Characterization of Transcriptional Regulatory Genes for Biphenyl Degradation in Rhodococcus sp. Strain RHA1

Journal of Bacteriology

Volumn 186, Issue 7, 2004, Pages 2134-2146

  Takeda, Hisashi ^a   Yamada, Akihiro ^a   Miyauchi, Keisuke ^a   Masai, Eiji ^a   Fukuda, Masao ^a  

^a NAGAOKA UNIVERSITY OF TECHNOLOGY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ALKYLBENZENE; BENZENE; BIPHENYL DERIVATIVE; ETHYLBENZENE; POLYCHLORINATED BIPHENYL; PROTEIN KINASE;

ARTICLE; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM MUTANT; GENE INSERTION; GENE ISOLATION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; PRIORITY JOURNAL; PROMOTER REGION; REGULATOR GENE; REGULATORY MECHANISM; REPORTER GENE; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RHODOCOCCUS; RHODOCOCCUS ERYTHROPOLIS; SEQUENCE ANALYSIS; TRANSCRIPTION INITIATION;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BASE SEQUENCE; BIODEGRADATION, ENVIRONMENTAL; BIPHENYL COMPOUNDS; GENE EXPRESSION REGULATION, BACTERIAL; IRON-SULFUR PROTEINS; MOLECULAR SEQUENCE DATA; OXYGENASES; PROMOTER REGIONS (GENETICS); RHODOCOCCUS; SEQUENCE ANALYSIS, DNA; SIGNAL TRANSDUCTION; TRANSCRIPTION, GENETIC;

ACTINOBACTERIA (CLASS); BACTERIA (MICROORGANISMS); INSERTION SEQUENCES; PROKARYOTA; RHODOCOCCUS; RHODOCOCCUS ERYTHROPOLIS; RHODOCOCCUS SP.; UNCULTURED ACTINOMYCETE;

EID: 1642370443     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.186.7.2134-2146.2004     Document Type: Article

References (38)

