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Gene Expression

Novel Fluorescence-Based Screen To Identify Small Synthetic Internal Ribosome Entry Site Elements

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Pages 2826-2837 | Received 22 Sep 2000, Accepted 30 Jan 2001, Published online: 28 Mar 2023

REFERENCES

  • Agol, V.. 1992. Prokaryotic-like cis elements in the cap-independent internal initiation of translation on picornavirus RNA. Cell 68:119–131.
  • Ali, N., and A. Siddiqui. 1997. The La antigen binds 5′ noncoding region of the hepatitis C virus RNA in the context of the initiator AUG codon and stimulates internal ribosome entry site-mediated translation. Proc. Natl. Acad. Sci. USA 94:2249–2254.
  • Bartel, D. P., and J. W. Szostak. 1994. Study of RNA-protein recognition by in vitro selection. RNA-protein interactions.. K. Nagai, and I. W. Mattaj. 248–268. IRL Press, Oxford, United Kingdom
  • Belsham, G.. 1992. Dual initiation sites of protein synthesis on foot-and-mouth disease virus RNA are selected following internal entry and scanning of ribosomes in vivo. EMBO J. 11:1106–1110.
  • Belsham, G. J., and N. Sonenberg. 2000. Picornavirus RNA translation: roles for cellular proteins. Trends Microbiol. 8:330–335.
  • Belsham, G. J., and N. Sonenberg. 1996. RNA-protein interactions in regulation of picornavirus RNA translation. Microbiol. Rev. 60:499–511.
  • Blyn, L. B., J. S. Towner, B. L. Semler, and E. Ehrenfeld. 1997. Requirement of poly(rC) binding protein 2 for translation of poliovirus RNA. J. Virol. 71:6243–6246.
  • Chappell, S. A., G. M. Edelman, and V. P. Mauro. 2000. A 9-nt segment of a cellular mRNA can function as an internal ribosome entry site (IRES) and when present in linked multiple copies greatly enhances IRES activity. Proc. Natl. Acad. Sci. USA 97:1536–1541.
  • Das, S., P. Coward, and A. Dasgupta. 1994. A small yeast RNA selectively inhibits internal initiation of translation programmed by poliovirus RNA: specific interaction with cellular proteins that bind to the viral 5′-untranslated region. J. Virol. 68:7200–7211.
  • Duke, G. M., M. A. Hoffman, and A. C. Palmenberg. 1992. Sequence and structural elements that contribute to efficient encephalomyocarditis virus RNA translation. J. Virol. 66:1602–1609.
  • Evstafieva, A. G., T. Y. Ugarova, B. K. Chernov, and I. N. Shatsky. 1991. A complex RNA sequence determines the internal initiation of encephalomyocarditis virus RNA translation. Nucleic Acids Res. 19:665–671.
  • Haller, A. A., and B. L. Semler. 1992. Linker scanning mutagenesis of the internal ribosome entry site of poliovirus RNA. J. Virol. 66:5313–5319.
  • Hoffman, M. A., and A. C. Palmenberg. 1995. Mutational analysis of the J-K stem-loop region of the encephalomyocarditis virus IRES. J. Virol. 69:4399–4406.
  • Honda, M., M. R. Beard, L.-H. Ping, and S. M. Lemon. 1999. A phylogenetically conserved stem-loop structure at the 5′ border of the internal ribosome entry site of hepatitis C virus is required for cap-independent translation. J. Virol. 73:1165–1174.
  • Huez, I., L. Creancier, S. Audigier, M.-C. Gensac, A.-C. Prats, and H. Prats. 1998. Two independent internal ribosome entry sites are involved in translation initiation of vascular endothelial growth factor mRNA. Mol. Cell. Biol. 18:6178–6190.
  • Hunt, S. L., J. J. Hsuan, N. Totty, and R. J. Jackson. 1999. unr, a cellular cytoplasmic RNA-binding protein with five cold-shock domains, is required for internal initiation of translation of human rhinovirus RNA. Genes Dev. 13:437–448.
  • Hunt, S. L., A. Kaminski, and R. J. Jackson. 1993. The influence of viral coding sequences on the efficiency of internal initiation of translation of cardiovirus RNAs. Virology 197:801–807.
  • Jackson, R. J., and A. Kaminski. 1995. Internal initiation of translation in eukaryotes: the picornavirus paradigm and beyond. RNA 1:985–1000.
  • Jang, S. K., H. G. Krausslich, M. J. H. Nicklin, G. M. Duke, A. C. Palmenberg, and E. Wimmer. 1988. A segment of the 5′ nontranslated region of encephalomyocarditis virus RNA directs internal entry of ribosomes during in vitro translation. J. Virol. 62:2636–2643.
  • Johannes, G., M. S. Carter, M. B. Eisen, P. O. Brown, and P. Sarnow. 1999. Identification of eukaryotic mRNAs that are translated at reduced cap binding complex eIF4F concentrations using a cDNA microarray. Proc. Natl. Acad. Sci. USA 96:13118–13123.
  • Johannes, G., and P. Sarnow. 1998. Cap-independent polysomal association of natural mRNAs encoding c-myc, BiP, and eIF4G conferred by internal ribosome entry sites. RNA 4:1500–1513.
  • Le, S.-Y., and J. V. Maizel Jr.. 1997. A common RNA structural motif involved in the internal initiation of translation of cellular mRNAs. Nucleic Acids Res. 25:362–369.
