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Volumn 157, Issue 12, 2011, Pages 3405-3416

DNA rearrangement has occurred in the carbazole-degradative plasmid pCAR1 and the chromosome of its unsuitable host, Pseudomonas fluorescens Pf0-1

Author keywords

[No Author keywords available]

Indexed keywords

CARBAZOLE DERIVATIVE; PLASMID DNA;

EID: 82555175383     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.053280-0     Document Type: Article
Times cited : (8)

References (38)
  • 2
    • 0019805971 scopus 로고
    • Specific-purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas
    • Bagdasarian, M., Lurz, R., Rückert, B., Franklin, F. C., Bagdasarian, M. M., Frey, J. & Timmis, K. N. (1981). Specific-purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas. Gene 16, 237-247
    • (1981) Gene , vol.16 , pp. 237-247
    • Bagdasarian, M.1    Lurz, R.2    Rückert, B.3    Franklin, F.C.4    Bagdasarian, M.M.5    Frey, J.6    Timmis, K.N.7
  • 5
    • 0023696644 scopus 로고
    • Survival of rifampin-resistant mutants of Pseudomonas fluorescens and Pseudomonas putida in soil systems
    • Compeau, G., Al-Achi, B. J., Platsouka, E. & Levy, S. B. (1988). Survival of rifampin-resistant mutants of Pseudomonas fluorescens and Pseudomonas putida in soil systems. Appl Environ Microbiol 54, 2432-2438
    • (1988) Appl Environ Microbiol , vol.54 , pp. 2432-2438
    • Compeau, G.1    Al-Achi, B.J.2    Platsouka, E.3    Levy, S.B.4
  • 6
    • 85158006363 scopus 로고    scopus 로고
    • The movement of Tn3-like elements: Transposition and cointegrate resolution
    • Edited by L. N. Craig & others. Washington, DC: American Society for Microbiology
    • Grindley, N. D. F. (2002). The movement of Tn3-like elements: transposition and cointegrate resolution. In Mobile DNA II, pp. 272-302. Edited by L. N. Craig & others. Washington, DC: American Society for Microbiology.
    • (2002) Mobile DNA II , pp. 272-302
    • Grindley, N.D.F.1
  • 7
    • 0029795374 scopus 로고    scopus 로고
    • The β-ketoadipate pathway and the biology of self-identity
    • Harwood, C. S. & Parales, R. E. (1996). The β-ketoadipate pathway and the biology of self-identity. Annu Rev Microbiol 50, 553-590
    • (1996) Annu Rev Microbiol , vol.50 , pp. 553-590
    • Harwood, C.S.1    Parales, R.E.2
  • 8
    • 34248331256 scopus 로고    scopus 로고
    • Target site selection of Pseudomonas putida transposon Tn4652
    • Kivistik, P. A., Kivisaar, M. & Hõrak, R. (2007). Target site selection of Pseudomonas putida transposon Tn4652. J Bacteriol 189, 3918-3921
    • (2007) J Bacteriol , vol.189 , pp. 3918-3921
    • Kivistik, P.A.1    Kivisaar, M.2    Hõrak, R.3
  • 10
    • 46049100383 scopus 로고    scopus 로고
    • Transcription factors CysB and SfnR constitute the hierarchical regulatory system for the sulfate starvation response in Pseudomonas putida
    • Kouzuma, A., Endoh, T., Omori, T., Nojiri, H., Yamane, H. & Habe, H. (2008). Transcription factors CysB and SfnR constitute the hierarchical regulatory system for the sulfate starvation response in Pseudomonas putida. J Bacteriol 190, 4521-4531
    • (2008) J Bacteriol , vol.190 , pp. 4521-4531
    • Kouzuma, A.1    Endoh, T.2    Omori, T.3    Nojiri, H.4    Yamane, H.5    Habe, H.6
  • 11
    • 0028793123 scopus 로고
    • Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes
    • Kovach, M. E., Elzer, P. H., Hill, D. S., Robertson, G. T., Farris, M. A., Roop, R. M., II & Peterson, K. M. (1995). Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic-resistance cassettes. Gene 166, 175-176
    • (1995) Gene , vol.166 , pp. 175-176
    • Kovach, M.E.1    Elzer, P.H.2    Hill, D.S.3    Robertson, G.T.4    Farris, M.A.5    Roop II, R.M.6    Peterson, K.M.7
  • 12
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li, H. & Durbin, R. (2009). Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 13
    • 0037423746 scopus 로고    scopus 로고
