Post-transcriptional cosuppression of Ty1 retrotransposition

Genetics

Volumn 165, Issue 1, 2003, Pages 83-99

  Garfinkel, David J ^a   Nyswaner, Katherine ^a   Wang, Jun ^a,b   Cho, Jae Yong ^a,c  

^a NATIONAL CANCER INSTITUTE   (United States)

^b WADSWORTH CENTER   (United States)

^c Sangji University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; FUNGAL RNA; GAG PROTEIN;

ARTICLE; CORRELATION ANALYSIS; DNA SYNTHESIS; DNA TRANSPOSITION; FUNGAL STRAIN; GENE EXPRESSION; GENE FUNCTION; GENE FUSION; GENE REPRESSION; GENE SEQUENCE; GENE SILENCING; HOST RESISTANCE; LONG TERMINAL REPEAT; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; RETROPOSON; REVERSE TRANSCRIPTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA PROCESSING; RNA TRANSLATION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; TRANSCRIPTION REGULATION;

ADENOSINE TRIPHOSPHATASES; DNA HELICASES; DNA, COMPLEMENTARY; GENE DOSAGE; GENE EXPRESSION; PROMOTER REGIONS (GENETICS); RETROELEMENTS; YEASTS;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 0141455106     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (69)

1. BAILIS, A. M., S. MAINES and M. T. NEGRITTO, 1995 The essential helicase gene RAD3 suppresses short-sequence recombination in Saccharomyces cerevisiae. Mol. Cell. Biol. 15: 3998-4008.
2. BIRCHLER, J. A., M. PAL-BHADRA and U. BHADRA, 1999 Less from more: cosuppression of transposable elements. Nat. Genet. 21: 148-149.
3. BOEKE, J. D., and S. E. DEVINE, 1998 Yeast retrotransposons: finding a nice quiet neighborhood. Cell 93: 1087-1089.
4. BOEKE, J. D., D. J. GARFINKEL, C. A. STYLES and G. R. FINK, 1985 Ty elements transpose through an RNA intermediate. Cell 40: 461-500.
5. BOEKE, J. D., D. EICHINGER, D. CASTRILLON and G. R. FINK, 1988a The Saccharomyces cerevisiae genome contains functional and non-functional copies of transposon Ty1. Mol. Cell. Biol. 8: 1432-1442.
6. BOEKE, J. D., H. XU and G. R. FINK, 1988b A general method for the chromosomal amplification of genes in yeast. Science 239: 280-282.
7. BOEKE, J. D., D. J. EICHINGER and G. NATSOULIS, 1991 Doubling Ty1 element copy number in Saccharomyces cerevisiae: host genome stability and phenotypic effects. Genetics 129: 1043-1052.
8. BRYK, M., M. BANERJEE, M. MURPHY, K. E. KNUDSEN, D. J. GARFINKEL et al., 1997 Transcriptional silencing of Ty1 elements in the RDN1 locus of yeast. Genes Dev. 11: 255-269.
9. CHABOISSIER, M.-C., A. BUCHETON and D.J. FINNEGAN, 1998 Copy number control of a transposable element, the I factor, a LINE-like element in Drosophila. Proc. Natl. Acad. Sci. USA 95: 11781-11785.
10. CONTE, D., JR., E. BARBER, M. BANERJEE, D. J. GARFINKEL and M. J. CURCIO, 1998 Posttranslational regulation of Ty1 retrotransposition by mitogen-activated protein kinase Fus3. Mol. Cell. Biol. 18: 2502-2513.
11. CURCIO, M. J., and D. J. GARFINKEL, 1991 Single-step selection for Ty1 element retrotransposition. Proc. Natl. Acad. Sci. USA 88: 936-940.
12. CURCIO, M. J., and D. J. GARFINKEL, 1992 Posttranslational control of Ty1 retrotransposition occurs at the level of protein processing. Mol. Cell. Biol. 12: 2813-2825.
