Growth rate-dependent control, feedback regulation and steady-state mRNA levels of the threonyl-tRNA synthetase gene of Escherichia coli

Journal of Molecular Biology

Volumn 261, Issue 2, 1996, Pages 108-124

  Comer, M M ^a   Dondon, J ^a   Graffe, M ^a   Yarchuk, O ^b,c   Springer, M ^a  

^a INST DE BIOLOGIE PHYSICO CHIMIQUE   (France)

^b ECOLE NORMALE SUPÉRIEURE   (France)

^c HARVARD UNIVERSITY   (United States)

Author keywords

Aminoacyl tRNA synthetase; mRNA degradation; Translational control

Indexed keywords

BETA GALACTOSIDASE; MESSENGER RNA; THREONINE TRANSFER RNA LIGASE;

ANTICODON; ARTICLE; CODON; CONTROLLED STUDY; ESCHERICHIA COLI; FEEDBACK SYSTEM; GENE CONTROL; GENE EXPRESSION REGULATION; GENE MUTATION; GROWTH RATE; NONHUMAN; PRIORITY JOURNAL; PROTEIN RNA BINDING; RNA DEGRADATION; RNA TRANSLATION; TRANSLATION REGULATION;

ESCHERICHIA COLI;

EID: 0030590216     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1996.0445     Document Type: Article

References (43)