    • Complete nucleotide sequence of carbazole/dioxin-degrading plasmid pCAR1 in Pseudomonas resinovorans strain CA10 indicates its mosaicity and the presence of large catabolic transposon Tn4676
    • Maeda, K., Nojiri, H., Shintani, M., Yoshida, T., Habe, H. & Omori, T. (2003). Complete nucleotide sequence of carbazole/dioxin-degrading plasmid pCAR1 in Pseudomonas resinovorans strain CA10 indicates its mosaicity and the presence of large catabolic transposon Tn4676. J Mol Biol 326, 21-33
    • (2003) J Mol Biol , vol.326 , pp. 21-33
    • Maeda, K.1    Nojiri, H.2    Shintani, M.3    Yoshida, T.4    Habe, H.5    Omori, T.6
  • 15
    • 77952886150 scopus 로고    scopus 로고
    • Assembly algorithms for next-generation sequencing data
    • Miller, J. R., Koren, S. & Sutton, G. (2010). Assembly algorithms for next-generation sequencing data. Genomics 95, 315-327
    • (2010) Genomics , vol.95 , pp. 315-327
    • Miller, J.R.1    Koren, S.2    Sutton, G.3
  • 17
    • 0034981075 scopus 로고    scopus 로고
    • Genetic characterization and evolutionary implications of a car gene cluster in the carbazole degrader Pseudomonas sp. strain CA10
    • Nojiri, H., Sekiguchi, H., Maeda, K., Urata, M., Nakai, S., Yoshida, T., Habe, H. & Omori, T. (2001). Genetic characterization and evolutionary implications of a car gene cluster in the carbazole degrader Pseudomonas sp. strain CA10. J Bacteriol 183, 3663-3679
    • (2001) J Bacteriol , vol.183 , pp. 3663-3679
    • Nojiri, H.1    Sekiguchi, H.2    Maeda, K.3    Urata, M.4    Nakai, S.5    Yoshida, T.6    Habe, H.7    Omori, T.8
  • 18
    • 0031734340 scopus 로고    scopus 로고
    • Construction of improved plasmid vectors for promoter characterization in Pseudomonas aeruginosa and other Gram-negative bacteria
    • Rist, M. & Kertesz, M. A. (1998). Construction of improved plasmid vectors for promoter characterization in Pseudomonas aeruginosa and other Gram-negative bacteria. FEMS Microbiol Lett 169, 179-183
    • (1998) FEMS Microbiol Lett , vol.169 , pp. 179-183
    • Rist, M.1    Kertesz, M.A.2
  • 21
    • 0030744612 scopus 로고    scopus 로고
    • Identification and characterization of genes encoding carbazole 1,9a-dioxygenase in Pseudomonas sp. strain CA10
    • Sato, S. I., Nam, J. W., Kasuga, K., Nojiri, H., Yamane, H. & Omori, T. (1997). Identification and characterization of genes encoding carbazole 1,9a-dioxygenase in Pseudomonas sp. strain CA10. J Bacteriol 179, 4850-4858
    • (1997) J Bacteriol , vol.179 , pp. 4850-4858
    • Sato, S.I.1    Nam, J.W.2    Kasuga, K.3    Nojiri, H.4    Yamane, H.5    Omori, T.6
  • 22
    • 28444464825 scopus 로고    scopus 로고
    • Recipient range of IncP-7 conjugative plasmid pCAR2 from Pseudomonas putida HS01 is broader than from other Pseudomonas strains
    • a
    • Shintani, M., Habe, H., Tsuda, M., Omori, T., Yamane, H. & Nojiri, H. (2005a). Recipient range of IncP-7 conjugative plasmid pCAR2 from Pseudomonas putida HS01 is broader than from other Pseudomonas strains. Biotechnol Lett 27, 1847-1853
    • (2005) Biotechnol Lett , vol.27 , pp. 1847-1853
    • Shintani, M.1    Habe, H.2    Tsuda, M.3    Omori, T.4    Yamane, H.5    Nojiri, H.6
  • 23
    • 18844421873 scopus 로고    scopus 로고
    • Large plasmid pCAR2 and class II transposon Tn4676 are functional mobile genetic elements to distribute the carbazole/dioxin-degradative car gene cluster in different bacteria
    • b
    • Shintani, M., Yoshida, T., Habe, H., Omori, T. & Nojiri, H. (2005b). Large plasmid pCAR2 and class II transposon Tn4676 are functional mobile genetic elements to distribute the carbazole/dioxin-degradative car gene cluster in different bacteria. Appl Microbiol Biotechnol 67, 370-382
    • (2005) Appl Microbiol Biotechnol , vol.67 , pp. 370-382
    • Shintani, M.1    Yoshida, T.2    Habe, H.3    Omori, T.4    Nojiri, H.5
  • 24
    • 33646588646 scopus 로고    scopus 로고
    • Characterization of the replication, maintenance, and transfer features of the IncP-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin degradation