13. CURCIO, M. J., and D. J. GARFINKEL, 1994 Heterogeneous functional Ty1 elements are abundant in the Saccharomyes cerevisiae genome. Genetics 136: 1245-1259.
14. CURCIO, M. J., and D.J. GARFINKEL, 1999 New lines of host defense: inhibition of Ty1 retrotransposition by Fus3p and NER/TFIIH. Trends Genet. 15: 43-45.
15. CURCIO, M. J., N. J. SANDERS and D. J. GARFINKEL, 1988 Transpositional competence and transcription of endogenous Ty elements in Saccharomyces cerevisiae: implications for regulation of transposition. Mol. Cell. Biol. 8: 3571-3581.
16. CURCIO, M. J., A. M. HEDGE, J. D. BOEKE and D. J. GARFINKEL, 1990 Ty RNA levels determine the spectrum of retrotransposition events that activate gene expression in Saccharomyces cerevisiae. Mol. Gen. Genet. 220: 213-221.
17. DAVIS, E. S., B. K. SHAFER and J. N. STRATHERN, 2000 The Saccharomyces cerevisiae RDN1 locus is sequestered from interchromosomal meiotic ectopic recombination in a SIR2-dependent manner. Genetics 155: 1019-1032.
18. DERR, L. K., and J. N. STRATHERN, 1993 A role for reverse transcripts in gene conversion. Nature 361: 170-173.
19. DUNHAM, M. J., H. BADRANE, T. FEREA, J. ADAMS, P. O. BROWN et al., 2002 Characteristic genome rearrangements in experimental evolution of Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 99: 16144-16149.
20. EICHINGER, D. J., and J. D. BOEKE, 1990 A specific terminal structure is required for Ty1 transposition. Genes Dev. 4: 324-330.
21. ELDER, R. T., T. P. ST. JOHN, D. T. STINCHCOMB and R. W. DAVIS, 1980 Studies on the transposable element Ty1 of yeast. I. RNA homologous to Ty1. Cold Spring Harbor Symp. Quant. Biol. 45: 581-584.
22. FARABAUGH, P. J., 1995 Post-transcriptional regulation of transposition by Ty retrotransposons of Saccharomyces cerevisiae. J. Biol. Chem. 270: 10361-10364.
23. FINK, G. R., J. D. BOEKE and D. J. GARFINKEL, 1986 The mechanism and consequences of retrotransposition. Trends Genet. 2: 118-123.
24. GARFINKEL, D. J., J. D. BOEKE and G. R. FINK, 1985 Ty element transposition: reverse transcriptase and virus-like particles. Cell 42: 507-517.
25. GARFINKEL, D. J., M. F. MASTRANGELO, N.J. SANDERS, B. K. SHAFER and J. N. STRATHERN, 1988 Transposon tagging using Ty elements in yeast. Genetics 120: 95-108.
26. GONZALEZ, C. I., A. BHATTACHARYA, W. WANG and S. W. PELTZ, 2001 Nonsense-mediated mRNA decay in Saccharomyces cerevisiae. Gene 274: 15-25.
27. GUTHRIE, C., and G. R. FINK, 1991 Guide to Yeast Genetics and Molecular Biology. Academic Press, San Diego.
28. HENIKOFF, S., 2000 Heterochromatin function in complex genomes. Biochim. Biophys. Acta 1470: 1-8.
29. HERSKOWITZ, I., 1987 Functional inactivation of genes by dominant negative mutations. Nature 329: 219-222.
30. INNIS, M. A., D. H. GELFAND, J. J. SNINSKY and T.J. WHITE, 1990 PCR Protocols. Academic Press, San Diego.
31. JENSEN, S., M. P. GASSAMA and T. HEIDMANN, 1999 Taming of transposable elements by homology-dependent gene silencing. Nat. Genet. 21: 209-212.
32. JENSEN, S., M.-P. GASSAMA, X. DRAMARD and T. HEIDMANN, 2002 Regulation of I-transposon activity in Drosophila: evidence for cosuppression of nonhomologous transgenes and possible role of ancestral I-related pericentromeric elements. Genetics 162: 1197-1209.
