Influence of FIS on the transcription from closely spaced and non- overlapping divergent promoters for an aminoacyl-tRNA synthetase gene (gltX) and a tRNA operon (valU) in Escherichia coil

Molecular Microbiology

Volumn 27, Issue 6, 1998, Pages 1141-1156

  Champagne, Nathalie ^a   Lapointe, Jacques ^a  

^a UNIVERSITÉ LAVAL   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID TRANSFER RNA LIGASE; GLUTAMATE TRANSFER RNA LIGASE; TRANSFER RNA;

ARTICLE; BACTERIAL GENE; BACTERIAL GROWTH; ESCHERICHIA COLI; GENETIC TRANSCRIPTION; GENETIC VARIABILITY; NONHUMAN; OPERON; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN SYNTHESIS; TRANSCRIPTION INITIATION;

AMINO ACYL-TRNA SYNTHETASES; BASE SEQUENCE; BINDING SITES; CARRIER PROTEINS; DNA FOOTPRINTING; DNA-BINDING PROTEINS; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; FACTOR FOR INVERSION STIMULATION PROTEIN; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; GLUTAMATE-TRNA LIGASE; INTEGRATION HOST FACTORS; MOLECULAR SEQUENCE DATA; MUTAGENESIS, SITE-DIRECTED; PROMOTER REGIONS (GENETICS); REPRESSOR PROTEINS; RNA, MESSENGER; RNA, TRANSFER; SEQUENCE DELETION; TRANSCRIPTION, GENETIC;

EID: 0031950961     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.1998.00745.x     Document Type: Article

References (53)

