod box of Azorhizobium caulinodans ORS571 reveal a common structure in promoters regulated by LysR-type proteins. Proc. Natl. Acad. Sci. USA 89:1646-1650.
8. Gussin, G. N., C. Olson, K. Igarashi, and A. Ishihama. 1992. Activation defects caused by mutations in Escherichia coli rpoA are promoter specific. J. Bacteriol. 174:5156-5160.
9. Hallenbeck, P. L., R. Lerchen, P. Hessler, and S. Kaplan. 1990. Roles of CfxA, CfxB, and external electron acceptors in regulation of ribulose-1,5-bisphosphate carboxylase/oxygenase expression in Rhodobacter sphaeroides. J. Bacteriol. 172:1736-1748.
10. Im, D.-S., and C. G. Friedrieh. 1983. Fluoride, hydrogen, and formate activate ribulosebisphosphate carboxylase formation in Alcaligenes eutrophus. J. Bacteriol. 154:803-808.
11. Jackson, J. B., and A. R. Crofts. 1968. Energy-linked reduction of nicotinamide adenine dinucleotides in cells of Rhodospirillum rubrum. Biochem. Biophys. Res. Commun. 32:908-915.
12. Knight, M., L. Dijkhuizen, and W. Harder. 1978. Metabolic regulation in Pseudomonas oxalaticus OX1. Enzyme and coenzyme concentration changes during substrate transition experiments. Arch. Microbiol. 116:85-90.
13. Kusano, T., and K. Sugawara. 1993. Specific binding of Thiobacillus ferrooxidans RbcR to the intergenic sequence between the rbc operon and the rbcR gene. J. Bacteriol. 175:1019-1025.
14. 2 assimilation operons of Alcaligenes eutrophus. J. Bacteriol. 177:6568-6574.
15. Lascelles, J. 1960. The formation of ribulose 1:5-diphosphate carboxylase by growing cultures of Athiorhodaceae. J. Gen. Microbiol. 23:499-510.
16. Lehmicke, L. G., and M. E. Lidstrom. 1985. Organization of genes necessary for growth of the hydrogen-methanol autotroph Xanthobacter sp. strain H4-14 on hydrogen and carbon dioxide. J. Bacteriol. 162:1244-1249.
17. Lidstrom-O'Conner, M. E., G. L. Fulton, and A. E. Wopat. 1983. 'Methylobacterium methanolicum': a syntrophic association of two methylotrophic bacteria. J. Gen. Microbiol. 129:3139-3148.
18. 2 fixation is not encoded by the cbb operon. J. Bacteriol. 176:6120-6126.
19. Meijer, W. G., A. C. Arnberg, H. G. Enequist, P. Terpstra, M. E. Lidstrom, and L. Dijkhuizen. 1991. Identification and organization of carbon dioxide fixation genes in Xanthobacter flavus H4-14. Mol. Gen. Genet. 225:320-330.
20. Meijer, W. G., L. M. Croes, B. Jenni, L. G. Lehmicke, M. E. Lidstrom, and L. Dijkhuizen. 1990. Characterization of Xanthobacter strains H4-14 and 25a and enzyme profiles after growth under autotrophic and heterotrophic growth conditions. Arch. Microbiol. 153:360-367.
21. Meijer, W. G., P. de Boer, and G. van Keulen. 1997. Xanthobacter flavus employs a single triosephosphate isomerase for heterotrophic and autotrophic metabolism. Microbiology 143:1925-1931.
22. Meijer, W. G., and L. Dijkhuizen. 1988. Regulation of autotrophic metabolism in Pseudomonas oxalaticus OX1 wild-type and an isocitrate-lyase-deficient mutant. J. Gen. Microbiol. 134:3231-3237.
23. Meijer, W. G., H. G. Enequist, P. Terpstra, and L. Dijkhuizen. 1990. Nucleotide sequences of the genes encoding fructosebisphosphatase and phosphoribulokinase from Xanthobacter flavus H4-14. J. Gen. Microbiol. 136: 2225-2230.
