A novel yeast gene, THO2, is involved in RNA pol II transcription and provides new evidence for transcriptional elongation-associated recombination

EMBO Journal

Volumn 17, Issue 16, 1998, Pages 4859-4872

  Piruat, José I ^a   Aguilera, Andres ^a  

^a UNIVERSITY OF SEVILLE   (Spain)

Author keywords

DNA repeats; Genetic instability; THO1 and THO2; Transcription elongation; Transcription induced recombination

Indexed keywords

REPETITIVE DNA; RNA POLYMERASE II;

ARTICLE; CONTROLLED STUDY; DNA SEQUENCE; FUNGAL GENETICS; GENE MUTATION; GENETIC RECOMBINATION; GENETIC TRANSCRIPTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PLASMID; PRIORITY JOURNAL; YEAST;

BASE SEQUENCE; DNA PRIMERS; FUNGAL PROTEINS; LAC OPERON; PROMOTER REGIONS (GENETICS); RECOMBINANT FUSION PROTEINS; RECOMBINATION, GENETIC; RNA POLYMERASE II; TRANSCRIPTION, GENETIC;

EID: 0010173139     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/17.16.4859     Document Type: Article

References (68)

1. Aguilera,A. and Klein,H.L. (1990) HPR1 a novel yeast gene that prevents intrachromosomal excision recombination, shows carboxyterminal homology to the Saccharomvces cerevisiae TOP1 gene. Mol. Cell Biol., 10, 1439-1451.
2. Baudat,F. and Nicolas,A. (1997) Clustering of meiotic double-strand breaks on yeast chromosome III. Proc. Natl Acad. Sci. USA, 94, 5213-5218.
3. Bentley,D.L. (1995) Regulation of transcriptional elongation by RNA polymerase II. Curr. Opin. Genet. Dev., 5, 210-216.
4. Bhatia,P.K., Wang,Z. and Friedberg,E.C. (1996) DNA repair and transcription. Curr. Opin. Genet. Dev., 6, 146-150.
5. Blackwell,T.K., Moore,M.W., Yancopoulos,G.D., Suh,H., Lutzker,S., Selsing,E. and Alt,F.W. (1986) Recombination between immunoglobulin variable region gene segments is enhanced by transcription. Nature, 324, 585-589.
6. Bratty,J., Ferbeyre,G., Molinaro,C. and Cedergren,R. (1996) Stimulation of mitotic recombination upon transcription from the yeast GAL1 promoter but not from other RNA polymerase I, II and III promoters. Curr. Genet., 30, 381-388.
7. Brown,S.A. and Kingston,R.E. (1997) Disruption of downstream chromatin directed by a transcriptional activator. Genes Dev., 11, 3116-3121.
8. Brown,S.A., Imbalzano,A.N. and Kingston,R.E. (1996) Activator-dependent regulation of transcriptional pausing on nucleosomal templates. Genes Dev., 10, 1479-1490.
9. Chávez,S. and Aguilera,A. (1997) The yeast HPR1 gene has a functional role in transcriptional elongation that uncovers a novel source of genome instability. Genes Dev., 11, 3459-3470.
10. Christman,M.F., Dietrich,F.S. and Fink,G.R. (1988) Mitotic recombination in the rDNA of S. cerevisiae is suppressed by the combined action of DNA topoisomerases I and II. Cell, 55, 413-425.
11. Datta,A. and Jinks-Robertson,S. (1995) Association of increased spontaneous mutation rates with high levels of transcription in yeast. Science, 268, 1616-1618.
12. Deshpande,A.M. and Newlon,C.S. (1996) DNA replication fork pause sites dependent on transcription. Science, 212, 1030-1033.
13. Dröge,P. (1993) Transcription-driven site-specific DNA recombination in vitro. Proc. Natl Acad. Sci. USA, 90, 2759-2763.
