Polar positioning of a conjugation protein from the integrative and conjugative element ICEBs1 of Bacillus subtilis

Journal of Bacteriology

Volumn 192, Issue 1, 2010, Pages 38-45

  Berkmen, Melanie B ^a,b   Lee, Catherine A ^a   Loveday, Emma Kate ^b,c   Grossman, Alan D ^a  

^a MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^b SUFFOLK UNIVERSITY   (United States)

^c UNIVERSITY OF BRITISH COLUMBIA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

GREEN FLUORESCENT PROTEIN; REPLISOME;

ARTICLE; BACILLUS SUBTILIS; BACTERIAL STRAIN; CHROMOSOME; CONTROLLED STUDY; CYTOPLASM; EXCISION; GENE TRANSFER; NONHUMAN; PRIORITY JOURNAL;

BACILLUS SUBTILIS; BACTERIAL PROTEINS; CELL POLARITY; DNA TRANSPOSABLE ELEMENTS; DNA, BACTERIAL; GENES, BACTERIAL; GENETIC COMPLEMENTATION TEST; GREEN FLUORESCENT PROTEINS; MICROSCOPY, FLUORESCENCE; MODELS, GENETIC; RECOMBINANT FUSION PROTEINS;

BACILLUS SUBTILIS;

EID: 73849096537     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.00860-09     Document Type: Article

References (57)

