Behavior of the IncP-7 carbazole-degradative plasmid pCAR1 in artificial environmental samples

Applied Microbiology and Biotechnology

Volumn 80, Issue 3, 2008, Pages 485-497

  Shintani, Masaki ^a   Matsui, Kazuhiro ^a,b   Takemura, Tetsuo ^b   Yamane, Hisakazu ^a   Nojiri, Hideaki ^a  

^a UNIVERSITY OF TOKYO   (Japan)

^b TOKYO UNIVERSITY OF SCIENCE   (Japan)

Author keywords

Carbazole; Conjugative transfer; IncP 7 plasmid; pCAR1

Indexed keywords

ATMOSPHERICS; BACTERIOLOGY; BIODEGRADATION; CALCIUM; DEGRADATION; SOILS; SULFATE MINERALS; WATER ANALYSIS;

AQUEOUS ENVIRONMENTS; ARTIFICIAL SOILS; ARTIFICIAL WATER; BACTERIAL SPECIES; CARBAZOLE; COMPOSITION ANALYSIS; CONJUGATIVE TRANSFER; DIVALENT CATIONS; ENVIRONMENTAL SAMPLES; ENVIRONMENTAL WATER SAMPLES; HIGH WATER CONTENT; INCP-7 PLASMID; KEY FACTORS; PCAR1; PSEUDOMONAS PUTIDA; TRANSCONJUGANTS; WATER SAMPLES;

WATER CONTENT;

CALCIUM; CARBAZOLE DERIVATIVE; HUMIC ACID; MAGNESIUM; WATER;

BACTERIUM; CATABOLISM; HUMIC ACID; PLASMID; SURVIVAL;

ARTICLE; BACTERIAL SURVIVAL; BACTERIUM; CATABOLISM; NONHUMAN; PLASMID; PSEUDOMONAS PUTIDA; SOIL; WATER SAMPLING;

BACTERIA; BIODEGRADATION, ENVIRONMENTAL; CARBAZOLES; CONJUGATION, GENETIC; PLASMIDS; PSEUDOMONAS PUTIDA; SOIL; SOIL MICROBIOLOGY; SOIL POLLUTANTS; WATER MICROBIOLOGY; WATER POLLUTANTS;

BACTERIA (MICROORGANISMS); PSEUDOMONAS; PSEUDOMONAS PUTIDA;

EID: 50249099706     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-008-1564-5     Document Type: Article

References (38)

