Polar localization of replicon origins in the multipartite genomes of Agrobacterium tumefaciens and Sinorhizobium meliloti

Journal of Bacteriology

Volumn 185, Issue 11, 2003, Pages 3384-3391

  Kahng, Lyn Sue ^a,b   Shapiro, Lucy ^a  

^a STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF ILLINOIS AT CHICAGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL CELL; BACTERIAL CHROMOSOME; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL REPRODUCTION; CELL POLARITY; GENE LOCATION; GRAM NEGATIVE BACTERIUM; MULTIGENE FAMILY; NONHUMAN; PLASMID; PLASMID RK2; PRIORITY JOURNAL; REPABC GENE; REPLICON; RHIZOBIUM RADIOBACTER; SINORHIZOBIUM MELILOTI;

BACTERIAL PROTEINS; CELL POLARITY; FLUORESCENT ANTIBODY TECHNIQUE; GENOME, BACTERIAL; IN SITU HYBRIDIZATION, FLUORESCENCE; REPLICATION ORIGIN; REPLICON; RHIZOBIUM RADIOBACTER; SINORHIZOBIUM MELILOTI;

AGROBACTERIUM TUMEFACIENS; ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS); NEGIBACTERIA; PROKARYOTA; SINORHIZOBIUM MELILOTI; UNCULTURED ALPHA PROTEOBACTERIUM;

EID: 0037515724     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.185.11.3384-3391.2003     Document Type: Article

References (39)

