Ribosome bypassing elicited by tRNA depletion

Molecular Microbiology

Volumn 48, Issue 5, 2003, Pages 1267-1274

  Lindsley, Dale ^a   Gallant, Jonathan ^a   Guarneros, Gabriel ^b  

^a UNIVERSITY OF WASHINGTON   (United States)

^b DEPARTAMENTO DE FÍSICA   (Mexico)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSFER RNA;

ARTICLE; BACTERIUM CULTURE; CHROMOSOME; CODON; ENZYME ASSAY; ESCHERICHIA COLI; NONHUMAN; NUCLEOTIDE SEQUENCE; PLASMID; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN CONTENT; REPORTER GENE; RIBOSOME; RIBOSOME BYPASSING;

AMINO ACID SEQUENCE; BASE SEQUENCE; CODON; ESCHERICHIA COLI; FRAMESHIFTING, RIBOSOMAL; GENES; MOLECULAR SEQUENCE DATA; PLASMIDS; RIBOSOMES; RNA, TRANSFER;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0038724194     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-2958.2003.03514.x     Document Type: Article

References (24)

1. Barak, Z., Lindsley, D., and Gallant, J. (1996) On the mechanism of leftward frameshifting at several hungry codons. J Mol Biol 256: 676-684.
2. Cashel, M., Gentry, D.R., Hernandez, V.J., and Vinella, D. (1996) The stringent response. In Escherichia Coli and Salmonella, Cellular and Molecular Biology. Neidhardt, F.C. (ed.). Washington, D.C.: American Society for Microbiology Press, pp. 1458-1496.
3. Dincbas, V., Heurgue-Hamard, V., Buckingham, R.H., Karimi, R., and Ehrenberg, M. (1999) Shutdown in protein synthesis due to the expression of mini-genes in bacteria. J Mol Biol 291: 745-759.
4. 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.
5. Farabaugh, P.J. (1997) Programmed Alternative Reading of the Genetic Code. Austin, Texas: R.G. Landes.
6. Gallant, J.A., and Lindsley, D. (1998) Ribosomes can slide over and beyond 'hungry' codons, resuming protein chain elongation many nucleotides downstream. Proc Natl Acad Sci USA 95: 13771-13776.
7. Gallant, J., Lindisey, D., and Masucci, J. (2000) The unbearable lightness of peptidyl-tRNA. In The Ribosome: Structure, Function, Antibiotics, and Cellular Interactions. Garrett, R.A., Douthwaite, S.R., Liljas, A., Matheson, A.T., Moor, P.B., and Noller, H.F. (eds). Washington, D.C.: American Society for Microbiology Press, pp. 385-396.
8. Garcia-Villegas, M.R., De La Vega, F.M., Galindo, J.M., Segura, M., Buckingham, R.H., and Guarneros, G. (1991) Peptidyl-tRNA hydrolase is involved in lambda inhibition of host protein synthesis. EMBO J 10: 3549-3555.
9. Gao, W., Jakubowski, H., and Goldman, E. (1995) Evidence that uncharged tRNA can inhibit a programmed translational frameshift in Escherichia coli. J Mol Biol 251: 210-216.
10. Hernandez, J., Ontiveros, C., Valadez, J.G., Buckingham, R.H., and Guarneros, G. (1997) Regulation of protein synthesis by minigene expression. Biochimie 79: 527-531.
11. Hernandez-Sanchez, J., Valadez, J.G., Herrera, J.V., Ontiveros, C., and Guarneros, G. (1998) Lambda bar minigene-mediated inhibition of protein synthesis involves accumulation of peptidyl-tRNA and starvation for tRNA. EMBO J 17: 3758-3765.
12. Herr, A.J., Gesteland, R.F., and Atkins, J.F. (2000a) One protein from two open reading frames: mechanism of a 50 nt translational bypass. EMBO J 19: 2671-2680.
13. Herr, A.J., Atkins, J.F., and Gesteland, R.F. (2000b) Coupling of open reading frames by translational bypassing. Annu Rev Biochem 69: 343-372.
14. Herr, A.J., Nelson, C.C., Wills, N.M., Gesteland, R.F., and Atkins, J.F. (2001a) Analysis of the roles of tRNA structure, ribosomal protein L9, and the bacteriophage T4 Gene 60 bypassing signals during ribosome slippage on mRNA. J Mol Biol 309: 1029-1048.
15. Herr, A.J., Wills, N.M., Nelson, C.C., Gesteland, R.F., and Atkins, J.F. (2001b) Drop-off during ribosome hopping. J Mol Biol 311: 445-452.
16. Heurgue-Hamard, V., Dincbas, V., Buckingham, R.H., and Ehrenberg, M. (2000) Origins of minigene-dependent growth inhibition in bacterial cells. EMBO J 19: 2701-2709.
17. Huang, W.M., Ao, S.Z., Casjens, S., Orlandi, R., Zeikus, R., Weiss, R., et al. (1988) A persistent untranslated sequence within bacteriophage T4 DNA topoisomerase gene 60. Science 239: 1005-1012.
18. Ikemura, T. (1992) Correlation between codon usage and tRNA content in microorganisms. In Transfer RNA in Protein Synthesis. Hatfield, D.L., Lee, B.J., and Pirtle, R.M. (eds). Boca Raton: CRC Press, pp. 87-111.
19. Kalnins, A., Otto, K., Ruther, U., and Muller-Hill, B. (1983) Sequence of the lacZ gene of Escherichia coli. EMBO J 2: 593-597.
20. Miller, J.H. (1972) Experiments in Molecular Genetics. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory.
21. Newton, W.A., Beckwith, J.R., Zipser, D., and Brenner, S. (1965) Nonsense mutants and polarity in the lac operon of Escherichia coli. J Mol Biol 14: 290-296.
22. Ontiveros, C., Valadez, J.G., Hernandez, J., and Guarneros, G. (1997) Inhibition of Escherichia coli protein synthesis by abortive translation of phage lambda minigenes. J Mol Biol 269: 167-175.
23. Tenson, T., Herrera, J.V., Kloss, P., Guarneros, G., and Mankin, A.S. (1999) Inhibition of translation and cell growth by minigene expression. J Bacteriol 181: 1617-1622.
24. Weiss, R.B., Huang, W.M., and Dunn, D.M. (1990) A nascent peptide is required for ribosomal bypass of the coding gap in bacteriophage T4 gene 60. Cell 62: 117-126.