14. Dul,J.L. and Drexler,H. (1988) Transcription stimulates recombination. I. Specialized transduction of Escherichia coli λtrp phages. Virology, 162, 466-470.
15. Eick,D., Wedel,A. and Heumann,H. (1994) From initiation to elongation: comparison of transcription by prokaryotic and eukaryotic RNA polymerases. Trends Genet., 10, 292-296.
16. Elion,E.A. and Warner,J.R. (1986) An RNA polymerase I enhancer in Saccharomyces cerevisiae. Mol. Cell. Biol., 6, 2089-2097.
17. Feinberg,A.P. and Volgelstein,B. (1984) A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal. Biochem., 137, 266-267.
18. Friedberg,E.C. (1996) Relationships between DNA repair and transcription. Annu. Rev. Biochem., 65, 15-42.
19. Gottlieb,S. and Esposito,R.E. (1989) A new role for a yeast transcriptional silencer gene, SIR2, in regulation of recombination in ribosomal DNA. Cell, 56, 771-776.
20. Goyenechea,B., Klix,N., Yelamos,J., Williams,G.T., Ridell,A., Neuberger,M.S. and Milstein,C. (1997) Cells strongly expressing Igκ transgenes show clonal recruitment of hypermutation: a role for both MAR and the enhancers. EMBO J., 16, 3987-3994.
21. Grimm,C., Schaer,P., Munz,P. and Kohli,J. (1991) The strong ADH1 promoter stimulates mitotic and meiotic recombination at the ADE6 gene of Schizosaccharomyces pombe. Mol. Cell. Biol., 11, 289-298.
22. Guarente,L., Rocum,R.R. and Gifford,P. (1982) A GAL10-CYC1 hybrid yeast promoter identifies the GAL4 regulatory region as an upstream site. Proc. Natl Acad. Sci. USA, 79, 7410-7414.
23. Haguenauer-Tsapis,R. and Hinnen,A. (1984) A deletion that includes the signal peptidase cleavage sites impairs processing, glycosilation and secretion of cell surface yeast acid phosphatase. Mol. Cell. Biol., 4, 2668-2675.
24. Hartzog,G.A., Wada,T., Handa,H. and Winston,F. (1998) Evidence that Spt4, Spt5 and Spt6 control transcription elongation by RNA polymerase II in Saccharomyces cerevisiae. Genes Dev., 12, 357-369.
25. Hill,J.E., Myers,A.M., Koerner,T.J. and Tzagaloff,A. (1986) Yeast/E.coli shuttle vectors with multiple unique restriction sites. Yeast, 2, 163-167.
26. Hoeijmakers,J.H.J., Egly,J.-M. and Vermeulen,W. (1996) TFIIH: a key component in multiple DNA transactions. Curr. Opin. Genet. Dev., 6, 26-33.
27. Kaiser,C., Michaelis,M. and Mitchell,A. (1994) Methods in Yeast Genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
28. Kane,C.M. (1994) Transcript elongation and gene regulation in eukaryotes. In Conaway,R.C. and Conaway,J.W. (eds). Transcription: Mechanisms and Regulation. Raven Press, New York, NY, pp. 279-296.
29. Koleske,A.J., Buratowski,S., Nonet,M. and Young,R.A. (1992) A novel transcription factor reveals a functional link betwen the RNA polymerase II CTD and TFIID. Cell, 69, 883-894.
30. Koleske,A.J. and Young,R.A. (1994) An RNA polymerase II holoenzyme responsive to activators. Nature, 368, 466-469.
31. Kotani,H. and Kmiec,E.B. (1994) Transcription activates RecA-promoted homologous pairing of nucleosomal DNA. Mol. Cell. Biol., 14, 1949-1955.
32. Lauster,R., Reynaud,C.-A., Martenson,I.-L., Peter,A., Bucchini.D., Jami,J. and Weill,J.-C.. (1993) Promoter, enhancer and silencer elements regulate rearrangement of an immuglobulin transgene. EMBO J., 12, 4615-4623.
