Abstract
HSAG-1 is a 3.4 kb mammalian genomic element which has been shown to stimulate the amplification of the pSV2DHFR expression vector in cis when transfected into a variety of cell lines (1). This amplification stimulatory activity requires the interaction of multiple positive acting elements that include sequence features associated with recombination 'hotspots', such as Alu-like repetitive sequences and A/T rich regions (2). We demonstrate here that two other members of the HSAG family of elements, HSAG-2 and HSAG-5, also stimulate vector amplification. By analysis of the HSAG-2 nucleotide sequence and of the amplification activity of HSAG-2 and HSAG-5 subfragments, we show that this activity also involves the interaction of multiple positive acting elements. The autonomous replication of the HSAG containing vectors is not responsible for this effect. We also show that the orientation of HSAG elements in pSV2DHFR has a profound effect on their amplification stimulatory activity, and present evidence that the transcription of these elements in pSV2DHFR is necessary for the effect.
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- Beitel L. K., Chamberlain J. W., Benchimol S., Lam T., Price G. B., Stanners C. P. Studies on HSAG, a middle repetitive family of genetic elements which elicit a leukemia-related cellular surface antigen. Nucleic Acids Res. 1986 Apr 25;14(8):3391–3408. doi: 10.1093/nar/14.8.3391. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Blackwell T. K., Moore M. W., Yancopoulos G. D., Suh H., Lutzker S., Selsing E., Alt F. W. Recombination between immunoglobulin variable region gene segments is enhanced by transcription. Nature. 1986 Dec 11;324(6097):585–589. doi: 10.1038/324585a0. [DOI] [PubMed] [Google Scholar]
- Boehm T., Mengle-Gaw L., Kees U. R., Spurr N., Lavenir I., Forster A., Rabbitts T. H. Alternating purine-pyrimidine tracts may promote chromosomal translocations seen in a variety of human lymphoid tumours. EMBO J. 1989 Sep;8(9):2621–2631. doi: 10.1002/j.1460-2075.1989.tb08402.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Caddle M. S., Lussier R. H., Heintz N. H. Intramolecular DNA triplexes, bent DNA and DNA unwinding elements in the initiation region of an amplified dihydrofolate reductase replicon. J Mol Biol. 1990 Jan 5;211(1):19–33. doi: 10.1016/0022-2836(90)90008-A. [DOI] [PubMed] [Google Scholar]
- Carroll S. M., Gaudray P., De Rose M. L., Emery J. F., Meinkoth J. L., Nakkim E., Subler M., Von Hoff D. D., Wahl G. M. Characterization of an episome produced in hamster cells that amplify a transfected CAD gene at high frequency: functional evidence for a mammalian replication origin. Mol Cell Biol. 1987 May;7(5):1740–1750. doi: 10.1128/mcb.7.5.1740. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cartier M., Chang M. W., Stanners C. P. Use of the Escherichia coli gene for asparagine synthetase as a selective marker in a shuttle vector capable of dominant transfection and amplification in animal cells. Mol Cell Biol. 1987 May;7(5):1623–1628. doi: 10.1128/mcb.7.5.1623. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chamberlain J. W., Henderson G., Chang M. W., Lam T., Dignard D., Ling V., Price G. B., Stanners C. P. The structure of HSAG-1, a middle repetitive genetic element which elicits a leukemia-related cellular surface antigen. Nucleic Acids Res. 1986 Apr 25;14(8):3409–3424. doi: 10.1093/nar/14.8.3409. