Sequence and expression of an isocitrate dehydrogenase-encoding gene from a polycyclic aromatic hydrocarbon oxidizer, Sphingomonas yanoikuyae B1

Gene

Volumn 168, Issue 1, 1996, Pages 15-21

  Wang, Ying ^a   Lau, Peter C K ^a  

^a NATIONAL RESEARCH COUNCIL CANADA   (Canada)

Author keywords

16S rDNA sequence; Beijerinckia; Codon usage; Gene conservation; Glucosamine synthetase; PAH; Pseudomonas paucimobilis; Tn5; Tn7 insertion

Indexed keywords

DNA FRAGMENT; ISOCITRATE DEHYDROGENASE; OXIDIZING AGENT; POLYCYCLIC AROMATIC HYDROCARBON; RIBOSOME DNA;

AMINO ACID SEQUENCE; ARTICLE; BACTERIUM; GENE EXPRESSION; GENE STRUCTURE; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PSEUDOMONAS; SEQUENCE HOMOLOGY;

EID: 0030034738     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/0378-1119(95)00732-6     Document Type: Article

References (23)

1. Amann, R.I., Ludwig, W. and Schleifer, K.-L.: Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59 (1995) 143-169.
2. Baev, N., Endre, G., Petrovics, G., Banfalvi, Z. and Kondorosi, A.: Six nodulation genes of nod box locus 4 in Rhizobium meliloti are involved in nodulation signal production: nodM codes for D-glucosamine synthetase. Mol. Gen. Genet. 228 (1991) 113-124.
3. Chen, R.D. and Gadal, P.: Structure, functions, and regulation of NAD and NADP dependent isocitrate dehydrogenases in higher plants and in other organisms. Plant Physiol. Biochem. 28 (1990) 411-427.
4. Craig, N.L.: Transposon Tn7. In: Berg, D.E. and Howe, M.M. (Eds.), Mobile DNA. American Society for Microbiology, Washington, DC, 1989, pp. 211-225.
5. Eikmanns, B.J., Rittmann, D. and Sahm, H.: Cloning, sequence analysis, expression, and inactivation of the Corynebacterium glutamicum icd gene encoding isocitrate dehydrogenase and biochemical characterization of the enzyme. J. Bacteriol. 177 (1995) 774-782.
6. Finette, B.A., Subramanian, V. and Gibson, D.T.: Isolation and characterization of Pseudomonas putida PpF1 mutants defective in the toluene dioxygenase enzyme system. J. Bacteriol. 160 (1984) 1003-1009.
7. Fredrickson, J.K., Balkwill, D.L., Drake, G.R., Romine, M.F., Ringelberg, D.B. and White. D.C.: Aromatic-degrading Sphingomonas isolates from the deep subsurface. Appl. Environ. Microbiol. 61 (1995) 1917-1922.
8. Furukawa, K., Simon, J.R. and Chakrabarty, A.M.: Common induction and regulation of biphenyl, xylene/toluene, and salicylate catabolism in Pseudomonas paucimobilis. J. Bacteriol. 154 (1983) 1356-1362.
9. Gibson, D.T., Roberts, R.L., Wells, M.C. and Kobal, V.M.: Oxidation of biphenyl by a Beijerinckia species. Biochem. Biophys. Res. Commun. 50 (1973) 211-219.
10. Gringauz, E., Orle, K.A., Waddell, C.S. and Craig, N. L.: Recognition of Escherichia coli attTn7 by transposon Tn7: lack of speciifc sequence requirements at the point of Tn7 insertion. J. Bacteriol. 170 (1988) 2832-2840.
11. Haselbeck, R.J., Colman, R.F. and McAlister-Henn, L.: Isolation and sequence of a cDNA encoding porcine mitochondrial NADP-specific isocitrate dehydrogenase. Biochemistry 31 (1992) 6219-6223.
12. Kuhm, A.E., Stolz, A. and Knackmuss, H.-J.: Metabolism of naphthalene by the biphenyl-degrading bacterium Pseudomonas paucimobilis Q1. Biodegradation 2 (1991) 115-120.
13. +-dependent isocitrate dehydrogenase from Escherichia coli. Biochemistry 34 (1995) 378-384.
14. Mueller, J.G., Chapman, P.J., Blattmann, B.O. and Pritchard, P.H.: Isolation and characterization of a fluoranthene-utilizing strain of Pseudomonas paucimobilis. Appl. Environ. Microbiol. 56 (1990) 1079-1086.
15. +-specific isocitrate dehydrogenases from an obligately psychrophilic marine bacterium, Vibrio sp., strain ABE-1. J. Biochem. 86 (1979) 377-384.
16. Sambrook, J., Fritsch, E.F. and Maniatis, T.: Molecular Cloning. A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, 1989.
17. Takeuchi, M., Sawada, H., Oyaizu, H. and Yokota, A.: Phylogenetic evidence for Sphingomonas and Rhizomonas as nonphotosynthetic members of the alpha-4 subclass of the Proteobacteria. Int. J. Syst. Bacteriol. 44 (1994) 308-314.
18. Vieira, J. and Messing, J.: The pUC plasmids, an M13mp7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene 19 (1982) 259-268.
19. Wada, K., Aota, S., Tsuchiya, R., Ishibashi, F., Gojobori, T. and Ikemura, T.: Codon usage tabulated from the GenBank genetic sequence data. Nucleic Acids Res. 18 (1990) 2367-2411.
20. Wang, Y., Rawlings, M., Gibson, D.T., Labbé, D., Bergeron, H., Brousseau, R. and Lau, P.C.K.: Identification of a membrane protein and a truncated LysR-type regulator associated with the toluene degradation pathway in Pseudomonas putida F1. Mol. Gen. Genet. 246 (1995) 570-579.
21. Wu, H.C. and Wu, T.C.: Isolation and characterization of a glucosamine-requiring mutant of Escherichia coli K12 defective in glucosamine-6-phosphate synthetase. J. Bacteriol. 105 (1971) 455-466.
22. Yabuuchi, E., Yano, I., Oyaizu, H., Hashimoto, Y., Ezaki, T. and Yamamoto, H.: Proposals of Sphingomonas paucimobilis gen. nov. and comb, nov., Sphingomonas parapancimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb, nov., and two genospecies of the genus Sphingomonas. Microbiol. Immunol. 34 (1990) 99-119.
23. Youvan, D.C., Elder, J.T., Sandlin, D.E., Zsebo, K., Alder, D.P., Panopoulous, N.J., Marrs, B.L. and Hearst, J.E.: R-prime sitedirected transposon Tn7 mutagenesis of the photosynthetic apparatus in Rhodopseitdomonas capsulata. J. Mol. Biol. 162 (1982) 17-41.