Cleavage of mRNAs and role of tmRNA system under amino acid starvation in Escherichia coli

Molecular Microbiology

Volumn 68, Issue 2, 2008, Pages 462-473

  Li, Xia ^a   Yagi, Mieko ^a   Morita, Teppei ^a   Aiba, Hiroji ^a  

^a NAGOYA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; ANTITOXIN; BACTERIAL TOXIN; CASAMINO ACID; MESSENGER RNA; SERINE; THREONINE;

ANIMAL CELL; ARTICLE; BACTERIAL GROWTH; CODON; CONTROLLED STUDY; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEPLETION; PROTEIN EXPRESSION; PROTEIN MALNUTRITION; RNA CLEAVAGE; WESTERN BLOTTING;

AMINO ACIDS; BACTERIAL TOXINS; CYCLIC AMP RECEPTOR PROTEIN; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE DELETION; RNA, BACTERIAL; RNA, MESSENGER; TRANSCRIPTION FACTORS;

ESCHERICHIA COLI;

EID: 41049097536     PISSN: 0950382X     EISSN: 13652958     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2008.06167.x     Document Type: Article

References (35)

1. Abo, T., Inada, T., Ogawa, K. Aiba, H. (2000) SsrA-mediated tagging and proteolysis of LacI and its role in the regulation of lac operon. EMBO J 19 : 3762 3769.
2. Abo, T., Ueda, K., Sunohara, T., Ogawa, K. Aiba, H. (2002) SsrA-mediated protein tagging in the presence of miscoding drugs and its physiological role in Escherichia coli. Genes Cells 7 : 629 638.
3. Aiba, H., Adhya, S. de Crombrugghe, B. (1981) Evidence for two functional gal promoters in intact Escherichia coli cells. J Biol Chem 256 : 11905 11910.
4. Aiba, H., Fujimoto, S. Ozaki, N. (1982) Molecular cloning and nucleotide sequencing of the gene for E. coli cAMP receptor protein. Nucleic Acids Res 10 : 1345 1361.
5. Atkins, J.F. Gesteland, R.F. (1996) A case for trans translation. Nature 379 : 769 771.
6. Casadaban, M.J. (1976) Transposition and fusion of the lac genes to selected promoters in Escherichia coli using bacteriophage lambda and Mu. J Mol Biol 104 : 541 555.
7. Cashel, M., Gentry, D., Hernandez, V.J. Vinella, D. (eds) (1996) The stringent response. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology. Neidhardt, F.C. (ed.) Washington, DC : ASM Press, pp. 1458 1496.
8. Christensen, S.K. Gerdes, K. (2003) RelE toxins from bacteria and Archaea cleave mRNAs on translating ribosomes, which are rescued by tmRNA. Mol Microbiol 48 : 1389 1400.
9. Christensen, S.K., Mikkelsen, M., Pedersen, K. Gerdes, K. (2001) RelE, a global inhibitor of translation, is activated during nutritional stress. Proc Natl Acad Sci USA 98 : 14328 14333.
10. Christensen, S.K., Pedersen, K., Hansen, F.G. Gerdes, K. (2003) Toxin-antitoxin loci as stress-response-elements: ChpAK/MazF and ChpBK cleave translated RNAs and are counteracted by tmRNA. J Mol Biol 332 : 809 819.
11. Christensen, S.K., Maenhaut-Michel, G., Mine, N., Gottesman, S., Gerdes, K. Van Melderen, L. (2004) Overproduction of the Lon protease triggers inhibition of translation in Escherichia coli: involvement of the yefM-yoeB toxin-antitoxin system. Mol Microbiol 51 : 1705 1717.
12. Gottesman, S., Roche, E., Zhou, Y. Sauer, R.T. (1998) The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system. Genes Dev 12 : 1338 1347.
13. Guzman, L.M., Belin, D., Carson, M.J. Beckwith, J. (1995) Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J Bacteriol 177 : 4121 4130.
14. Hayes, C.S. Sauer, R.T. (2003) Cleavage of the A site mRNA codon during ribosome pausing provides a mechanism for translational quality control. Mol Cell 12 : 903 911.
15. Hayes, C.S., Bose, B. Sauer, R.T. (2002) Proline residues at the C terminus of nascent chains induce SsrA tagging during translation termination. J Biol Chem 277 : 33825 33832.