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chen S. J., Chen Z., Font M. P., d'Auriol L., Larsen C. J., Berger R. Structural alterations of the BCR and ABL genes in Ph1 positive acute leukemias with rearrangements in the BCR gene first intron: further evidence implicating Alu sequences in the chromosome translocation. Nucleic Acids Res. 1989 Oct 11;17(19):7631–7642. doi: 10.1093/nar/17.19.7631. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chirgwin J. M., Przybyla A. E., MacDonald R. J., Rutter W. J. Isolation of biologically active ribonucleic acid from sources enriched in ribonuclease. Biochemistry. 1979 Nov 27;18(24):5294–5299. doi: 10.1021/bi00591a005. [DOI] [PubMed] [Google Scholar]
- Deininger P. L., Jolly D. J., Rubin C. M., Friedmann T., Schmid C. W. Base sequence studies of 300 nucleotide renatured repeated human DNA clones. J Mol Biol. 1981 Sep 5;151(1):17–33. doi: 10.1016/0022-2836(81)90219-9. [DOI] [PubMed] [Google Scholar]
- Feinberg A. P., Vogelstein B. "A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity". Addendum. Anal Biochem. 1984 Feb;137(1):266–267. doi: 10.1016/0003-2697(84)90381-6. [DOI] [PubMed] [Google Scholar]
- Fickett J. W. Recognition of protein coding regions in DNA sequences. Nucleic Acids Res. 1982 Sep 11;10(17):5303–5318. doi: 10.1093/nar/10.17.5303. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Frank-Kamenetskii M. Gene transcription. Waves of DNA supercoiling. Nature. 1989 Jan 19;337(6204):206–206. doi: 10.1038/337206a0. [DOI] [PubMed] [Google Scholar]
- Giaever G. N., Wang J. C. Supercoiling of intracellular DNA can occur in eukaryotic cells. Cell. 1988 Dec 2;55(5):849–856. doi: 10.1016/0092-8674(88)90140-7. [DOI] [PubMed] [Google Scholar]
- Giulotto E., Knights C., Stark G. R. Hamster cells with increased rates of DNA amplification, a new phenotype. Cell. 1987 Mar 13;48(5):837–845. doi: 10.1016/0092-8674(87)90080-8. [DOI] [PubMed] [Google Scholar]
- Gluzman Y. SV40-transformed simian cells support the replication of early SV40 mutants. Cell. 1981 Jan;23(1):175–182. doi: 10.1016/0092-8674(81)90282-8. [DOI] [PubMed] [Google Scholar]
- Hirt B. Selective extraction of polyoma DNA from infected mouse cell cultures. J Mol Biol. 1967 Jun 14;26(2):365–369. doi: 10.1016/0022-2836(67)90307-5. [DOI] [PubMed] [Google Scholar]
- Hyrien O., Debatisse M., Buttin G., de Saint Vincent B. R. A hotspot for novel amplification joints in a mosaic of Alu-like repeats and palindromic A + T-rich DNA. EMBO J. 1987 Aug;6(8):2401–2408. doi: 10.1002/j.1460-2075.1987.tb02518.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hyrien O., Debatisse M., Buttin G., de Saint Vincent B. R. The multicopy appearance of a large inverted duplication and the sequence at the inversion joint suggest a new model for gene amplification. EMBO J. 1988 Feb;7(2):407–417. doi: 10.1002/j.1460-2075.1988.tb02828.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Jelinek W. R., Schmid C. W. Repetitive sequences in eukaryotic DNA and their expression. Annu Rev Biochem. 1982;51:813–844. doi: 10.1146/annurev.bi.51.070182.004121. [DOI] [PubMed] [Google Scholar]
- Legouy E., Fossar N., Lhomond G., Brison O. Structure of four amplified DNA novel joints. Somat Cell Mol Genet. 1989 Jul;15(4):309–320. doi: 10.1007/BF01534970. [DOI] [PubMed] [Google Scholar]
- Lehrman M. A., Russell D. W., Goldstein J. L., Brown M. S. Alu-Alu recombination deletes splice acceptor sites and produces secreted low density lipoprotein receptor in a subject with familial hypercholesterolemia. J Biol Chem. 1987 Mar 5;262(7):3354–3361. [PubMed] [Google Scholar]