1. I Aranda-Olmedo P Marín JL Ramos S Marqués 2006 Role of the ptsN gene product in catabolite repression of the Pseudomonas putida TOL toluene degradation pathway in chemostat cultures Appl Environ Microbiol 72 7418 7421
2. I Aranda-Olmedo JL Ramos S Marqués 2005 Integration of signals through Crc and PtsN in catabolite repression of Pseudomonas putida TOL plasmid pWW0 Appl Environ Microbiol 71 4191 4198
3. M Bagdasarian R Lurz B Ruckert FCH Franklin MM Bagdasarian J Frey KN Timmis 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
4. DP Cassidy S Efendiev M White 2000 A comparison of CSTR and SBR bioslurry reactor performance Water Res 34 4333 4342
5. SD Cosloy M Oishi 1973 Genetic transformation in Escherichia coli K12 Proc Natl Acad Sci USA 70 84 87
6. G Compeau BJ Al-Achi E Platsouka SB Levy 1988 Survival of rifampin-resistant mutants of Pseudomonas fluorescens and Pseudomonas putida in soil systems Appl Environ Microbiol 54 2432 2438
7. L De Gelder FP Vandecasteele CJ Brown LJ Forney EM Top 2005 Plasmid donor affects host range of promiscuous IncP-1beta plasmid pB10 in an activated-sludge microbial community Appl Environ Microbiol 71 5309 5317
8. W Dejonghe J Goris W El Fantroussi M Höfte P De Vos W Verstraete EM Top 2000 Effect of dissemination of 2,4-dichlorophenoxyacetic acid (2,4-D) degradation plasmids on 2,4-D degradation and on bacterial community structure in two different soil horizons Appl Environ Microbiol 66 3297 3304
9. JJ Dennis 2005 The evolution of IncP catabolic plasmids Curr Opin Biotechnol 16 291 298
10. S El Fantroussi SN Agathos 2005 Is bioaugmentation a feasible strategy for pollutant removal and site remediation? Curr Opin Microbiol 8 268 275
11. T Endoh K Kasuga M Horinouchi T Yoshida H Habe H Nojiri T Omori 2003 Characterization and identification of genes essential for dimethyl sulfide utilization in Pseudomonas putida strain DS1 Appl Microbiol Biotechnol 62 83 91
12. O Geisenberger A Ammendola BB Christensen S Molin KH Schleifer L Eberl 1999 Monitoring the conjugal transfer of plasmid RP4 in activated sludge and in situ identification of the transconjugants FEMS Microbiol Lett 174 9 17
13. K Ghosh M Schnitzer 1980 Macromolecular structures of humic substances Soil Sci 129 266 276
14. MW Gilmour NR Thomson M Sanders J Parkhill DE Taylor 2004 The complete nucleotide sequence of the resistance plasmid R478: defining the backbone components of incompatibility group H conjugative plasmids through comparative genomics Plasmid 52 182 202
15. M Harmann F Widmer 2008 Reliability for detecting composition and changes of microbial communities by T-RFLP genetic profiling FEMS Microbial Ecol 63 249 260
16. TY Izmalkova OI Sazonova SL Sokolov IA Kosheleva AM Boronin 2005 The P-7 incompatibility group plasmids responsible for biodegradation of naphthalene and salicylate in fluorescent Pseudomonads Microbiology (Pleiades publish) 74 342 348
17. TD Lawley MW Gilmour JE Gunton LJ Stamdevem DE Taylor 2002 Functional and mutational analysis of conjugative transfer region 1 (Tra1) from the IncHI1 plasmid R27 J Bacteriol 184 2173 2180
18. TD Lawley MW Gilmour JE Gunton DM Tracz DE Taylor 2003 Functional and mutational analysis of conjugative transfer region 2 (Tra2) from the IncHI1 plasmid R27 J Bacteriol 185 581 591
19. Lawley T, Wilkins MB, Frost LS (2004) Bacterial conjugation in gram-negative bacteria. In: Funnell E, Philips GJ (eds) Plasmid biology. ASM, Washington, DC, pp 203-226
20. K Maeda H Nojiri M Shintani T Yoshida H Habe T Omori 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
21. C Machón S Rivas A Albert FM Goñi F de la Cruz 2002 TrwD, the hexameric traffic ATPase encoded by plasmid R388, induces membrane destabilization and hemifusion of lipid vesicles J Bacteriol 184 1661 1668
22. KE Nelson C Weinel IT Paulsen RJ Dodson H Hilbert VA Martins dos Santos DE Fouts SR Gill M Pop M Holmes L Brinkac M Beanan RT DeBoy S Daugherty J Kolonay R Madupu W Nelson O White J Peterson H Khouri I Hance P Chris Lee E Holtzapple D Scanlan K Tran A Moazzez T Utterback M Rizzo K Lee D Kosack D Moestl H Wedler J Lauber D Stjepandic J Hoheisel M Straetz S Heim C Kiewitz JA Eisen KN Timmis A Düsterhöft B Tümmler CM Fraser 2002 Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440 Environ Microbiol 4 799 808
23. H Nojiri M Shintani T Omori 2004 Divergence of mobile genetic elements involved in the distribution of xenobiotic-catabolic capacity Appl Microbiol Biotechnol 64 154 174
24. Ogawa N, Chakrabarty AM, Zaborina O (2004) Degradative plasmids. In: Funnell E Philips GJ (ed) Plasmid biology. ASM, Washington, DC, pp 341-376
25. N Ouchiyama Y Zhang T Omori T Kodama 1993 Biodegradation of carbazole by Pseudomonas spp. CA06 and CA10 Biosci Biotechnol Biochem 57 455 460
26. Y Ohtsubo H Goto Y Nagata T Kudo M Tsuda 2006 Identification of a response regulator gene for catabolite control from a PCB-degrading beta-proteobacteria, Acidovorax sp. KKS102 Mol Microbiol 60 1563 1575
27. MI Ramos-Gonzalez E Duque JL Ramos 1991 Conjugational transfer of recombinant DNA in cultures and in soils: host range of Pseudomonas putida TOL plasmids Appl Environ Microbiol 57 3020 3027
28. JL Ramos MM González-Pérez A Caballero P van Dillewijn 2005 Bioremediation of polynitrated aromatic compounds: plants and microbes put up a fight Curr Opin Biotechnol 16 275 281
29. MC Ronchel MA Ramos-Díaz JL Ramos 2000 Retrotransfer of DNA in the rhizosphere Environ Microbiol 2 319 323
30. Sambrook J, Russell DW (2001) Molecular cloning: a laboratory manual, 3rd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
31. YR Sevastsyanovich MA Titok R Krasowiak LE Bingle CM Thomas 2005 Ability of IncP-9 plasmid pM3 to replicate in Escherichia coli is dependent on both rep and par functions Mol Microbiol 57 819 833
32. M Shintani N Fukushima M Tezuka H Yamane H Nojiri 2008 Conjugative transfer of the IncP-7 carbazole degradative plasmid, pCAR1, in river water samples Biotechnol Lett 30 117 122
33. M Shintani H Habe M Tsuda T Omori H Yamane H Nojiri 2005 Recipient range of IncP-7 conjugative plasmid pCAR2 from Pseudomonas putida HS01 is broader than from other Pseudomonas strains Biotechnol Lett 27 1847 1853
34. M Shintani H Yano H Habe T Omori H Yamane M Tsuda H Nojiri 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
35. M Shintani T Yoshida H Habe T Omori H Nojiri 2005 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
36. CK Stover XQ Pham AL Erwin SD Mizoguchi P Warrener MJ Hickey FS Brinkman WO Hufnagle DJ Kowalik M Lagrou RL Garber L Goltry E Tolentino S Westbrock-Wadman Y Yuan LL Brody SN Coulter KR Folger A Kas K Larbig R Lim K Smith D Spencer GK Wong Z Wu IT Paulsen J Reizer MH Saier RE Hancock S Lory MV Olson 2000 Complete genome sequence of Pseudomonas aeruginosa PAO1, an opportunistic pathogen Nature 406 959 964
37. IP Thompson CJ van der Gast L Ciric AC Singer 2005 Bioaugmentation for bioremediation: the challenge of strain selection Environ Microbiol 7 909 915
38. Williams PA, Jones RM, Zylstra G (2004) Genomics of catabolic plasmids. In: Ramos JL (ed) Pseudomonas. Kluwer/Plenum, New York, pp 165-195