    • Shintani, M., Yano, H., Habe, H., Omori, T., Yamane, H., Tsuda, M. & Nojiri, H. (2006). Characterization of the replication, maintenance, and transfer features of the IncP-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin degradation. Appl Environ Microbiol 72, 3206-3216
    • (2006) Appl Environ Microbiol , vol.72 , pp. 3206-3216
    • Shintani, M.1    Yano, H.2    Habe, H.3    Omori, T.4    Yamane, H.5    Tsuda, M.6    Nojiri, H.7
  • 25
    • 36649000680 scopus 로고    scopus 로고
    • Conjugative transfer of the IncP-7 carbazole degradative plasmid, pCAR1, in river water samples
    • a
    • Shintani, M., Fukushima, N., Tezuka, M., Yamane, H. & Nojiri, H. (2008a). Conjugative transfer of the IncP-7 carbazole degradative plasmid, pCAR1, in river water samples. Biotechnol Lett 30, 117-122
    • (2008) Biotechnol Lett , vol.30 , pp. 117-122
    • Shintani, M.1    Fukushima, N.2    Tezuka, M.3    Yamane, H.4    Nojiri, H.5
  • 26
    • 50249099706 scopus 로고    scopus 로고
    • Behavior of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial environmental samples
    • b
    • Shintani, M., Matsui, K., Takemura, T., Yamane, H. & Nojiri, H. (2008b). Behavior of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial environmental samples. Appl Microbiol Biotechnol 80, 485-497
    • (2008) Appl Microbiol Biotechnol , vol.80 , pp. 485-497
    • Shintani, M.1    Matsui, K.2    Takemura, T.3    Yamane, H.4    Nojiri, H.5
  • 27
    • 78650037585 scopus 로고    scopus 로고
    • The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms
    • a
    • Shintani, M., Takahashi, Y., Yamane, H. & Nojiri, H. (2010a). The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms. Microbes Environ 25, 253-265
    • (2010) Microbes Environ , vol.25 , pp. 253-265
    • Shintani, M.1    Takahashi, Y.2    Yamane, H.3    Nojiri, H.4
  • 28
    • 77249100767 scopus 로고    scopus 로고
    • Behavior of various hosts of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial microcosms
    • b
    • Shintani, M., Yamane, H. & Nojiri, H. (2010b). Behavior of various hosts of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial microcosms. Biosci Biotechnol Biochem 74, 343-349
    • (2010) Biosci Biotechnol Biochem , vol.74 , pp. 343-349
    • Shintani, M.1    Yamane, H.2    Nojiri, H.3
  • 29
    • 79961090440 scopus 로고    scopus 로고
    • Evolution of the IncP-7 carbazole-degradative plasmid pCAR1 improves survival of its host Pseudomonas fluorescens Pf0-1 in artificial water microcosms
    • Shintani, M., Horisaki, T., Yamane, H., Ohkuma, M. & Nojiri, H. (2011). Evolution of the IncP-7 carbazole-degradative plasmid pCAR1 improves survival of its host Pseudomonas fluorescens Pf0-1 in artificial water microcosms. Microbiology 157, 2276-2286
    • (2011) Microbiology , vol.157 , pp. 2276-2286
    • Shintani, M.1    Horisaki, T.2    Yamane, H.3    Ohkuma, M.4    Nojiri, H.5
  • 31
    • 0021027842 scopus 로고
    • A broad host range mobilization system for in vivo genetic engineering: Transposon mutagenesis in Gram-negative bacteria
    • Simon, R., Priefer, U. & Pühler, A. (1983). A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in Gram-negative bacteria. Biotechnology 1, 784-791
    • (1983) Biotechnology , vol.1 , pp. 784-791
    • Simon, R.1    Priefer, U.2    Pühler, A.3
  • 32
    • 0032709116 scopus 로고    scopus 로고
    • Construction and characterization of regulated L-arabinoseinducible broad host range expression vectors in Xanthomonas
    • Sukchawalit, R., Vattanaviboon, P., Sallabhan, R. & Mongkolsuk, S. (1999). Construction and characterization of regulated L-arabinoseinducible broad host range expression vectors in Xanthomonas. FEMS Microbiol Lett 181, 217-223
    • (1999) FEMS Microbiol Lett , vol.181 , pp. 217-223
    • Sukchawalit, R.1    Vattanaviboon, P.2    Sallabhan, R.3    Mongkolsuk, S.4
  • 33
    • 67149128137 scopus 로고    scopus 로고
