The FNR-type transcriptional regulator SinR controls maturation of Agrobacterium tumefaciens biofilms

Molecular Microbiology

Volumn 52, Issue 5, 2004, Pages 1495-1511

  Ramey, Bronwyn E ^a   Matthysse, Ann G ^b   Fuqua, Clay ^a  

^a INDIANA UNIVERSITY   (United States)

^b UNIVERSITY OF NORTH CAROLINA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

OXYGEN; PROTEIN; PROTEIN FNR; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GROWTH; BACTERIUM CULTURE; BINDING SITE; BIOFILM; CONTROLLED STUDY; ENVIRONMENT; GENE; GENE EXPRESSION; GENE FUNCTION; GENETIC CODE; GENETIC SCREENING; MOLECULAR MODEL; MUTANT; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT TISSUE; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN FAMILY; RHIZOBIUM RADIOBACTER; SIGNAL TRANSDUCTION; SURFACE INTERACTION REGULATOR GENE; SURFACE PROPERTY; THICKNESS; TRANSCRIPTION REGULATION;

BACTERIAL PROTEINS; BASE SEQUENCE; BIOFILMS; GENE EXPRESSION REGULATION, BACTERIAL; MOLECULAR SEQUENCE DATA; OXYGEN; PHENOTYPE; PLANTS; REPRESSOR PROTEINS; RHIZOBIUM RADIOBACTER; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

AGROBACTERIUM; AGROBACTERIUM TUMEFACIENS; BACTERIA (MICROORGANISMS); NEGIBACTERIA;

EID: 2942566582     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2004.04079.x     Document Type: Article

References (64)

