Mechanistic modeling of prokaryotic mRNA decay

Journal of Theoretical Biology

Volumn 189, Issue 2, 1997, Pages 195-209

  Carrier, Trent A ^a   Keasling, J D ^a  

^a University of California   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ENDONUCLEASE; MESSENGER RNA; PROTEIN; RIBONUCLEASE;

ARTICLE; GENE EXPRESSION; MODEL; MOLECULAR STABILITY; NONHUMAN; PRIORITY JOURNAL; PROKARYOTE; PROTEIN RNA BINDING; RNA CLEAVAGE; RNA METABOLISM; SYSTEM ANALYSIS;

PROKARYOTA;

EID: 0031582979     PISSN: 00225193     EISSN: None     Source Type: Journal    
DOI: 10.1006/jtbi.1997.0509     Document Type: Article

References (30)

1. ALBERTS, B., BRAY, D., LEWIS, J., RAFF, M., ROBERTS, K. & WATSON, J. (1994). Molecular Biology of the Cell. 3rd Edn. New York: Garland Publishing.
2. ALIFANO, P., BRUNI, C. & CARLOMAGNO, M. (1994). Control of mRNA processing and decay in prokaryotes. Genetica 94, 157-172.
3. ALIFANO, P., PISCITELLI, C., BLASI, V., RIVELLINI, F., NAPPO, A., BRUNI, C. & CARLOMAGNO, M. (1992). Processing of a polycistronic mRNA requires a 5′ cis element and active translation. Molec. Microbiol. 6(6), 787-798.
4. ANDERSEN, J., POULSEN, P. & JENSEN, K. (1992). Attenuation in the rph-pyrE operon of E. coli and processing of the dicistronic mRNA. Eur. J. Biochem. 206, 381-390.
5. BAILEY, J. & OLLIS, D. (1986). Biochemical Engineering Fundamentals. 2nd Edn. New York: McGraw-Hill.
6. BELASCO, J. & BRAWERMAN, G. (1993). Control of Messenger RNA Stability. New York: Academic Press.
7. BELASCO, J. & HIGGINS, C. (1988). Mechanisms of mRNA decay in bacteria: a perspective. Gene 72, 15-23.
8. BIRNBAUM, S. & BAILEY, J. (1991). Plasmid presence changes the relative levels of many host proteins and ribosome components in recombinant E. coli. Biotechnol. Bioengin. 37(8), 736-745.
9. COMER, M., DONDON, J., GRAFFE, M., YARCHUK, O. & SPRINGER, M. (1996). Growth rate-dependent control, feedback regulation and steady-state mRNA levels of threonyl-tRNA synthetase gene of E. coli. J. Mol. Biol. 261, 108-124.
10. EMORY, S., BOUVET, P. & BELASCO, J. (1992). A 5′ terminal stem-loop structure can stabilize mRNA in E. coli. Genes Develop. 6, 135-148.
11. FLACHE, P., BAUMEISTER, R. & HILLEN, W. (1992). The Tn10-encoded tetracycline resistance mRNA contains a translational silencer in the 5′ nontranslated region. J. Bacteriol. 174(8), 2478-2484.
12. KENNELL, D. & RIEZMAN, H. (1977). Transcription and translation initiation frequencies of the E. coli lac operon. J. Mol. Biol. 114, 1-21.
13. LAFFEND, L. & SHULER, M. (1994). Structured model of genetic control via the lac promoter in E. coli. Biotechnol. Bioengin. 43, 399-410.
14. LIU, J., BARNELL, W. & CONWAY, T. (1992). The polycistronic mRNA of the Zymomonas mobilis glf-zwf-edd-glk operon is subject to complex transcript processing. J. Bacteriol. 174(9), 2824-2833.
15. MAKAROVA, O., MAKAROV, E., SOUSA, R. & DREYFUS, M. (1995). Transcribing of E. coli genes with mutant T7 RNA polymerases: stability of lacZ mRNA inversely correlates with polymerase speed. Proc. Natl. Acad. Sci. U.S.A. 92, 12250-12254.
16. MATHEWS, C. & VAN HOLDE, K. (1990). Biochemistry. New York: Cummings Publishing.
17. MCCARTHY, J., GERSTEL, B., SURIN, B., WEIDEMANN, J. & ZIEMKE, P. (1991). Differential gene expression from the E. coli atp operon mediated by segmental differences in mRNA stability. Molec. Microbiol. 5(10), 2447-2458.
18. MEJIA, J., BURNETT, M., AN, H., BARNELL, W., KESHAV, K., CONWAY, T. & INGRAM, L. (1992). Coordination of expression of Zymomona mobilis glycolytic and fermentative enzymes: a simple hypothesis based on mRNA stability. J. Bacteriol. 174(20), 6438-6443.
19. PATEL, A. & DUNN, S. (1995). Degradation of E. coli uncB mRNA by multiple endonucleolytic cleavages. J. Bacteriol. 177(14), 3917-3922.
20. PETERSEN, C. (1991). Multiple determinants of functional mRNA stability: sequence alterations at either end of the lacZ gene affect the rate of mRNA inactivation. J. Bacteriol. 173(7), 2167-2172.
21. PRESS, W, TEUKOLSKY, S., VETTERLING, W., FLANNERY, B. (1992). Numerical Recipes in Fortran. Cambridge: Cambridge University Press.
22. RAPAPORT, L. & MACKIE, G. (1994). Influence of translational efficiency on the stability of the mRNA for ribosomal protein S20 in E. coli. J. Bacteriol. 176(4), 992-998.
23. ROMEO, J. & ZUSMAN, D. (1992). Determinants of an unusually stable mRNA in the bacterium Myxococcus xanthus. Mol. Microbiol. 6(20), 2975-2988.
24. SEGAL, G. & RON, E. (1995). The groESL operon of Agrobacterium tumefaciens: evidence for heat shock-dependent mRNA cleavage. J. Bacteriol. 177(3), 750-757.
25. SHIMAMATO, T., NOGUCHI, K., KURODA, M., TSUDA, M. & TSUCHIYA, T. (1994). Transcriptional attenuation and differential mRNA stability in the regulation of the E. coli melibose operon. J. Biochem. 115, 1185-1189.
26. VASSART, G., DUMONT, J. & CANTRAINE, F. (1971). Translational control of protein synthesis: a simulation study. Biochimica et Biophysica ACTA 247, 471-485.
27. WAGNER, L., GESTELAND, R., DAYHUFF, T. & DREYFUS, M. (1994). Interdepence of translation, transcription and mRNA degradation in the lacZ gene. J. Bacteriol. 176(6), 1683-1688.
28. YARCHUK, O., IOST, I. & DREYFUS, M. (1991). The relation between translation and mRNA degradation in the lacZ gene. Biochimie. 73, 1533-1541.
29. 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.
30. ZUBIAGA, A., BELASCO, J. & GREENBERG, M. (1995). The nonamer UUAUUUAUU is the key AU-rich sequence motif that mediates mRNA degradation. Mol. Cell. Biol. 15(4), 2219-2230.