1. Achong, G. R., A. M. Rodriguez, and A. M. Spormann. 2001. Benzylsuccinate synthase of Azoarcus sp. strain T: cloning, sequencing, transcriptional organization, and its role in anaerobic toluene and m-xylene mineralization. J. Bacteriol. 183:6763-6770.
2. Ahmad, D., R. Masse, and M. Sylvestre. 1990. Cloning and expression of genes involved in 4-chlorobiphenyl transformation by Pseudomonas testosteroni: homology to polychlorobiphenyl-degrading genes in other bacteria. Gene 86:53-61.
3. Beltrametti, F., D. Reniero, S. Backhaus, and B. Hofer. 2001. Analysis of transcription of the bph locus of Burkholderia sp. strain LB400 and evidence that the ORF0 gene product acts as a regulator of the bphA1 promoter. Microbiology 147:2169-2182.
4. Coschigano, P. W., and L. Y. Young. 1997. Identification and sequence analysis of two regulatory genes involved in anaerobic toluene metabolism by strain T1. Appl. Environ. Microbiol. 63:652-660.
5. De Mot, R., I. Nagy, A. De Schrijver, P. Pattanapipitpaisal, G. Schoofs, and J. Vanderleyden. 1997. Structural analysis of the 6 kb cryptic plasmid pFAJ2600 from Rhodococcus erythropolis NI86/21 and construction of Escherichia coli-Rhodococcus shuttle vectors. Microbiology 143:3137-3147.
6. Furukawa, K., and A. M. Chakrabarty. 1982. Involvement of plasmids in total degradation of chlorinated biphenyls. Appl. Environ. Microbiol. 44: 619-626.
7. Grebe, T. W., and J. B. Stock. 1999. The histidine protein kinase superfamily. Adv. Microb. Physiol. 41:139-227.
8. Hanks, S. K., and T. Hunter. 1995. Protein kinases. 6. The eukaryotic protein kinase superfamily: kinase (catalytic) domain structure and classification. FASEB J. 9:576-596.
9. Hashimoto, Y., M. Nishiyama, F. Yu, I. Watanabe, S. Horinouchi, and T. Beppu. 1992. Development of a host-vector system in a Rhodococcus strain and its use for expression of the cloned nitrile hydratase gene cluster. J. Gen. Microbiol. 138:1003-1010.
10. Hauschild, J. E., E. Masai, K. Sugiyama, T. Hatta, K. Kimbara, M. Fukuda, and K. Yano. 1996. Identification of an alternative 2,3-dihydroxybiphenyl 1,2-dioxygenase in Rhodococcus sp. strain RHA1 and cloning of the gene. Appl. Environ. Microbiol. 62:2940-2946.
11. Hofer, B., S. Backhaus, and K. N. Timmis. 1994. The biphenyl/polychlorinated biphenyl-degradation locus (bph) of Pseudomonas sp. LB400 encodes four additional metabolic enzymes. Gene 144:9-16.
12. Kikuchi, Y., Y. Yasukochi, Y. Nagata, M. Fukuda, and M. Takagi. 1994. Nucleotide sequence and functional analysis of the meta-cleavage pathway involved in biphenyl and polychlorinated biphenyl degradation in Pseudomonas sp. strain KKS102. J. Bacteriol. 176:4269-4276.
13. Kimbara, K., T. Hashimoto, M. Fukuda, T. Koana, M. Takagi, M. Oishi, and K. Yano. 1989. Cloning and sequencing of two tandem genes involved in degradation of 2,3-dihydroxybiphenyl to benzoic acid in the polychlorinated biphenyl-degrading soil bacterium Pseudomonas sp. strain KKS102. J. Bacteriol. 171:2740-2747.
14. Kitagawa, W., A. Suzuki, T. Hoaki, E. Masai, and M. Fukuda. 2001. Multiplicity of aromatic ring hydroxylation dioxygenase genes in a strong PCB degrader, Rhodococcus sp. strain RHA1, demonstrated by denaturing gradient gel electrophoresis. Biosci. Biotechnol. Biochem. 65:1907-1911.
15. Labbé, D., J. Garnon, and P. C. Lau. 1997. Characterization of the genes encoding a receptor-like histidine kinase and a cognate response regulator from a biphenyl/polychlorobiphenyl-degrading bacterium, Rhodococcus sp. strain M5. J. Bacteriol. 179:2772-2776.
16. Lau, P. C., Y. Wang, A. Patel, D. Labbé, H. Bergeron, R. Brousseau, Y. Konishi, and M. Rawlings. 1997. A bacterial basic region leucine zipper histidine kinase regulating toluene degradation. Proc. Natl. Acad. Sci. 94: 1453-1458.
17. Leoni, L., P. Ascenzi, A. Bocedi, G. Rampioni, L. Castellini, and E. Zennaro. 2003. Styrene-catabolism regulation in Pseudomonas fluorescens ST: phosphorylation of StyR induces dimerization and cooperative DNA-binding. Biochem. Biophys. Res. Commun. 303:926-931.
18. Leuthner, B., and J. Heider. 1998. A two-component system involved in regulation of anaerobic toluene metabolism in Thauera aromatica. FEMS Microbiol. Lett. 166:35-41.