1. Adams, C.W., and Hatfield, G.W. (1984) Effects of promoter strengths and growth conditions on copy number of transcription-fusion vectors. J Biol Chem 259: 7399-7403.
2. Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D., Seidman, J.G., Smith, J.A., and Struhl, K. (eds) (1989) Current Protocols in Molecular Biology. New York: John Wiley & Sons.
3. Ball, C.A., Osuna, R., Ferguson, K.C., and Johnson, R.C. (1992) Dramatic changes in Fis levels upon nutrient upshift in Escherichia coli. J Bacteriol 174: 8043-8056.
4. Bauer, B.F., Kas, E.G., Elford, R.M., and Holmes, W.M. (1988) Sequence determinants for promoter strength in the leuV operon of Escherichia coli. Gene 63: 123-134.
5. Blattner, F.R. et al. (1997) The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1474.
6. Blumenthal, R.M., Lemaux, P.G., Neidhardt, F.C., and Dennis, P.P. (1976) The effects of the relA gene on the synthesis of aminoacyl-tRNA synthetases and other transcription and translation proteins in Escherichia coli B. Mol Gen Genet 149: 291-296.
7. Bokal, A.J., Ross, W., and Gourse, R.L. (1995) The transcriptional activator protein FIS: DNA interactions and cooperative interactions with RNA polymerase at the Escherichia coli rrnBP1 promoter. J Mol Biol 245: 197-207.
8. Bremer, H., and Dennis, P.P. (1987) Modulation of chemical composition and other parameters of the cell by growth rate. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology, Vol 2, Neidhardt, F. (ed.). Washington, DC: American Society for Microbiology, pp. 1527-1542.
9. Brun, Y., Breton, R., Lanouette, P., and Lapointe, J. (1990a) Precise mapping and comparison of two evolutionary related regions of the Escherichia coli K-12 chromosome. Evolution of valU and lysT from an ancestral tRNA operon. J Mol Biol 214: 825-843.
10. Brun, Y.V., Sanfaçon, H., Breton, R., and Lapointe, J. (1990b) Closely spaced and divergent promoters for an aminoacyl-tRNA synthetase gene and a tRNA operon in Escherichia coli. Transcriptional and post-transcriptional regulation of gltX, valU and alaW. J Mol Biol 214: 845-864.
11. Cashel, M., and Rudd, K.E. (1987) The stringent response. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. Neidhardt, F.C. (ed.). Washington DC. American Society for Microbiology, pp. 1410-1438.
12. Claret, L., and Rouvière-Yaniv, J. (1996) Regulation of HUα and HUβ by CRP and FIS in Escherichia coli. J Mol Biol 263: 126-139.
13. Condon, C., Philips, J., Fu, Z.-Y., Squires, C., and Squires, C.L. (1992) Comparison of the seven ribosomal RNA operons in Escherichia coli. EMBO J. 11: 4175-4185.
14. Condon, C., Squires, C., and Squires, C.L. (1995) Control of rRNA transcription in Escherichia coli. Microbiol Rev 59: 623-645.
15. Dong, H., Nilsson, L., and Kurland, C.G. (1996) Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates. J Mol Biol 260: 649-663.
16. Emilsson, V., and Kurland, C.G. (1990) Growth rate dependence of transfer RNA abundance in Escherichia coli. EMBO J 9: 4359-4366.
17. Finkel, S.E., and Johnson, R.C. (1992) The FIS protein: it's not just for DNA inversion anymore. Mol Microbiol 6: 3257-3265.
18. Fishov, I., Zaritsky, A., and Grover, N.B. (1995) On microbial states of growth. Mol Microbiol 15: 789-794.
19. Fleischmann, R.D., Adams, M.D., White, O., Clayton, R.A., Kirkness, E.F., Kerlavage, A.R. et al. (1995) Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269: 496-512.
20. Gonzalez-Gil, G., Bringmann, P., and Kahmann, R. (1996) FIS is a regulator of metabolism in Escherichia coli. Mol Microbiol 22: 21-29.
21. Gosink, K.K., Ross, W., Leitmo, S., Osuna, R., Finkel, S.E., Johnson, R.C., and Gourse, R.L. (1993) DNA binding and bending are necessary but not sufficient for FIS-dependent activation of rrnBP. J Bacteriol 175: 1580-1589.
22. Gourse, R.L., de Boer, H.A., and Nomura, M. (1986) DNA determinants of rRNA synthesis in E. coli: growth rate dependent regulation, feedback inhibition, upstream activation, antitermination. Cell 44: 197-205.
23. Grunberg-Manago, M. (1996) Regulation of the expression of aminoacyl-tRNA synthetases and translation factors. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology, 2nd edn, Vol. 2, Neidhardt, F.C. (Editor-in-Chief), Curtiss, R., Ingraham, J.L., Lin, E.C.C., Low, K.B., Magasanik, B., Reznikoff, W.S., Riley, M., Schaechter, M., and Umbarger, H.E. (eds). Washington, DC: American Society for Microbiology, pp. 1432-1457.
24. Hanahan, D. (1983) Studies on transformation of Escherichia coli with plasmids. J Mol Biol 166: 557-580.
25. Huang, L., Tsui, P., and Freundlich, M. (1990) Integration host factor is a negative effector of in vivo and in vitro expression of ompC in Escherichia coli. J Bacteriol 172: 5293-5298.
26. Hubner, P., and Arber, W. (1989) Mutational analysis of a prokaryotic recombinational enhancer with two functions. EMBO J 8: 577-585.
