Location of Sequences in Polyomavirus DNA That Are Required for Early Gene Expression In Vivo and In Vitro

LITERATURE CITED

• Adhya, S., and Gottesman, M. 1982. Promoter occlusion: transcription through a promoter may inhibit its activity. Cell 29:939–944.
   PubMed Web of Science ®Google Scholar
• Banerji, J., Olson, L., and Schaffner, W. 1983. A lymphocyte-specific cellular enhancer is located downstream of the joining region in immunoglobulin heavy chain genes. Cell 33:729–740.
   PubMed Web of Science ®Google Scholar
• Banerji, J., Rusconi, S., and Schaffner, W. 1981. Expression of a 0 globin gene is enhanced by remote SV40 DNA sequences. Cell 27:299–308.
   PubMed Web of Science ®Google Scholar
• Benoist, C., and Chambon, P. 1980. Deletions covering the putative promoter region of early mRNAs of simian virus 40 do not abolish T-antigen expression. Proc. Natl. Acad. Sci. U.S.A. 77:3865–3869.
   PubMed Web of Science ®Google Scholar
• Benoist, C., and Chambon, P. 1981. In vivo sequence requirements of the SV40 early promoter region. Nature (London) 290:304–315.
   PubMed Web of Science ®Google Scholar
• Blair, D. G., McClements, W. L., Oskarsson, M. K., Fischninger, P. J., and Vande Woude, G. J. 1980. Biological activity of cloned Moloney sarcoma virus DNA: terminally redundant sequences may enhance transformation efficiency. Proc. Natl. Acad. Sci. U.S.A. 77:3504–3508.
   PubMedGoogle Scholar
• Breathnach, R., and Chambon, P. 1981. Organization and expression of eucaryotic split genes coding for proteins. Annu. Rev. Biochem. 50:349–383.
   PubMed Web of Science ®Google Scholar
• Busslinger, M., Portmann, R., Irminger, J. C., and Birn-steil, M. L. 1980. Ubiquitous and gene-specific regulatory 5′ sequences in a sea urchin histone DNA clone coding for histone protein variants. Nucleic Acids Res. 8:957–977.
   PubMed Web of Science ®Google Scholar
• Chang, E. H., Ellis, R. W., Scolnick, E. M., and Lowy, D. R. 1980. Transformation by cloned Harvey murine sarcoma virus DNA: efficiency increased by long terminal repeat DNA. Science 210:1249–1251.
   PubMedGoogle Scholar
• Cogen, B. 1978. Virus-specific early RNA in 3T6 cells infected by a ts A mutant of polyoma virus. Virology 85:222–230.
   PubMed Web of Science ®Google Scholar
• Corden, J., Wasylyk, B., Buchwalder, A., Sassone-Corsi, P., Kedinger, C., and Chambon, P. 1980. Promoter sequences of eu-karyotic protein-coding genes. Science 209:1406–1413.
   PubMed Web of Science ®Google Scholar
• Cowie, A., Tyndall, C., and Kamen, R. 1981. Sequences at the capped 5′-ends of polyoma virus late region in mRNAs: an example of extreme terminal heterogeneity. Nucleic Acids Res. 9:6305–6322.
   PubMedGoogle Scholar
• Cullen, B. R., Lomedeco, P. T., and Ju, G. 1984. Transcriptional interference in avian retroviruses–implications for the promoter insertion model of leukaemogenesis. Nature (London) 307:241–245.
   PubMed Web of Science ®Google Scholar
• de Villiers, J., Olson, L., Tyndall, C., and Schaffner, W. 1982. Transcriptional “enhancers” from SV40 and polyoma virus show a cell type preference. Nucleic Acids Res. 10:7965–7976.
   PubMed Web of Science ®Google Scholar
• de Villiers, J., and Schaffner, W. 1981. A small segment of polyoma virus DNA enhances the expression of a cloned β-globin gene over a distance of 1,400 base pairs. Nucleic Acids Res. 9:6251–6264.
   PubMed Web of Science ®Google Scholar
• Dierks, P., van Ooyen, A., Cochran, M. D., Dobkin, C., Reiser, J., and Weissmann, C. 1983. Three regions upstream from the cap site are required for efficient and accurate transcription of the rabbit B-globin gene in mouse 3T6 cells. Cell 32:695–706.
