Dob1p (Mtr4p] is a putative ATP-dependent RNA helicase required for the 3' end formation of 5.8S rRNA in Saccharomyces cerevisiae

EMBO Journal

Volumn 17, Issue 4, 1998, Pages 1128-1140

  De la Cruz, Jesús ^a   Kressler, Dieter ^a   Tollervey, David ^b   Linder, Patrick ^a  

^a UNIVERSITY OF GENEVA   (Switzerland)

^b UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

Mtr4p; RNA helicase; rRNA processing; Rrp4p; Saccharaomyces cerevisiae

Indexed keywords

EXONUCLEASE; INITIATION FACTOR; RIBOSOME RNA; RNA 5.8S; RNA HELICASE;

ARTICLE; CONTROLLED STUDY; NONHUMAN; NORTHERN BLOTTING; PHENOTYPE; POLYSOME; PRIORITY JOURNAL; RNA PROCESSING; RNA STRUCTURE; RNA SYNTHESIS; SACCHAROMYCES CEREVISIAE; TEMPERATURE SENSITIVE MUTANT;

SACCHAROMYCES CEREVISIAE;

EID: 0032481316     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/17.4.1128     Document Type: Article

References (60)

1. Abou Elela, S., Igel, H. and Ares, M., Jr (1996) RNase III cleaves eukaryotic preribosomal RNA at a U3 snoRNP-dependent site. Cell, 85, 115-124.
2. Altmann, M., Müller, P.P., Wittmer, B., Ruchti, F., Lanker, S. and Trachsel, H. (1993) A Saccharomyces cerevisiae homologue of mammalian translation initiation factor 4B contributes to RNA helicase activity. EMBO J., 12, 3997-4003.
3. Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A. and Struhl, K. (1994) Saccharomyces cerevisiae. In Current Protocols in Molecular Biology. John Wiley & Sons, Inc., pp. 13.0.1-13.14.17.
4. Banroques, J., Delahodde, A. and Jacq, C. (1986) A mitochondrial RNA maturase gene transferred to the yeast nucleus can control mitochondrial mRNA splicing. Cell, 46, 837-844.
5. Bergès, T., Petfalski, E., Tollervey, D. and Hurt, E.C. (1994) Synthetic lethality with fibrillarin identifies NOP77p, a nucleolar protein required for pre-rRNA processing and modification. EMBO J., 13, 3136-3148.
6. Bonneaud, N., Ozier-Kalogeropoulos, O., Li, G., Labouesse, M., Minvielle- Sebastia, L. and Lacroute, F. (1991) A family of low and high copy replicative, integrative and single-stranded S.cerevisiae/E.coli shuttle vectors. Yeast, 7, 609-615.
7. Brandhorst, B.P. and McConkey, E.H. (1974) Stability of nuclear RNA in mammalian cells. J. Mol. Biol., 85, 451-463.
8. Church, G.M. and Gilbert, W. (1984) Genomic sequencing. Proc. Natl Acad. Sci. USA, 81, 1991-1995.
9. Coppolecchia, R., Buser, P., Stotz, A. and Linder, P. (1993) A new yeast translation initiation factor suppresses a mutation in the eIF-4A RNA helicase. EMBO J., 12, 4005-4011.
10. Oangel, A.W., Shen, L., Mendoza, A.R., Wu, L.-C. and Yu, C.Y. (1995) Human helicase gene SKI2W in the HLA class III region exhibits striking structural similarities to the yeast antiviral gene SKI2 and to the human gene KIAA0052: emergence of a new gene family. Nucleic Acids Res., 23, 2120-2126.
11. de la Cruz, J., Iost, I., Kressler, D. and Linder, P. (1997) The p20 and Ded1 proteins have antagonistic roles in eIF4E-dependent translation in Saccharomyces cerevisiae. Proc. Natl Acad. Sci. USA, 94, 5201-5206.
12. Deshmukh, M., Tsay, Y.-F., Paulovich, A.G. and Woolford, J.L., Jr (1993) Yeast ribosomal protein L1 is required for the stability of newly synthesized 5S rRNA and the assembly of 60S ribosomal subunits. Mol. Cell. Biol., 13, 2835-2845.
13. Dmochowska, A., Golik, P. and Stepien, P.P. (1995) The novel nuclear DSS1 of Saccharomyces cerevisiae is necessary for mitochondrial biogenesis. Curr. Genet., 28, 108-112.
14. Eichler, D.C. and Craig, N. (1994) Processing of eukaryotic ribosomal RNA. Prog. Nucleic Acid Res. Mol. Biol., 49, 197-239.
15. Foiani, M., Cigan, A.M., Paddon, C.J., Harashima, S. and Hinnebusch, A.G. (1991) GCD2, a traoslational repressor of the GCN4 gene, has a general function in the initiation of protein synthesis in Saccharomyces cerevisiae. Mol. Cell. Biol., 11, 3203-3216.
