Transfer of the symbiotic plasmid of Rhizobium etli CFN42 requires cointegration with p42a, which may be mediated by site-specific recombination

Journal of Bacteriology

Volumn 186, Issue 22, 2004, Pages 7538-7548

  Brom, Susana ^a,b   Girard, Lourdes ^a   Tun Garrido, Cristina ^a   García de Los Santos, Alejandro ^a   Bustos, Patricia ^b   González, Victor ^b   Romero, David ^a  

^a Ctro Invest sobre Fij Nitrogeno   (Mexico)

^b INSTITUTO DE CIENCIAS FÍSICAS   (Mexico)

Author keywords

[No Author keywords available]

Indexed keywords

INTEGRASE;

ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIOPHAGE; BACTERIUM CONJUGATION; BACTERIUM MUTANT; GENE MAPPING; GENE MUTATION; GENE REPLICATION; GENE SEQUENCE; GENE TRANSFER; GENETIC COMPLEMENTATION; HOMOLOGOUS RECOMBINATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; PRIORITY JOURNAL; PROTEIN LOCALIZATION; RECOMBINANT GENE; RECOMBINANT PLASMID; RHIZOBIUM ETLI; SEQUENCE ANALYSIS; STRUCTURE ANALYSIS; SYMBIOSIS; WILD TYPE;

AMINO ACID SEQUENCE; ATTACHMENT SITES, MICROBIOLOGICAL; BASE SEQUENCE; CONJUGATION, GENETIC; GENE EXPRESSION REGULATION, BACTERIAL; GENE TRANSFER, HORIZONTAL; INTEGRASES; MOLECULAR SEQUENCE DATA; PHASEOLUS; PLASMIDS; RECOMBINATION, GENETIC; RHIZOBIUM ETLI; SEQUENCE ANALYSIS, DNA; SYMBIOSIS;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; RHIZOBIUM; RHIZOBIUM ETLI;

EID: 7744223916     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.186.22.7538-7548.2004     Document Type: Article

References (53)

