This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Vedler, E.
Right arrow Articles by Heinaru, A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Vedler, E.
Right arrow Articles by Heinaru, A.

 Previous Article  |  Next Article 

Journal of Bacteriology, November 2004, p. 7161-7174, Vol. 186, No. 21
0021-9193/04/$08.00+0     DOI: 10.1128/JB.186.21.7161-7174.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.

The Completely Sequenced Plasmid pEST4011 Contains a Novel IncP1 Backbone and a Catabolic Transposon Harboring tfd Genes for 2,4-Dichlorophenoxyacetic Acid Degradation

Eve Vedler,* Merle Vahter, and Ain Heinaru

Department of Genetics, Institute of Molecular and Cell Biology, Tartu University, Tartu, Estonia

Received 7 July 2004/ Accepted 27 July 2004

The herbicide 2,4-dichlorophenoxyacetic acid (2,4-D)-degrading bacterium Achromobacter xylosoxidans subsp. denitrificans strain EST4002 contains plasmid pEST4011. This plasmid ensures its host a stable 2,4-D+ phenotype. We determined the complete 76,958-bp nucleotide sequence of pEST4011. This plasmid is a deletion and duplication derivative of pD2M4, the 95-kb highly unstable laboratory ancestor of pEST4011, and was self-generated during different laboratory manipulations performed to increase the stability of the 2,4-D+ phenotype of the original strain, strain D2M4(pD2M4). The 47,935-bp catabolic region of pEST4011 forms a transposon-like structure with identical copies of the hybrid insertion element IS1071::IS1471 at the two ends. The catabolic regions of pEST4011 and pJP4, the best-studied 2,4-D-degradative plasmid, both contain homologous, tfd-like genes for complete 2,4-D degradation, but they have little sequence similarity other than that. The backbone genes of pEST4011 are most similar to the corresponding genes of broad-host-range self-transmissible IncP1 plasmids. The backbones of the other three IncP1 catabolic plasmids that have been sequenced (the 2,4-D-degradative plasmid pJP4, the haloacetate-catabolic plasmid pUO1, and the atrazine-catabolic plasmid pADP-1) are nearly identical to the backbone of R751, the archetype plasmid of the IncP1 ß subgroup. We show that despite the overall similarity in plasmid organization, the pEST4011 backbone is sufficiently different (51 to 86% amino acid sequence identity between individual backbone genes) from the backbones of members of the three IncP1 subgroups (the {alpha}, ß, and {gamma} subgroups) that it belongs to a new IncP1subgroup, the {delta} subgroup. This conclusion was also supported by a phylogenetic analysis of the trfA2, korA, and traG gene products of different IncP1 plasmids.

* Corresponding author. Mailing address: Department of Genetics, Institute of Molecular and Cell Biology, 23 Riia Street, Tartu 51010, Estonia. Phone: 372-7375014. Fax: 372-7420286. E-mail: eve.vedler{at}ut.ee.

Journal of Bacteriology, November 2004, p. 7161-7174, Vol. 186, No. 21
0021-9193/04/$08.00+0     DOI: 10.1128/JB.186.21.7161-7174.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.



This article has been cited by other articles:

