Construction and comparison of Escherichia coli whole-cell biosensors capable of detecting aromatic compounds

Journal of Microbiological Methods

Volumn 60, Issue 2, 2005, Pages 235-245

  Kim, Mi Na ^a   Park, Hoo Hwi ^a   Lim, Woon Ki ^a   Shin, Hae Ja ^b  

^a Pusan National University   (South Korea)

^b Dongseo University   (South Korea)

Author keywords

Activator; BTEX; Multimer; Promoter; Whole cell biosensor; Xenobiotics; XylR

Indexed keywords

AROMATIC COMPOUND; BENZENE; ETHYLBENZENE; LUCIFERASE; PROTEIN; PROTEIN XY1R; TOLUENE; UNCLASSIFIED DRUG; XENOBIOTIC AGENT; XYLENE;

ARTICLE; BIOSENSOR; CONTROLLED STUDY; ESCHERICHIA COLI; GEL MOBILITY SHIFT ASSAY; GENE DELETION; GENE SEQUENCE; GENETIC TRANSCRIPTION; NONHUMAN; PLASMID; PO GENE; PR GENE; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN PURIFICATION; PS GENE; PU GENE; TRANSCRIPTION INITIATION;

BACTERIAL PROTEINS; BIOSENSING TECHNIQUES; BLOTTING, NORTHERN; DNA-BINDING PROTEINS; ELECTROPHORETIC MOBILITY SHIFT ASSAY; ESCHERICHIA COLI; GENE EXPRESSION REGULATION, BACTERIAL; HYDROCARBONS, AROMATIC; LUCIFERASES, FIREFLY; LUMINESCENT MEASUREMENTS; PLASMIDS; POLYMERASE CHAIN REACTION; PROMOTER REGIONS (GENETICS); PSEUDOMONAS PUTIDA; RNA; TRANSCRIPTION FACTORS;

ESCHERICHIA COLI; PSEUDOMONAS;

EID: 10044223339     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2004.09.018     Document Type: Article

References (33)