1. Altschul, S. F., T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
2. Barnett, M. J., R. F. Fisher, T. Jones, C. Komp, A. P. Abola, F. Barloy-Hubler, L. Bowser, D. Capela, F. Galibert, J. Gouzy, M. Gurjal, A. Hong, L. Huizar, R. Palm, M. C. Peck, R. Surzycki, D. H. Wells, K. C. Yeh, R. W. Davis, N. A. Federspiel, and S. R. Long. 2001. Nucleotide sequence and predicted functions of the entire Sinorhizobium meliloti pSymA megaplasmid. Proc. Natl. Acad. Sci. USA 98:9883-9888.
3. Boccard, F., T. Smokvina, J. L. Pernodet, A. Friedmann, and M. Guérineau. 1989. Structural analysis of loci involved in pSAM2 site-specific integration in Streptomyces. Plasmid 21:59-70.
4. Brewin, N. J., J. E. Beringer, A. V. Buchanan-Wollaston, A. W. B. Johnston, and P. R. Hirsch. 1980. Transfer of symbiotic genes with bacteriocinogenic plasmids in Rhizobium leguminosarum. J. Gen. Microbiol. 116:261-270.
5. Brewin, N. J., E. A. Wood, A. W. B. Johnston, N. J. Dibb, and G. Hombrecher. 1982. Recombinant nodulation plasmids in Rhizobium leguminosarum, J. Gen. Microbiol. 128:1817-1827.
6. Brom, S., A. García de los Santos, T. Stepkowsky, M. Flores, G. Dávila, D. Romero, and R. Palacios. 1992. Different plasmids of Rhizobium leguminosarum bv. phaseoli are required for optimal symbiotic performance. J. Bacteriol. 174:5183-5189.
7. Brom, S., A. García de los Santos, L. Cervantes, R. Palacios, and D. Romero. 2000. In Rhizobium etli symbiotic plasmid transfer, nodulation competivity and cellular growth require interaction among different replicons. Plasmid 44:34-43.
8. Brown, D. P., K. B. Idler, D. M. Backer, S. Donadio, and L. Katz. 1994. Characterization of the genes and attachment sites for site-specific integration of plasmid pSE101 in Saccharopolyspora erythrea and Streptomyces lividans. Mol. Gen. Genet. 242:185-193.
9. Burrus, V., G. Pavlovic, B. Decaris, and G. Guédon. 2002. Conjugative transposons: the tip of the iceberg. Mol. Microbiol. 46:601-610.
10. Eckhardt, T. 1978. A rapid method for the identification of plasmid deoxyribonucleic acid in bacteria. Plasmid 1:584-588.
11. Esposito, D., and J. J. Scocca. 1997. The integrase family of tyrosine recombinases: evolution of a conserved active site domain. Nucleic Acids Res. 25:3605-3614.
12. Farrand, S. K., S. P. O'Morchoe, and J. McCutchan. 1989. Construction of an Agrobacterium tumefaciens C58 recA mutant. J. Bacteriol. 171:5314-5321.
13. Fellay, R., J. Frey, and H. Krisch. 1987. Interposon mutagenesis of soil and water bacteria: a family of DNA fragments designed for in vitro insertional mutagenesis of Gram-negative bacteria. Gene 52:147-154.
14. Figurski, D. H., and D. R. Helinski. 1979. Replication of an origin containing derivative of plasmid RK2 dependent on a plasmid function provided in trans. Proc. Natl. Acad. Sci. USA 76:1648-1652.
15. Freiberg, C., R. Fellay, A. Bairoch, W. J. Broughton, A. Rosenthal, and X. Perret. 1997. Molecular basis of symbiosis between Rhizobium and legumes. Nature 387:394-401.
16. García de los Santos, A., S. Brom, and D. Romero. 1996. Rhizobium plasmids in bacteria-legume interactions. World J. Microbiol. Biotechnol. 12:119-125.
17. Girard, L., B. Valderrama, R. Palacios, D. Romero, and G. Dávila. 1996. Transcriptional activity of the symbiotic plasmid of Rhizobium etli is affected by different environmental conditions. Microbiology 142:2847-2856.
18. Girard, M. L., M. Flores, S. Brom, D. Romero, R. Palacios, and G. Dávila. 1991. Structural complexity of the symbiotic plasmid of Rhizobium leguminosarum bv. phaseoli. J. Bacteriol. 173:2411-2419.
19. González, V., P. Bustos, M. A. Ramírez-Romero, A. Medrano-Soto, H. Salgado, I. Hernández-González, J. C. Hernández-Celis, V. Quintero, G. Moreno-Hagelsieb, L. Girard, O. Rodríguez, M. Flores, M. A. Cevallos, J. Collado-Vides, D. Romero, and G. Dávila. 2003. The mosaic structure of the symbiotic plasmid of Rhizobium etli CFN42 and its relation to other symbiotic genome compartments. Genome Biol. 4:R36.
