Characterizing the regulation of the Pu promoter in Acinetobacter baylyi ADP1

Environmental Microbiology

Volumn 10, Issue 7, 2008, Pages 1668-1680

  Huang, Wei E ^a,c   Singer, Andrew C ^a   Spiers, Andrew J ^a   Preston, Gail M ^b   Whiteley, Andrew S ^a  

^a CENTRE FOR ECOLOGY AND HYDROLOGY   (United Kingdom)

^b UNIVERSITY OF OXFORD   (United Kingdom)

^c UNIVERSITY OF SHEFFIELD   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

DNA BINDING PROTEIN; DNA DIRECTED RNA POLYMERASE; SIGMA FACTOR; SIGMA FACTOR RPON;

ACINETOBACTER; ARTICLE; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; PHYSIOLOGY; PROMOTER REGION; PSEUDOMONAS PUTIDA; REGULATORY SEQUENCE;

ACINETOBACTER; DNA-BINDING PROTEINS; DNA-DIRECTED RNA POLYMERASES; GENE EXPRESSION REGULATION, BACTERIAL; PROMOTER REGIONS, GENETIC; PSEUDOMONAS PUTIDA; REGULATORY SEQUENCES, NUCLEIC ACID; RNA POLYMERASE SIGMA 54; SIGMA FACTOR;

ACINETOBACTER; ACINETOBACTER BAYLYI; BACTERIA (MICROORGANISMS); PSEUDOMONAS PUTIDA;

EID: 44849140426     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2008.01583.x     Document Type: Article

References (38)

