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. 1994 May 1;13(9):2075–2083. doi: 10.1002/j.1460-2075.1994.tb06482.x

Reverse transcriptase activity of an intron encoded polypeptide.

S Fassbender 1, K H Brühl 1, M Ciriacy 1, U Kück 1
PMCID: PMC395058  PMID: 7514530

Abstract

A number of group II introns from eukaryotic organelles and prokaryotes contain open reading frames for polypeptides with homology to retroviral reverse transcriptases (RTs). We have used the yeast transposon (Ty) system to express ORFs for RTs from eukaryotic organelles. This includes the mitochondrial coxI intron i1 from the fungus Podospora anserina, the plastid petD intron from the alga Scenedesmus obliquus and the mitochondrial RTL gene from the alga Chlamydomonas reinhardtii. The ORFs were fused with the TYA ORF from the yeast retrotransposon Ty to produce virus-like particles in the recipient strains with detectable amounts of the RT-like polypeptides. Analysis of the heterologous gene products revealed biochemical evidence that the P. anserina intron encodes an RNA-directed DNA polymerase with properties typically found for RTs of viral or retrotransposable origin. In vitro assays showed that the intron encoded RT is sensitive to RT inhibitors such as N-ethylmaleimide and dideoxythymidine triphosphate but is insensitive against the DNA polymerase inhibitor aphidicolin. The direct biochemical evidence provided here supports the idea that intron encoded RTs are involved in intron transposition events.

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  1. Adams S. E., Dawson K. M., Gull K., Kingsman S. M., Kingsman A. J. The expression of hybrid HIV:Ty virus-like particles in yeast. Nature. 1987 Sep 3;329(6134):68–70. doi: 10.1038/329068a0. [DOI] [PubMed] [Google Scholar]
  2. Argos P. A sequence motif in many polymerases. Nucleic Acids Res. 1988 Nov 11;16(21):9909–9916. doi: 10.1093/nar/16.21.9909. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Boer P. H., Gray M. W. Genes encoding a subunit of respiratory NADH dehydrogenase (ND1) and a reverse transcriptase-like protein (RTL) are linked to ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA. EMBO J. 1988 Nov;7(11):3501–3508. doi: 10.1002/j.1460-2075.1988.tb03226.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Bradford M. M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 1976 May 7;72:248–254. doi: 10.1016/0003-2697(76)90527-3. [DOI] [PubMed] [Google Scholar]
  5. Cavalier-Smith T. Intron phylogeny: a new hypothesis. Trends Genet. 1991 May;7(5):145–148. [PubMed] [Google Scholar]
  6. Dohmen R. J., Strasser A. W., Zitomer R. S., Hollenberg C. P. Regulated overproduction of alpha-amylase by transformation of the amylolytic yeast Schwanniomyces occidentalis. Curr Genet. 1989 May;15(5):319–325. doi: 10.1007/BF00419911. [DOI] [PubMed] [Google Scholar]
  7. Doolittle R. F., Feng D. F., Johnson M. S., McClure M. A. Origins and evolutionary relationships of retroviruses. Q Rev Biol. 1989 Mar;64(1):1–30. doi: 10.1086/416128. [DOI] [PubMed] [Google Scholar]
  8. Dujon B. Group I introns as mobile genetic elements: facts and mechanistic speculations--a review. Gene. 1989 Oct 15;82(1):91–114. doi: 10.1016/0378-1119(89)90034-6. [DOI] [PubMed] [Google Scholar]
  9. Ferat J. L., Michel F. Group II self-splicing introns in bacteria. Nature. 1993 Jul 22;364(6435):358–361. doi: 10.1038/364358a0. [DOI] [PubMed] [Google Scholar]
  10. Gabriel A., Boeke J. D. Reverse transcriptase encoded by a retrotransposon from the trypanosomatid Crithidia fasciculata. Proc Natl Acad Sci U S A. 1991 Nov 1;88(21):9794–9798. doi: 10.1073/pnas.88.21.9794. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Garfinkel D. J., Boeke J. D., Fink G. R. Ty element transposition: reverse transcriptase and virus-like particles. Cell. 1985 Sep;42(2):507–517. doi: 10.1016/0092-8674(85)90108-4. [DOI] [PubMed] [Google Scholar]
  12. Gilbert W. Why genes in pieces? Nature. 1978 Feb 9;271(5645):501–501. doi: 10.1038/271501a0. [DOI] [PubMed] [Google Scholar]
