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Research Article

Complete Nucleotide Sequence of the Drosophila Transposable Element Copia: Homology Between Copia and Retroviral Proteins

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Pages 1630-1638 | Received 28 Jan 1985, Accepted 02 Apr 1985, Published online: 31 Mar 2023

LITERATURE CITED

  • Bankier, A. T., and Barrel B. G.. 1983. Shotgun DNA sequencing, p. 1–33. In Flavell R. A. (ed.), Techniques in nucleic acid biochemistry, vol. B5. Elsevier Scientific Publishing, New York.
  • Bayev, A. A., Lyvbomirskaya N. V., Dzhumagdiev E. B., Ananiev E. V., Amiant I. G., and Ilyin Y. V.. 1984. Structural organization of transposable element mdg4 from Drosophila melanogaster and a nucleotide sequence of its long terminal repeats. Nucleic Acids Res. 12:3707–3723.
  • Bender, W., Akam M., Karen F., Beachy P. A., Peifer M., Spierer P., Lewis E. B., and Hogness D. S.. 1983. Molecular genetics of the bithorax complex in Drosophila melanogaster. Science 221:23–29.
  • Bingham, P. M., and Judd B. H.. 1981. A copy of the copia transposable element is very tightly linked to the wa allele at the white locus of D. melanogaster. Cell 25:705–711.
  • Bingham, P. M., Levis R., and Rubin G. M.. 1981. Cloning of DNA sequences from the white locus of D. melanogaster by a novel and general method. Cell 25:693–704.
  • Boeke, J. D., Garfinkel D. J., Styles C. A., and Fink G. R.. 1985. Ty elements transpose through an RNA intermediate. Cell 40:491–500.
  • Carlson, M., and Brutlag D.. 1978. One of the copia genes is adjacent to satellite DNA in Drosophila melanogaster. Cell 15:733–742.
  • Chiu, I.-M., Callahan R., Tronick S. R., Seldom J., and Aaronson S. A.. 1984. Major pol gene progenitors in the evolution of oncoviruses. Science 223:364–370.
  • Copeland, N. G., Hutchinson K. W., and Jenkins N. A.. 1983. Excision of the DBA ecotropic provirus in dilute-coat-color revertants of mice occurs by homologous recombination involving the viral LTRs. Cell 33:379–387.
  • Copeland, T. D., Oroszlan S., Kalyanaraman V. S., Sarngadharan M. G., and Gallo R. C.. 1983. Complete amino acid sequence of human T-cell leukemia virus structural protein pl5. FEBS Lett. 162:390–395.
  • Dente, L. G., Cesareni G., and Cortese R.. 1983. pEMBL: a new family of single-stranded plasmids. Nucleic Acids Res. 11:1645–1655.
  • Devare, S. G., Reddy E. P., Law J. D., Robbins K. C., and Aaronson S. A.. 1983. Nucleotide sequence of the simian sarcoma virus genome: demonstration that its acquired cellular sequences encode the transforming gene product p28sis. Proc. Natl. Acad. Sci. U.S.A. 80:731–735.
  • Donehower, L. A., and Varmus H. E.. 1984. A mutant murine leukemia virus with a single missense codon in pol is defective in a function affecting integration. Proc. Natl. Acad. Sci. U.S.A. 81:6461–6465.
  • Duyk, G., Leis J., Longiaru M., and Skalka A. M.. 1983. Selective cleavage in the avian retroviral long terminal repeat sequence by the endonuclease associated with the alphabeta form of avian reverse transcriptase. Proc. Natl. Acad. Sci. U.S.A. 80:6745–6749.
  • Elder, R. T., Loh E. Y., and Davis R. W.. 1983. RNA from the yeast transposable element Tyl has both ends in the direct repeats, a structure similar to retrovirus RNA. Proc. Natl. Acad. Sci. U.S.A. 80:2431–2436.
  • Engleman, D. M., Goldman A., and Steitz T. A.. 1982. The identification of helical segments in the polypeptide chain of bacteriorhodopsin. Methods Enzymol. 88:81–89.
  • Falkenthal, S., Grahm M. L., Korn E. L., and Lengyel J. A.. 1982. Transcription, processing and turnover of RNA from the Drosophila mobile genetic element copia. Dev. Biol. 92:294–305.