20. Gottfried, P., E. Yagil, and M. Kolot. 2000. Core-binding specificity of bacteriophage integrases. Mol. Gen. Genet. 263:619-624.
21. He, X., W. Chang, D. L. Pierce, L. O. Seib, J. Wagner, and C. Fuqua. 2003. Quorum sensing in Rhizobium sp. strain NGR234 regulates conjugal transfer (tra) gene expression and influences growth rate. J. Bacteriol. 185:809-822.
22. Hirsch, P. R., M. Van Montagu, A. W. B. Johnston, N. J. Brewin, and J. Schell. 1980. Physical identification of bacteriocinogenic, nodulation and other plasmids in strains of R. leguminosarum. J. Gen. Microbiol. 120:403-412.
23. Hynes, M. F., and N. F. McGregor. 1990. Two plasmids other than the nodulation plasmid are necessary for formation of nitrogen-fixing nodules by Rhizobium leguminosarum. Mol. Microbiol. 4:567-574.
24. Johnston, A. W. B., G. Hombrecher, N. J. Brewin, and M. C. Cooper. 1982. Two transmissible plasmids in Rhizobium leguminosarum strain 300. J. Gen. Microbiol. 128:85-93.
25. Jouanin, L., J. Tourneur, C. Tourneur, and F. Casse-Delbart. 1986. Restriction maps and homologies of the three plasmids of Agrobacterium rhizogenes strain A4. Plasmid 16:124-134.
26. Kaneko, T., Y. Nakamura, S. Sato, E. Asamizu, T. Kato, S. Sasamoto, A. Watanabe, K. Idesawa, A. Ishikawa, K. Kawashima, T. Kimura, Y. Kishida, C. Kiyokawa, M. Kohara, M. Matsumoto, A. Matsuno, Y. Mochizuki, S. Nakayama, N. Nakazaki, S. Shimpo, M. Sugimoto, C. Takeuchi, M. Yamada, and S. Tabata. 2000. Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti. DNA Res. 7:331-338.
27. Kovach, M. E., P. H. Elzer, D. S. Hill, G. T. Robertson, M. A. Farris, R. M. Roop, and K. M. Peterson. 1995. Four new derivatives of the broad-host-range cloning vector pBBRMCS, carrying different antibiotic-resistance cassettes. Gene 166:175-176.
28. Leemans, J., G. Soberón, M. A. Cevallos, L. Fernández, M. A. Pardo, H. de la Vega, M. Flores, C. Quinto, and R. Palados. 1984. General organization in R. phaseoli nif plasmids, p. 710. In C. Veeger and W. E. Newton (ed.), Advances in nitrogen fixation research. Nijhoff, Junk and Pudoc, The Hague, The Netherlands.
29. Lithgow, J. K., A. Wilkinson, A. Hardman, B. Rodelas, F. Wisniewski-Dyé, P. Williams, and J. A. Downie. 2000. The regulatory locus cinR in Rhizobium leguminosarum controls a network of quorum-sensing loci. Mol. Microbiol. 37:81-97.
30. Marketon, M. M., and J. E. Gonzalez. 2002. Identification of two quorum-sensing systems in Sinorhizobium meliloti. J. Bacteriol. 184:3466-3475.
31. Mercado-Blanco, J., and J. Olivares. 1993. Stability and transmissibility of the cryptic plasmids of Rhizobium meliloti GR4. Arch. Microbiol. 160:477-485.
32. Merlin, C., J. Mahillon, J. Nesvera, and A. Toussaint. 2000. Gene recruiters and transporters: the modular structure of bacterial mobile elements, p. 363-409. In C. M. Thomas (ed.), The horizontal gene pool. Harwood Academic Publishers, Amsterdam, The Netherlands.
33. Miller, C. A., and S. N. Cohen. 1980. F plasmid provides a function that promotes recA-independent site-specific fusions of pSC101 replicon. Nature (London) 285:577-579.
34. Miller, J. H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
35. Noel, K. D., A. Sánchez, L. Fernández, J. Leemans, and M. A. Cevallos. 1984. Rhizobium phaseoli symbiotic mutants with transposon Tn5 insertions. J. Bacteriol. 158:148-155.
36. Pérez-Mendoza, D., A. Domínguez-Ferrer, S. Muñoz, M. J. Soto, J. Olivares, S. Brom, L. Girard, J. A. Herrera-Cervera, and J. Sanjuan. 2004. Identification of functional mob regions in Rhizobium etli: evidence for self-transmissibility of the symbiotic plasmid pRetCFN42d. J. Bacteriol 186:5753-5761.
