Cloning, sequence and expression of a linear plasmid-based and a chromosomal homolog of chloroacetaldehyde dehydrogenase-encoding genes in Xanthobacter autotrophicus GJ10

Gene

Volumn 207, Issue 1, 1998, Pages 9-18

  Bergeron, Hélène ^a   Labbé, Diane ^a   Turmel, Chantal ^a,b   Lau, Peter C K ^a  

^a NATIONAL RESEARCH COUNCIL CANADA   (Canada)

^b PDI BioScience Inc   (Canada)

Author keywords

54 dependent promoter; Aldehyde dehydrogenase evolution; Biodegradation; Chlorinated aliphatic hydrocarbon; Dehalogenase; Pulsed field gel electrophoresis

Indexed keywords

ALDEHYDE DEHYDROGENASE; CHLOROACETALDEHYDE;

AMINO ACID SEQUENCE; ARTICLE; CLONING; ESCHERICHIA COLI; GEL ELECTROPHORESIS; GENE EXPRESSION; GENE SEQUENCE; GENETIC RECOMBINATION; HYBRID; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROMOTER REGION; XANTHOBACTER;

ACETALDEHYDE; ALDEHYDE DEHYDROGENASE; AMINO ACID SEQUENCE; BASE SEQUENCE; BIODEGRADATION, ENVIRONMENTAL; CARBOXY-LYASES; CLONING, MOLECULAR; ESCHERICHIA COLI; GENE EXPRESSION; GENES, BACTERIAL; GRAM-NEGATIVE AEROBIC RODS AND COCCI; MOLECULAR SEQUENCE DATA; PLASMIDS; PROMOTER REGIONS (GENETICS);

EID: 0032545706     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(97)00598-2     Document Type: Article

References (47)

1. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 215:1990;403-410.
2. Birren, B., Lai, E., 1993. Pulsed field gel electrophoresis. A Practical Guide. Academic Press, San Diego, CA.
3. Buck M., Miller S., Drummond M., Dixon R. Upstream activator sequences are present in the promoters of nitrogen fixation genes. Nature. 320:1986;374-378.
4. Collado-Vides J., Magasanik B., Gralla J.D. Control site location and transcriptional regulation in Escherichia coli. Microbiol. Rev. 55:1991;371-394.
5. Corpet F. Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res. 16:1988;10881-10890.
6. Craig N.L., Nash H.A. E. coli integration host factor binds to specific sites in DNA. Cell. 39:1984;707-716.
7. Dabrock B., Kebeler M., Averhoff B., Gottschalk G. Identification and characterization of a transmissible linear plasmid from Rhodococcus erythropolis BD2 that encodes isopropylbenzene and trichloroethene catabolism. Appl. Environ. Microbiol. 60:1994;853-860.
8. Dosanjh M.K., Chenna A., Kim E., Fraenkel-Conrat H., Samson L., Singer B. All four known cyclic adducts formed in DNA by the vinyl chloride metabolite chloroacetaldehyde are released by a human DNA glycosylase. Proc. Natl. Acad. Sci USA. 91:1994;1024-1028.
9. Ferdows M.S., Barbour G. Megabase-sized linear DNA in the bacterium Borrelia burgdorferi, the Lyme disease agent. Proc. Natl. Acad. Sci. USA. 86:1989;5969-5973.
10. Hempel J., Kaiser R., Jornvall H. Mitochondrial aldehyde dehydrogenase from human liver: Primary structure, differences in relation to the cytosolic enzyme, and functional correlations. Eur. J. Biochem. 153:1985;13-28.
11. Hempel J., Nicholas H., Lindahl R. Aldehyde dehydrogenases: widespread structural and functional diversity within a shared framework. Prot. Sci. 2:1993;1890-1900.
12. Hopwood, D.A., Bibb, M.J., Ward, J.M., Westpheling, J., 1979. Plasmids in Streptomyces coelicolor and related species. In: Timmis, K.N., Puhler, A. (Eds.), Plasmids of Medical, Environmental and Commercial Importance. Elsevier/North Holland Biomedical Press, Amsterdam, pp. 245-258.
13. Janssen D.B., Keuning S., Witholt B. Involvement of a quinoprotein alcohol dehydrogenase and an NAD-dependent aldehyde dehydrogenase in 2-chloroethanol metabolism in Xanthobacter autotrophicus GJ10. J. Gen. Microbiol. 133:1987;85-92.
14. Janssen D.B., Pries F., van der Ploeg J., Kazemier B., Terpstra P., Witholt B. Cloning of 1,2-dichloroethane degradation genes of Xanthobacter autotrophicus GJ10 and expression and sequencing of the dhlA gene. J. Bacteriol. 171:1989;6791-6799.
15. Janssen, D.B., Oldenhuis, R., van den Wijngaard, A.J. 1989b. Hydrolytic and oxidative degradation of chlorinted aliphatic compounds by aerobic microorganisms. In: Kamely, D., Chakrabarty, A., Omenn, G.S. (Eds.), Advances in Applied Biotechnology Series. Gulf, Houston, Vol. 4, pp. 105-125.
16. Janssen D.B., Pries F., van der Ploeg J.R. Genetics and biochemistry of dehalogenating enzymes. Annu. Rev. Microbiol. 48:1994;163-191.
17. Kahn, M., Kolter, R., Thomas, C., Figurski, D., Myer, R., Remaut, E., Helinski, D.R., 1979. Plasmid cloning vehicles derived from plasmids ColE1, F, R6K and RK2. In: Wu, R. (Ed.), Methods in Enzymology. Academic Press, New York, Vol. 68, pp. 268-280.
18. Kauc L., Mitchell M., Goodgal S.H. Size and physical map of the chromosome of Haemophilus influenzae. J. Bacteriol. 171:1989;2474-2479.
19. Kinashi H., Shimaji M., Sakai A. Giant linear plasmids in Streptomyces which code for antibiotic biosynthesis genes. Nature. 328:1987;454-456.
20. Kok M., Oldenhuis R., van der Linden M.P.G., Meulenberger C.H.C., Kingma J., Witholt B. The Pseudomonas oleovorans alkBAC operon encodes two structurally related rubredoxins and an aldehyde dehydrogenase. J. Biol. Chem. 264:1989;5442-5450.
21. Krüger N., Steinbüchel A. Identification of acoR, a regulatory gene for the expression of genes essential for acetoin catabolism in Alcaligenes eutrophus H16. J. Bacteriol. 174:1992;4391-4400.
22. Krüger N., Oppermann F.B., Lorenzl H., Steinbüchel A. Biochemical and molecular characterization of the Clostridium magnum acetoin dehydrogenase enzyme system. J. Bacteriol. 176:1994;3614-3630.
23. Krzywicki K.A., Brandriss M.C. Primary structure of the nuclear PUT2 gene involved in the mitochondrial pathway for proline utilization in Saccharomyces cerevisiae. Mol. Cell. Biol. 4:1984;2837-2842.
24. 54 (ntrA)-dependent genes is probably united by a common mechanism. Microbiol. Rev. 53:1989;367-376.
25. Kustu S., North A.N., Weiss D.S. Prokaryotic transcriptional enhancers and enhancer-binding proteins. Trends Biochem. Sci. 16:1991;397-402.