16. Ishizuka, H., Hanamura, A., Kunimura, T. Aiba, H. (1993) A lowered concentration of cAMP receptor protein caused by glucose is an important determinant for catabolite repression in Escherichia coli. Mol Microbiol 10 : 341 350.
17. Jentsch, S. (1996) When proteins receive deadly messages at birth. Science 271 : 955 956.
18. Karzai, A.W., Roche, E.D. Sauer, R.T. (2000) The SsrA-SmpB system for protein tagging, directed degradation and ribosome rescue. Nat Struct Biol 7 : 449 455.
19. Keiler, K.C. (2007) Physiology of tmRNA: what gets tagged and why? Curr Opin Microbiol 10 : 169 175.
20. Keiler, K.C., Waller, P.R. Sauer, R.T. (1996) Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science 271 : 990 993.
21. Komine, Y., Kitabatake, M., Yokogawa, T., Nishikawa, K. Inokuchi, H. (1994) A tRNA-like structure is present in 10Sa RNA, a small stable RNA from Escherichia coli. Proc Natl Acad Sci USA 91 : 9223 9227.
22. Kuroda, A., Nomura, K., Ohtomo, R., Kato, J., Ikeda, T., Takiguchi, N., et al. (2001) Role of inorganic polyphosphate in promoting ribosomal protein degradation by the Lon protease in E. coli. Science 293 : 705 708.
23. Li, X., Hirano, R., Tagami, H. Aiba, H. (2006) Protein tagging at rare codons is caused by tmRNA action at the 3′ end of nonstop mRNA generated in response to ribosome stalling. RNA 12 : 248 255.
24. Li, X., Yokota, T., Ito, K., Nakamura, Y. Aiba, H. (2007) Reduced action of polypeptide release factors induces mRNA cleavage and tmRNA tagging at stop codons in Escherichia coli. Mol Microbiol 63 : 116 126.
25. Oh, B.K. Apirion, D. (1991) 10Sa RNA, a small stable RNA of Escherichia coli, is functional. Mol Gen Genet 229 : 52 56.
26. Richards, J., Mehta, P. Karzai, A.W. (2006) RNase R degrades non-stop mRNAs selectively in an SmpB-tmRNA-dependent manner. Mol Microbiol 62 : 1700 1712.
27. Roche, E.D. Sauer, R.T. (1999) SsrA-mediated peptide tagging caused by rare codons and tRNA scarcity. EMBO J 18 : 4579 4589.
28. Sunohara, T., Abo, T., Inada, T. Aiba, H. (2002) The C-terminal amino acid sequence of nascent peptide is a major determinant of SsrA tagging at all three stop codons. RNA 8 : 1416 1427.
29. Sunohara, T., Jojima, K., Tagami, H., Inada, T. Aiba, H. (2004a) Ribosome stalling during translation elongation induces cleavage of mRNA being translated in Escherichia coli. J Biol Chem 279 : 15368 15375.
30. Sunohara, T., Jojima, K., Yamamoto, Y., Inada, T. Aiba, H. (2004b) Nascent-peptide-mediated ribosome stalling at a stop codon induces mRNA cleavage resulting in nonstop mRNA that is recognized by tmRNA. RNA 10 : 378 386.
31. Tosa, T. Pizer, L.I. (1971) Biochemical bases for the antimetabolite action of l-serine hydroxamate. J Bacteriol 106 : 972 982.
32. Ueda, K., Yamamoto, Y., Ogawa, K., Abo, T., Inokuchi, H. Aiba, H. (2002) Bacterial SsrA system plays a role in coping with unwanted translational readthrough caused by suppressor tRNAs. Genes Cells 7 : 509 519.
33. Withey, J.H. Friedman, D.I. (2002) The biological roles of trans-translation. Curr Opin Microbiol 5 : 154 159.
34. Xiao, H., Kalman, M., Ikehara, K., Zemel, S., Glaser, G. Cashel, M. (1991) Residual guanosine 3′,5′-bispyrophosphate synthetic activity of relA null mutants can be eliminated by spoT null mutations. J Biol Chem 266 : 5980 5990.
35. Yamamoto, Y., Sunohara, T., Jojima, K., Inada, T. Aiba, H. (2003) SsrA-mediated trans-translation plays a role in mRNA quality control by facilitating degradation of truncated mRNAs. RNA 9 : 408 418.