1. Bartosik, D., J. Baj, E. Piechucka, E. Waker, and M. Wlodarczyk. 2002. Comparative characterization of repABC-type replicons of Paracoccus pantotrophus composite plasmids. Plasmid 48:130-141.
2. Brassinga, A. K., R. Siam, and G. T. Marczynski. 2001. Conserved gene cluster at replication origins of the alpha-proteobacteria Caulobacter crescentus and Rickettsia prowazekii. J. Bacteriol. 183:1824-1829.
3. Brassinga, A. K., R. Siam, W. McSween, H. Winkler, D. Wood, and G. T. Marczynskj. 2002. Conserved response regulator CtrA and IHF binding sites in the alpha-proteobacteria Caulobacter crescentus and Rickettsia prowazekii chromosomal replication origins. J. Bacteriol. 184:5789-5799.
4. Capela, D., F. Barloy-Hubler, J. Gouzy, G. Bothe, F. Ampe, J. Batut, P. Boistard, A. Becker, M. Boutry, E. Cadieu, S. Dreano, S. Gloux, T. Godrie, A. Goffeau, D. Kahn, E. Kiss, V. Lelaure, D. Masuy, T. Pohl, D. Portetelle, A. Puhler, B. Purnelle, U. Ramsperger, C. Renard, P. Thebault, M. Vandenbol, S. Weidner, and F. Galibert. 2001. Analysis of the chromosome sequence of the legume symbiont Sinorhizobium meliloti strain 1021. Proc. Natl. Acad. Sci. USA 98:9877-9882.
5. Casjens, S., N. Palmer, R. van Vugt, W. M. Huang, B. Stevenson, P. Rosa, R. Lathigra, G. Sutton, J. Peterson, R. J. Dodson, D. Haft, E. Hickey, M. Gwinn, O. White, and C. M. Fraser. 2000. A bacterial genome in flux: the twelve linear and nine circular extrachromosomal DNAs in an infectious isolate of the Lyme disease spirochete Borrelia burgdorferi. Mol. Microbiol. 35:490-516.
6. DelVecchio, V. G., V. Kapatral, R. J. Redkar, G. Patra, C. Mujer, T. Los, N. Ivanova, I. Anderson, A. Bhattacharyya, A. Lykidis, G. Reznik, L. Jablonski, N. Larsen, M. D'Souza, A. Bernal, M. Mazur, E. Goltsman, E. Selkov, P. H. Elzer, S. Hagius, D. O'Callaghan, J. J. Letesson, R. Haselkorn, N. Kyrpides, and R. Overbeek. 2002. The genome sequence of the facultative intracellular pathogen Brucella melitensis. Proc. Natl. Acad. Sci. USA 99:443-448.
7. Dervyn, E., C. Suski, R. Daniel, C. Bruand, J. Chapuis, J. Errington, L. Janniere, and S. D. Ehrlich. 2001. Two essential DNA polymerases at the bacterial replication fork. Science 294:1716-1719.
8. Ely, B. 1991. Genetics of Caulobacter crescentus. Methods Enzymol. 204:372-384.
9. Galibert, F., T. M. Finan, S. R. Long, A. Puhler, P. Abola, F. Ampe, F. Barloy-Hubler, M. J. Barnett, A. Becker, P. Boistard, G. Bothe, M. Boutry, L. Bowser, J. Buhrmester, E. Cadieu, D. Capela, P. Chain, A. Cowie, R. W. Davis, S. Dreano, N. A. Federspiel, R. F. Fisher, S. Gloux, T. Godrie, A. Goffeau, B. Golding, J. Gouzy, M. Gurjal, I. Hernandez-Lucas, A. Hong, L. Huizar, R. W. Hyman, T. Jones, D. Kahn, M. L. Kahn, S. Kalman, D. H. Keating, E. Kiss, C. Komp, V. Lelaure, D. Masuy, C. Palm, M. C. Peck, T. M. Pohl, D. Portetelle, B. Purnelle, U. Ramsperger, R. Surzycki, P. Thebault, M. Vandenbol, F. J. Vorholter, S. Weidner, D. H. Wells, K. Wong, K. C. Yeh, and J. Batut. 2001. The composite genome of the legume symbiont Sinorhizobium meliloti. Science 293:668-672.
10. Goodner, B., G. Hinkle, S. Gattung, N. Miller, M. Blanchard, B. Qurollo, B. S. Goldman, Y. Cao, M. Askenazi, C. Halling, L. Mullin, K. Houmiel, J. Gordon, M. Vaudin, O. Iartchouk, A. Epp, F. Liu, C. Wollam, M. Allinger, D. Doughty, C. Scott, C. Lappas, B. Markelz, C. Flanagan, C. Crowell, J. Gurson, C. Lomo, C. Sear, G. Strub, C. Cielo, and S. Slater. 2001. Genome sequence of the plant pathogen and biotechnology agent Agrobacterium tumefaciens C58. Science 294:2323-2328.
11. Gordon, G. S., D. Sitnikov, C. D. Webb, A. Teleman, A. Straight, R. Losick, A. W. Murray, and A. Wright. 1997. Chromosome and low copy plasmid segregation in E. coli: visual evidence for distinct mechanisms. Cell 90:1113-1121.
12. Heidelberg, J. F., J. A. Eisen, W. C. Nelson, R. A. Clayton, M. L. Gwinn, R. J. Dodson, D. H. Haft, E. K. Hickey, J. D. Peterson, L. Umayam, S. R. Gill, K. E. Nelson, T. D. Read, H. Tettelin, D. Richardson, M. D. Ermolaeva, J. Vamathevan, S. Bass, H. Qin, I. Dragoi, P. Sellers, L. McDonald, T. Utterback, R. D. Fleishmann, W. C. Nierman, and O. White. 2000. DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae. Nature 406:477-483.
13. Ho, T. Q., Z. Zhong, S. Aung, and J. Pogliano. 2002. Compatible bacterial plasmids are targeted to independent cellular locations in Escherichia coli. EMBO J. 21:1864-1872.
14. Hynes, M. F., R. Simon, and A. Puhler. 1985. The development of plasmidfree strains of Agrobacterium tumefaciens by using incompatibility with a Rhizobium meliloti plasmid to eliminate pAtC58. Plasmid 13:99-105.
15. Inoue, R., C. Kaito, M. Tanabe, K. Kamura, N. Akimitsu, and K. Sekimizu. 2001. Genetic identification of two distinct DNA polymerases, DnaE and PolC, that are essential for chromosomal DNA replication in Staphylococcus aureus. Mol. Genet Genomics 266:564-571.
16. Jensen, R. B., and K. Gerdes. 1999. Mechanism of DNA segregation in prokaryotes: ParM partitioning protein of plasmid R1 co-localizes with its replicon during the cell cycle. EMBO J. 18:4076-4084.