1. M.A. Abril, M. Buck, and J.L. Ramos Activation of the Pseudomonas TOL plasmid upper pathway operon: identification of binding sites for the positive regulator XylR and for integration host factor protein J. Biol. Chem. 266 1991 5832 5838
2. 54-RNA polymerase to the Pu promoter of Pseudomonas putida: role of IHF and αCTD EMBO J. 17 1998 5120 5128
3. 70 promoters at the divergent Pr/Ps region of the TOL plasmid Mol. Microbiol. 27 1998 651 659
4. W.V. Cannon, M.T. Gallegos, and M. Buck Isomerization of a binary sigma-promoter DNA complex by transcription activators Nat. Struct. Biol. 7 2000 594 601
5. 54-promoter DNA complex J. Biol. Chem. 276 2001 386 394
6. A. Delgado, and J. Ramos Genetic evidence for activation of the positive transcriptional regulator XylR, a member of the NtrC family of regulators, by effector binding J. Biol. Chem. 269 1994 8059 8062
7. 54- dependent Pu promoter of TOL plasmid EMBO J. 10 1991 1159 1167
8. S. Fernández, V. Shingler, and V. de Lorenzo Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes J. Bacteriol. 176 1994 5052 5058
9. S. Fernández, V. de Lorenzo, and J. Pérez-Martín Activation of the transcriptional regulator XylR of Pseudomonas putida by release of repression between functional domains Mol. Microbiol. 16 1995 205 213
10. J. Garmendia, and V. de Lorenzo The role of the interdomain B linker in the activation of the XylR protein of Pseudomonas putida Mol. Microbiol. 38 2000 401 410
11. J. Garmendia, and V. de Lorenzo Visualization of DNA-protein intermediates during activation of the Pu promoter of the TOL plasmid of Pseudomonas putida Microbiology 146 2000 555 2563
12. D. Hanahan Studies on transformation on Escherichia coli with plasmid J. Mol. Biol. 166 1983 554 580
13. A. Keane, P. Phoenix, S. Ghoshal, and P.C.K. Lau Exposing culprit organic pollutants: a review J. Microbiol. Methods 49 2002 103 119
14. S. Marqués, M. Gallegos, M. Manzanera, A. Holtel, K.N. Timmis, and J. Ramos Activation and repression of transcription at the double tandem divergent promoters for the xylR and xylS genes of the TOL plasmid of Pseudomonas putida J. Bacteriol. 180 1998 2889 2894
15. 54-dependent activator DmpR J. Biol. Chem. 271 1996 17281 17283
16. A. North, K.E. Klose, K.M. Stedman, and S. Kustu Prokaryotic enhancer-binding proteins reflect eukaryote-like modularity: the puzzle of nitrogen regulatory protein C J. Bacteriol. 175 1993 4267 4273
17. 54- dependent regulator DmpR Mol. Microbiol. 28 1998 131 141
18. 54-dependent regulator DmpR J. Biol. Chem. 274 1999 32425 32432
19. 54-dependent regulator DmpR EMBO J. 20 2001 819 827
20. S.M. Park, H.H. Park, W.K. Lim, and H.J. Shin A new variant activator involved in the degradation of phenolic compounds from a strain of Pseudomonas putida J. Biotechnol. 103 2003 227 236
21. J. Pérez-Martín, and V. de Lorenzo The amino-terminal domain of the prokaryotic enhancer-binding protein XylR is a specific intramolecular repressor Proc. Natl. Acad. Sci. 92 1995 9392 9396
22. J. Pérez-Martín, and V. de Lorenzo Identification of the repressor subdomain within the signal reception module of the prokaryotic enhancer-binding protein XylR of Psudomonas putida J. Biol. Chem. 271 1996 7899 7902
23. J. Sambrook, E.F. Fritsch, and T. Maniatis Molecular Cloning: A Laboratory Manual third ed. 2001 Cold Spring Harbor Laboratory Cold Spring Harbor, New York
24. E. Santero, T.R. Hoover, A.K. North, D.K. Berger, S.C. Porter, and S. Kustu Role of integration host factor in stimulating transcription from the sigma 54-dependent nifH promoter J. Mol. Biol. 227 1992 602 620
25. 54-dependent regulators: depression as a control mechanism Mol. Microbiol. 19 1996 409 416
26. V. Shingler, and H. Pavel Direct activation of the ATPase activity of the transcriptional activator DmpR by aromatic compounds Mol. Microbiol. 17 1995 505 513
27. M.L. Simpson, G.S. Sayler, B.M. Applegate, S. Ripp, D.E. Nivens, M.J. Paulus, and G.E. Jellison Jr. Bioluminescence-reporter integrated circuits form novel whole-cell biosensors Trends Biotechnol. 16 1998 332 338
28. E. Skärfstad, E. O'Neill, J. Garmendia, and V. Shingler Identification of an effector specivicity subregion within the aromatic-responsive regulators DmpR and XylR by DNA shuffling J. Bacteriol. 182 2000 3008 3016
29. P.G. Stockley, A.J. Barton, C.M. Wild, I.D. Parsons, M.C. Miller, C.A.M. Holtham, and S. Baumber Dissecting the molecular details of prokaryotic transcriptional control by surface plasmon resonance: the methionine and arginine repressor proteins Biosens. Bioelectron. 13 1998 637 650
30. F.W. Studier, and B.A. Muffatt Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned gene J. Mol. Biol. 189 1986 113 130
31. 54-dependent systems: a common phenotype by different mechanisms J. Bacteriol. 184 2002 760 770
32. P. Wikström, E. O'Neill, L.C. Ng, and V. Shingler The regulatory N-terminal region of the aromatic-responsive transcriptional activator DmpR constrains nucleotide-triggered multimerisation J. Mol. Biol. 314 2001 971 984
33. B.M. Willardson, J.F. Wilkins, T.A. Rand, J.M. Schupp, K.K. Hill, P. Keim, and P.J. Jackson Development and testing of a bacterial biosensor for toluene-based environmental contaminants Appl. Environ. Microbiol. 64 1998 1006 1012