19. Masai, E., K. Sugiyama, N. Iwashita, S. Shimizu, J. E. Hauschild, T. Hatta, K. Kimbara, K. Yano, and M. Fukuda. 1997. 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. strain RHA1. Gene 187:141-149.
20. Masai, E., A. Yamada, J. M. Healy, T. Hatta, K. Kimbara, M. Fukuda, and K. Yano. 1995. Characterization of biphenyl catabolic genes of gram-positive polychlorinated biphenyl degrader Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 61:2079-2085.
21. Mondello, F. J. 1989. Cloning and expression in Escherichia coli of Pseudomonas strain LB400 genes encoding polychlorinated biphenyl degradation. J. Bacteriol. 171:1725-1732.
22. Mosqueda, G., M. I. Ramos-Gonzalez, and J. L. Ramos. 1999. Toluene metabolism by the solvent-tolerant Pseudomonas putida DOT-T1 strain, and its role in solvent impermeabilization. Gene 232:69-76.
23. Mouz, S., C. Merlin, D. Springael, and A. Toussaint. 1999. A GntR-like negative regulator of the biphenyl degradation genes of the transposon Tn4371. Mol. Gen. Genet. 262:790-799.
24. Ohtsubo, Y., M. Delawary, K. Kimbara, M. Takagi, A. Ohta, and Y. Nagata. 2001. BphS, a key transcriptional regulator of bph genes involved in polychlorinated biphenyl/biphenyl degradation in Pseudomonas sp. KKS102. J. Biol. Chem. 276:36146-36154.
25. Olsson, O., C. Koncz, and A. A. Szalay. 1988. The use of the luxA gene of the bacterial luciferase operon as a reporter gene. Mol. Gen. Genet. 215:1-9.
26. Parkinson, J. S., and E. C. Kofoid. 1992. Communication modules in bacterial signaling proteins. Annu. Rev. Genet. 26:71-112.
27. Ramos-Gonzalez, M. I., M. Olson, A. A. Gatenby, G. Mosqueda, M. Manzanera, M. J. Campos, S. Vichez, and J. L. Ramos. 2002. Cross-regulation between a novel two-component signal transduction system for catabolism of toluene in Pseudomonas mendocina and the TodST system from Pseudomonas putida. J. Bacteriol. 184:7062-7067.
28. Sakai, M., E. Masai, H. Asami, K. Sugiyama, K. Kimbara, and M. Fukuda. 2002. Diversity of 2,3-dihydroxybiphenyl dioxygenase genes in a strong PCB degrader, Rhodococcus sp. RHA1. J. Biosci. Bioeng. 93:421-427.
29. Sakai, M., K. Miyauchi, N. Kato, E. Masai, and M. Fukuda. 2003. 2-Hydroxypenta-2,4-dienoate metabolic pathway genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 69:427-433.
30. Seto, M., K. Kimbara, M. Shimura, T. Hatta, M. Fukuda, and K. Yano. 1995. A novel transformation of polychlorinated biphenyls by Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 61:3353-3358.
31. Seto, M., E. Masai, M. Ida, T. Hatta, K. Kimbara, M. Fukuda, and K. Yano. 1995. Multiple polychlorinated biphenyl transformation systems in the gram-positive bacterium Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 61:4510-4513.
32. Shimizu, S., H. Kobayashi, E. Masai, and M. Fukuda. 2001. Characterization of the 450-kb linear plasmid in a polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 67:2021-2028.
33. Shingler, V., M. Bartilson, and T. Moore. 1993. Cloning and nucleotide sequence of the gene encoding the positive regulator (DmpR) of the phenol catabolic pathway encoded by pVI150 and identification of DmpR as a member of the NtrC family of transcriptional activators. J. Bacteriol. 175: 1596-1604.
34. Stock, A. M., V. L. Robinson, and P. N. Goudreau. 2000. Two-component signal transduction. Annu. Rev. Biochem. 69:183-215.
35. Stock, J. B., A. J. Ninfa, and A. M. Stock. 1989. Protein phosphorylation and regulation of adaptive responses in bacteria. Microbiol. Rev. 53:450-490.
36. Velasco, A., S. Alonso, J. L. Garcia, J. Perera, and E. Diaz. 1998. Genetic and functional analysis of the styrene catabolic cluster of Pseudomonas sp. strain Y2. J. Bacteriol. 180:1063-1071.
37. Watanabe, T., R. Inoue, N. Kimura, and K. Furukawa. 2000. Versatile transcription of biphenyl catabolic bph operon in Pseudomonas pseudoalcaligenes KF707. J. Biol. Chem. 275:31016-31023.
38. Yamada, A., H. Kishi, K. Sugiyama, T. Hatta, K. Nakamura, E. Masai, and M. Fukuda. 1998. Two nearly identical aromatic compound hydrolase genes in a strong polychlorinated biphenyl degrader, Rhodococcus sp. strain RHA1. Appl. Environ. Microbiol. 64:2006-2012.