   PubMed Web of Science ®Google Scholar
• Dierks, P., van Ooyen, A., Mantei, N., and Weissmann, C. 1981. DNA sequences preceding the rabbit β-globin gene are required for formation in mouse L cells of 0 globin RNA with the correct 5′ terminus. Proc. Natl. Acad. Sci. U.S.A. 78:1411–1415.
   PubMed Web of Science ®Google Scholar
• Dynan, W. S., and Tjian, R. 1983. Isolation of transcription factors that discriminate between different promoters recognized by RNA polymerase II. Cell 32:669–680.
   PubMed Web of Science ®Google Scholar
• Efstratiadis, A., Posakony, J. W., Maniates, T., Lawn, R. M., O'Connell, C., Sprite, R. A., DeRiel, J. R., Forget, B. G., Weissman, S. M., Slightom, J. L., Blechl, A. E., Smithies, O., Baralle, F. E., Shoulders, C. C., and Proudfoot, N. J. 1980. The structure and evolution of the human β-globin gene family. Cell 21:653–668.
   PubMed Web of Science ®Google Scholar
• Enquist, L. W., Vande Woude, G. F., Wagner, M., Smiley, J. R., and Summers, W. C. 1979. Construction and characterization of a recombinant plasmid encoding the gene for the thymidine kinase of herpes simplex type 1 virus. Gene 7:335–342.
   PubMedGoogle Scholar
• Everett, R. D., Baty, D., and Chambon, P. 1983. The repeated GC-rich motifs upstream from the TATA box are important elements of the SV40 early promoter. Nucleic Acids Res. 11:2447–2464.
   PubMed Web of Science ®Google Scholar
• Featherstone, M. S., Naujokas, M. A., Pomerantz, B. J., and Hassell, J. A. 1984. A plasmid vehicle suitable for the molecular cldning and characterization of mammalian promoters. Nucleic Acids Res. 12:7235–7249.
   PubMedGoogle Scholar
• Fenton, R. G., and Basilico, C. 1981. Viral gene expression in polyoma virus-transformed rat cells and their cured revertants. J. Virol. 40:150–163.
   PubMedGoogle Scholar
• Fenton, R. G., and Basilico, C. 1982. Changes in the topography of early region transcription during polyoma virus lytic infection. Proc. Natl. Acad. Sci. U.S.A. 79:7142–7146.
   PubMedGoogle Scholar
• Flavell, A., Cowie, A., Legon, S., and Kamen, R. 1979. Multiple 5′-terminal cap structures in late polyoma virus RNA. Cell 16:357–371.
   PubMedGoogle Scholar
• Flavell, A. J., Cowie, A., Arrand, J. R., and Kamen, R. 1980. Localization of three major capped 5′ ends of polyoma virus late mRNA's within a single tetranucleotide sequence in the viral genome. J. Virol. 33:902–908.
   PubMedGoogle Scholar
• Friedmann, T., Esty, A., LaPorte, P., and Deininger, P. 1979. The nucleotide sequence and genome organization of the polyoma early region: extensive nucleotide and amino acid homology with SV40. Cell 17:715–724.
   PubMed Web of Science ®Google Scholar
• Fromm, M., and Berg, P. 1982. Deletion mapping of DNA regions required for SV40 early region promoter functions in vivo. J. Mol. Appl. Genet. 1:457–481.
   PubMedGoogle Scholar
• Fujimura, F. R., Deininger, P. L., Friedman, T., and Linney, E. 1981. Mutation near the polyoma DNA replication origin permits productive infection of F9 embryonal carcinoma cells. Cell 23:809–814.
   PubMed Web of Science ®Google Scholar
• Gaudray, P., Tyndall, C., Kamen, R., and Cuzin, F. 1981. The high affinity binding site on polyoma virus DNA for the viral large T protein. Nucleic Acids Res. 9:5697–5710.