    • Carbazole-degradative IncP-7 plasmid pCAR1.2 is structurally unstable in Pseudomonas fluorescens Pf0-1, which accumulates catechol, the intermediate of the carbazole degradation pathway
    • a
    • Takahashi, Y., Shintani, M., Li, L., Yamane, H. & Nojiri, H. (2009a). Carbazole-degradative IncP-7 plasmid pCAR1.2 is structurally unstable in Pseudomonas fluorescens Pf0-1, which accumulates catechol, the intermediate of the carbazole degradation pathway. Appl Environ Microbiol 75, 3920-3929
    • (2009) Appl Environ Microbiol , vol.75 , pp. 3920-3929
    • Takahashi, Y.1    Shintani, M.2    Li, L.3    Yamane, H.4    Nojiri, H.5
  • 34
    • 65349135881 scopus 로고    scopus 로고
    • The complete nucleotide sequence of pCAR2: PCAR2 and pCAR1 were structurally identical IncP-7 carbazole degradative plasmids
    • b
    • Takahashi, Y., Shintani, M., Yamane, H. & Nojiri, H. (2009b). The complete nucleotide sequence of pCAR2: pCAR2 and pCAR1 were structurally identical IncP-7 carbazole degradative plasmids. Biosci Biotechnol Biochem 73, 744-746
    • (2009) Biosci Biotechnol Biochem , vol.73 , pp. 744-746
    • Takahashi, Y.1    Shintani, M.2    Yamane, H.3    Nojiri, H.4
  • 35
    • 4944257147 scopus 로고    scopus 로고
    • Transcriptional regulation of the ant operon, encoding two-component anthranilate 1,2-dioxygenase, on the carbazole-degradative plasmid pCAR1 of Pseudomonas resinovorans strain CA10
    • Urata, M., Miyakoshi, M., Kai, S., Maeda, K., Habe, H., Omori, T., Yamane, H. & Nojiri, H. (2004). Transcriptional regulation of the ant operon, encoding two-component anthranilate 1,2-dioxygenase, on the carbazole-degradative plasmid pCAR1 of Pseudomonas resinovorans strain CA10. J Bacteriol 186, 6815-6823
    • (2004) J Bacteriol , vol.186 , pp. 6815-6823
    • Urata, M.1    Miyakoshi, M.2    Kai, S.3    Maeda, K.4    Habe, H.5    Omori, T.6    Yamane, H.7    Nojiri, H.8
  • 36
    • 34247358195 scopus 로고    scopus 로고
    • Complete sequence determination combined with analysis of transposition/site-specific recombination events to explain genetic organization of IncP-7 TOL plasmid pWW53 and related mobile genetic elements
    • Yano, H., Garruto, C. E., Sota, M., Ohtsubo, Y., Nagata, Y., Zylstra, G. J., Williams, P. A. & Tsuda, M. (2007). Complete sequence determination combined with analysis of transposition/site-specific recombination events to explain genetic organization of IncP-7 TOL plasmid pWW53 and related mobile genetic elements. J Mol Biol 369, 11-26
    • (2007) J Mol Biol , vol.369 , pp. 11-26
    • Yano, H.1    Garruto, C.E.2    Sota, M.3    Ohtsubo, Y.4    Nagata, Y.5    Zylstra, G.J.6    Williams, P.A.7    Tsuda, M.8
  • 37
    • 77956548642 scopus 로고    scopus 로고
    • Complete nucleotide sequence of TOL plasmid pDK1 provides evidence for evolutionary history of IncP-7 catabolic plasmids
    • Yano, H., Miyakoshi, M., Ohshima, K., Tabata, M., Nagata, Y., Hattori, M. & Tsuda, M. (2010). Complete nucleotide sequence of TOL plasmid pDK1 provides evidence for evolutionary history of IncP-7 catabolic plasmids. J Bacteriol 192, 4337-4347
    • (2010) J Bacteriol , vol.192 , pp. 4337-4347
    • Yano, H.1    Miyakoshi, M.2    Ohshima, K.3    Tabata, M.4    Nagata, Y.5    Hattori, M.6    Tsuda, M.7
  • 38
    • 77956525898 scopus 로고    scopus 로고
    • Pmr, a histone-like protein H1 (H-NS) family protein encoded by the IncP-7 plasmid pCAR1, is a key global regulator that alters host function
    • others
    • Yun, C. S., Suzuki, C., Naito, K., Takeda, T., Takahashi, Y., Sai, F., Terabayashi, T., Miyakoshi, M., Shintani, M. & others (2010). Pmr, a histone-like protein H1 (H-NS) family protein encoded by the IncP-7 plasmid pCAR1, is a key global regulator that alters host function. J Bacteriol 192, 4720-4731.
    • (2010) J Bacteriol , vol.192 , pp. 4720-4731
    • Yun, C.S.1    Suzuki, C.2    Naito, K.3    Takeda, T.4    Takahashi, Y.5    Sai, F.6    Terabayashi, T.7    Miyakoshi, M.8    Shintani, M.9


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