1. Abajy, M. Y., J. Kopec, K. Schiwon, M. Burzynski, M. Doring, C. Bohn, and E. Grohmann. 2007. A type IV-secretion-like system is required for conjugative DNA transport of broad-host-range plasmid pIP501 in gram-positive bacteria. J. Bacteriol. 189:2487-2496.
2. Allemand, J. F., and B. Maier. 2009. Bacterial translocation motors investigated by single molecule techniques. FEMS Microbiol. Rev. 33:593-610.
3. Atmakuri, K., E. Cascales, O. T. Burton, L. M. Banta, and P. J. Christie. 2007. Agrobacterium ParA/MinD-like VirC1 spatially coordinates early conjugative DNA transfer reactions. EMBO J. 26:2540-2551.
4. Atmakuri, K., E. Cascales, and P. J. Christie. 2004. Energetic components VirD4, VirB11 and VirB4 mediate early DNA transfer reactions required for bacterial type IV secretion. Mol. Microbiol. 54:1199-1211.
5. Atmakuri, K., Z. Ding, and P. J. Christie. 2003. VirE2, a type IV secretion substrate, interacts with the VirD4 transfer protein at cell poles of Agrobacterium tumefaciens. Mol. Microbiol. 49:1699-1713.
6. Auchtung, J. M., C. A. Lee, K. L. Garrison, and A. D. Grossman. 2007. Identification and characterization of the immunity repressor (ImmR) that controls the mobile genetic element ICEBs1 of Bacillus subtilis. Mol. Microbiol. 64:1515-1528.
7. Auchtung, J. M., C. A. Lee, R. E. Monson, A. P. Lehman, and A. D. Grossman. 2005. Regulation of a Bacillus subtilis mobile genetic element by intercellular signaling and the global DNA damage response. Proc. Natl. Acad. Sci. USA 102:12554-12559.
8. Babic, A., A. B. Lindner, M. Vulic, E. J. Stewart, and M. Radman. 2008. Direct visualization of horizontal gene transfer. Science 319:1533-1536.
9. Bannam, T. L., W. L. Teng, D. Bulach, D. Lyras, and J. I. Rood. 2006. Functional identification of conjugation and replication regions of the tetracycline resistance plasmid pCW3 from Clostridium perfringens. J. Bacteriol. 188:4942-4951.
10. Berkmen, M. B., and A. D. Grossman. 2006. Spatial and temporal organization of the Bacillus subtilis replication cycle. Mol. Microbiol. 62:57-71.
11. Berkmen, M. B., and A. D. Grossman. 2007. Subcellular positioning of the origin region of the Bacillus subtilis chromosome is independent of sequences within oriC, the site of replication initiation, and the replication initiator DnaA. Mol. Microbiol. 63:150-165.
12. Bose, B., J. M. Auchtung, C. A. Lee, and A. D. Grossman. 2008. A conserved anti-repressor controls horizontal gene transfer by proteolysis. Mol. Microbiol. 70:570-582.
13. Bunai, K., M. Nozaki, M. Hamano, S. Ogane, T. Inoue, T. Nemoto, H. Nakanishi, and K. Yamane. 2003. Proteomic analysis of acrylamide gel separated proteins immobilized on polyvinylidene difluoride membranes following proteolytic digestion in the presence of 80% acetonitrile. Proteomics 3:1738-1749.
14. Burrus, V., G. Pavlovic, B. Decaris, and G. Guedon. 2002. The ICESt1 element of Streptococcus thermophilus belongs to a large family of integrative and conjugative elements that exchange modules and change their specificity of integration. Plasmid 48:77-97.
15. Cascales, E., and P. J. Christie. 2003. The versatile bacterial type IV secretion systems. Nat. Rev. Microbiol. 1:137-149.
16. Christie, P. J., K. Atmakuri, V. Krishnamoorthy, S. Jakubowski, and E. Cascales. 2005. Biogenesis, architecture, and function of bacterial type IV secretion systems. Annu. Rev. Microbiol. 59:451-485.
17. Claros, M. G., and G. Von Heijne. 1994. TopPred II: an improved software for membrane protein structure predictions. Comput. Appl. Biosci. 10:685-686.
18. Clewell, D. B., and M. V. Francia. 2004. Conjugation in gram-positive bacteria., p. 227-260. In B. Funnell and G. Phillips (ed.), The biology of plasmids. ASM Press, Washington, DC.
19. Comella, N., and A. D. Grossman. 2005. Conservation of genes and processes controlled by the quorum response in bacteria: characterization of genes controlled by the quorum-sensing transcription factor ComA in Bacillus subtilis. Mol. Microbiol. 57:1159-1174.
20. Cserzo, M., E. Wallin, I. Simon, G. Von Heijne, and A. Elofsson. 1997. Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method. Protein Eng. 10:673-676.
21. Earl, A. M., R. Losick, and R. Kolter. 2007. Bacillus subtilis genome diversity. J. Bacteriol. 189:1163-1170.
22. Gilmour, M. W., T. D. Lawley, M. M. Rooker, P. J. Newnham, and D. E. Taylor. 2001. Cellular location and temperature-dependent assembly of IncHI1 plasmid R27-encoded TrhC-associated conjugative transfer protein complexes. Mol. Microbiol. 42:705-715.
23. Gilmour, M. W., and D. E. Taylor. 2004. A subassembly of R27-encoded transfer proteins is dependent on TrhC nucleoside triphosphate-binding motifs for function but not formation. J. Bacteriol. 186:1606-1613.
24. Grohmann, E., G. Muth, and M. Espinosa. 2003. Conjugative plasmid transfer in gram-positive bacteria. Microbiol. Mol. Biol. Rev. 67:277-301.
25. Gunton, J. E., M. W. Gilmour, G. Alonso, and D. E. Taylor. 2005. Subcellular localization and functional domains of the coupling protein, TraG, from IncHI1 plasmid R27. Microbiology 151:3549-3561.
26. Hanson, P. I., and S. W. Whiteheart. 2005. AAA+ proteins: have engine, will work. Nat. Rev. Mol. Cell Biol. 6:519-529.
27. Harwood, C. R., and S. M. Cutting. 1990. Molecular biological methods for Bacillus. John Wiley & Sons, Chichester, United Kingdom.
28. Horton, R. M., H. D. Hunt, S. N. Ho, J. K. Pullen, and L. R. Pease. 1989. Engineering hybrid genes without the use of restriction enzymes: gene splicing by overlap extension. Gene 77:61-68.