   PubMedGoogle Scholar
• Ghosh, P. K., Lebowitz, P., Fresque, R. J., and Gluzman, Y. 1981. Identification of a promoter component involved in positioning the 5′ termini of simian virus 40 early mRNAs. Proc. Natl. Acad. Sci. U.S.A. 78:100–104.
   PubMed Web of Science ®Google Scholar
• Gilles, S. D., Morrison, S. L., Oi, V. T., and Tonegawa, S. 1983. A tissue-specific transcription enhancer element is located in the major intron of a rearranged immunoglobulin heavy chain gene. Cell 33:717–728.
   PubMed Web of Science ®Google Scholar
• Graham, F. L., and van der Eb, A. J. 1973. A new technique for the assay of infectivity of human adenovirus 5 DNA. Virology 52:456–467.
   PubMed Web of Science ®Google Scholar
• Gross, L. 1983. Oncogenic viruses, vol. 2, 3rd ed., p 737–828. Pergamon Press, Oxford.
   Google Scholar
• Grosschedl, R., and Birnstiel, M. L. 1980. Identification of regulatory sequences in the prelude sequences of an H2A histone gene by the study of specific deletion mutants in vivo. Proc. Natl. Acad. Sci. U.S.A. 77:1432–1436.
   PubMed Web of Science ®Google Scholar
• Grosschedl, R., and Birnstiel, M. L. 1980. Spacer DNA sequences upstream of the T AT AAATA sequence are essential for promotion of H2A histone gene transcription in vivo. Proc. Natl. Acad. Sci. U.S.A. 77:7102–7106.
   PubMed Web of Science ®Google Scholar
• Grosveld, G. C., de Boer, E., Shewmaker, C. K., and Flavell, R. A. 1982. DNA sequences necessary for transcription of the rabbit β-globin gene in vivo. Nature (London) 295:120–126.
   PubMedGoogle Scholar
• Gruss, P., Dhar, R., and Khoury, G. 1981. Simian virus 40 tandem repeated sequences as an element of the early promoter. Proc. Natl. Acad. Sci. U.S.A. 78:943–947.
   PubMed Web of Science ®Google Scholar
• Hansen, V., Tenen, D. G., Livingston, D. M., and Sharp, P. A. 1981. T antigen repression of SV40 early transcription from two promoters. Cell 27:603–612.
   PubMed Web of Science ®Google Scholar
• Hassell, J. A., Mueller, C., Mes, A.-M., Featherstone, M., Naujokas, M., Pomerantz, B., and Muller, W. 1982. The construction of polyoma virus vectors: functions required for gene expression, p. 71–77. In Gluzman, Y. (ed.), Eukaryotic viral vectors. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y..
   Google Scholar
• Hassell, J. A., Topp, W. C., Rifkin, D. B., and Moreau, P. E. 1980. Transformation of rat embryo fibroblasts by cloned polyoma virus DNA fragments containing only part of the early region. Proc. Natl. Acad. Sci. U.S.A. 77:3978–3982.
   PubMed Web of Science ®Google Scholar
• Hearing, P., and Shenk, T. 1983. The adenovirus type 5 E1A transcriptional control region contains a duplicated enhancer element. Cell 33:695–703.
   PubMed Web of Science ®Google Scholar
• Hen, R., Borrelli, E., Sassone-Corsi, P., and Chambon, P. 1983. An enhancer element is located 340 base pairs upstream from the adenovirus-2 El A capsite. Nucleic Acids Res. 11:8747–8760.
   PubMedGoogle Scholar
• Herbomel, P., Saragosti, S., Blangy, D., and Yaniv, M. 1981. Fine structure of origin-proximal DNase I-hypersensitive region in wild-type and E.C. mutant polyoma. Cell 25:651–658.
   PubMed Web of Science ®Google Scholar
• Hirose, S., Takeuchi, K., Hon, H., Hirose, T., Inayama, S., and Suzuki, Y. 1984. Contact points between transcription machinery and the fibroin gene promoter deduced by functional tests of single-base substitution mutants. Proc. Natl. Acad. Sci. U.S.A. 81:1394–1397.
   PubMedGoogle Scholar
• Hirose, S., Takeuchi, K., and Suzuki, Y. 1982. In vitro characterization of the fibroin gene promoter by the use of single-base substitution mutants. Proc. Natl. Acad. Sci. U.S.A. 79:7258–7262.