27. Inokuchi, H., and Yamao, F. (1995) Structure and expression of prokaryotic IRNA genes. In tRNA Structure, Biosynthesis and Function. Söll, D., and RajBhandary, U.L. (eds). Washington DC: American Society for Microbiology, pp. 17-30.
28. Jinks-Robertson, S., Gourse, R.L., and Nomura, M. (1983) Expression of rRNA and tRNA genes in Escherichia coli: Evidence for feedback regulation by products of rRNA operons. Cell 33: 865-876.
29. Johnson, R.C., Ball, C.A., Pfeffer, D., and Simon, M.I. (1988) Isolation of the gene encoding the Hin recombinational enhancer binding protein. Proc Natl Acad Sci USA 85: 3484-3488.
30. Kunkel, T.A., Roberts, J.D., and Zabour, R.A. (1987) Rapid and efficient site-specific mutagenesis without phenotypic selection. Methods Enzymol 154: 367-382.
31. Laemmli, U.K. (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227: 680-685.
32. Lamond, A.I., and Travers, A.A. (1985) Genetically separable functional elements mediate the optimal expression and stringent regulation of a bacterial gene. Cell 40: 319-326.
33. Lazarus, L.R., and Travers, A.A. (1993) The Escherichia coli FIS protein is not required for the activation of tyrT transcription on entry into exponential growth. EMBO J. 12: 2483-2494.
34. Levasseur, S. (1986) Etude de la régulation de l'activité et de la biosynthèse de la glutamyl-tRNA synthétase chez Escherichia coli. Mémoire de maîtrise, Université Laval. Québec, Canada.
35. Maxam, H., and Gilbert, W. (1980) Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol 65: 499-560.
36. Miller, J.H. (1992) Procedures for working with lac. In A Short Course in Bacterial Genetics: A Laboratory Manual and Handbook for Escherichia coli and Related Bacteria. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, pp. 72-74.
37. Neidhardt, F.C., Blosch, P.L., Pedersen, S., and Reeh, S. (1977) Chemical measurements of steady state levels of 10 aminoacyl-tRNA synthetases in E. coli. J Bacteriol 129: 378-387.
38. Nilsson, L., Vanet, A., Vijgenboom, E., and Bosch, L. (1990) The role of FIS in trans activation of stable RNA operons of E. coli. EMBO J. 9: 727-734.
39. Nilsson, L., Verbeek, H., Vijgenboom, E., Van Drunen, C., Vanet, A., and Bosch, L. (1992) FIS-dependant trans activation of stable RNA operons of Escherichia coli under various growth conditions. J Bacteriol 174: 921-929.
40. Ninnemann, O., Koch, C., and Kahmann, R. (1992) The E. coli fis promoter is subject to stringent control and autoregulation. EMBO J 11: 1075-1083.
41. Pan, C.Q., Finkel, S.E., Cramton, S.E., Feng, J., Sigman, D.S., and Johnson, R.C. (1996) Variable structures of FIS-DNA complexes determined by flanking DNA-protein contacts. J Mol Biol 264: 675-695.
42. Putzer, H., Gendron, N., and Grunberg-Manago, M. (1992) Coordinate expression of the two threonyl-tRNA synthetase genes in Bacillus subtilis: control by transcriptional antitermination involving a conserved regulatory sequence. EMBO J. 11: 3117-3127.
43. Putzer, H., Grunberg-Manago, M., and Springer, M. (1995) Bacterial aminoacyl-tRNA synthetases: genes and regulation of expression. In tRNA Structure, Biosynthesis and Function. Söll, D., and RajBhandary, D. (eds). Washington DC: American Society for Microbiology, pp. 293-333.
44. Ross, W., Thompson, J.F., Newlands, J.T., and Gourse, R.L. (1990) E. coli Fis protein activates ribosomal RNA transcription in vitro and in vivo. EMBO J. 9: 3733-3742.
45. Schneider, K., and Beck, C.F. (1986) Promoter-probe vectors for the analysis of divergently arranged promoters. Gene 42: 37-48.
46. Simons, R.W., Houman, F., and Kleckner, N. (1987) Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene 53: 85-96.
47. Stueber, D., and Bujard, H. (1982) Transcription from efficient promoters can interfere with plasmid replication and diminish expression of plasmid specified genes. EMBO J 1: 1399-1404.
48. Thompson, J., and Landy, A. (1988) Empirical estimation of protein-induced DNA bending angles: applications to lambda site-specific recombination complexes. Nucleic Acids Res 16: 9687-9705.
49. Travers, A.A., Lamond, A.I., Mace, H.A.F., and Berman, M.L. (1983) RNA polymerase interactions with the upstream region of E. coli tyrT promoter. Cell 35: 265-273.
50. van Deft, J.H.M., Marion, B., Schmidt, D.S., and Bosch, L. (1987a) Transcription of the tRNA-tufB operon of Escherichia coli: activation, termination and antitermination. Nucleic Acids Res 15: 9515-9530.
51. van Deft, J.H.M., Schmidt, D.S., and Bosch, L. (1987b) The tRNA-tufB operon transcription termination and processing upstream from tufB. J Mol Biol 197: 647-657.
52. Verbeek, H., Nilsson, L., Baliko, G., and Bosch, L. (1990) Potential binding sites of the trans-activator FIS are present upstream of all rRNA operons and of many but not all tRNA operons. Biochim Biophys Acta 1050: 302-306.
53. Vind, J., Sorensen, M.A., Rasmussen, M.D., and Pedersen, S. (1993) Synthesis of proteins in Escherichia coli is limited by the concentration of free ribosomes. Expression from reporter genes does not always reflect functional mRNA levels. J Mol Biol 231: 678-688.