29. Iyer, L. M., K. S. Makarova, E. V. Koonin, and L. Aravind. 2004. Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging. Nucleic Acids Res. 32:5260-5279.
30. Judd, P. K., R. B. Kumar, and A. Das. 2005. Spatial location and requirements for the assembly of the Agrobacterium tumefaciens type IV secretion apparatus. Proc. Natl. Acad. Sci. USA 102:11498-11503.
31. Kall, L., A. Krogh, and E. L. Sonnhammer. 2004. A combined transmembrane topology and signal peptide prediction method. J. Mol. Biol. 338:1027-1036.
32. Kall, L., A. Krogh, and E. L. Sonnhammer. 2005. An HMM posterior decoder for sequence feature prediction that includes homology information. Bioinformatics 21(Suppl. 1):i251-i257.
33. Kumar, R. B., and A. Das. 2002. Polar location and functional domains of the Agrobacterium tumefaciens DNA transfer protein VirD4. Mol. Microbiol. 43:1523-1532.
34. Lai, E. M., O. Chesnokova, L. M. Banta, and C. I. Kado. 2000. Genetic and environmental factors affecting T-pilin export and T-pilus biogenesis in relation to flagellation of Agrobacterium tumefaciens. J. Bacteriol. 182:3705-3716.
35. Lau, I. F., S. R. Filipe, B. Soballe, O. A. Okstad, F. X. Barre, and D. J. Sherratt. 2003. Spatial and temporal organization of replicating Escherichia coli chromosomes. Mol. Microbiol. 49:731-743.
36. Lawley, T. D., G. S. Gordon, A. Wright, and D. E. Taylor. 2002. Bacterial conjugative transfer: visualization of successful mating pairs and plasmid establishment in live Escherichia coli. Mol. Microbiol. 44:947-956.
37. Lawley, T. D., W. A. Klimke, M. J. Gubbins, and L. S. Frost. 2003. F factor conjugation is a true type IV secretion system. FEMS Microbiol. Lett. 224:1-15.
38. Lee, C. A., J. M. Auchtung, R. E. Monson, and A. D. Grossman. 2007. Identification and characterization of int (integrase), xis (excisionase) and chromosomal attachment sites of the integrative and conjugative element ICEBs1 of Bacillus subtilis. Mol. Microbiol. 66:1356-1369.
39. Lee, C. A., and A. D. Grossman. 2007. Identification of the origin of transfer (oriT) and DNA relaxase required for conjugation of the integrative and conjugative element ICEBs1 of Bacillus subtilis. J. Bacteriol. 189:7254-7261.
40. Lee, P. S., D. C. Lin, S. Moriya, and A. D. Grossman. 2003. Effects of the chromosome partitioning protein Spo0J (ParB) on oriC positioning and replication initiation in Bacillus subtilis. J. Bacteriol. 185:1326-1337.
41. Lemon, K. P., and A. D. Grossman. 1998. Localization of bacterial DNA polymerase: evidence for a factory model of replication. Science 282:1516-1519.
42. Lemon, K. P., and A. D. Grossman. 2000. Movement of replicating DNA through a stationary replisome. Mol. Cell 6:1321-1330.
43. Meile, J. C., L. J. Wu, S. D. Ehrlich, J. Errington, and P. Noirot. 2006. Systematic localisation of proteins fused to the green fluorescent protein in Bacillus subtilis: identification of new proteins at the DNA replication factory. Proteomics 6:2135-2146.
44. Parsons, J. A., T. L. Bannam, R. J. Devenish, and J. I. Rood. 2007. TcpA, an FtsK/SpoIIIE homolog, is essential for transfer of the conjugative plasmid pCW3 in Clostridium perfringens. J. Bacteriol. 189:7782-7790.
45. Perego, M., G. B. Spiegelman, and J. A. Hoch. 1988. Structure of the gene for the transition state regulator, abrB: regulator synthesis is controlled by the spo0A sporulation gene in Bacillus subtilis. Mol. Microbiol. 2:689-699.
46. Rey, S., M. Acab, J. L. Gardy, M. R. Laird, K. Defays, C. Lambert, and F. S. Brinkman. 2005. PSORTdb: a protein subcellular localization database for bacteria. Nucleic Acids Res. 33:D164-D168.
47. Rost, B., P. Fariselli, and R. Casadio. 1996. Topology prediction for helical transmembrane proteins at 86% accuracy. Protein Sci. 5:1704-1718.
48. Schroder, G., and E. Lanka. 2005. The mating pair formation system of conjugative plasmids-A versatile secretion machinery for transfer of proteins and DNA. Plasmid 54:1-25.
49. Simmons, L. A., B. W. Davies, A. D. Grossman, and G. C. Walker. 2008. Beta clamp directs localization of mismatch repair in Bacillus subtilis. Mol. Cell 29:291-301.
50. Teleman, A. A., P. L. Graumann, D. C. Lin, A. D. Grossman, and R. Losick. 1998. Chromosome arrangement within a bacterium. Curr. Biol. 8:1102-1109.
51. Teng, W. L., T. L. Bannam, J. A. Parsons, and J. I. Rood. 2008. Functional characterization and localization of the TcpH conjugation protein from Clostridium perfringens. J. Bacteriol. 190:5075-5086.
52. Tusnady, G. E., and I. Simon. 1998. Principles governing amino acid composition of integral membrane proteins: application to topology prediction. J. Mol. Biol. 283:489-506.
53. Tusnady, G. E., and I. Simon. 2001. The HMMTOP transmembrane topology prediction server. Bioinformatics 17:849-850.
54. Vasantha, N., and E. Freese. 1980. Enzyme changes during Bacillus subtilis sporulation caused by deprivation of guanine nucleotides. J. Bacteriol. 144:1119-1125.
55. Wang, J. D., M. E. Rokop, M. M. Barker, N. R. Hanson, and A. D. Grossman. 2004. Multicopy plasmids affect replisome positioning in Bacillus subtilis. J. Bacteriol. 186:7084-7090.
56. 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.
57. Yuan, Q., A. Carle, C. Gao, D. Sivanesan, K. A. Aly, C. Hoppner, L. Krall, N. Domke, and C. Baron. 2005. Identification of the VirB4-VirB8-VirB5-VirB2 pilus assembly sequence of type IV secretion systems. J. Biol. Chem. 280:26349-26359.