A Novel Interferon-Inducible Domain: Structural and Functional Analysis of the Human Interferon Regulatory Factor 1 Gene Promoter

REFERENCES

• Abdollahi, A., K. A. Lord, B. Hoffman-Liebermann, and D. A. Liebermann. 1991. Interferon regulatory factor 1 is a myeloid differentiation primary response gene induced by interleukin 6 and leukemia inhibitory factor: role in growth inhibition. Cell Growth Differ. 2:401–407.
   PubMedGoogle Scholar
• Baeuerle, P. A. 1991. The inducible transcriptional activator NF-κB: regulation by distinct protein subunits. Biochim. Biophys. Acta 1072:63–80.
   PubMed Web of Science ®Google Scholar
• Basta, P. V., P. A. Sherman, and J. P. Ting. 1988. Detailed delineation of an interferon-γ-responsive element important in human HLA-DRA gene expression in a glioblastoma multiform line. Proc. Natl. Acad. Sci. USA 85:8618–8622.
   PubMed Web of Science ®Google Scholar
• Bird, A. P. 1986. CpG-rich islands and the function of DNA methylation. Nature (London) 321:209–213.
   PubMed Web of Science ®Google Scholar
• Blanar, Μ. A., A. S. Baldwin, Jr., R. A. Flavell, and P. A. Sharp. 1989. A gamma-interferon-induced factor that binds the interferon response sequence of the MHC class I gene, H-2Kb. EMBO J. 8:1139–1144.
   PubMedGoogle Scholar
• Chang, D. C. 1989. Cell poration and cell fusion using an oscillating electric field. Biophys. J. 56:641–652.
   PubMed Web of Science ®Google Scholar
• Chang, D. C., P. Q. Gao, and B. L. Maxwell. 1991. High efficiency gene transfection by electroporation using a radiofrequency electric field. Biochim. Biophys. Acta 1992:153–160.
   Google Scholar
• Chomczynski, P., and N. Sacchi. 1987. Single-step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Anal. Biochem. 162:156–159.
   PubMed Web of Science ®Google Scholar
• Cleveland, D. W., and T. J. Yen. 1989. Multiple determinants of eukaryotic mRNA stability. New Biol. 1:121–126.
   PubMedGoogle Scholar
• Dale, T. C., A. Μ. Imam, I. Μ. Kerr, and G. R. Stark. 1989. Rapid activation by interferon-α of a latent DNA-binding protein present in the cytoplasm of untreated cells. Proc. Natl. Acad. Sci. USA 86:1203–1207.
   PubMed Web of Science ®Google Scholar
• Dale, T. C., J. Μ. Rosen, Μ. J. Guille, A. R. Lewin, A. C. G Porter, I. Μ. Kerr, and G. R. Stark. 1989. Overlapping sites for constitutive and induced DNA-binding factors involved in interferon-stimulated transcription. EMBO J. 8:831–839.
   PubMed Web of Science ®Google Scholar
• Decker, T., D. J. Lew, J. Mirkovitch, and J. E. Darnell. 1991. Cytoplasmic activation of GAF, an IFN-γ-regulated DNA-binding factor. EMBO J. 10:927–932.
   PubMed Web of Science ®Google Scholar
• Devereux, J., P. Haeberli, and O. Smithies. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387–395.
   PubMed Web of Science ®Google Scholar
• Dignam, J. D., R. Μ. Lebovitz, and R. G. Roeder. 1983. Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei. Nucleic Acids Res. 11:1475–1489.
   PubMed Web of Science ®Google Scholar
• Driggers, P. H., D. L. Ennist, S. L. Gleason, W.-H. Mak, Μ. S. Marks, B.-Z. Levi, J. R. Flanagan, E. Appella, and K. Ozato. 1990. An interferon-γ regulated protein that binds the interferon-inducible enhancer element of major histocompatibility complex class I genes. Proc. Natl. Acad. Sci. USA 87:3743–3747.
   PubMed Web of Science ®Google Scholar
• Dynan, W. S., and R. Tjian. 1985. Control of eukaryotic messenger RNA synthesis by sequence-specific DNA-binding proteins. Nature (London) 316:774–778.
   PubMed Web of Science ®Google Scholar
• Fan, C. Μ., and T. Maniatis. 1989. Two different virus-inducible elements are required for human β-interferon gene regulation. EMBO J. 8:101–110.