  13. Goff S., Traktman P., Baltimore D. Isolation and properties of Moloney murine leukemia virus mutants: use of a rapid assay for release of virion reverse transcriptase. J Virol. 1981 Apr;38(1):239–248. doi: 10.1128/jvi.38.1.239-248.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Gorman D. S., Levine R. P. Cytochrome f and plastocyanin: their sequence in the photosynthetic electron transport chain of Chlamydomonas reinhardi. Proc Natl Acad Sci U S A. 1965 Dec;54(6):1665–1669. doi: 10.1073/pnas.54.6.1665. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Hizi A., McGill C., Hughes S. H. Expression of soluble, enzymatically active, human immunodeficiency virus reverse transcriptase in Escherichia coli and analysis of mutants. Proc Natl Acad Sci U S A. 1988 Feb;85(4):1218–1222. doi: 10.1073/pnas.85.4.1218. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Hizi A., Shaharabany M., Tal R., Hughes S. H. The effects of cysteine mutations on the reverse transcriptases of human immunodeficiency virus types 1 and 2. J Biol Chem. 1992 Jan 15;267(2):1293–1297. [PubMed] [Google Scholar]
  17. Hizi A., Tal R., Shaharabany M., Loya S. Catalytic properties of the reverse transcriptases of human immunodeficiency viruses type 1 and type 2. J Biol Chem. 1991 Apr 5;266(10):6230–6239. [PubMed] [Google Scholar]
  18. Hsu T. W., Taylor J. M. Effect of aphidicolin on avian sarcoma virus replication. J Virol. 1982 Nov;44(2):493–498. doi: 10.1128/jvi.44.2.493-498.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Ikegami S., Taguchi T., Ohashi M., Oguro M., Nagano H., Mano Y. Aphidicolin prevents mitotic cell division by interfering with the activity of DNA polymerase-alpha. Nature. 1978 Oct 5;275(5679):458–460. doi: 10.1038/275458a0. [DOI] [PubMed] [Google Scholar]
  20. Jacobo-Molina A., Ding J., Nanni R. G., Clark A. D., Jr, Lu X., Tantillo C., Williams R. L., Kamer G., Ferris A. L., Clark P. Crystal structure of human immunodeficiency virus type 1 reverse transcriptase complexed with double-stranded DNA at 3.0 A resolution shows bent DNA. Proc Natl Acad Sci U S A. 1993 Jul 1;90(13):6320–6324. doi: 10.1073/pnas.90.13.6320. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Jamet-Vierny C., Begel O., Belcour L. A 20 X 10(3)-base mosaic gene identified on the mitochondrial chromosome of Podospora anserina. Eur J Biochem. 1984 Sep 3;143(2):389–394. doi: 10.1111/j.1432-1033.1984.tb08385.x. [DOI] [PubMed] [Google Scholar]
  22. Kennell J. C., Moran J. V., Perlman P. S., Butow R. A., Lambowitz A. M. Reverse transcriptase activity associated with maturase-encoding group II introns in yeast mitochondria. Cell. 1993 Apr 9;73(1):133–146. doi: 10.1016/0092-8674(93)90166-n. [DOI] [PubMed] [Google Scholar]
  23. Kingsman A. J., Adams S. E., Burns N. R., Kingsman S. M. Retroelement particles as purification, presentation and targeting vehicles. Trends Biotechnol. 1991 Sep;9(9):303–309. doi: 10.1016/0167-7799(91)90100-v. [DOI] [PubMed] [Google Scholar]
  24. Klebe R. J., Harriss J. V., Sharp Z. D., Douglas M. G. A general method for polyethylene-glycol-induced genetic transformation of bacteria and yeast. Gene. 1983 Nov;25(2-3):333–341. doi: 10.1016/0378-1119(83)90238-x. [DOI] [PubMed] [Google Scholar]
  25. Kuiper M. T., Lambowitz A. M. A novel reverse transcriptase activity associated with mitochondrial plasmids of Neurospora. Cell. 1988 Nov 18;55(4):693–704. doi: 10.1016/0092-8674(88)90228-0. [DOI] [PubMed] [Google Scholar]
  26. Kuiper M. T., Sabourin J. R., Lambowitz A. M. Identification of the reverse transcriptase encoded by the Mauriceville and Varkud mitochondrial plasmids of Neurospora. J Biol Chem. 1990 Apr 25;265(12):6936–6943. [PubMed] [Google Scholar]
  27. Kück U., Osiewacz H. D., Schmidt U., Kappelhoff B., Schulte E., Stahl U., Esser K. The onset of senescence is affected by DNA rearrangements of a discontinuous mitochondrial gene in Podospora anserina. Curr Genet. 1985;9(5):373–382. doi: 10.1007/BF00421608. [DOI] [PubMed] [Google Scholar]