24. Meijer, W. G., E. R. E. van den Bergh, and L. M. Smith. 1996. Induction of the gap-pgk operon encoding glyceraldehyde-3-phosphate dehydrogenase and 3-phosphoglycerate kinase of Xanthobacter flavus requires the LysR-type transcriptional activator CbbR. J. Bacteriol. 178:881-887.
25. Paoli, G. C., N. S. Morgan, F. R. Tabita, and J. M. Shively. 1995. Expression of the cbbLcbbS and cbbM genes and distinct organization of the cbb Calvin cycle structural genes of Rhodobacter capsulatus. Arch. Microbiol. 164:396-405.
26. Papavassiliou, A. G. 1994. 1,10-Phenanthroline-copper ion nuclease footprinting of DNA-protein complexes in situ following mobility shift electrophoresis assays. Methods Mol. Biol. 30:43-78.
27. Pérez-Martín, J., F. Rojo, and V. de Lorenzo. 1994. Promoters responsive to DNA bending: a common theme in procaryotic gene expression. Microbiol. Rev. 58:268-290.
28. Reutz, I., P. Schobert, and B. Bowien. 1982. Effect of phosphoglycerate mutase deficiency on heterotrophic and autotrophic carbon metabolism of Alcaligenes eutrophus. J. Bacteriol. 151:8-15.
29. Richardson, D. J., G. F. King, D. J. Kelly, A. G. McEwan, S. J. Ferguson, and J. B. Jackson. 1988. The role of auxiliary oxidants in maintaining the redox balance during phototrophic growth of Rhodobacter capsulatus on propionate or butyrate. Arch. Microbiol. 150:131-137.
30. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
31. Schell, M. A. 1993. Molecular biology of the LysR family of transcriptional regulators. Annu. Rev. Microbiol. 47:597-626.
32. Strecker, M., E. Sickinger, R. S. English, J. M. Shively. and E. Bock. 1994. Calvin cycle genes in Nitrobacter vulgaris T3. FEMS Microbiol. Lett. 120:45-50.
33. Studier, F. W., A. H. Rosenberg, J. J. Dunn, and H. J. W. Dubendorf. 1990. Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol. 185:60-89.
34. Tabita, F. R. 1988. Molecular and cellular regulation of autotrophic carbon dioxide fixation in microorganisms. Microbiol. Rev. 52:155-189.
35. Tao, K., C. Zou, N. Fujita, and A. Ishihama. 1995. Mapping of the OxyR protein contact site in the C-terminal region of RNA polymerase α subunit. J. Bacteriol. 177:6740-6744.
36. Toledano, M. B., I. Kullik, F. Trinh, P. T. Baird, T. D. Schneider, and G. Storz. 1994. Redox-dependent shift of OxyR-DNA contacts along an extended DNA-binding site: a mechanism for differential promoter selection. Cell 78:897-909.
37. 2 fixation enzymes of Xanthobacter flavus. J. Bacteriol. 175:6097-6104.
38. Viale, A. M., H. Kobayashi, T. Akazawa, and S. Henikoff. 1991. rbcR, a gene coding for a member of the LysR family of transcriptional regulators, is located upstream of the expressed set of ribulose 1,5-bisphosphate carboxylase/oxygenase genes in the photosynthetic bacterium Chromatium vinosum. J. Bacteriol. 173:5224-5229.
39. Wang, L., and S. C. Winans. 1995. High angle and ligand-induced low angle DNA bends incited by OccR lie in the same plane with OccR bound to the interior angle. J. Mol. Biol. 253:32-38.
40. 2 fixation in Rhodobacter sphaeroides and evidence that ribulose bisphosphate carboxylase/oxygenase activity serves to maintain the redox balance of the cell. J. Bacteriol. 175:3372-3379.
41. Wieringa, R. K., P. Terpstra, and W. G. J. Hol. 1986. Prediction of the occurrence of the ADP-binding βαβ-fold in proteins, using an amino acid sequence fingerprint. J. Mol. Biol. 187:101-107.
42. 2 fixation in Alcaligenes eutrophus. Mol. Microbiol. 5:2695-2705.
43. Zwieb, C., and S. Adhya. 1994. Improved plasmid vectors for the analysis of protein-induced DNA bending. Methods Mol. Biol. 30:281-294.