   PubMed Web of Science ®Google Scholar
• Hu, S.-L., and Manley, J. 1981. DNA sequence required for initiation of transcription in vitro from the major late promoter of adenovirus 2. Proc. Natl. Acad. Sci. U.S.A. 78:820–824.
   PubMedGoogle Scholar
• Jat, P., Novak, U., Cowie, A., Tyndall, C., and Kamen, R. 1982. DNA sequences required for specific and efficient initiation of transcription at the polyoma virus early promoter. Mol. Cell. Biol. 2:737–751.
   PubMedGoogle Scholar
• Jat, P., Roberts, J. W., Cowie, A., and Kamen, R. 1982. Comparison of the polyoma virus early and late promoters by transcription in vitro. Nucleic Acids Res. 10:871–887.
   PubMed Web of Science ®Google Scholar
• Joyner, A., Yamamoto, Y., and Bernstein, A. 1982. Retrovirus long terminal repeats activate expression of coding sequences for the herpes simplex virus thymidine kinase gene. Proc. Natl. Acad. Sci. U.S.A. 79:1573–1577.
   PubMed Web of Science ®Google Scholar
• Kamen, R., Jat, P., Treisman, R., and Favaloro, J. 1982. 5′ termini of polyoma virus early region transcripts synthesized in vivo by wild-type virus and viable deletion mutants. J. Mol. Biol. 159:189–224.
   PubMedGoogle Scholar
• Katinka, M., Kanin, M., Vasseur, M., and Blangy, D. 1980. Expression of polyoma early functions in mouse embryonal carcinoma cells depends on sequence rearrangements in the beginning of the late region. Cell 20:393–399.
   PubMed Web of Science ®Google Scholar
• Lee, D. C., Roeder, R. G., and Wold, W. S. M. 1982. DNA sequences affecting specific initiation of transcriptions in vitro from the E III promoter of adenovirus 2. Proc. Natl. Acad. Sci. U.S.A. 79:41–45.
   PubMedGoogle Scholar
• Levinson, B., Khoury, G., Vande Woude, G., and Gruss, P. 1982. Activation of SV40 genome by 72-base pair tandem repeats of Moloney sarcoma virus. Nature (London) 295:568–572.
   PubMed Web of Science ®Google Scholar
• Linney, E., and Donerly, S. 1983. DNA fragments from F9 PyEC mutants increase expression of heterologous genes in transacted F9 cells. Cell 35:693–699.
   PubMed Web of Science ®Google Scholar
• Lirmins, L. A., Khoury, G., Gorman, C., Howard, B., and Gruss, P. 1982. Host-specific activation of transcription by tandem repeats from simian virus 40 and Moloney murine sarcoma virus. Proc. Natl. Acad. Sci. U.S.A. 79:6453–6457.
   PubMedGoogle Scholar
• Luciw, P. A., Bishop, J. M., Varimus, H. E., and Capecchi, M. 1983. Locations and functions of retroviral and SV40 sequences that enhance biochemical transformations after microinjections of DNA. Cell 33:705–716.
   PubMed Web of Science ®Google Scholar
• Lusky, M., Berg, L., Weiner, H., and Botchan, M. 1983. Bovine papilloma virus contains an activator of gene expression at the distal end of the early transcription unit. Mol. Cell. Biol. 3:1108–1122.
   PubMedGoogle Scholar
• Lusky, M., and Botchan, M. 1981. Inhibition of simian virus 40 replication in simian cells by specific pBR322 DNA sequences. Nature (London) 293:79–81.
   PubMedGoogle Scholar
• Luthman, H., Nilsson, M. G., and Magnusson, G. 1982. Noncontiguous segments of the polyoma gene required in cis for DNA replication. J. Mol. Biol. 161:533–550.
   PubMedGoogle Scholar
• Manley, J. L., Fire, A., Cano, A., Sharp, P. A., and Gefter, M. 1980. DNA-dependent transcription of adenovirus genes in a soluble whole-cell extract. Proc. Natl. Acad. Sci. U.S.A. 77:3855–3859.