33. Malagón,F. and Aguilera,A. (1996) Differential intrachromosomal hyper-recombination phenotype of spt4 and spt6 mutants of S.cerevisiae. Curr. Genet., 30, 101-106.
34. Maldonado,E. et al. (1996) A human RNA polymerase II complex associated with SRB and DNA-repair proteins. Nature, 381, 86-89.
35. Mallet,L., Bussereau,F. and Jacquet,M. (1995) A 43.5 segment of yeast chromosome XIV, which contains MFA2, MEP2, CAP/SRV2, NAM9, FKB1/FPR1/RPB1, MOM22 and CPT1, predicts an adenosine deaminase gene and 14 new open reading frames. Yeast, 11, 1195-1209.
36. McCormack,W.T. and Thompson,C.B. (1990) Chicken IgL variable region gene conversions display pseudogene donor preference and 5′ to 3′ polarity. Genes Dev., 4, 548-558.
37. Michel,B., Ehrlich,S.D. and Uzest,M. (1997) DNA double-strand breaks caused by replication arrest. EMBO J., 16, 430-438.
38. Mumberg,D., Müller.R. and Funk,M. (1994) Regulatable promoters of Saccharomyces cerevisiae: comparison of transcriptional activity and their use for heterologous expression. Nucleic Acids Res., 22, 5767-5768.
39. Myers,L.C., Gustafsson,C.M., Bushnell,A.D., Lui,M., Erdjument-Bromage,H., Tempst,P. and Kornberg,R.D. (1988) The Med proteins of yeast and their function through the RNA polymerase II carboxiterminal domain. Genes Dev., 12, 45-54.
40. Nevo-Caspi,Y. and Kupiec,M. (1994) Transcriptional induction of Ty recombination in yeast. Proc. Natl Acad. Sci. USA, 88, 12711-12715.
41. Nickoloff,J.A. (1992) Transcription enhances intrachromosomal homologous recombination in mammalian cells. Mol. Cell. Biol., 12, 5311-5318.
42. Orphanides,G., LeRoy,G., Chang,C.-H. and Reinberg,D. (1998) FACT, a factor that facilitates transcript elongation through nucleosomes. Cell 92, 105-116.
43. Osborne,B.I. and Guarente,L. (1989) Mutational analysis of a yeast transcriptional terminator. Proc. Natl Acad. Sci. USA, 86, 4097-4101.
44. Piruat,J.I. and Aguilera,A. (1996) Mutations in the yeast SRB2 general transcription factor suppress hpr1-induced recombination and show defects in DNA repair. Genetics, 143, 1533-1542.
45. Piruat,J.I., Chávez,S. and Aguilera,A. (1997) The yeast HRS1 gene is involved in positive and negative regulation of transcription and shows genetic characteristics similar to SIN4 and GAL11. Genetics, 147, 1585-1594.
46. Prado,F. and Aguilera,A. (1995) Role of reciprocal exchange, one-ended invasion crossover and single-strand annealing on inverted and direct repeat recombination in yeast: different requirements for the RAD1, RAD10 and RAD52 genes. Genetics, 139, 109-123.
47. Prado,F., Piruat,J.I. and Aguilera,A. (1997) Recombination between DNA repeats in yeast hpr1Δ cells is linked to transcription elongation EMBO J., 16, 2826-2835.
48. Santos-Rosa,H. and Aguilera,A. (1995) Isolation and genetic analysis of extragenic suppressors of the hyper-deletion phenotype of the Saccharomyces cerevisiae hpr1Δ mutation. Genetics, 139, 57-66.
49. Santos-Rosa,H., Clever,B., Heyer,W.-D. and Aguilera,A. (1996) The yeast HRS1 gene encodes a polyglutamine-rich nuclear protein required for spontaneous and hpr1-induced deletions between direct repeats, Genetics, 142, 705-716.
50. Schiestl,R.S. and Gietz,R.D. (1989) High efficiency transformation of intact yeast cells using single stranded nucleic acids as a carrier. Curr, Genet., 16, 339-346.