   PubMedGoogle Scholar
• Fan, C. Μ., and T. Maniatis. 1990. A DNA-binding protein containing two widely separated zinc finger motifs that recognize the same DNA sequence. Genes Dev. 4:29–42.
   PubMedGoogle Scholar
• Fujita, T., Y. Kimura, Μ. Miyamoto, E. L. Barsoumian, and T. Taniguchi. 1989. Induction of endogenous IFN-α and IFN-β genes by a regulatory transcription factor, IRF-1. Nature (London) 337:270–272.
   PubMed Web of Science ®Google Scholar
• Fujita, T., Μ. Miyamoto, Y. Kimura, J. Hammer, and T. Taniguchi. 1989. Involvement of a cis-element that binds an H2TF-1/NF-κB like factor(s) in the virus-induced interferon-β gene expression. Nucleic Acids Res. 17:3335–3346.
   PubMed Web of Science ®Google Scholar
• Fujita, T., S. Ohno, H. Yasumitsu, and T. Taniguchi. 1985. Delimitation and properties of DNA sequences required for the regulated expression of human interferon-β gene. Cell 41:489–496.
   PubMed Web of Science ®Google Scholar
• Fujita, T., L. F. Reis, N. Watanabe, Y. Kimura, T. Taniguchi, and J. Vilcek. 1989. Induction of the transcription factor IRF-1 and interferon-β mRNAs by cytokines and activators of second-messenger pathways. Proc. Natl. Acad. Sci. USA 86:9936–9940.
   PubMed Web of Science ®Google Scholar
• Fujita, T., J. Sakakibara, Y. Sudo, Μ. Miyamoto, Y. Kimura, and T. Taniguchi. 1988. Evidence for a nuclear factor(s), IRF-1, mediating induction and silencing properties to human IFN-β gene regulatory elements. EMBO J. 7:3397–3405.
   PubMedGoogle Scholar
• Fujita, T., H. Shibuya, H. Hotta, K. Yamanishi, and T. Taniguchi. 1987. Interferon-β gene regulation: tandemly repeated sequences of a synthetic 6 bp oligomer function as a virusinducible enhancer. Cell 49:357–367.
   PubMed Web of Science ®Google Scholar
• Gardiner-Garden, Μ., and Μ. Frommer. 1987. CpG islands in vertebrate genomes. J. Mol. Biol. 196:261–282.
   PubMed Web of Science ®Google Scholar
• Gidoni, D., W. S. Dynan, and R. Tjian. 1984. Multiple specific contacts between a mammalian transcription factor and its cognate promoters. Nature (London) 312:409–413.
   PubMed Web of Science ®Google Scholar
• Goodbourn, S. 1990. The regulation of β-interferon gene expression. Semin. Cancer Biol. 1:89–95.
   PubMedGoogle Scholar
• Goodbourn, S., H. Burstein, and T. Maniatis. 1986. The human β-interferon gene enhancer is under negative control. Cell 45:601–610.
   PubMed Web of Science ®Google Scholar
• Goodbourn, S., and T. Maniatis. 1988. Overlapping positive and negative regulatory domains of the human β-interferon gene. Proc. Natl. Acad. Sci. USA 85:1447–1451.
   PubMedGoogle Scholar
• Harada, H., T. Fujita, Μ. Miyamoto, Y. Kimura, Μ. Maruyama, A. Furia, T. Miyata, and T. Taniguchi. 1989. Structurally similar but functionally distinct factors, IRF-1 and IRF-2, bind to the same regulatory elements of IFN and IFN-inducible genes. Cell 58:729–739.
   PubMed Web of Science ®Google Scholar
• Harada, H., K. Willison, J. Sakakibara, Μ. Miyamoto, T. Fujita, and T. Taniguchi. 1990. Absence of the type I IFN system in EC cells: transcriptional activator (IRF-1) and repressor (IRF-2) genes are developmentally regulated. Cell 63:303–312.
   PubMed Web of Science ®Google Scholar
• Hiscott, J., D. Alper, L. Cohen, J. F. Leblanc, L. Sportza, A. Wong, and S. Xanthoudakis. 1989. Induction of human interferon gene expression is associated with a nuclear factor that interacts with the NF-κB site of the human immunodeficiency virus enhancer. J. Virol. 63:2557–2566.