   PubMed Web of Science ®Google Scholar
• Mathis, D. J., and Chambon, P. 1981. The SV40 early region TATA box is required for accurate in vitro initiation of transcription. Nature (London) 290:310–315.
   PubMed Web of Science ®Google Scholar
• Maxam, A. M., and Gilbert, W. 1980. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 65:499–560.
   PubMedGoogle Scholar
• McKnight, S. L., Gavis, E. R., Kingsbury, R., and Axel, R. 1981. Analysis of transcriptional regulatory signals of the HSV thymidine kinase gene: identification of an upstream control region. Cell 25:385–398.
   PubMed Web of Science ®Google Scholar
• McKnight, S. L., and Kingsbury, R. 1982. Transcriptional control signals of a eukaryotic protein-coding gene. Science 217:316–324.
   PubMed Web of Science ®Google Scholar
• Mellon, P., Parker, V., Gluzman, Y., and Maniatis, T. 1981. Identification of DNA sequences required for transcription of the human α-l-globin gene in a new SV40 host-vector system. Cell 27:279–288.
   PubMed Web of Science ®Google Scholar
• Mes, A.-M., and Hassell, J. A. 1982. Polyoma viral middle Tantigen is required for transformation. J. Virol. 42:621–629.
   PubMedGoogle Scholar
• Mills, F. C., Fisher, L. M., Kurode, R., Ford, A. M., and Gould, H. J. 1983. DNase I hypersensitive sites on the chromatin of human immunoglobulin heavy-chain genes. Nature (London) 306:809–812.
   PubMed Web of Science ®Google Scholar
• Moreau, P., Hen, R., Wasylyk, B., Everett, R., Gaub, M. P., and Chambon, P. 1981. The SV40 72 base pair repeat has a striking effect on gene expression both in SV40 and other chimeric recombinants. Nucleic Acids Res. 9:6047–6068.
   PubMed Web of Science ®Google Scholar
• Muller, W. J., Mueller, C. R., Mes, A.-M., and Hassell, J. A. 1983. Polyomavirus origin for DNA replication comprises multiple genetic elements. J. Virol. 47:586–599.
   PubMedGoogle Scholar
• Muller, W. J., Naujokas, M. A., and Hassell, J. A. 1983. Polyomavirus-plasmid recombinants capable of replicating have an enhanced transforming potential. Mol. Cell. Biol. 3:1670–1674.
   PubMedGoogle Scholar
• Nordheim, A., Lafer, E. M., Peck, L. J., Wang, J. C., Stollar, B. D., and Rich, A. 1982. Negatively supercoiled plasmids contain left-handed Z-DNA segments as detected by specific antibody binding. Cell 31:309–318.
   PubMed Web of Science ®Google Scholar
• Nordheim, A., and Rich, A. 1983. Negatively supercoiled simian virus 40 DNA contains Z-DNA segments within transcriptional enhancer sequences. Nature (London) 303:674–679.
   PubMed Web of Science ®Google Scholar
• Picard, D., and Schaffner, W. 1984. A lymphocyte-specific enhancer in the mouse immunoglobulin κ gene. Nature (London) 307:80–82.
   PubMed Web of Science ®Google Scholar
• Pomerantz, B. J., and Hassell, J. A. 1984. Polyomavirus and simian virus 40 large T antigens bind to common DNA sequences. J. Virol. 49:925–937.
   PubMedGoogle Scholar
• Pomerantz, B. J., Mueller, C. R., and Hassell, J. A. 1983. Polyomavirus large T antigen binds independently to multiple, unique regions on the viral genome. J. Virol. 47:600–610.
   PubMedGoogle Scholar
• Queen, C., and Baltimore, D. 1983. Immunoglobulin gene transcription is activated by downstream sequence elements. Cell 33:741–748.
   PubMed Web of Science ®Google Scholar
• Rio, D., Robbins, A., Myers, R., and Tjian, R. 1980. Regulation of simian virus 40 early transcription in vitro by a purified tumor antigen. Proc. Natl. Acad. Sci. U.S.A. 77:5706–5710.