33. JI, H., D. P. MOORE, M. A. BLOMBERG, L. T. BRAITERMAN, D. F. VOYTAS et al., 1993 Hotspots for unselected Ty1 transposition events on yeast chromosome III are near tRNA genes and LTR sequences. Cell 73: 1007-1018.
34. JIANG, Y. W., 2002 Transcriptional cosuppression of yeast Ty1 retrotransposons. Genes Dev. 16: 467-478.
35. JORDAN, I. K., and J. F. MCDONALD, 1999 Comparative genomics and evolutionary dynamics of Saccharomyces cerevisiae Ty elements. Genetica 107: 3-13.
36. JORGENSEN, R. A., 1995 Cosuppression, flower color patterns, and metastable gene expression states. Science 268: 686-691.
37. KE, N., and D. F. VOYTAS, 1997 High frequency cDNA recombination of the Saccharomyces retrotransposon Ty5: the LTR mediates formation of tandem elements. Genetics 147: 545-556.
38. KIM, J. M., S. VANGURI, J. D. BOEKE, A. GABRIEL and D. F. VOYTAS, 1998 Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence. Genome Res. 8: 464-478.
39. KUPIEC, M., and T. D. PETES, 1988 Allelic and ectopic recombination between Ty elements in yeast. Genetics 119: 549-559.
40. KUPIEC, M., and R. STEINLAUF, 1997 Damage-induced ectopic recombination in the yeast Saccharomyces cerevisiae. Mutat. Res. 384: 33-44.
41. LEE, B. S., C. P. LICHTENSTEIN, B. FAIOLA, L. A. RINCKEL, W. WYSOCK et al., 1998 Posttranslational inhibition of Ty1 retrotransposition by nucleotide excision repair/transcription factor TFIIH subunits Ssl2p and Rad3p. Genetics 148: 1743-1761.
42. LEE, B.-S., L. BI, D. J. GARFINKEL and A. M. BAILIS, 2000 Nucleotide excision repair/TFIIH helicases Rad3 and Ssl2 inhibit short-sequence recombination and Ty1 retrotransposition by similar mechanisms. Mol. Cell. Biol. 20: 2436-2445.
43. LERAT, E., P. CAPY and C. BIEMONT, 2002 Codon usage by transposable elements and their host genes in five species. J. Mol. Evol. 54: 625-637.
44. MERKULOV, G. V., K. M. SWIDEREK, C. B. BRACHMANN and J. D. BOEKE, 1996 A critical proteolytic cleavage site near the C terminus of the yeast retrotransposon Ty1 Gag protein. J. Virol. 70: 5548-5556.
45. MOORE, J. K., and J. E. HABER, 1996 Capture of retrotransposon DNA at the sites of chromosomal double-strand breaks. Nature 383: 644-646.
46. NEUVEGLISE, C., H. FELDMANN, E. BON, C. GAILLARDIN and S. CASAREGOLA, 2002 Genomic evolution of the long terminal repeat retrotransposons in hemiascomycetous yeasts. Genome Res. 12: 930-943.
47. NEVO-CASPI, Y., and M. KUPIEC, 1994 Transcriptional induction of Ty recombination in yeast. Proc. Natl. Acad. Sci. USA 91: 12711-12715.
48. PAQUIN, C. E., and V. M. WILLIAMSON, 1986 Ty insertions at two loci account for most of the spontaneous antimycin A resistance mutations during growth at 15° C of Saccharomyces cerevisiae strains lacking ADH1. Mol. Cell. Biol. 6: 70-79.
49. PARKET, A., and M. KUPIEC, 1992 Ectopic recombination between Ty elements in Saccharomyces cerevisiae is not induced by DNA damage. Mol. Cell. Biol. 12: 4441-4448.
50. PETES, T. D., and D. BOTSTEIN, 1977 Simple Mendelian inheritance of the reiterated ribosomal DNA of yeast. Proc. Natl. Acad. Sci. USA 74: 5091-5095.