  • Falkenthal, S., and Lengyel J. A.. 1980. Structure, translation and metabolism of the cytoplasmic copia ribonucleic acid of Drosophila melanogaster. Biochemistry 19:5842–5850.
  • Flavell, A. J. 1984. Role of reverse transcription in the generation of extrachromosomal copia mobile genetic elements. Nature (London) 310:514–515.
  • Flavell, A. J., and Ish-Horowicz D.. 1981. Extrachromosomal circular copies of the eukaryotic transposable element copia in cultured Drosophila cells. Nature (London) 292:591–595.
  • Flavell, A. J., and Ish-Horowicz D.. 1983. The origin of extrachromosomal circular copia elements. Cell 34:415–419.
  • Flavell, A. J., Levis R., Simon M. A., and Rubin G. M.. 1981. The 5′ termini of RNAs encoded by the transposable element copia. Nucleic Acids Res. 9:6279–6291.
  • Flavell, A. J., Ruby S. W., Toole J. T., Roberts B. E., and Rubin G. M.. 1980. Translation and developmental regulation of RNA encoded by the eukaryotic transposable element copia. Proc. Natl. Acad. Sci. U.S.A. 77:7107–7111.
  • Fouts, D. L., Manning J. E., Fox G. M., and Schmid C. W.. 1981. A complex repeated DNA sequence within the Drosophila transposable element copia. Nucleic Acids Res. 9:7053–7064.
  • Freund, R., and Meselson M.. 1984. Long terminal repeat nucleotide sequence and specific insertion of the gypsy trans-poson. Proc. Natl. Acad. Sci. U.S.A. 81:4462–4464.
  • Gehring, W. J., and Paro R.. 1980. Isolation of a hybrid plasmid with homologous sequences to a transposing element of Drosophila. Cell 19:897–904.
  • Gibson, W., and Verma I. M.. 1974. Studies on the reverse transcriptase of RNA tumor viruses. Structural relatedness of two subunits of avian RNA tumor viruses. Proc. Natl. Acad. Sci. U.S.A. 71:4991–4994.
  • Goldberg, M. L., Paro R., and Gehring W. J.. 1982. Molecular cloning of the white locus region of Drosophila melanogaster using a large transposable element. EMBO J. 1:93–98.
  • Goldberg, M. L., Sheen J.-Y., Gehring W. J., and Green M. M.. 1983. Unequal crossing over associated with asymmetrical synapsis between nomadic elements in the Drosophila melanogaster genome. Proc. Natl. Acad. Sci. U.S.A. 80:5017–5021.
  • Grandgenett, D. P., Vora A. C., and Schiff R. D.. 1978. A 32,000 dalton nucleic acid binding protein from avian retrovirus cores possesses DNA endonuclease activity. Virology 89:119–132.
  • Grantham, R., Gautier C., Gouy M., Jacobzone M., and Mercier R.. 1981. Codon catalogue usage is a genome strategy modulated for gene expressivity. Nucleic Acids Res. 9:r43–r74.
  • Green, M. M. 1959. Spatial and functional properties of pseudoalleles at the white locus in Drosophila melanogaster. Heredity 13:303–315.
  • Herr, W., Corbin V., and Gilbert W.. 1982. Nucleotide sequence of the 3′ half of AKV. Nucleic Acids Res. 10:6931–6944.
  • Hutchinson, K. W., Copeland N. G., and Jenkins N. A.. 1984. Dilute-coat-color locus of mice: nucleotide sequence analysis of the d+2J and d+Ha revertant alleles. Mol. Cell. Biol. 4:2899–2904.
  • Ilyin, Y. V., Schuppe N. G., Lyvbomirskaya N. V., Gorelova I. V., and Arkhipova J. R.. 1984. Circular copies of mobile dispersed genetic elements in cultured Drosophila melanogaster cells. Nucleic Acids Res. 12:7517–7531.
  • James, M. N. G. 1980. An X-ray crystallographic approach to enzyme structure and function. Can. J. Biochem. 58:251–271.
  • Kozak, M. 1982. How do ribosomes recognize the unique AUG initiator codon in messenger RNA? Biochem. Soc. Symp. 47:113–128.
  • Kramer, G., and Argos P.. 1984. Primary structural determinants of RNA-dependent polymerases from plant, animal and bacterial viruses. Nucleic Acids Res. 12:7269–7282.