- Orr-Weaver T. L., Johnston C. G., Spradling A. C. The role of ACE3 in Drosophila chorion gene amplification. EMBO J. 1989 Dec 20;8(13):4153–4162. doi: 10.1002/j.1460-2075.1989.tb08600.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pasion S. G., Hartigan J. A., Kumar V., Biswas D. K. DNA sequence responsible for the amplification of adjacent genes. DNA. 1987 Oct;6(5):419–428. doi: 10.1089/dna.1987.6.419. [DOI] [PubMed] [Google Scholar]
- Passananti C., Davies B., Ford M., Fried M. Structure of an inverted duplication formed as a first step in a gene amplification event: implications for a model of gene amplification. EMBO J. 1987 Jun;6(6):1697–1703. doi: 10.1002/j.1460-2075.1987.tb02420.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Peden K. W., Pipas J. M., Pearson-White S., Nathans D. Isolation of mutants of an animal virus in bacteria. Science. 1980 Sep 19;209(4463):1392–1396. doi: 10.1126/science.6251547. [DOI] [PubMed] [Google Scholar]
- Pollard J. W., Stanners C. P. Characterization of cell lines showing growth control isolated from both the wild type and a leucyl-tRNA synthetase mutant of Chinese hamster ovary cells. J Cell Physiol. 1979 Mar;98(3):571–585. doi: 10.1002/jcp.1040980315. [DOI] [PubMed] [Google Scholar]
- Rao B. S., Zannis-Hadjopoulos M., Price G. B., Reitman M., Martin R. G. Sequence similarities among monkey ori-enriched (ors) fragments. Gene. 1990 Mar 15;87(2):233–242. doi: 10.1016/0378-1119(90)90307-d. [DOI] [PubMed] [Google Scholar]
- Rice G. C., Ling V., Schimke R. T. Frequencies of independent and simultaneous selection of Chinese hamster cells for methotrexate and doxorubicin (adriamycin) resistance. Proc Natl Acad Sci U S A. 1987 Dec;84(24):9261–9264. doi: 10.1073/pnas.84.24.9261. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ruiz J. C., Wahl G. M. Formation of an inverted duplication can be an initial step in gene amplification. Mol Cell Biol. 1988 Oct;8(10):4302–4313. doi: 10.1128/mcb.8.10.4302. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sager R., Gadi I. K., Stephens L., Grabowy C. T. Gene amplification: an example of accelerated evolution in tumorigenic cells. Proc Natl Acad Sci U S A. 1985 Oct;82(20):7015–7019. doi: 10.1073/pnas.82.20.7015. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Schimke R. T. Gene amplification in cultured cells. J Biol Chem. 1988 May 5;263(13):5989–5992. [PubMed] [Google Scholar]
- Shepherd J. C. Method to determine the reading frame of a protein from the purine/pyrimidine genome sequence and its possible evolutionary justification. Proc Natl Acad Sci U S A. 1981 Mar;78(3):1596–1600. doi: 10.1073/pnas.78.3.1596. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Spradling A. C., de Cicco D. V., Wakimoto B. T., Levine J. F., Kalfayan L. J., Cooley L. Amplification of the X-linked Drosophila chorion gene cluster requires a region upstream from the s38 chorion gene. EMBO J. 1987 Apr;6(4):1045–1053. doi: 10.1002/j.1460-2075.1987.tb04857.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. An interactive graphics program for comparing and aligning nucleic acid and amino acid sequences. Nucleic Acids Res. 1982 May 11;10(9):2951–2961. doi: 10.1093/nar/10.9.2951. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Staden R. Graphic methods to determine the function of nucleic acid sequences. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 2):521–538. doi: 10.1093/nar/12.1part2.521. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Stanners C. P., Lam T., Chamberlain J. W., Stewart S. S., Price G. B. Cloning of a functional gene responsible for the expression of a cell surface antigen correlated with human chronic lymphocytic leukemia. Cell. 1981 Nov;27(1 Pt 2):211–221. doi: 10.1016/0092-8674(81)90375-5. [DOI] [PubMed] [Google Scholar]