17. Jensen, R. B., and L. Shapiro. 1999. The Caulobacter crescentus smc gene is required for cell cycle progression and chromosome segregation. Proc. Natl. Acad. Sci. USA 96:10661-10666.
18. Jensen, R. B., S. C. Wang, and L. Shapiro. 2002. Dynamic localization of proteins and DNA during a bacterial cell cycle. Nat. Rev. Mol. Cell Biol. 3:167-176.
19. Jumas-Bilak, E., S. Michaux-Charachon, G. Bourg, M. Ramuz, and A. Allardet-Servent. 1998. Unconventional genomic organization in the alpha subgroup of the Proteobacteria. J. Bacteriol. 180:2749-2755.
20. Kahng, L. S., and L. Shapiro. 2001. The CcrM DNA methyltransferase of Agrobacterium tumefaciens is essential, and its activity is cell cycle regulated. J. Bacteriol. 183:3065-3075.
21. Lessie, T. G., W. Hendrickson, B. D. Manning, and R. Devereux. 1996. Genomic complexity and plasticity of Burkholderia cepacia. FEMS Microbiol. Lett. 144:117-128.
22. Li, P. L., and S. K. Farrand. 2000. The replicator of the nopaline-type Ti plasmid pTiC58 is a member of the repABC family and is influenced by the TraR-dependent quorum-sensing regulatory system. J. Bacteriol. 182:179-188.
23. Nierman, W. C., T. V. Feldblyum, M. T. Laub, I. T. Paulsen, K. E. Nelson, J. A. Eisen, J. F. Heidelberg, M. R. Alley, N. Ohta, J. R. Maddock, I. Potocka, W. C. Nelson, A. Newton, C. Stephens, N. D. Phadke, B. Ely, R. T. DeBoy, R. J. Dodson, A. S. Durkin, M. L. Gwinn, D. H. Haft, J. F. Kolonay, J. Smit, M. B. Craven, H. Khouri, J. Shetty, K. Berry, T. Utterback, K. Tran, A. Wolf, J. Vamathevan, M. Ermolaeva, O. White, S. L. Salzberg, J. C. Venter, L. Shapiro, C. M. Fraser, and J. Eisen. 2001. Complete genome sequence of Caulobacter crescentus. Proc. Natl. Acad. Sci. USA 98:4136-4141.
24. Niki, H., and S. Hiraga. 1998. Polar localization of the replication origin and terminus in Eschenchia coli nucleoids during chromosome partitioning. Genes Dev. 12:1036-1045.
25. Niki, H., and S. Hiraga. 1997. Subcellular distribution of actively partitioning F plasmid during the cell division cycle in E. coli. Cell 90:951-957.
26. Palmer, K. M., S. L. Turner, and J. P. Young. 2000. Sequence diversity of the plasmid replication gene repC in the Rhizobiaceae. Plasmid 44:209-219.
27. Paulsen, I. T., R. Seshadri, K. E. Nelson, J. A. Eisen, J. F. Heidelberg, T. D. Read, R. J. Dodson, L. Umayam, L. M. Brinkac, M. J. Beanan, S. C. Daugherty, R. T. Deboy, A. S. Durkin, J. F. Kolonay, R. Madupu, W. C. Nelson, B. Ayodeji, M. Kraul, J. Shetty, J. Malek, S. E. Van Aken, S. Riedmuller, H. Tettelin, S. R. Gill, O. White, S. L. Salzberg, D. L. Hoover, L. E. Lindler, S. M. Halling, S. M. Boyle, and C. M. Fraser. 2002. The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts. Proc. Natl. Acad. Sci. USA 99:13148-13153.
28. Pogliano, J., T. Q. Ho, Z. Zhong, and D. R. Helinski. 2001. Multicopy plasmids are clustered and localized in Escherichia coli. Proc. Natl. Acad. Sci. USA 98:4486-4491.
29. Ramirez-Romero, M. A., N. Soberon, A. Perez-Oseguera, J. Tellez-Sosa, and M. A. Cevallos. 2000. Structural elements required for replication and incompatibility of the Rhizobium etli symbiotic plasmid. J. Bacteriol. 182:3117-3124.
30. Shapiro, L., H. H. McAdams, and R. Losick. 2002. Generating and exploiting polarity in bacteria. Science 298:1942-1946.
31. Siddique, A., and D. H. Figurski. 2002. The active partition gene incC of IncP plasmids is required for stable maintenance in a broad range of hosts. J. Bacteriol. 184:1788-1793.
32. Simon, R., U. Priefer, and A. Puhler. 1983. A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in Gram negative bacteria. Bio/Technology 1:784-790.
33. Suzuki, K., K. Iwata, and K. Yoshida. 2001. Genome analysis of Agrobacterium tumefaciens: construction of physical maps for linear and circular chromosomal DNAs, determination of copy number ratio and mapping of chromosomal virulence genes. DNA Res. 8:141-152.
34. Tagomori, K., T. Iida, and T. Honda. 2002. Comparison of genome structures of vibrios, bacteria possessing two chromosomes. J. Bacteriol. 184:4351-4358.
35. Webb, C. D., A. Teleman, S. Gordon, A. Straight, A. Belmont, D. C. Lin, A. D. Grossman, A. Wright, and R. Losick. 1997. Bipolar localization of the replication origin regions of chromosomes in vegetative and sporulating cells of B. subtilis. Cell 88:667-674.
36. Wood, D. W., J. C. Setubal, R. Kaul, D. E. 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.
37. Yamaichi, Y., T. Iida, K. S. Park, K. Yamamoto, and T. Honda. 1999. Physical and genetic map of the genome of Vibrio parahaemolyticus: presence of two chromosomes in Vibrio species. Mol. Microbiol. 31:1513-1521.
38. Yamaichi, Y., and H. Niki. 2000. Active segregation by the Bacillus subtilis partitioning system in Escherichia coli. Proc. Natl. Acad. Sci. USA 97:14656-14661.
39. Yang, M. C., and R. Losick. 2001. Cytological evidence for association of the ends of the linear chromosome in Streptomyces coelicolor. J. Bacteriol. 183:5180-5186.