  • Kugimiya, W., Ikenaga H., and Saigo K.. 1983. Close relationship between the long terminal repeats of avian leukosis-sarcoma virus and copia-like movable genetic elements of Drosophila. Proc. Natl. Acad. Sci. U.S.A. 80:3193–3197.
  • Kyte, J., and Doolittle R. F.. 1982. A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157:105–132.
  • Levis, R., Bingham P. M., and Rubin G. M.. 1982. Physical map of the white locus of Drosophila melanogaster. Proc. Natl. Acad. Sci. U.S.A. 79:564–568.
  • Levis, R., Dunsmuir P., and Rubin G. M.. 1980. Terminal repeats of the Drosophila transposable element copia: nucleotide sequence and genomic organization. Cell 21:581–588.
  • Levis, R., O'Hare K., and Rubin G. M.. 1984. Effects of transposable element insertions on RNA encoded by the white gene of Drosophila. Cell 38:471–481.
  • Lindsley, D. L., and Grell E. H.. 1968. Genetic variations of Drosophila melanogaster. Publication no. 627. Carnegie Institution, Washington, D.C.
  • Lipman, D. J., and Pearson W. R.. 1985. Rapid and sensitive protein similarity searches. Science 227:1435–1441.
  • Mellor, J., Fulton S. M., Dobson M. J., Wilson W., Kingsman S. M., and Kingsman A. J.. 1985. A retrovirus-like strategy for expression of a fusion protein encoded by yeast transposon Tyl. Nature (London) 313:243–246.
  • Misra, T. K., Grandgenett D. P., and Parsons J. T.. 1982. Avian retrovirus pp32 DNA-binding protein. I. Recognition of specific sequences on retrovirus DNA terminal repeats. J. Virol. 44:330–343.
  • Modolell, J., Bender W., and Meselson M.. 1983. Drosophila melanogaster mutations suppressible by the suppressor of hairy-wing are insertions of a 7.3 kilobase mobile element. Proc. Natl. Acad. Sci. U.S.A. 80:1678–1682.
  • Mount, S. M. 1982. A catalogue of splice junction sequences. Nucleic Acids Res. 10:459–472.
  • Needleman, S. B., and Wunch C. D.. 1970. A general method applicable to the search for similarities in the amino acid sequences of two proteins. J. Mol. Biol. 48:443–453.
  • Norrander, J., Kempe T., and Messing J.. 1983. Construction of improved M13 vectors using oligodeoxynucleotide-directed mutagenesis. Gene 26:101–106.
  • O'Hare, K., Murphy C., Levis R., and Rubin G. M.. 1984. DNA sequence of the white locus of Drosophila melanogaster. J. Mol. Biol. 180:437–455.
  • Panganiban, A. T., and Temin H. M.. 1984. Circles with two tandem LTRs are precursors to integrated retroviral DNA. Cell 36:673–679.
  • Panganiban, A. T., and Temin H. M.. 1984. The retrovirus pol gene encodes a product required for DNA integration: identification of a retrovirous int locus. Proc. Natl. Acad. Sci. U.S.A. 81:7885–7889.
  • Pirrotta, V., and Brockl C.. 1984. Transcription of the Drosophila white locus and some of its mutants. EMBO J. 3:563–568.
  • Potter, S. S., Brorein W. J., Jr., Dunsmuir P., and Rubin G. M.. 1979. Transposition of elements of the 412, copia and 297 dispersed repeated gene families in Drosophila. Cell 17:415–427.
  • Redman, S. M. S., and Dickson C.. 1983. Sequence and expression of the mouse mammary tumor virus env gene. EMBO J. 2:125–131.
  • Rho, H. M., Grandgenett D. P., and Green M.. 1979. Sequence relatedness between the subunits of avian myeloblastosis virus reverse transcriptase. J. Biol. Chem. 250:5278–5280.
  • Roeder, G. S., and Fink G. R.. 1983. Transposable elements in yeast, p. 299–328. In Shapiro J. A. (ed.), Mobile genetic elements. Academic Press, Inc., Orlando, Fla.
  • Rubin, G. M. 1983. Dispersed repetitive DNAs in Drosophila, p. 329–361. In Shapiro J. A. (ed.), Mobile genetic elements. Academic Press, Inc., Orlando, Fla.
  • Rubin, G. M., Kid well M. G., and Bingham P. M.. 1982. The molecular basis of hybrid dysgenesis: the nature of induced mutations. Cell 29:987–994.