- Stark G. R., Debatisse M., Giulotto E., Wahl G. M. Recent progress in understanding mechanisms of mammalian DNA amplification. Cell. 1989 Jun 16;57(6):901–908. doi: 10.1016/0092-8674(89)90328-0. [DOI] [PubMed] [Google Scholar]
- Stark G. R., Wahl G. M. Gene amplification. Annu Rev Biochem. 1984;53:447–491. doi: 10.1146/annurev.bi.53.070184.002311. [DOI] [PubMed] [Google Scholar]
- Stringer J. R. Recombination between poly[d(GT).d(CA)] sequences in simian virus 40-infected cultured cells. Mol Cell Biol. 1985 Jun;5(6):1247–1259. doi: 10.1128/mcb.5.6.1247. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Subramani S., Mulligan R., Berg P. Expression of the mouse dihydrofolate reductase complementary deoxyribonucleic acid in simian virus 40 vectors. Mol Cell Biol. 1981 Sep;1(9):854–864. doi: 10.1128/mcb.1.9.854. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Swimmer C., Delidakis C., Kafatos F. C. Amplification-control element ACE-3 is important but not essential for autosomal chorion gene amplification. Proc Natl Acad Sci U S A. 1989 Nov;86(22):8823–8827. doi: 10.1073/pnas.86.22.8823. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Thomas B. J., Rothstein R. Elevated recombination rates in transcriptionally active DNA. Cell. 1989 Feb 24;56(4):619–630. doi: 10.1016/0092-8674(89)90584-9. [DOI] [PubMed] [Google Scholar]
- Tlsty T. D. Normal diploid human and rodent cells lack a detectable frequency of gene amplification. Proc Natl Acad Sci U S A. 1990 Apr;87(8):3132–3136. doi: 10.1073/pnas.87.8.3132. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Treco D., Arnheim N. The evolutionarily conserved repetitive sequence d(TG.AC)n promotes reciprocal exchange and generates unusual recombinant tetrads during yeast meiosis. Mol Cell Biol. 1986 Nov;6(11):3934–3947. doi: 10.1128/mcb.6.11.3934. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Umek R. M., Kowalski D. The ease of DNA unwinding as a determinant of initiation at yeast replication origins. Cell. 1988 Feb 26;52(4):559–567. doi: 10.1016/0092-8674(88)90469-2. [DOI] [PubMed] [Google Scholar]
- Voelkel-Meiman K., Keil R. L., Roeder G. S. Recombination-stimulating sequences in yeast ribosomal DNA correspond to sequences regulating transcription by RNA polymerase I. Cell. 1987 Mar 27;48(6):1071–1079. doi: 10.1016/0092-8674(87)90714-8. [DOI] [PubMed] [Google Scholar]
- Wahl G. M., Robert de Saint Vincent B., DeRose M. L. Effect of chromosomal position on amplification of transfected genes in animal cells. Nature. 1984 Feb 9;307(5951):516–520. doi: 10.1038/307516a0. [DOI] [PubMed] [Google Scholar]
- Wahls W. P., Wallace L. J., Moore P. D. The Z-DNA motif d(TG)30 promotes reception of information during gene conversion events while stimulating homologous recombination in human cells in culture. Mol Cell Biol. 1990 Feb;10(2):785–793. doi: 10.1128/mcb.10.2.785. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wegner M., Zastrow G., Klavinius A., Schwender S., Müller F., Luksza H., Hoppe J., Wienberg J., Grummt F. Cis-acting sequences from mouse rDNA promote plasmid DNA amplification and persistence in mouse cells: implication of HMG-I in their function. Nucleic Acids Res. 1989 Dec 11;17(23):9909–9932. doi: 10.1093/nar/17.23.9909. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Wright J. A., Smith H. S., Watt F. M., Hancock M. C., Hudson D. L., Stark G. R. DNA amplification is rare in normal human cells. Proc Natl Acad Sci U S A. 1990 Mar;87(5):1791–1795. doi: 10.1073/pnas.87.5.1791. [DOI] [PMC free article] [PubMed] [Google Scholar]