37. Quandt, J., and M. F. Hynes. 1993.Versatile suicide vectors which allow direct selection for gene replacement in Gram-negative bacteria. Gene 127:15-21.
38. Quinto, C., H. de la Vega, M. Flores, L. Fernández, T. Ballado, G. Soberón, and R. Palacios. 1982. Reiteration of nitrogen fixation gene sequences in Rhizobium phaseoli. Nature (London) 299:724-728.
39. Romero, D., and S. Brom. 2004. The symbiotic plasmids of the Rhizobiaceae, p. 271-290. In B. E. Funell and G. E. Phillips (ed.), Plasmid biology. American Society for Microbiology, Washington, D.C.
40. Romero, D., S. Brom, J. Martínez-Salazar, L. Girard, R. Palacios, and G. Dávila. 1991. Amplification and deletion of a nod-nif region in the symbiotic plasmid of Rhizobium phaseoli. J. Bacteriol. 173:2435-2441.
41. Romero, D., P. W. Singleton, L. Segovia, E. Morett, B. B. Bohlool, R. Palacios, and G. Dávila. 1988. Effect of naturally occurring nif reiterations on symbiotic effectiveness in Rhizobium phaseoli. Appl. Environ. Microbiol. 54:848-850.
42. Rosenberg, C., and T. Hughet. 1984. The pATC58 plasmid of Agrobacterium tumefaciens is not essential for tumor induction. Mol. Gen. Genet. 196:533-536.
43. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
44. Simon, R. 1984. High frequency mobilization of gram-negative bacterial replicons by the in vitro constructed Tn5-Mob transposon. Mol. Gen. Genet. 196:413-420.
45. Southern, E. M. 1975. Detection of sequences among DNA fragments separated by gel electrophoresis. J. Mol. Biol. 98:503-517.
46. Sullivan, J. T., and C. W. Ronson. 1998. Evolution of rhizobia by acquisition of a 500 kb symbiosis island that integrates into a phe-tRNA gene. Proc. Natl. Acad. Sci. USA 95:5145-5149.
47. Sullivan, J. T., J. R. Trzebiatowski, R. W. Cruickshank, J. Gouzy, S. D. Brown, R. M. Elliot, D. J. Fleetwood, N. G. McCallum, U. Rossbach, G. S. Stuart, J. E. Weaver, R. J. Webby, F. J. de Bruijn, and C. W. Ronson. 2002. Comparative sequence analysis of the symbiosis island of Mesorhizobium loti strain R7A. J. Bacteriol. 184:3086-3095.
48. Tun-Garrido, C., P. Bustos, V. González, and S. Brom. 2003. The conjugative transfer of p42a from Rhizobium etli CFN42, which is required for mobilization of the symbiotic plasmid, is regulated by quorum sensing. J. Bacteriol. 185:1681-1692.
49. Vaudequin-Dransart, V., A. Petit, W. S. Chilton, and Y. Dessaux. 1998. The cryptic plasmid of Agrobacterium tumefaciens cointegrates with the Ti plasmid and cooperates for opine degradation. Mol. Plant-Microbe Interact. 11:583-591.
50. Vrijbloed, J. W., J. Madon, and L. Dijkhizen. 1994. A plasmid from the methylotrophic actinomycete Amycolatopsis methanolica capable of site-specific integration. J. Bacteriol. 176:7087-7090.
51. Wilkinson, A., V. Danino, F. Wisniewski-Dyé, J. K. Lithgow, and J. A. Downie. 2002. N-Acyl-homoserine lactone inhibition of rhizobial growth is mediated by two quorum-sensing genes that regulate plasmid transfer. J. Bacteriol. 184:4510-4519.
52. Wood, D. W., J. C. Setubal, R. Kaul, D. Monks, J. P. Kitajima, V. K. Okura, Y. Zhou, L. Chen, G. E. Wood, N. F. Almeida, Jr., L. Woo, Y. Chen, I. T. Paulsen, J. A. Eisen, P. D. Karp, D. Bovee, Sr., P. Chapman, J. Clendenning, G. Deatherage, W. Gillet, C. Grant, T. Kutyavin, R. Levy, M. J. Li, E. McClelland, A. Palmieri, C. Raymond, G. Rouse, C. Saenphimmachak, Z. Wu, P. Romero, D. Gordon, S. Zhang, H. Yoo, Y. Tao, P. Biddle, M. Jung, W. Krespan, M. Perry, B. Gordon-Kamm, L. Liao, S. Kim, C. Hendrick, Z. Y. Zhao, M. Dolan, F. Chumley, S. V. Tingey, J. F. Tomb, M. P. Gordon, M. V. Olson, and E. W. Nester. 2001. The genome of the natural genetic engineer Agrobacterium tumefaciens C58. Science 294:2317-2323.
53. Zhang, X.-X., B. Kosier, and U. B. Priefer. 2001. Symbiotic plasmid rearrangement in Rhizobium leguminosarum bv. viciae VF39SM. J. Bacteriol. 183:2141-2144.