   PubMedGoogle Scholar
• Imam, A. Μ. A., A. Μ. Ackrill, T. C. Dale, I. Μ. Kerr, and G. R. Stark. 1990. Transcription factors induced by interferons α and γ. Nucleic Acids Res. 18:6573–6580.
   PubMed Web of Science ®Google Scholar
• Kadonaga, J. T., K. A. Jones, and R. Tjian. 1986. Promoterspecific activation of RNA polymerase II transcription by Sp1. Trends Biochem. Sci. 11:20–23.
   Web of Science ®Google Scholar
• Kerr, I. M., and G. R. Stark. 1991. The control of interferon-inducible gene expression. FEBS Lett. 285:194–198.
   PubMedGoogle Scholar
• Kessler, D. S., D. E. Levy, and J. E. Darnell. 1988. Two interferon-induced nuclear factors bind a single promoter element in interferon-stimulated genes. Proc. Natl. Acad. Sci. USA 85:8521–8525.
   PubMed Web of Science ®Google Scholar
• Kraft, R., J. Tardiff, K. S. Krauter, and L. A. Leinwand. 1988. Using mini-prep plasmid DNA for sequencing double stranded templates with Sequenase. BioTechniques 6:544–549.
   PubMed Web of Science ®Google Scholar
• Kuhl, D., J. de la Fuente, Μ. Chaturvedi, S. Parimoo, J. Ryals, F. Meyer, and C. Weissmann. 1987. Reversible silencing of enhancers by sequences derived from the human IFN-α promoter. Cell 50:1057–1069.
   PubMed Web of Science ®Google Scholar
• Kusari, J., and G. C. Sen. 1986. Regulation of synthesis and turnover of an interferon-inducible mRNA. Mol. Cell. Biol. 6:2062–2067.
   PubMedGoogle Scholar
• Leblanc, J. F., L. Cohen, Μ. Rodrigues, and J. Hiscott. 1990. Synergism between distinct enhanson domains in viral induction of the human β interferon gene. Mol. Cell. Biol. 10:3987–3993.
   PubMedGoogle Scholar
• Lenardo, Μ. J., C. Μ. Fan, T. Maniatis, and D. Baltimore. 1989. The involvement of NF-κB in β-interferon gene regulation reveals its role as widely inducible mediator of signal transduction. Cell 57:287–294.
   PubMed Web of Science ®Google Scholar
• Levy, D. E., D. S. Kessler, R. Pine, and J. E. Darnell, Jr. 1989. Cytoplasmic activation of ISGF3, the positive regulator of interferon-α-stimulated transcription, reconstituted in vitro. Genes Dev. 3:1362–1371.
   PubMed Web of Science ®Google Scholar
• Levy, D. E., D. S. Kessler, R. Pine, N. Reich, and J. E. Darnell. 1988. Interferon-induced nuclear factors that bind a shared promoter element correlate with positive and negative control. Genes Dev. 2:383–393.
   PubMed Web of Science ®Google Scholar
• MacDonald, N. J., D. Kuhl, D. Maguire, D. Näf, P. Gallant, A. Goswamy, H. Hug, H. Bueler, Μ. Chaturvedi, J. de la Fuente, H. Ruffner, H. Meyer, and C. Weissmann. 1990. Different pathways mediate virus inducibility of the human IFN-α 1 and IFN-β genes. Cell 60:767–779.
   PubMedGoogle Scholar
• MacGregor, G. R., and C. T. Caskey. 1989. Construction of plasmids that express E. coli β-galactosidase in mammalian cells. Nucleic Acids Res. 17:2365.
   PubMedGoogle Scholar
• MacGregor, G. R., G. P. Nolan, S. Fiering, Μ. Roederer, and L. A. Herzenberg. 1989. Use of E. coli lacZ (β-galactosidase) as a reporter gene, p. 217–235. In E. J. Murray and J. Μ. Walker (ed.), Methods in molecular biology, vol. 7. Gene expression in vivo. Humana Press, Inc., Clifton, N.J.
   Google Scholar
• Maruyama, Μ., T. Fujita, and T. Taniguchi. 1989. Sequence of cDNA coding for human IRF-1. Nucleic Acids Res. 17:3292.