51. RATTRAY, A. J., B. K. SHAFER and D. J. GARFINKEL, 2000 The Saccharomyces cerevisiae DNA recombination and repair functions of the RAD52 epistasis group inhibit Ty1 transposition. Genetics 154: 543-556.
52. SAMBROOK, J. E., E. FRITSCH and T. MANIATIS, 1989 Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
53. SANDMEYER, S. B., M. AYE and T. MENEES, 2002 Ty3, a position specific, gypsy-like element in Saccharomyces cerevisiae, pp. 663-683 in Mobile DNA II, edited by N. L. CRAIG, R. CRAIGIE, M. GELLERT and A. M. LAMBOWITZ. ASM Press, Washington, DC.
54. SCHMITT, M. E., T. A. BROWN and B. L. TRUMPHOWER, 1990 A rapid and simple method for preparation of RNA from Saccharomyces cerevisiae. Nucleic Acids Res. 18: 3091-3092.
55. SCHOLES, D. T., M. BANERJEE, B. BOWEN and M. J. CURCIO, 2001 Multiple regulators of Ty1 transposition in Saccharomyces cerevisiae have conserved roles in genome maintenance. Genetics 159: 1449-1465.
56. SHARON, G., T. J. BURKETT and D. J. GARFINKEL, 1994 Efficient homologous recombination of Ty1 element cDNA when integration is blocked. Mol. Cell. Biol. 14: 6540-6551.
57. SHERMAN, F., G. R. FINK and J. B. HICKS, 1986 Methods in Yeast Genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
58. SIKORSKI, R. S., and P. HIETER, 1989 A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122: 19-27.
59. SMITH, J. S., and J. D. BOEKE, 1997 An unusual form of transcriptional silencing in yeast ribosomal DNA. Genes Dev. 11: 241-254.
60. SUNDARARAJAN, A., B.-S. LEE and D.J. GARFINKEL, 2003 The Rad27 (Fen-1) nuclease inhibits Ty1 mobility in Saccharomyces cerevisiae. Genetics 163: 55-67.
61. TENG, S. C., B. KIM and A. GABRIEL, 1996 Retrotransposon reverse-transcriptase-mediated repair of chromosomal breaks. Nature 383: 641-644.
62. TIJSTERMAN, M., R. F. KETTING and R. H. A. PLASTERK, 2002 The genetics of RNA silencing. Annu. Rev. Genet. 36: 489-519.
63. TOYN, J. H., P. L. GUNYUZLU, W. H. WHITE, L. A. THOMPSON and G. F. HOLLIS, 2000 A counterselection for the tryptoplian pathway in yeast: 5-fluoroanthranilic acid resistance. Yeast 16: 553-560.
64. VOYTAS, D. F., and J. D. BOEKE, 2002 Ty1 and Ty5 of Saccharomyces cerevisiae, pp. 631-662 in Mobile DNA II, edited by N. L. CRAIG, R. CRAIGIE, M. GELLERT and A. M. LAMBOWITZ, ASM Press, Washington, DC.
65. WHITELAW, E., and D. I. K. MARTIN, 2001 Retrotransposons as epigenetic mediators of phenotypic variation in mammals. Nat. Genet. 27: 361-365.
66. WILKE, C. M., and J. ADAMS, 1992 Fitness effects of Ty transposition in Saccharomyces cerevisiae. Genetics 131: 31-42.
67. WILKE, C. M., E. MAIMER and J. ADAMS, 1992 The population biology and evolutionary significance of Ty elements in Saccharomyces cerevisiae. Genetica 86: 155-173.
68. WINSTON, F., K. J. DURBIN and G. R. FINK, 1984 The SPT3 gene is required for normal transcription of Ty elements in S. cerevisiae. Cell 39: 675-682.
69. YOUNGREN, S. D., J. D. BOEKF, N. J. SANDERS and D. J. GARFINKEL, 1988 Functional organization of the retrotransposon Ty from Saccharomyces cerevisiae: Ty protease is required for transposition. Mol. Cell. Biol. 8: 1421-1431.