1. Arai, H., Kodama, T., and Igarashi, Y. (1997) Cascade regulation of the two CRP/FNR-related transcriptional regulators (ANR and DNR) and the denitrification enzymes in Pseudomonas aeruginosa. Mol Microbiol 25: 1141-1148.
2. Auerbach, I.D., Sorensen, C., Hansma, H.G., and Holden, P.A. (2000) Physical morphology and surface properties of unsaturated Pseudomonas putida biofilms. J Bacteriol 182: 3809-3815.
3. de Beer, D., Stoodley, P., Roe, F., and Lewandowski, Z. (1994) Effects of biofilm structure on oxygen distribution and mass transport. Biotechn Bioeng 43: 1131-1148.
4. Bomchil, N., Watnick, P., and Kolter, R. (2003) Identification and characterization of a Vibrio cholerae gene, mbaA, involved in maintenance of biofilm architecture. J Bacteriol 185: 1384-1390.
5. Bouzar, H., and Moore, L.W. (1987) Isolation of different Agrobacterium biovars from a natural oak savanna and tallgrass prairie. Appl Environ Microbiol 53: 717-721.
6. Breedveld, M.W., and Miller, K.J. (1994) Cyclic beta-glucans of members of the family Rhizobiaceae. Microbiol Rev 58: 145-161.
7. Bronstein, I., Fortin, J., Stanley, P.E., Stewart, G.S., and Kricka, L.J. (1994) Chemiluminescent and bioluminescent reporter gene assays. Anal Biochem 219: 169-181.
8. Busby, S., and Ebright, R.H. (1997) Transcription activation at class II CAP-dependent promoters. Mol Microbiol 23: 853-859.
9. Chen, C.-Y., and Winans, S.C. (1991) Controlled expression of the transcriptional activator gene virG in Agrobacterium tumefaciens by using the Escherichia coli lac promoter. J Bacteriol 173: 1139-1144.
10. Cormack, B.P., Valdivia, R.H., and Falkow, S. (1996) FACS-optimized mutants of the green fluorescent protein (GFP). Gene 173: 33-38.
11. Corona-Izquierdo, F.P., and Membrillo-Hernandez, J. (2002) A mutation in rpoS enhances biofilm formation in Escherichia coli during exponential phase of growth. FEMS Microbiol Lett 211: 105-110.
12. Danese, P.N., Pratt, L.A., and Kolter, R. (2000) Exopolysaccharide production is required for development of Escherichia coli K-12 biofilm architecture. J Bacteriol 183: 3593-3596.
13. Danhorn, T., Hentzer, M., Givskov, M., Parsek, M., and Fuqua, C. (2004) Phosphorous limitation enhances biofilm formation of the plant pathogen Agrobacterium tumefaciens through the PhoR-PhoB regulatory system. J Bacteriol (in press).
14. Davey, M.E., and O'Toole, G.A. (2000) Microbial biofilms: from ecology to molecular genetics. Microbiol Mol Biol Rev 64: 847-867.
15. Davey, M.E., Caiazza, N.C., and O'Toole, G.A. (2003) Rhamnolipid surfactant production affects biofilm architecture in Pseudomonas aeruginosa PAO1. J Bacteriol 185: 1027-1036.
16. Davies, D.G., Parsek, M.R., Pearson, J.P., Iglewski, B.H., Costerton, J.W., and Greenberg, E.P. (1998) The involvement of cell-to-cell signals in the development of a bacterial biofilm. Science 280: 295-298.
17. Dennis, J.J., and Zylstra, G.J. (1998) Plasposons: modular self-cloning minitransposon derivatives for rapid genetic analysis of gram-negative bacterial genomes. Appl Environ Microbiol 64: 2710-2715.
18. Egland, P.G., and Harwood, C.S. (2000) HbaR, a 4-hydroxybenzoate sensor and FNR-CRP superfamily member, regulates anaerobic 4-hydroxybenzoate degradation by Rhodopseudomonas palustris. J Bacteriol 182: 100-106.
19. Fellay, R., Frey, J., and Kirsch, H. (1984) 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.
20. Fuqua, C., Burbea, M., and Winans, S.C. (1995) Activity of the Agrobacterium Ti plasmid conjugal transfer regulator TraR is inhibited by the product of the traM gene. J Bacteriol 177: 1367-1373.
21. Gelvin, S.B. (2003) Agrobacterium-mediated plant transformation: the biology behind the 'gene-jockeying' tool. Microbiol Mol Biol Rev 67: 16-37.
22. Goodner, B., Hinkle, G., Gattung, S., Miller, N., Blanchard, M., Qurollo, B., et al. (2001) Genome sequence of the plant pathogen and biotechnology agent Agrobacterium tumefaciens C58. Science 294: 2323-2328.
23. Green, J., Scott, C., and Guest, J.R. (2001) Functional versatility in the CRP-FNR superfamily of transcription factors: FNR and FLP. Adv Microb Phys 44: 1-34.
