Regulation of gene expression by reiterative transcription

Current Opinion in Microbiology

Volumn 14, Issue 2, 2011, Pages 142-147

  Turnbough, Charles L ^a  

^a University of Alabama at Birmingham   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ASPARTATE CARBAMOYLTRANSFERASE; RNA POLYMERASE; URIDINE TRIPHOSPHATE;

BACILLUS SUBTILIS; BACTERIAL GENE; CODBA NGENE; ESCHERICHIA COLI; GENE CONTROL; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; NONHUMAN; OPERON; PYRBI GENE; PYRG GENE; REITERATIVE TRANSCRIPTION; REVIEW; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION;

BACILLUS SUBTILIS; DNA-DIRECTED RNA POLYMERASES; ESCHERICHIA COLI; GENE EXPRESSION REGULATION, BACTERIAL; MODELS, BIOLOGICAL; NUCLEOTIDES; RNA, MESSENGER; TRANSCRIPTION, GENETIC;

EID: 79954601990     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2011.01.012     Document Type: Review

References (39)

1. Jacques J.P., Kolakofsky D. Pseudo-templated transcription in prokaryotic and eukaryotic organisms. Genes Dev 1991, 5:707-713.
2. Linton M.F., Raabe M., Pierotti V., Young S.G. Reading-frame restoration by transcriptional slippage at long stretches of adenine residues in mammalian cells. J Biol Chem 1997, 272:14127.
3. Martin C.T., Muller D.K., Coleman J.E. Processivity in early stages of transcription by T7 RNA polymerase. Biochemistry 1988, 27:3966-3974.
4. Qi F., Turnbough C.L. Regulation of codBA operon expression in Escherichia coli by UTP-dependent reiterative transcription and UTP-sensitive transcriptional start site switching. J Mol Biol 1995, 254:552-565.
5. Cheng Y., Dylla S.M., Turnbough C.L. A long T·A tract in the upp initially transcribed region is required for regulation of upp expression by UTP-dependent reiterative transcription in Escherichia coli. J Bacteriol 2001, 183:221-228.
6. Xiong X.F., Reznikoff W.S. Transcriptional slippage during the transcription initiation process at a mutant lac promoter in vivo. J Mol Biol 1993, 231:569-580.
7. Baranov P.V., Hammer A.W., Zhou J., Gesteland R.F., Atkins J.F. Transcriptional slippage in bacteria: distribution in sequenced genomes and utilization in IS element gene expression. Genome Biol 2005, 6:R25.
8. Guo H.C., Roberts J.W. Heterogeneous initiation due to slippage at the bacteriophage 82 late gene promoter in vitro. Biochemistry 1990, 29:10702-10709.
9. Gilman B., Drullinger L.F., Kugel J.F., Goodrich J.A. TATA-binding protein and transcription factor IIB induce transcript slipping during early transcription by RNA polymerase II. J Biol Chem 2009, 284:9093-9098.
10. Pal M., Luse D.S. Strong natural pausing by RNA polymerase II within 10 bases of transcription start may result in repeated slippage and reextension of the nascent RNA. Mol Cell Biol 2002, 22:30-40.
11. Fabre E., Dujon B., Richard G.F. Transcription and nuclear transport of CAG/CTG trinucleotide repeats in yeast. Nucleic Acids Res 2002, 30:3540-3547.
12. Barr J.N., Wertz G.W. Polymerase slippage at vesicular stomatitis virus gene junctions to generate poly(A) is regulated by the upstream 3'-AUAC-5' tetranucleotide: implications for the mechanism of transcription termination. J Virol 2001, 75:6901-6913.
13. Liu C., Heath L.S., Turnbough C.L. Regulation of pyrBI operon expression in Escherichia coli by UTP-sensitive reiterative RNA synthesis during transcriptional initiation. Genes Dev 1994, 8:2904-2912.
14. Larsen B., Wills N.M., Nelson C., Atkins J.F., Gesteland R.F. Nonlinearity in genetic decoding: homologous DNA replicase genes use alternatives of transcriptional slippage or translational frameshifting. Proc Natl Acad Sci USA 2000, 97:1683-1688.
15. Meng Q., Turnbough C.L., Switzer R.L. Attenuation control of pyrG expression in Bacillus subtilis is mediated by CTP-sensitive reiterative transcription. Proc Natl Acad Sci USA 2004, 101:10943-10948.
16. Anikin M, Molodtsov V, Temiakov D, McAllister WT: Transcript slippage and recoding. In Recoding: expansion of decoding rules enriches gene expression. Edited by Atkins JF, Gesteland RF. Springer; 2010:409-432 [Gross HJ, Bujnicki JM (Series Editor): Nucleic Acids and Molecular Biology, vol 24.].