  • McMahon, S. A., Roberts, G. A., Johnson, K. A., Cooper, L. P., Liu, H., White, J. H., Carter, L. G., Sanghvi, B., Oke, M., Walkinshaw, M. D., Blakely, G. W., Naismith, J. H., Dryden, D. T. F. (2009). Extensive DNA mimicry by the ArdA anti-restriction protein and its role in the spread of antibiotic resistance. Nucleic Acids Res 37: 4887-4897 [Abstract] [Full Text]  
  • Dam, B., Ghosh, W., Das Gupta, S. K. (2009). Conjugative Type 4 Secretion System of a Novel Large Plasmid from the Chemoautotroph Tetrathiobacter kashmirensis and Construction of Shuttle Vectors for Alcaligenaceae. Appl. Environ. Microbiol. 75: 4362-4373 [Abstract] [Full Text]  
  • Sevastsyanovich, Y. R., Krasowiak, R., Bingle, L. E. H., Haines, A. S., Sokolov, S. L., Kosheleva, I. A., Leuchuk, A. A., Titok, M. A., Smalla, K., Thomas, C. M. (2008). Diversity of IncP-9 plasmids of Pseudomonas. Microbiology 154: 2929-2941 [Abstract] [Full Text]  
  • Hristova, K. R., Schmidt, R., Chakicherla, A. Y., Legler, T. C., Wu, J., Chain, P. S., Scow, K. M., Kane, S. R. (2007). Comparative Transcriptome Analysis of Methylibium petroleiphilum PM1 Exposed to the Fuel Oxygenates Methyl tert-Butyl Ether and Ethanol. Appl. Environ. Microbiol. 73: 7347-7357 [Abstract] [Full Text]  
  • Schluter, A., Krahn, I., Kollin, F., Bonemann, G., Stiens, M., Szczepanowski, R., Schneiker, S., Puhler, A. (2007). IncP-1{beta} Plasmid pGNB1 Isolated from a Bacterial Community from a Wastewater Treatment Plant Mediates Decolorization of Triphenylmethane Dyes. Appl. Environ. Microbiol. 73: 6345-6350 [Abstract] [Full Text]  
  • Miyakoshi, M., Shintani, M., Terabayashi, T., Kai, S., Yamane, H., Nojiri, H. (2007). Transcriptome Analysis of Pseudomonas putida KT2440 Harboring the Completely Sequenced IncP-7 Plasmid pCAR1. J. Bacteriol. 189: 6849-6860 [Abstract] [Full Text]  
  • Ma, Y.-F., Wu, J.-F., Wang, S.-Y., Jiang, C.-Y., Zhang, Y., Qi, S.-W., Liu, L., Zhao, G.-P., Liu, S.-J. (2007). Nucleotide Sequence of Plasmid pCNB1 from Comamonas Strain CNB-1 Reveals Novel Genetic Organization and Evolution for 4-Chloronitrobenzene Degradation. Appl. Environ. Microbiol. 73: 4477-4483 [Abstract] [Full Text]  
  • Shintani, M., Urata, M., Inoue, K., Eto, K., Habe, H., Omori, T., Yamane, H., Nojiri, H. (2007). The Sphingomonas Plasmid pCAR3 Is Involved in Complete Mineralization of Carbazole. J. Bacteriol. 189: 2007-2020 [Abstract] [Full Text]  
  • Bahl, M. I., Hansen, L. H., Licht, T. R., Sorensen, S. J. (2007). Conjugative Transfer Facilitates Stable Maintenance of IncP-1 Plasmid pKJK5 in Escherichia coli Cells Colonizing the Gastrointestinal Tract of the Germfree Rat. Appl. Environ. Microbiol. 73: 341-343 [Abstract] [Full Text]  
  • Kamachi, K., Sota, M., Tamai, Y., Nagata, N., Konda, T., Inoue, T., Top, E. M., Arakawa, Y. (2006). Plasmid pBP136 from Bordetella pertussis represents an ancestral form of IncP-1beta plasmids without accessory mobile elements. Microbiology 152: 3477-3484 [Abstract] [Full Text]  
  • Smalla, K., Haines, A. S., Jones, K., Krogerrecklenfort, E., Heuer, H., Schloter, M., Thomas, C. M. (2006). Increased Abundance of IncP-1{beta} Plasmids and Mercury Resistance Genes in Mercury-Polluted River Sediments: First Discovery of IncP-1{beta} Plasmids with a Complex mer Transposon as the Sole Accessory Element. Appl. Environ. Microbiol. 72: 7253-7259 [Abstract] [Full Text]  
  • Larrain-Linton, J., De la Iglesia, R., Melo, F., Gonzalez, B. (2006). Molecular and Population Analyses of a Recombination Event in the Catabolic Plasmid pJP4.. J. Bacteriol. 188: 6793-6801 [Abstract] [Full Text]  
  • Haines, A. S., Akhtar, P., Stephens, E. R., Jones, K., Thomas, C. M., Perkins, C. D., Williams, J. R., Day, M. J., Fry, J. C. (2006). Plasmids from freshwater environments capable of IncQ retrotransfer are diverse and include pQKH54, a new IncP-1 subgroup archetype.. Microbiology 152: 2689-2701 [Abstract] [Full Text]  
  • Sota, M., Yano, H., Ono, A., Miyazaki, R., Ishii, H., Genka, H., Top, E. M., Tsuda, M. (2006). Genomic and Functional Analysis of the IncP-9 Naphthalene-Catabolic Plasmid NAH7 and Its Transposon Tn4655 Suggests Catabolic Gene Spread by a Tyrosine Recombinase. J. Bacteriol. 188: 4057-4067 [Abstract] [Full Text]  
  • Urata, M., Uchimura, H., Noguchi, H., Sakaguchi, T., Takemura, T., Eto, K., Habe, H., Omori, T., Yamane, H., Nojiri, H. (2006). Plasmid pCAR3 Contains Multiple Gene Sets Involved in the Conversion of Carbazole to Anthranilate.. Appl. Environ. Microbiol. 72: 3198-3205 [Abstract] [Full Text]  
  • 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 [Abstract] [Full Text]  
  • Gaillard, M., Vallaeys, T., Vorholter, F. J., Minoia, M., Werlen, C., Sentchilo, V., Puhler, A., van der Meer, J. R. (2006). The clc Element of Pseudomonas sp. Strain B13, a Genomic Island with Various Catabolic Properties.. J. Bacteriol. 188: 1999-2013 [Abstract] [Full Text]  
  • Liu, S., Ogawa, N., Senda, T., Hasebe, A., Miyashita, K. (2005). Amino Acids in Positions 48, 52, and 73 Differentiate the Substrate Specificities of the Highly Homologous Chlorocatechol 1,2-Dioxygenases CbnA and TcbC. J. Bacteriol. 187: 5427-5436 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»