1. Bolivar, F., Rodriguez, R. L., Greene, P. J., Heynecker, H. L., Boyer, H. W., Crosa, J. H. & Falkow, S. (1977). Construction and characterization of new cloning vehicles. II. A multipurpose cloning system. Gene, 2, 95-113.
2. Bremer, H. & 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 (Neidhardt, F. C., ed.), vol. 2, pp. 1527-1542, American Society for Microbiology, Washington, DC.
3. Brunel, C., Caillet, J., Lesage, P., Graffe, M., Dondon, J., Moine, H., Romby, P., Ehresmann, C., Ehresmann, B., Grunberg-Manago, M. & Springer, M. (1992). The domains of the E. coli threonyl-tRNA synthetase translational operator and their relation to threonine tRNA isoacceptors. J. Mol. Biol. 227, 621-634.
4. Brunel, C., Romby, P., Sacerdot, C., de Smit, M., Graffe, M., Dondon, J., van Duin, J., Ehresmann, B., Ehresmann, C. & Springer, M. (1995). Stabilised secondary structure at a ribosomal binding site enhances translational repression in E. coli. J. Mol. Biol. 253, 277-290.
5. Butler, J. S., Springer, M., Dondon, J. & Grunberg-Manago, M. (1986). Posttranscriptional autoregulation of Escherichia coli threonyl-tRNA synthetase expression in vivo. J. Bacteriol. 165, 198-203.
6. Cole, J. R. & Nomura, M. (1986a). Changes in the half-life of ribosomal protein messenger RNA caused by translational repression. J. Mol. Biol. 188, 383-392.
7. Cole, J. R. & Nomura, M. (1986b). Translation regulation is responsible for growth-rate-dependent and stringent control of the synthesis of ribosomal proteins L11 and L1 in E. coli. Proc. Natl Acad. Sci. USA, 83, 4129-4133.
8. Dong, H., Nilsson, L. & Kurland, C. G. (1996). Covariation of tRNA abundance and codon usage in E. coli at different growth rates. J. Mol. Biol. 260, 649-663.
9. Emilsson, V. (1993). Transfer RNA regulation and bacterial growth. PhD thesis, Uppsala University.
10. Emilsson, V. & Kurland, C. G. (1990). Growth rate dependence of transfer RNA abundance in Escherichia coli. EMBO J. 9, 4359-4366.
11. Emilsson, V., Näslund, A. K. & Kurland, C. G. (1993). Growth rate dependent accumulation of twelve tRNA species in E. coli. J. Mol. Biol. 230, 483-491.
12. Graffe, M., Dondon, J., Caillet, J., Romby, P., Ehresmann, C., Ehresmann, B. & Springer, M. (1992). The specificity of translational control switched using tRNA identity rules. Science, 225, 994-996.
13. Hamilton, C. M., Aldes, M., Washburn, H. K., Babitzke, P. & Kushner, S. R. (1989). New method for generating deletions and gene replacements in E. coli. J. Bacteriol. 171, 4617-4622.
14. Hasegawa, T., Miyano, M., Himeno, H., Sano, Y., Kimura, K. & Shimizu, M. (1992). Identity determinants of E. coli threonine tRNA. Biochem. Biophys. Res. Commun. 184, 478-484.
15. Jensen, K. F. & Pedersen, S. (1990). Metabolic growth rate control in E. coli may be a consequence of subsaturation of the macromolecular biosynthetic apparatus with substrates and catalytic components. Microbiol. Rev. 54, 89-100.
16. Lesage, P., Truong, H. N., Graffe, M., Dondon, J. & Springer, M. (1990). Translated translational operator in Escherichia coli: autoregulation in the infC-rpmI-rplT operon. J. Mol. Biol. 213, 465-475.
17. Lindahl, L. & Zengel, J. (1990). Autogenous control is not sufficient to ensure steady-state growth rate-dependent regulation of the S10 ribosomal operon of Escherichia coli. J. Bacteriol. 172, 305-309.
18. McClain, W. H. (1993). Rules that govern tRNA identity in protein synthesis. J. Mol. Biol. 234, 257-280.
19. Miller, J. H. (1972). Experiments in Molecular Genetics, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
20. Miller, J. H. (1992). A Short Course in Bacterial Genetics. Handbook, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
21. Miller, J. H. & Albertini, A. M. (1983). Effect of surrounding sequences on the suppression of nonsense codons. J. Mol. Biol. 164, 59-71.
22. Miyajima, A., Shibuya, M. & Kaziro, Y. (1979). The expression of the cloned tufB gene in vivo. FEBS Letters, 102, 207-210.
23. Thr ligase. Proc. Natl Acad. Sci. USA, 85, 7892-7896.
24. Thr modulate the binding of the ribosome to the translation initiation site of the thrS mRNA. J. Mol. Biol. 216, 299-310.
25. Neidhardt, F. C., Bloch, P. L. & Smith, D. S. (1974). Culture medium for enterobacteria. J. Bacteriol. 119, 736-747.
26. Neidhardt, F. C., Bloch, P. L., Pedersen, S. & Reeh, S. (1977). Chemical measurement of steady-state levels of ten aminoacyl-transfer ribonucleic acid synthetases in E. coli. J. Bacteriol. 129, 378-387.
27. Nomura, M., Gourse, R. & Baughman, G. (1984). Regulation of the synthesis of ribosomes and ribosomal components. Annu. Rev. Biochem. 53, 73-117.
28. Plumbridge, J. & Söll, D. (1989). Characterization of cis-acting mutations which increase expression of a glnS-lacZ fusion in E. coli. Mol. Gen. Genet. 216, 113-119.
29. Plumbridge, J. A., Springer, M., Graffe, M., Goursot, R. & Grunberg-Manago, M. (1980). Physical localisation and cloning of the structural gene for E. coli initiation factor IF3 from a group of genes concerned with translation. Gene, 11, 33-42.
30. Putzer, H., Grunberg-Manago, M. & Springer, M. (1995). Bacterial aminoacyl-tRNA synthetases: genes and regulation of expression. In tRNA (Söll, D. & RajBhandary, U. L., eds), pp. 293-333, American Society for Microbiology, Washington, DC.
31. Romby, P., Brunel, C., Caillet, J., Springer, M., Grunberg-Manago, M., Westhof, E., Ehresmann, C. & Ehresmann, B. (1992). Molecular mimicry in translational control of E. coli threonyl-tRNA synthetase gene. Competitive inhibition in tRNA aminoacylation and operator-repressor recognition switch using tRNA identity rules. Nucl Acids Res. 20, 5633-5640.
32. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
33. Schaffner, W. & Weismann, C. (1973). A rapid, sensitive and specific method for the determination of proteins in dilute solutions. Anal. Biochem. 56, 502-514.
34. Schulman, L. H. (1991). Recognition of transfer RNAs by aminoacyl-transfer RNA synthetases. Prog. Nucl Acid Res. Mol. Biol. 41, 23-87.
35. Springer, M., Plumbridge, J. A., Butler, J. S., Graffe, M., Dondon, J., Mayaux, J. F., Fayat, G., Lestienne, P., Blanquet, S. & Grunberg-Manago, M. (1985). Autogenous control of Escherichia coli threonyl-tRNA synthetase expression in vivo. J. Mol. Biol. 185, 93-104.
36. Springer, M., Graffe, M., Butler, J. S. & Grunberg-Manago, M. (1986). Genetic definition of the translational operator of the threonine tRNA ligase gene in Escherichia coli. Proc. Natl Acad. Sci. USA, 83, 4384-4388.
37. Springer, M., Graffe, M., Dondon, J. & Grunberg-Manago, M. (1989). tRNA-like structures and gene regulation at the translational level: a case of molecular mimicry in E. coli. EMBO J. 8, 2417-2424.
38. Uzan, M., Favre, R. & Brody, N. E. (1988). A nuclease that cuts specifically in the ribosome binding site of some T4 mRNAs. Proc. Natl Acad. Sci. USA, 85, 8895-8899.
39. VanBogelen, R. A., Sankar, P., Clark, R. L., Bogan, A. & Neidhardt, F. C. (1992). The gene-protein database of E. coli: edition 5. Electrophoresis, 13, 1014-1054.
40. Wertheimer, S. J., Klotsky, R.-A. & Schwartz, I. (1988). Transcriptional patterns for the thrS-infC-rplT operon of Escherichia coli. Gene, 63, 309-320.
41. Yanisch-Perron, C., Vieira, J. & Messing, J. (1985). Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene, 33, 103-119.
42. Yarchuk, O., Jacques, N., Guillerez, J. & Dreyfus, M. (1992). Interdependence of translation, transcription and mRNA degradation in the lacZ gene. J. Mol. Biol. 226, 581-596.
43. Zengel, J. M. & Lindahl, L. (1994). Diverse mechanisms for regulating ribosomal protein synthesis in E. coli. Prog. Nucl Acid Res. Mol. Biol. 47, 331-369.