17. Turnbough C.L., Switzer R.L. Regulation of pyrimidine biosynthetic gene expression in bacteria: repression without repressors. Microbiol Mol Biol Rev 2008, 72:266-300.
18. Kent T., Kashkina E., Anikin M., Temiakov D. Maintenance of RNA-DNA hybrid length in bacterial RNA polymerases. J Biol Chem 2009, 284:13497-13504.
19. Kireeva M.L., Komissarova N., Waugh D.S., Kashlev M. The 8-nucleotide-long RNA:DNA hybrid is a primary stability determinant of the RNA polymerase II elongation complex. J Biol Chem 2000, 275:6530-6536.
20. Maconald L.E., Zhou Y., McAllister W.T. Termination and slippage by bacteriophage T7 RNA polymerase. J Mol Biol 1993, 232:1030-1047.
21. Ratinier M., Boulant S., Combet C., Targett-Adams P., McLauchlan J., Lavergne J.P. Transcriptional slippage prompts recoding in alternate reading frames in the hepatitis C virus (HCV) core sequence from strain HCV-1. J Gen Virol 2008, 89:1569-1578.
22. Chamberlin M., Berg P. Deoxyribonucleic acid-directed synthesis of ribonucleic acid by an enzyme from Escherichia coli. Proc Natl Acad Sci USA 1962, 48:81-94.
23. Hausmann S., Garcin D., Delenda C., Kolakofsky D. The versatility of paramyxovirus RNA polymerase stuttering. J Virol 1999, 73:5568-5576.
24. Baldick C.J., Moss B. Characterization and temporal regulation of mRNAs encoded by vaccinia virus intermediate-stage genes. J Virol 1993, 67:3515-3527.
25. Penno C., Hachani A., Biskri L., Sansonetti P., Allaoui A., Parsot C. Transcriptional slippage controls production of type III secretion apparatus components in Shigella flexneri. Mol Microbiol 2006, 62:1460-1468.
26. Tamas I., Wernegreen J.J., Nystedt B., Kauppinen S.N., Darby A.C., Gomez-Valero L., Lundin D., Poole A.M., Andersson S.G.E. Endosymbiont gene functions impaired and rescued by polymerase infidelity at poly(A) tracts. Proc Natl Acad Sci USA 2008, 105:14934-14939.
27. Raabe M., Linton M.F., Young S.G. Long runs of adenines and human mutations. Am J Med Genet 1998, 76:101-102.
28. Liu C., Turnbough C.L. Multiple control mechanisms for pyrimidine-mediated regulation of pyrBI operon expression in Escherichia coli K-12. J Bacteriol 1989, 171:3337-3342.
29. Meng Q., Switzer R.L. Regulation of transcription of the Bacillus subtilis pyrG gene, encoding cytidine triphosphate synthetase. J Bacteriol 2001, 183:5513-5522.
30. Elsholz A.K.W., Jørgensen C.M., Switzer R.L. The number of G residues in the Bacillus subtilis pyrG initially transcribed region governs reiterative transcription-mediated regulation. J Bacteriol 2007, 189:2176-2180.
31. Jensen-MacAllister I.E., Meng Q., Switzer R.L. Regulation of pyrG expression in Bacillus subtilis: CTP-regulated antitermination and reiterative transcription with pyrG templates in vitro. Mol Microbiol 2007, 63:1440-1452.
32. Varani G., McClain W.H. The G·U wobble base pair. A fundamental building block of RNA structure crucial to RNA function in diverse biological systems. EMBO Rep 2000, 1:18-23.
33. Liu J., Turnbough C.L. Effects of transcriptional start site sequence and position on nucleotide-sensitive selection of alternative start sites at the pyrC promoter in Escherichia coli. J Bacteriol 1994, 176:2938-2945.
34. Amiott E.A., Jaehning J.A. Sensitivity of the yeast mitochondrial RNA polymerase to +1 and +2 initiating nucleotides. J Biol Chem 2006, 281:34982-34988.
35. Sørensen K.I., Baker K.E., Kelln R.A., Neuhard J. Nucleotide pool-sensitive selection of the transcriptional start site in vivo at the Salmonella typhimurium pyrC and pyrD promoters. J Bacteriol 1993, 175:4137-4144.
36. Hershberg R., Bejerano G., Santos-Zavaleta A., Margalit H. PromEC: An updated database of Escherichia coli mRNA promoters with experimentally identified transcriptional start sites. Nucleic Acids Res 2001, 29:277.
37. Lane W.J., Darst S.A. Molecular evolution of multisubunit RNA polymerases: sequence analysis. J Mol Biol 2010, 395:671-685.
38. Kuehner J.N., Brow D.A. Regulation of a eukaryotic gene by GTP-dependent start site selection and transcription attenuation. Mol Cell 2008, 31:201-211.
39. Thiebaut M., Colin J., Neil H., Jacquier A., Séraphin B., Lacroute F., Libri D. Futile cycle of transcription initiation and termination modulates the response to nucleotide shortage in S. cerevisiae. Mol Cell 2008, 31:671-682.