   PubMed Web of Science ®Google Scholar
• Rogers, D. T., Lemire, J. M., and Bostian, K. A. 1982. Acid phosphatase polypeptides in Saccharomyces cerevisiae are encoded by a differentially regulated multigene family. Proc. Natl. Acad. Sci. U.S.A. 79:2157–2161.
   PubMedGoogle Scholar
• Rothwell, V. M., and Folk, W. R. 1983. Comparison of the DNA sequence of the Crawford small-plaque variant of polyomavirus with those of polyomaviruses A2 and strain 3. J. Virol. 48:472–480.
   PubMed Web of Science ®Google Scholar
• Ruley, H. E., and Fried, M. 1983. Sequence repeats in a polyoma virus DNA region important for gene expression. J. Virol. 47:233–237.
   PubMedGoogle Scholar
• Scott, W. A., and Wigmore, D. J. 1978. Sites in simian virus 40 chromatin which are preferentially cleaved by endonucleases. Cell 15:1511–1518.
   PubMed Web of Science ®Google Scholar
• Sekikawa, K., and Levine, A. J. 1981. Isolation and characterization of polyoma host range mutants that replicate in nullpotential embryonal carcinoma cells. Proc. Natl. Acad. Sci. U.S.A. 78:1100–1104.
   PubMed Web of Science ®Google Scholar
• Shenk, T. 1981. Transcriptional control regions: nucleotide sequence requirements for initiation by RNA polymerase II and III. Curr. Top. Microbiol. Immunol. 93:25–46.
   PubMedGoogle Scholar
• Soeda, E., Arrand, J. R., Smolar, N., and Griffin, B. E. 1979. Coding potential and regulatory signals of the polyoma virus genome. Nature (London) 283:445–453.
   Google Scholar
• Treisman, R. 1980. Characteristics of polyoma late mRNA leader sequences by molecular cloning and DNA sequence analysis. Nucleic Acid Res. 8:4867–4888.
   PubMedGoogle Scholar
• Treisman, R., Cowie, A., Favaloro, J., Jat, P., and Kamen, R. 1981. The structure of the spliced mRNAs encoding polyoma virus early region proteins. J. Mol. Appl. Genet. 1:83–92.
   PubMedGoogle Scholar
• Tyndall, C., LaMantia, G., Thacker, C. M., Favaloro, J., and Kamen, R. 1981. A region of the polyoma virus genome between the replication origin and late protein coding sequences is required in cis for both early gene expression and viral DNA replication. Nucleic Acids Res. 9:6231–6249.
   PubMed Web of Science ®Google Scholar
• Wang, A. H.J., Quigley, G. J., Kolpak, F. J., Crawford, J. L., van Boom, J. H., van der Mahel, G., and Rich, A. 1979. Molecular structure of a left-handed double helical DNA fragment at atomic resolution. Nature (London) 282:680–686.
   PubMed Web of Science ®Google Scholar
• Wasylyk, B., Derbyshire, R., Guy, A., Molko, D., Roget, A., Teolue, R., and Chambon, P. 1980. Specific in vitro transcription of conalbumin gene is drastically decreased by a single-point mutation in TATA box homology sequence. Proc. Natl. Acad. Sci. U.S.A. 77:7024–7028.
   PubMed Web of Science ®Google Scholar
• Wasylyk, B., Wasylyk, C., Augereau, P., and Chambon, P. 1983. The SV40 72 bp repeat preferentially potentiates transcription starting from proximal natural or substitute promoter elements. Cell 32:503–514.
   PubMed Web of Science ®Google Scholar
• Weiner, H., and Botchan, M. R. 1984. An enhancer sequence from bovine papilloma virus DNA consists of two essential regions. Nucleic Acids Res. 12:2901–2916.
   PubMedGoogle Scholar
• Weiner, H., Konig, M., and Gruss, P. 1983. Multiple point mutations affecting the simian virus 40 enhancer. Science 219:626–631.
   PubMedGoogle Scholar
• Wigler, M., Pellicer, A., Silverstein, S., and Axel, R. 1978. Biochemical transfer of single-copy eukaryotic genes using total cellular DNA as donor. Cell 14:725–731.
   PubMed Web of Science ®Google Scholar