   PubMed Web of Science ®Google Scholar
• Miyamoto, Μ., T. Fujita, Y. Kimura, Μ. Maruyama, H. Harada, Y. Sudo, T. Miyata, and T. Taniguchi. 1988. Regulated expression of a gene encoding a nuclear factor, IRF-1, that specifically binds to IFN-β gene regulatory elements. Cell 54:903–913.
   PubMed Web of Science ®Google Scholar
• Näf, D., S. E. Hardin, and C. Weissmann. 1991. Multimerization of AAGTGA and GAAAGT generates sequences that mediate virus inducibility by mimicking an interferon promoter element. Proc. Natl. Acad. Sci. USA 88:1369–1373.
   PubMedGoogle Scholar
• Nordeen, S. K. 1988. Luciferase reporter gene vectors for analysis of promoters and enhancers. BioTechniques 6:454–458.
   PubMed Web of Science ®Google Scholar
• Pine, R., T. Decker, D. S. Kessler, D. E. Levy, and J. E. Darnell, Jr. 1990. Purification and cloning of interferon-stimulated gene factor 2 (ISGF2): ISGF2 (IRF-1) can bind to the promoters of both beta interferon- and interferon-stimulated genes but is not a primary transcriptional activator of either. Mol. Cell. Biol. 10:2448–2457.
   PubMed Web of Science ®Google Scholar
• Reid, L. E., A. H. Brasnett, C. S. Gilbert, A. C. Porter, D. R. Gewert, G. R. Stark, and I. Μ. Kerr. 1989. A single DNA response element can confer inducibility by both α- and γ-interferons. Proc. Natl. Acad. Sci. USA 86:840–844.
   PubMed Web of Science ®Google Scholar
• Reis, L. F., H. Harada, J. D. Wolchok, T. Taniguchi, and J. Vilcek. 1992. Critical role of a common transcription factor, IRF-1, in the regulation of IFN-β and IFN-inducible genes. EMBO J. 11:185–193.
   PubMed Web of Science ®Google Scholar
• Romine, Μ. Unpublished data.
   Google Scholar
• Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
   Google Scholar
• Sanger, F., S. Nicklen, and A. R. Coulson. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463–5467.
   PubMed Web of Science ®Google Scholar
• Shapiro, D. J., P. A. Sharp, W. W. Wahli, and Μ. J. Keller. 1988. A high-efficiency HeLa cell nuclear transcription extract. DNA 7:47–55.
   PubMedGoogle Scholar
• Shaw, G., and R. Kamen. 1986. A conserved AU sequence from the 3' untranslated region of GM-CSF mRNA mediates selective mRNA degradation. Cell 46:659–667.
   PubMed Web of Science ®Google Scholar
• Taniguchi, T. 1988. Regulation of cytokine gene expression. Annu. Rev. Immunol. 6:439–464.
   PubMed Web of Science ®Google Scholar
• Tsang, S. Y., Μ. Nakanishi, and B. Μ. Peterlin. 1988. B-cell-Specific and interferon-γ-inducible regulation of the HLA-DRα gene. Proc. Natl. Acad. Sei. USA 85:8598–8602.
   PubMedGoogle Scholar
• Visvanathan, K. V., and S. Goodbourn. 1989. Double-stranded RNA activates binding of NF-κB to an inducible element in the human β-interferon promoter. EMBO J. 8:1129–1138.
   PubMed Web of Science ®Google Scholar
• Weissmann, C., and H. Weber. 1986. The interferon genes. Prog. Nucleic Acid Res. Mol. Biol. 33:251–300.
   PubMed Web of Science ®Google Scholar
• Yu-Lee, L. Y., J. A. Hrachovy, A. Μ. Stevens, and L. A. Schwarz. 1990. Interferon-regulatory factor 1 is an immediate-early gene under transcriptional regulation by prolactin in Nb2 T cells. Mol. Cell. Biol. 10:3087–3094.
   PubMed Web of Science ®Google Scholar
• Zabel, U., R. Schreck, and P. A. Baeuerle. 1991. DNA binding of purified transcription factor NF-κB. Affinity, specificity, Zn2+ dependence, and differential half-site recognition. J. Biol. Chem. 266:252–260.
   PubMed Web of Science ®Google Scholar
• Zinn, K., and T. Maniatis. 1986. Detection of factors that interact with the human β-interferon regulatory region in vivo by DNAase I footprinting. Cell 45:611–618.
   PubMed Web of Science ®Google Scholar