1. Abril, M.A., Michan, C., Timmis, K.N. Ramos, J.L. (1989) Regulator and enzyme specificities of the Tol plasmid-encoded upper pathway for degradation of aromatic-hydrocarbons and expansion of the substrate range of the pathway. J Bacteriol 171 : 6782 6790.
2. Arcondeguy, T., Jack, R. Merrick, M. (2001) P-II signal transduction proteins, pivotal players in microbial nitrogen control. Microbiol Mol Biol Rev 65 : 80 105.
3. Barbe, V., Vallenet, D., Fonknechten, N., Kreimeyer, A., Oztas, S., Labarre, L., et al. (2004) Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium. Nucleic Acids Res 32 : 5766 5779.
4. Bernardo, L.M.D., Johansson, L.U.M., Solera, D., Skarfstad, E. Shingler, V. (2006) The guanosine tetraphosphate (ppGpp) alarmone, DksA and promoter affinity for RNA polymerase in regulation of sigma(54)-dependent transcription. Mol Microbiol 60 : 749 764.
5. Bruckner, R. Titgemeyer, F. (2002) Carbon catabolite repression in bacteria: choice of the carbon source and autoregulatory limitation of sugar utilization. FEMS Microbiol Lett 209 : 141 148.
6. Cases, I. de Lorenzo, V. (2005) Promoters in the environment: transcriptional regulation in its natural context. Nat Rev Microbiol 3 : 105 118.
7. Cases, I., deLorenzo, V. PerezMartin, J. (1996) Involvement of sigma(54) in exponential silencing of the Pseudomonas putida TOL plasmid Pu promoter. Mol Microbiol 19 : 7 17.
8. Cases, I., Perez-Martin, J. de Lorenzo, V. (1999) The IIA(Ntr) (PtsN) protein of Pseudomonas putida mediates the C source inhibition of the sigma(54)-dependent Pu promoter of the TOL plasmid. J Biol Chem 274 : 15562 15568.
9. del Castillo, T. Ramos, J.L. (2007) Simultaneous catabolite repression between glucose and toluene metabolism in Pseudomonas putida is channeled through different signaling pathways. J Bacteriol 189 : 6602 6610.
10. Commichau, F.M., Forchhammer, K. Stulke, J. (2006) Regulatory links between carbon and nitrogen metabolism. Curr Opin Microbiol 9 : 167 172.
11. Dal, S., Steiner, I. Gerischer, U. (2002) Multiple operons connected with catabolism of aromatic compounds in Acinetobacter sp. strain ADP1 are under carbon catabolite repression. J Mol Microbiol Biotechnol 4 : 389 404.
12. Duetz, W.A., Marques, S., Wind, B., Ramos, J.L. vanAndel, J.G. (1996) Catabolite repression of the toluene degradation pathway in Pseudomonas putida harboring pWWO under various conditions of nutrient limitation in chemostat culture. Appl Environ Microbiol 62 : 601 606.
13. Forchhammer, K. (2007) Glutamine signalling in bacteria. Front Biosci 12 : 358 370.
14. Handelsman, J. (2004) Metagenomics: application of genomics to uncultured microorganisms. Microbiol Mol Biol Rev 68 : 669 684.
15. Holtel, A., Marques, S., Mohler, I., Jakubzik, U. Timmis, K.N. (1994) Carbon source-dependent inhibition of Xyl operon expression of the Pseudomonas-Putida Tol plasmid. J Bacteriol 176 : 1773 1776.
16. Huang, W.E., Wang, H., Huang, L.F., Zheng, H.J., Singer, A.C., Thompson, I.P. Whiteley, A.S. (2005) Chromosomally located gene fusions constructed in Acinetobacter sp. ADP1 for the environmental detection of salicylate. Environ Microbiol 7 : 1339 1348.
17. Inouye, S., Nakazawa, A. Nakazawa, T. (1983) Molecular-cloning of regulatory gene XylR and operator-promoter regions of the XylABC and XylDEGF operons of the Tol plasmid. J Bacteriol 155 : 1192 1199.
18. Jones, R.M. Williams, P.A. (2003) Mutational analysis of the critical bases involved in activation of the AreR-regulated sigma(54)-dependent promoter in Acinetobacter sp. strain ADP1. Appl Environ Microbiol 69 : 5627 5635.
19. Jones, R.M., Pagmantidis, V. Williams, P.A. (2000) sal genes determining the catabolism of salicylate esters are part of a supraoperonic cluster of catabolic genes in Acinetobacter sp. strain ADP1. J Bacteriol 182 : 2018 2025.
20. Juni, E. Janik, A. (1969) Transformation of Acinetobacter calcoaceticus (Bacterium anitratum). J Bacteriol 98 : 281 288.
21. Kok, R.G., Young, D.M. Ornston, L.N. (1999) Phenotypic expression of PCR-generated random mutations in a Pseudomonas putida gene after its introduction into an Acinetobacter chromosome by natural transformation. Appl Environ Microbiol 65 : 1675 1680.
22. Marques, S., Holtel, A., Timmis, K.N. Ramos, J.L. (1994) Transcriptional induction kinetics from the promoters of the catabolic pathways of Tol plasmid Pww0 of Pseudomonas putida for metabolism of aromatics. J Bacteriol 176 : 2517 2524.
23. Melnikov, A. Youngman, P.J. (1999) Random mutagenesis by recombinational capture of PCR products in Bacillus subtilis and Acinetobacter calcoaceticus. Nucleic Acids Res 27 : 1056 1062.
24. Metzgar, D., Bacher, J.M., Pezo, V., Reader, J., Doring, V., Schimmel, P., et al. (2004) Acinetobacter sp. ADP1: an ideal model organism for genetic analysis and genome engineering. Nucleic Acids Res 32 : 5780 5790.
25. Palmen, R. Hellingwerf, K.J. (1997) Uptake and processing of DNA by Acinetobacter calcoaceticus- a review. Gene 192 : 179 190.
26. Palmen, R., Vosman, B., Buijsman, P., Breek, C.K.D. Hellingwerf, K.J. (1993) Physiological characterization of natural transformation in Acinetobacter calcoaceticus. J Gen Microbiol 139 : 295 305.
27. Ramos, J.L., Marques, S. Timmis, K.N. (1997) Transcriptional control of the Pseudomonas tol plasmid catabolic operons is achieved through an interplay of host factors and plasmid-encoded regulators. Annu Rev Microbiol 51 : 341 373.
28. Schloss, P.D. Handelsman, J. (2003) Biotechnological prospects from metagenomics. Curr Opin Biotechnol 14 : 303 310.
29. Siehler, S.Y., Dal, S., Fischer, R., Patz, P. Gerischer, U. (2007) Multiple-level regulation of genes for protocatechuate degradation in Acinetobacter baylyi includes cross-regulation. Appl Environ Microbiol 73 : 232 242.
30. Stulke, J. Hillen, W. (1999) Carbon catabolite repression in bacteria. Curr Opin Microbiol 2 : 195 201.
31. Uchiyama, T., Abe, T., Ikemura, T. Watanabe, K. (2005) Substrate-induced gene-expression screening of environmental metagenome libraries for isolation of catabolic genes. Nat Biotechnol 23 : 88 93.
32. Vaneechoutte, M., Young, D.M., Ornston, L.N., De Baere, T., Nemec, A., Van Der Reijden, T., et al. (2006) Naturally transformable Acinetobacter sp. strain ADP1 belongs to the newly described species Acinetobacter baylyi. Appl Environ Microbiol 72 : 932 936.
33. Velazquez, F., di Bartolo, I. de Lorenzo, V. (2004) Genetic evidence that catabolites of the Entner-Doudoroff pathway signal C source repression of the sigma(54) Pu promoter of Pseudomonas putida. J Bacteriol 186 : 8267 8275.
34. de Vries, J., Heine, M., Harms, K. Wackernagel, W. (2003) Spread of recombinant DNA by roots and pollen of transgenic potato plants, identified by highly specific biomonitoring using natural transformation of an Acinetobacter sp. Appl Environ Microbiol 69 : 4455 4462.
35. Willardson, B.M., Wilkins, J.F., Rand, T.A., Schupp, J.M., Hill, K.K., Keim, P. Jackson, P.J. (1998) Development and testing of a bacterial biosensor for toluene-based environmental contaminants. Appl Environ Microbiol 64 : 1006 1012.
36. Winson, M.K., Swift, S., Hill, P.J., Sims, C.M., Griesmayr, G., Bycroft, B.W., et al. (1998) Engineering the luxCDABE genes from Photorhabdus luminescens to provide a bioluminescent reporter for constitutive and promoter probe plasmids and mini-Tn5 constructs. FEMS Microbiol Lett 163 : 193 202.
37. Young, D.M. Ornston, L.N. (2001) Functions of the mismatch repair gene mutS from Acinetobacter sp. strain ADP1. J Bacteriol 183 : 6822 6831.
38. Young, D.M., Parke, D. Ornston, L.N. (2005) Opportunities for genetic investigation afforded by Acinetobacter baylyi, a nutritionally versatile bacterial species that is highly competent for natural transformation. Annu Rev Microbiol 59 : 519 551.