26. Lindahl R. Aldehyde dehydrogenases and their role in carcinogenesis. Crit. Rev. Biochem. M. Mol. Biol. 27:1992;283-335.
27. Liu Z.-J., Sun Y.-J., Rose J., Chung Y.-J., Hsiao C.-D., Chang W.-R., Kuo I., Perozich J., Lindahl R., Hempel J., Wang B.-W. The first structure of an aldehyde dehydrogenase reveals novel interactions between NAD and the Rossmann fold. Nature Struct. Biol. 4:1997;317-326.
28. McCann J., Simmon V., Streitwieser D., Ames B.N. Mutagenicity of chloroacetaldehyde, a possible metabolite product of 1,2-dichloroethane (ethylene dichloride) chloroethanol (ethylene chlorohydrine), vinyl chloride and cyclophosphamide. Proc. Natl. Acad. Sci. USA. 72:1975;3190-3193.
29. Masai E., Sugiyama K., Iwashita N., Shimizu S., Hauschild J.E., Hatta T., Kimbara K., Yano K., Fukuda M. The bphDEF meta-cleavage pathway genes involved in biphenyl/polychlorinated biphenyl degradation are located on a linear plasmid and separated from the initial bphACB genes in Rhodococcus sp. strains RHA1. Gene. 187:1997;141-149.
30. Nagy I., Schoofs G., Compernolle F., Proost P., Vanderleyden J., de Mot R. Degradation of the thiocarbamate herbicide EPTC (S-Ethyldipropylcarbamothionate) and biosafening by Rhodococcus sp. strain NI86/21 involve an inducible cytochrome P-450 system and aldehyde dehydrogenase. J. Bacteriol. 177:1995;676-687.
31. Neilson A.H. The biodegradation of halogenated organic compounds. J. Appl. Bacteriol. 69:1990;445-470.
32. O'Connell M.J., Kelly J.M. Physical characterization of the aldehyde-dehydrogenase- encoding gene of Aspergillus niger. Gene. 84:1989;173-180.
33. Parsot C., Mekalanos J.J. Expression of the Vibrio cholerae gene encoding aldehyde dehydrogenase is under control of ToxR, the cholera toxin transcriptional activator. J. Bacteriol. 173:1991;2842-2851.
34. Priefert H., Krüger N., Jendrossek D., Schmidt B., Steinbüchel A. Identification and molecular characterization of the gene coding for acetaldehyde dehydrogenase II (acoD) of Alcaligenes eutrophus. J. Bacteriol. 174:1992;899-907.
35. Reichardt J.K.V., Berg P. Conservation of short patches of amino acid sequence amongst proteins with a common function but evolutionary distinct origins: implications for cloning genes and for structure-function analysis. Nucleic Acids Res. 16:1988;9017-9026.
36. Sambrook, J., Fritsch, E.F., Maniatis, T., 1989. Molecular Cloning. A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
37. Tabor, S., 1990. Expression using the T7 RNA polymerase/promoter system. In: Ausubel, F.A., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A., Struhl, K. (Eds.), Current Protocols in Molecular Biology. Greene Publishing and Wiley-Interscience, New York, pp. 16.2.1-16.2.11.
38. Tardif G., Greer C.W., Labbé D., Lau P.C.K. Involvement of a large plasmid in the degradation of 1,2-dichloroethane by Xanthobacter autotrophicus. Appl. Environ. Microbiol. 57:1991;1853-1857.
39. Thöny B., Hennecke H. The -24/-12 promoter comes of age. FEMS Microbiol. Rev. 63:1989;341-358.
40. Turmel, C., Brassard, E., Forsyth, R., Hood, K., Slater, G.W., Noolandi, J., 1989. High- resolution zero-integrated field electrophoresis of DNA. In: Lai, E., Birren, R. (Eds.), Electrophoresis of Large DNA Molecules: Theory and Applications. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 101-132.
41. van der Ploeg J., van Hall G., Janssen D.B. Characterization of the haloacid dehalogenase from Xanthobacter autotrophicus GJ10 and sequencing of the dhlB gene. J. Bacteriol. 173:1991;7925-7933.
42. van der Ploeg J., Smidt M.P., Landa A.S., Janssen D.B. Identification of chloroacetaldehyde dehydrogenase involved in 1,2-dichloroethane degradation. Appl. Environ. Microbiol. 60:1994;1599-1605.
43. Vierra J., Messing J. The pUC plasmid, an M13mp7-derived system for insertional mutagenesis and sequencing with synthetic universal primers. Gene. 19:1982;259-268.
44. Wallace, W.H., Sayler, G.S., 1992. Catabolic plasmids in the environment. In: Lederberg, J. (Ed.), Encyclopedia of Microbiology. Academic Press, New York, Vol. 1, pp 417-430.
45. Wootten J.C., Drummond M. The Q-linker: a class of interdomain sequences found in bacterial multidomain regulatory proteins. Prot. Eng. 2:1989;535-543.
46. Xu J., Johnson R.C. aldB, an RpoS-dependent gene in Escherichia coli encoding an aldehyde dehydrogenase that is repressed by Fis and activated by Crp. J. Bacteriol. 177:1995;3166-3175.
47. Yanisch-Perron C., Vieira J., Messing J. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene. 33:1989;103-119.