  28. Kück U. The intron of a plastid gene from a green alga contains an open reading frame for a reverse transcriptase-like enzyme. Mol Gen Genet. 1989 Aug;218(2):257–265. doi: 10.1007/BF00331276. [DOI] [PubMed] [Google Scholar]
  29. Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
  30. Lambowitz A. M., Belfort M. Introns as mobile genetic elements. Annu Rev Biochem. 1993;62:587–622. doi: 10.1146/annurev.bi.62.070193.003103. [DOI] [PubMed] [Google Scholar]
  31. Lazcano A., Valverde V., Hernández G., Gariglio P., Fox G. E., Oró J. On the early emergence of reverse transcription: theoretical basis and experimental evidence. J Mol Evol. 1992 Dec;35(6):524–536. doi: 10.1007/BF00160213. [DOI] [PubMed] [Google Scholar]
  32. Levra-Juillet E., Boulet A., Séraphin B., Simon M., Faye G. Mitochondrial introns aI1 and/or aI2 are needed for the in vivo deletion of intervening sequences. Mol Gen Genet. 1989 May;217(1):168–171. doi: 10.1007/BF00330957. [DOI] [PubMed] [Google Scholar]
  33. Mathias S. L., Scott A. F., Kazazian H. H., Jr, Boeke J. D., Gabriel A. Reverse transcriptase encoded by a human transposable element. Science. 1991 Dec 20;254(5039):1808–1810. doi: 10.1126/science.1722352. [DOI] [PubMed] [Google Scholar]
  34. Mellor J., Malim M. H., Gull K., Tuite M. F., McCready S., Dibbayawan T., Kingsman S. M., Kingsman A. J. Reverse transcriptase activity and Ty RNA are associated with virus-like particles in yeast. Nature. 1985 Dec 12;318(6046):583–586. doi: 10.1038/318583a0. [DOI] [PubMed] [Google Scholar]
  35. Michel F., Lang B. F. Mitochondrial class II introns encode proteins related to the reverse transcriptases of retroviruses. Nature. 1985 Aug 15;316(6029):641–643. doi: 10.1038/316641a0. [DOI] [PubMed] [Google Scholar]
  36. Mueller M. W., Allmaier M., Eskes R., Schweyen R. J. Transposition of group II intron aI1 in yeast and invasion of mitochondrial genes at new locations. Nature. 1993 Nov 11;366(6451):174–176. doi: 10.1038/366174a0. [DOI] [PubMed] [Google Scholar]
  37. Mullis K. B., Faloona F. A. Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction. Methods Enzymol. 1987;155:335–350. doi: 10.1016/0076-6879(87)55023-6. [DOI] [PubMed] [Google Scholar]
  38. Müller F., Brühl K. H., Freidel K., Kowallik K. V., Ciriacy M. Processing of TY1 proteins and formation of Ty1 virus-like particles in Saccharomyces cerevisiae. Mol Gen Genet. 1987 May;207(2-3):421–429. doi: 10.1007/BF00331610. [DOI] [PubMed] [Google Scholar]
  39. Müller F., Laufer W., Pott U., Ciriacy M. Characterization of products of TY1-mediated reverse transcription in Saccharomyces cerevisiae. Mol Gen Genet. 1991 Apr;226(1-2):145–153. doi: 10.1007/BF00273598. [DOI] [PubMed] [Google Scholar]
  40. Nakamaye K. L., Eckstein F. Inhibition of restriction endonuclease Nci I cleavage by phosphorothioate groups and its application to oligonucleotide-directed mutagenesis. Nucleic Acids Res. 1986 Dec 22;14(24):9679–9698. doi: 10.1093/nar/14.24.9679. [DOI] [PMC free article] [PubMed] [Google Scholar]
  41. Nakamura H., Tanabe K., Yoshida S., Morita T. Terminal deoxynucleotidyltransferase of 60,000 daltons from mouse, rat, and calf thymus. Purification by immunoadsorbent chromatography and comparison of peptide structures. J Biol Chem. 1981 Aug 25;256(16):8745–8751. [PubMed] [Google Scholar]
  42. Roger A. J., Doolittle W. F. Molecular evolution. Why introns-in-pieces? Nature. 1993 Jul 22;364(6435):289–290. doi: 10.1038/364289a0. [DOI] [PubMed] [Google Scholar]
  43. Roth M. J., Tanese N., Goff S. P. Purification and characterization of murine retroviral reverse transcriptase expressed in Escherichia coli. J Biol Chem. 1985 Aug 5;260(16):9326–9335. [PubMed] [Google Scholar]
  44. 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]
  45. Sellem C. H., Lecellier G., Belcour L. Transposition of a group II intron. Nature. 1993 Nov 11;366(6451):176–178. doi: 10.1038/366176a0. [DOI] [PubMed] [Google Scholar]