51. Selby,C.P. and Sancar,A. (1997) Cockayne syndrome group B protein enhances elongation by RNA polymerase II. Proc. Natl Acad. Sci. USA, 94, 11205-11209.
52. Shenkar,R., Shen,M.H. and Arnheim,N. (1991) DNase I-hypersensitive sites and transcription factor-binding motifs within the mouse E beta meiotic recombination hot spot. Mol. Cell. Biol., 11, 1813-1819.
53. Sikorski,R.S. and Hieter,P. (1989) A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics, 122, 19-27.
54. Stewart,S.E. and Roeder,G.S. (1989) Transcription by RNA polymerase I stimulates mitotic recombination in Saccharomyces cerevisiae. Mol. Cell. Biol., 9, 3464-3472.
55. Tantin,D., Kansal,A. and Carey,M. (1997) Recruitment of the putative transcription-repair coupling factor CSB/ERCC6 to RNA polymerase II elongation complexes. Mol. Cell. Biol., 17, 6803-6814.
56. Thomas,B.J. and Rothstein,R. (1989) Elevated recombination rates in transcriptionally active DNA. Cell, 56, 619-630.
57. Thyagarajan,B., Johnson,B.L. and Campbel,C. (1995) The effect of target site transcription on gene targeting in human cells in vitro. Nucleic Acids Res., 23, 2784-2790.
58. Uptain,S.M., Kane,C.M. and Chamberlin,M.J. (1997). Basic mechanisms of transcript elongation and its regulation. Annu. Rev. Biochem., 66, 117-172.
59. van Gool, A.J., Citterio,E., Rademakers,S., van Os,R., Vermeulen,W., Constantinou,A., Egly,J.-M., Bootsma,D. and Hoeijmakers,J.H.J. (1997a) The Cockayne syndrome B protein, involved in transcription-coupled DNA repair, resides in an RNA polymerase II-containing complex. EMBO J., 16, 5955-5965.
60. van Gool,A.J., van der Horst,G.T.J., Citterio,E. and Hoeijmakers,J.H.J. (1997b) Cockayne syndrome: defective repair of transcription? EMBO J., 16, 4155-4162.
61. Vilette,D., Uzest,M., Ehrlich,S.D. and Michel,B. (1992) DNA transcription and represser binding affect deletion formation in Escherichia coli plasmids. EMBO J., 11, 3629-3634.
62. Voelkel-Meiman,K., Keil,R.L. and Roeder,G.S. (1987) Recombination-stimulating sequences in yeast ribosomal DNA correspond to sequences regulating transcription by RNA polymerase I. Cell, 48, 1071-1079.
63. Wach,A., Brachat,A., Pöhlmann,R. and Philippsen,R (1994) New heterologous modules for classical or PCR-based gene disruptions in Saccharomyces cerevisiae. Yeast, 10, 1793-1808.
64. Wada,T. et al. (1998) DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. Genes Dev., 12, 343-356.
65. Waldherr,M., Ragnini,A., Jank,B., Teply,R., Wiesenbergern,G. and Schweyen,R.J. (1993) A multitude of suppressors of group II intronsplicing defects in yeasts. Curr. Genet., 24, 301-306.
66. Wallis,J.W., Chrebet,G., Brodsky,G., Rolf,M. and Rothstein,R. (1989) A hyper-recombination mutation in S. cerevisiae identifies a novel eukaryotic topoisomerase. Cell, 58, 409-419.
67. White,M.A., Wierdl,M., Detloff,P. and Petes,T.D. (1991) DNA-binding protein RAP1 stimulates meiotic recombination at the HIS4 locus in yeast. Proc. Natl Acad. Sci. USA, 88, 9755-9759.
68. Yankulov,K., Blau,J., Purton,T., Roberts,S. and Bentley,D.L. (1994) Transcriptional elongation by RNA polymerase II is stimulated by transactivators. Cell, 77, 749-759.