24. He, X., Chang, W., Pierce, D.L, Seib, L.O., Wagner, J., and Fuqua, C. (2003) Quorum sensing in Rhizobium sp. strain NGR234 regulates conjugal transfer (tra) gene expression and influences growth rate. J Bacteriol 185: 809-822.
25. Hentzer, M., Teitzel, G.M., Balzer, G.J., Heydorn, A., Molin, S., Givskov, M., and Parsek, M.R. (2001) Alginate overproduction affects Pseudomonas aeruginosa biofilm structure and function. J Bacteriol 183: 5395-5401.
26. Heydorn, A., Toftgaard Nielsen, A., Hentzer, M., Sternberg, C., Givskov, M., Kjaer Ersboll, B., and Molin, S. (2000) Quantification of biofilm structures by the novel computer program COMSTAT. Microbiology 146: 2395-2407.
27. Huber, B., Riedel, K., Hentzer, M., Heydorn, A., Gotschlich, A., Givskov, M., et al. (2001) The cep quorum-sensing system of Burkholderia cepacia H111 controls biofilm formation and swarming motility. Microbiology 147: 2517-2528.
28. Hwang, I., Li, P.-L., Zhang, L., Piper, K.R., Cook, D.M., Tate, M.E., and Farrand, S.K. (1994) Tral, a Luxl homologue, is responsible for production of conjugation factor, the Ti plasmid N-actylhomoserine lactone autoinducer. Proc Natl Acad Sci USA 91: 4639-4643.
29. Jackson, D.W., Simecka, J.W., and Romeo, T. (2002) Catabolite repression of Escherichia coli biofilm formation. J Bacteriol 184: 3406-3410.
30. Kalogeraki, V.S., and Winans, S.C. (1997) Suicide plasmids containing promoterless reporter genes can simultaneously disrupt and create fusions to target genes of diverse bacteria. Gene 188: 69-75.
31. Kaniga, K., Delor, I., and Cornelis, G.R. (1991) A wide-host-range suicide vector for improving reverse genetics in Gram-negative bacteria: inactivation of the blaA gene of Yersinia enterocolitica. Gene 109: 137-141.
32. Kiley, P.J., and Beinert, H. (2003) The role of Fe-S proteins in sensing and regulation in bacteria. Curr Opin Microbiol 6: 181-185.
33. Kingston, R.E. (1987) Primer extension. In Current Protocols in Molecular Biology. Stuhl, K. (ed.). New York: John Wiley & Sons, pp. 4.8.1-4.8.3.
34. Körner, H., Sofia, H.J., and Zumft, W.G. (2003) Phylogeny of the bacterial superfamily of Crp-Fnr transcription regulators: exploiting the metabolic spectrum by controlling alternative gene programs. FEMS Microbiol Lett 792: 1-34.
35. Kovach, M.E., Elzer, P.H., Hill, D.S., Robertson, G.T., Farris, M.A., Roop, R.M.I., and Peterson, K.M. (1995) Four new derivatives of the broad-host-range cloning vector pBBR1MCS, carrying different antibiotic resistance cassettes. Gene 166: 175-176.
36. Kuchma, S.L., and O'Toole, G.A. (2000) Surface-induced and biofilm-induced changes in gene expression. Curr Opin Biotechn 11: 429-433.
37. Lawrence, J.R., and Neu, T.R. (1999) Confocal laser scanning microscopy for analysis of microbial biofilms. Methods Enzymol 310: 131-144.
38. Lewis, K. (2001) Riddle of biofilm resistance. Antimicrob Agents Chemother 45: 999-1007.
39. Loper, J.E., Suslow, T.V., and Schroth, M.N. (1984) Lognormal distribution of bacterial populations in the rhizosphere. Phytopathology 74: 1454-1460.
40. Luo, Z.-Q., Clemente, I.E., and Farrand, S.K. (2001) Construction of a derivative of Agrobacterium tumefaciens C58 that does not mutate to tetracycline resistance. Mol Plant Microbe Interac 14: 98-103.
41. Lynch, M.J., Swift, S., Kirke, D.F., Keevil, C.W., Dodd, C.E., and Williams, P. (2002) The regulation of biofilm development by quorum sensing in Aeromonas hydrophila. Environ Microbiol 4: 18-28.
42. Matthysse, A.G. (1983) Role of bacterial cellulose fibrils in Agrobacterium tumefaciens infection. J Bacteriol 154: 906-915.
43. Matthysse, A.G. (1995) Observation and measurement of bacterial adhesion to plants. Methods Enzymol 253: 189-206.
44. Matthysse, A.G. (1996) Adhesion in the rhizosphere. In Bacterial Adhesion: Molecular and Ecological Diversity. Fletcher, M. (ed.). New York: Wiley-Liss, pp. 59-87.
45. Miller, J.F., Mekalanos, J.J., and Falkow, S. (1989) Coordinate regulation and sensory transduction in the control of bacterial virulence. Science 243: 916-922.
46. Mills, A.L., and Powelson, D.K. (1996) Bacterial interactions with surfaces in soils. In Bacterial Adhesion: Molecular and Ecological Diversity. Fletcher, M. (ed.). New York: Wiley-Liss, pp. 25-57.