  • Martinez-Salas, E.. 1999. Internal ribosome entry site biology and its use in expression vectors. Curr. Opin. Biotechnol. 10:458–464.
  • Negulescu, D., L. E.-C. Leong, K. G. Chandy, B. L. Semler, and G. A. Gutman. 1998. Translation initiation of a cardiac voltage-gated potassium channel by internal ribosome entry. J. Biol. Chem. 273:20109–20113.
  • Nolan, G. P., and A. R. Shatzman. 1999. Expression vectors and delivery systems. Curr. Opin. Biotechnol. 9:447–450.
  • Ohlmann, T., and R. J. Jackson. 1999. The properties of chimeric picornavirus IRESes show that discrimination between internal translation initation sites is influenced by the identity of the IRES and not just the context of the AUG codon. RNA 5:764–778.
  • Pelletier, J., and N. Sonenberg. 1988. Internal initiation of translation of eukaryotic mRNA directed by a sequence derived from poliovirus RNA. Nature 334:320–325.
  • Pestova, T. V., I. N. Shatsky, S. P. Fletcher, R. J. Jackson, and C. U. T. Hellen. 1998. A prokaryotic-like mode of cytoplasmic eukaryotic ribosome binding to the initiation codon during internal initiation of translation of hepatitis C virus and classical swine fever virus RNAs. Genes Dev. 12:67–83.
  • Pestova, T. V., I. N. Shatsky, and C. U. T. Hellen. 1996. Functional dissection of eukaryotic initiation factor 4F: the 4A subunit and the central domain of the 4G subunit are sufficient to mediate internal entry of 43S preinitiation complexes. Mol. Cell. Biol. 16:6870–6878.
  • Reuckert, R. R.. 1996. Picornaviridae: the viruses and their replication. Fundamental virology, 3rd ed. B. N. Fields, D. M. Knipe, and P. M. Howley. 477–522. Lippincott-Raven, Philadelphia, Pa
  • Roberts, L. O., and G. J. Belsham. 1997. Complementation of defective picornavirus internal ribosome entry site (IRES) elements by the coexpression of fragments of the IRES. Virology 227:53–62.
  • Robertson, M. E. M., R. A. Seamons, and G. J. Belsham. 1999. A selection system for functional internal ribosome entry site (IRES) elements: analysis of the requirement for a conserved GNRA tetraloop in the encephalomyocarditis virus IRES. RNA 5:1167–1179.
  • Sandri-Goldin, R. M., A. L. Goldin, M. Levine, and J. C. Glorioso. 1981. High-frequency transfer of cloned herpes simplex virus type 1 sequences to mammalian cells by protoplast fusion. Mol. Cell. Biol. 1:743–752.
  • Scheper, G. C., A. A. Thomas, and H. O. Voorma. 1991. The 5′ untranslated region of encephalomyocarditis virus contains a sequence for very efficient binding of eukaryotic initiation factor eIF-2/2B. Biochim. Biophys. Acta 1089:220–226.
  • Stern, S., D. Moazed, and H. Noller. 1988. Structural analysis of RNA using chemical and enzymatic probing monitored by primer extension. Methods Enzymol. 164:481
  • Stoneley, M., F. E. M. Paulin, J. P. C. L. Quesne, S. A. Chappell, and A. E. Willis. 1998. c-Myc 5′ untranslated region contains an internal ribosome entry segment. Oncogene 16:423–428.
  • Tan, R., and A. D. Frankel. 1998. A novel glutamine-RNA interaction identified by screening libraries in mammalian cells. Proc. Natl. Acad. Sci. USA 95:4247–4252.
  • Tsukiyama-Kohara, K., N. Iizuka, M. Kohara, and A. Nomoto. 1992. Internal ribosome entry site within hepatitis C virus RNA. J. Virol. 66:1476–1483.
  • Tuerk, C.. 1997. Using the SELEX combinatorial chemistry process to find high affinity nucleic acid ligands to target molecules. Methods Mol. Biol. 67:219–230.
  • Unrau, P. J., and D. P. Bartel. 1998. RNA-catalysed nucleotide synthesis. Nature 395:260–263.
  • Venkatesan, A., S. Das, and A. Dasgupta. 1999. Structure and function of a small RNA that selectively inhibits internal ribosome entry site-mediated translation. Nucleic Acids Res. 27:562–572.
  • Wang, C., P. Sarnow, and A. Siddiqui. 1993. Translation of human hepatitis C virus RNA in cultured cells is mediated by an internal ribosome binding mechanism. J. Virol. 67:3338–3344.
  • Yang, Q., and P. Sarnow. 1997. Location of the internal ribosome entry site in the 5′ non-coding region of the immunoglobulin heavy-chain binding protein (BiP) mRNA: evidence for specific RNA-protein interactions. Nucleic Acids Res. 25:2800–2807.
  • Yang, T. T., P. Sinai, G. Green, P. A. Kitts, Y. T. Chen, L. Lybarger, R. Chervenak, G. H. Patterson, D. W. Piston, and S. R. Kain. 1998. Improved fluorescence and dual color detection with enhanced blue and green variants of the green fluorescent protein. J. Biol. Chem. 273:8212–8216.
  • Zuker, M.. 1989. On finding all suboptimal foldings of an RNA molecule. Science 244:48–52.

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