  46. Sellem C. H., Sainsard-Chanet A., Belcour L. Detection of a protein encoded by a class II mitochondrial intron of Podospora anserina. Mol Gen Genet. 1990 Nov;224(2):232–240. doi: 10.1007/BF00271556. [DOI] [PubMed] [Google Scholar]
  47. Shiba T., Saigo K. Retrovirus-like particles containing RNA homologous to the transposable element copia in Drosophila melanogaster. Nature. 1983 Mar 10;302(5904):119–124. doi: 10.1038/302119a0. [DOI] [PubMed] [Google Scholar]
  48. Sinha N. D., Biernat J., McManus J., Köster H. Polymer support oligonucleotide synthesis XVIII: use of beta-cyanoethyl-N,N-dialkylamino-/N-morpholino phosphoramidite of deoxynucleosides for the synthesis of DNA fragments simplifying deprotection and isolation of the final product. Nucleic Acids Res. 1984 Jun 11;12(11):4539–4557. doi: 10.1093/nar/12.11.4539. [DOI] [PMC free article] [PubMed] [Google Scholar]
  49. Smoler D., Molineux I., Baltimore D. Direction of polymerization by the avian myeloblastosis virus deoxyribonucleic acid polymerase. J Biol Chem. 1971 Dec 25;246(24):7697–7700. [PubMed] [Google Scholar]
  50. Soltis D. A., Skalka A. M. The alpha and beta chains of avian retrovirus reverse transcriptase independently expressed in Escherichia coli: characterization of enzymatic activities. Proc Natl Acad Sci U S A. 1988 May;85(10):3372–3376. doi: 10.1073/pnas.85.10.3372. [DOI] [PMC free article] [PubMed] [Google Scholar]
  51. Stahl U., Kück U., Tudzynski P., Esser K. Characterization and cloning of plasmid like DNA of the ascomycete Podospora anserina. Mol Gen Genet. 1980;178(3):639–646. doi: 10.1007/BF00337872. [DOI] [PubMed] [Google Scholar]
  52. Tanese N., Roth M., Goff S. P. Expression of enzymatically active reverse transcriptase in Escherichia coli. Proc Natl Acad Sci U S A. 1985 Aug;82(15):4944–4948. doi: 10.1073/pnas.82.15.4944. [DOI] [PMC free article] [PubMed] [Google Scholar]
  53. Taylor J. W., Ott J., Eckstein F. The rapid generation of oligonucleotide-directed mutations at high frequency using phosphorothioate-modified DNA. Nucleic Acids Res. 1985 Dec 20;13(24):8765–8785. doi: 10.1093/nar/13.24.8765. [DOI] [PMC free article] [PubMed] [Google Scholar]
  54. Taylor J. W., Schmidt W., Cosstick R., Okruszek A., Eckstein F. The use of phosphorothioate-modified DNA in restriction enzyme reactions to prepare nicked DNA. Nucleic Acids Res. 1985 Dec 20;13(24):8749–8764. doi: 10.1093/nar/13.24.8749. [DOI] [PMC free article] [PubMed] [Google Scholar]
  55. Temin H. M., Mizutani S. RNA-dependent DNA polymerase in virions of Rous sarcoma virus. Nature. 1970 Jun 27;226(5252):1211–1213. doi: 10.1038/2261211a0. [DOI] [PubMed] [Google Scholar]
  56. Temin H. M. Reverse transcriptases. Retrons in bacteria. Nature. 1989 May 25;339(6222):254–255. doi: 10.1038/339254a0. [DOI] [PubMed] [Google Scholar]
  57. Towbin H., Staehelin T., Gordon J. Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proc Natl Acad Sci U S A. 1979 Sep;76(9):4350–4354. doi: 10.1073/pnas.76.9.4350. [DOI] [PMC free article] [PubMed] [Google Scholar]
  58. Velasco A. M., Medrano L., Lazcano A., Oró J. A redefinition of the Asp-Asp domain of reverse transcriptases. J Mol Evol. 1992 Dec;35(6):551–556. doi: 10.1007/BF00160216. [DOI] [PubMed] [Google Scholar]
  59. Wang T. S. Eukaryotic DNA polymerases. Annu Rev Biochem. 1991;60:513–552. doi: 10.1146/annurev.bi.60.070191.002501. [DOI] [PubMed] [Google Scholar]
  60. Xiong Y., Eickbush T. H. Origin and evolution of retroelements based upon their reverse transcriptase sequences. EMBO J. 1990 Oct;9(10):3353–3362. doi: 10.1002/j.1460-2075.1990.tb07536.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  61. Xu H., Boeke J. D. Host genes that influence transposition in yeast: the abundance of a rare tRNA regulates Ty1 transposition frequency. Proc Natl Acad Sci U S A. 1990 Nov;87(21):8360–8364. doi: 10.1073/pnas.87.21.8360. [DOI] [PMC free article] [PubMed] [Google Scholar]

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