47. Monds, R.D., Silby, M.W., and Mahanty, H.K. (2001) Expression of the Pho regulon negatively regulates biofilm formation by Pseudomonas aureofaciens PA147-2. Mol Microbiol 42: 415-426.
48. O'Toole, G.A., Pratt, L.A., Watnick, P.I., Newman, D.K., Weaver, V.B., and Kolter, R. (1999) Genetic approaches to study of biofilms. Methods Enzymol 310: 91-109.
49. O'Toole, G.A., Gibbs, K.A., Hager, P.W., Phibbs, P.V.J., and Kolter, R. (2000) The global carbon metabolism regulator Crc is a component of a signal transduction pathway required for biofilm development by Pseudomonas aeruginosa. J Bacteriol 182: 425-431.
50. Okinaka, Y., Yang, C.-H., Perna, N.T., and Keen, N.T. (2002) Microarray profiling of Erwinia chrysanthemi 3937 genes that are regulated during plant infection. Mol Plant Microbe Interac 15: 619-629.
51. Sciaky, D., Montoya, A.L., and Chilton, M.-D. (1977) Fingerprints of Agrobacterium Ti plasmids. Plasmid 1: 238-253.
52. Scott, C., Partridge, J.D., Stephenson, J.R., and Green, J. (2003) DNA target sequence and FNR-dependent gene expression. FEBS Lett 541: 97-101.
53. Spiro, S. (1994) The FNR family of transcriptional regulators. Antonie van Leeuwenhoek 66: 23-36.
54. Summers, W.C. (1970) A simple method for extraction of RNA from E. coli utilizing diethyl pyrocarbonate. Anal Biochem 33: 459-463.
55. Tempé, J., Petit, A., Holsters, M., Van Montagu, M., and Schell, J. (1977) Thermosensitive step associated with transfer of the Ti plasmid during conjugation: possible relation to transformation in crown gall. Proc Natl Acad Sci USA 74: 2848-2849.
56. Tosques, I.E., Shi, J., and Shapleigh, JP. (1996) Cloning and characterization of nnrR, whose product is required for the expression of proteins involved in nitric oxide metabolism in Rhodobacter sphaeroides 2.4.3. J Bacteriol 178: 4958-4964.
57. Van Spanning, R.J., De Boer, A.P., Reijnders, W.N., Spiro, S., Westerhoff, H.V., Stouthamer, A.M., and Van der Oost, J. (1995) Nitrite and nitric oxide reduction in Paracoccus denitrificans is under the control of NNR, a regulatory protein that belongs to the FNR family of transcriptional activators. FEBS Lett 360: 151-154.
58. Van Spanning, R.J.M., De Boer, A.P.N., Reijnders, W.N.M., Westerhoff, H.V., Stouthamer, A.H., and Van Der Oost, J. (1997) FnrP and NNR of Paracoccus denitrificans are both members of the FNR family of transcriptional activators but have distinct roles in respiratory adaptation in response to oxygen limitation. Mol Microbiol 23: 893-907.
59. Vollack, K.-U., Hartig, E., Korner, H., and Zumft, W.G. (1999) Multiple transcription factors of the FNR family in denitrifying Pseudomonas stutzeri: characterization of four fnr-like genes, regulatory responses and cognate metabolic processes. Mol Microbiol 31: 1681-1694.
60. Winans, S.C., Zhu, J., and More, M.I. (1999) Cell density-dependent gene expression by Agrobacterium tumefaciens during colonization of crown gall tumors. In Cell-Cell Signaling in Bacteria. Dunny, G.M., and Winans, S.C. (eds). Washington, DC: American Society for Microbiology Press, pp. 117-128.
61. Wood, D.W., Setulab, J.C., Kaul, R., Monks, D.E., Kitajima, J.P., Okura, V.K., et al. (2001) The genome of the natural genetic engineer Agrobacterium tumefaciens C58. Science 294: 2317-2323.
62. Woodcock, D.M.P.J.C., Doherty, J., Jefferson, S., DeCruz, E., Noyer-Weidner, M., Smith, S.S., et al. (1989) Quantitative evaluation of Escherichia coli host strains for tolerance to cytosine methylation in plasmid and phage recombinants. Nucleic Acids Res 17: 3469-3478.
63. Yildiz, F.H., and Schoolnik, G.K. (1999) Vibrio cholerae 01 El Tor: identification of a gene cluster required for the rugose colony type, exopolysaccharide production, chlorine resistance, and biofilm formation. Proc Natl Acad Sci USA 96: 4028-4033.
64. Yoon, S.S., Hennigan, R.F., Hilliard, G.M., Ochsner, U.A., Parvatiyar, K., Kamani, M.C., et al. (2002) Pseudomonas aeruginosa anaerobic respiration in biofilms: relationships to cystic fibrosis pathogenesis. Dev Cell 3: 593-603.