  • Saigo, K., Kugimiya W., Matsuo Y., Inouye S., Yoshioka K., and Yuki S.. 1984. Identification of the coding sequence for reverse transcriptase-like enzyme in a transposable genetic element, 17.6, in Drosophila melanogaster. Nature (London) 312: 659–661.
  • Sanger, F., Nicklen S., and Coulson A. R.. 1977. DNA sequencing with chain terminating inhibitors. Proc. Natl. Acad. Sci. U.S.A. 74:5463–5467.
  • Scherer, G., Tschudi C., Perera J., Delius H., and Pirrotta V.. 1982. B104, a new dispersed repeated gene family in Drosophila melanogaster and its analogies with retroviruses. J. Mol. Biol. 157:435–451.
  • Schwartz, D. E., Tizard R., and Gilbert W.. 1983. Nucleotide sequence of Rous sarcoma virus. Cell 32:853–869.
  • Schwartz, H. E., Lockett T. J., and Young M. W.. 1982. Analysis of transcripts from two families of nomadic DNA. J. Mol. Biol. 157:49–68.
  • Schwartzberg, P., Colicelli J., and Goff S. P.. 1984. Construction and analysis of deletion mutants in the pol gene of Moloney murine leukemia virus: a new viral function required for productive infection. Cell 37:1043–1052.
  • Seiki, M., Seisuke H., Hirayama Y., and Yoshida M.. 1983. Human adult T-cell leukemia virus: complete nucleotide sequence of the pro virus genome integrated in leukemia cell DNA. Proc. Natl. Acad. Sci. U.S.A. 80:3618–3622.
  • Shepherd, B. M., and Finnegan D. J.. 1984. Structure of circular copies of the 412 transposable element present in Drosophila melanogaster cells, and isolation of a free 412 long terminal repeat. J. Mol. Biol. 180:21–40.
  • Shiba, T., and Saigo K.. 1983. Retrovirus-like particles containing RNA homologous to the transposable element copia in Drosophila melanogaster. Nature (London) 302:119–124.
  • Shinnick, T. M., Lerner R. A., and Sutcliffe J. G.. 1981. Nucleotide sequence of Moloney murine leukemia virus. Nature (London) 293:543–548.
  • Shoemaker, C, Hoffman J., Goff S. P., and Baltimore D.. 1981. Intramolecular integration within Moloney murine leukemia virus DNA. J. Virol. 40:164–172.
  • Snyder, M. P., Kimbrell D., Hunkapiller M., Hill R., Fristrom J., and Davidson N.. 1982. A transposable element that splits the promoter region inactivates a Drosophila cuticle protein gene. Proc. Natl. Acad. Sci. U.S.A. 79:7430–7434.
  • Staden, R., and McLauchlin A. D.. 1982. Codon preference and its use in identifying protein regions in long DNA sequences. Nucleic Acids Res. 10:141–156.
  • Sweet, H. O. 1984. Dilute suppressor, a new suppressor gene in the house mouse. J. Hered. 74:305.
  • Temin, H. M. 1980. The origin of retroviruses from cellular moveable genetic elements. Cell 21:599–600.
  • Toh, H., Hayashida H., and Miyata T.. 1983. Sequence homology between retroviral reverse transcriptase and putative polymerases of hepatitis B virus and cauliflower mosaic virus. Nature (London) 305:827–829.
  • Varmus, H. E. 1983. Retroviruses, p. 411–503. In Shapiro J. A. (ed.), Mobile genetic elements. Academic Press, Inc., Orlando, Fla.
  • Varmus, H. E., Quintrell N., and Ortiz S.. 1981. Retroviruses as mutagens: insertion and excision of a nontransforming provirus alter expression of a resident transforming provirus. Cell 25:23–36.
  • Weiher, H., Konig M., and Grass P.. 1983. Multiple point mutations affecting the simian virus 40 enhancer. Science 219:626–631.
  • Winston, F., Chaleff D. T., Valert B., and Fink G. R.. 1984. Mutations affecting Ty-mediated expression of the HIS4 gene of Saccharomyces cerevisiae. Genetics 107:179–197.
  • Young, M. W., and Schwartz H. E.. 1981. Nomadic gene families in Drosophila. Cold Spring Harbor Symp. Quant. Biol. 45:629–640.

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