16. Gietz, D., St. Jean, A., Woods, R.A. and Schiestl, R.H. (1992) Improved method for high efficiency transformation of intact yeast cells. Nucleic Acids Res., 20, 1425.
17. Gietz, R.D. and Sugino, A. (1988) New yeast-Escherichia coli shuttle vectors constructed with in vitro mutagenized yeast genes lacking six- base pair restriction sites. Gene, 74, 527-534.
18. Henry, Y., Wood, H., Morrissey, J.P., Petfalski, E., Kearsey, S. and Tollervey, D. (1994) The 5′ end of yeast 5.8S rRNA is generated by exonucleases from an upstream cleavage site. EMBO J., 13, 2452-2463.
19. Ho, S.N., Hunt, H.D., Horton, R.M., Pullen, J.K. and Pease, L.R. (1989) Site-directed mutagenesis by overlap extension using the polymerase chain reaction. Gene, 77, 51-59.
20. Hong, B., Brockenbrough, J.S., Wu, P. and Aris, J.P. (1997) Nop2p is required for pre-rRNA processing and 60S ribosome subunit synthesis in yeast. Mol. Cell. Biol., 17, 378-388.
21. Iost, I. and Dreyfus, M. (1995) The stability of Escherichia coli lacZ mRNA depends upon the simultaneity of its synthesis and translation. EMBO J., 14, 3252-3261.
22. Kadowaki, T., Chen, S., Hitomi, M., Jacobs, E., Kumagai, C., Liang, S., Schneiter, R., Wisniewska, J. and Tartakoff, A.M. (1994) Isolation and characterization of Saccharomyces cerevisiae mRNA transport- defective (mtr) mutants. J. Cell Biol., 126, 649-659.
23. Kaiser, C., Michaelis, S. and Mitchell, A. (1994) Methods in Yeast Genetics: A Laboratory Course Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
24. Kang, H.A. and Hershey, J.W. (1994) Effect of initiation factor eIF-5A depletion on protein synthesis and proliferation of Saccharomyces cerevisiae. J. Biol. Chem., 269, 3934-3940.
25. Kressler, D., de la Cruz, J., Rojo, M. and Linder, P. (1997) Fallp is an essential DEAD-box protein involved in 40S-ribosomal-subunit biogenesis in Saccharomyces cerevisiae. Mol. Cell Biol., 17, 7283-7294.
26. Lafontaine, D. and Tollervey, D. (1995) Trans-acting factors in yeast pre-rRNA and pre-snoRNA processing. Biochem. Cell Biol., 73, 803-812.
27. Liang, S., Hitomi, M., Hu, Y-H., Liu, Y. and Tartakoff, A.M. (1996) A DEAD-box-family protein is required for nucleocytoplasmic transport of yeast mRNA. Mol Cell. Biol., 16, 5139-5146.
28. Liang, W.-Q., Clark, J.A. and Fournier, M.J. (1997) The rRNA-processing function of the yeast U14 small nucleolar RNA can be rescued by a conserved RNA helicase-like protein. Mol. Cell. Biol., 17, 4124-4132.
29. Margossian, S.P., Li, H., Zassenhaus, H.P. and Butow, R.A. (1996) The DExH box protein Suv3p is a component of a yeast mitochondrial 3′-to-5′ exoribonudease that suppresses group I intron toxicity. Cell, 84, 199-209.
30. Mélèse, T. and Xue, Z. (1995) The nucleolus: an organelle formed by the act of building a ribosome. Curr. Opin. Cell Biol., 7, 319-324.
31. Méthot, N., Song, M.S. and Sonenberg, N. (1996) A region rich in aspartic acid, arginine, tyrosine, and glycine (DRYG) mediates eukaryotic initiation factor 4B (eIF4B) self-association and interaction with eIF3. Mol Cell. Biol., 16, 5328-5334.
32. Mian, I.S. (1997) Comparative sequence analysis of ribonucleases HII, III, II, PH and D. Nucleic Acids Res., 25, 3187-3195.
33. Mitchell, P., Petfalski, E. and Tollervey, D. (1996) The 3′ end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism. Genes Dev., 10, 502-513.
34. Mitchell, P., Petfalski, E., Shevchenko, A., Mann, M. and Tollervey, D. (1997) The exosome: a conserved eukaryotic RNA processing complex containing multiple 3′→5′ exoribonudease activities. Cell, 91, 457-466.
35. Moritz, M., Pulaski, B.A. and Woolford, J.L., Jr (1991) Assembly of 60S ribosomal subunits is perturbed in temperature-sensitive yeast mutants defective in ribosomal protein L16. Mol. Cell. Biol. 11, 5681-5692.
36. O'Day, C.L., Chavanikamannil, F. and Abelson, J. (1996) 18S rRNA processing requires the RNA helicase-like protein Rrp3. Nucleic Acids Res., 24, 3201-3207.
37. Pringle, J.R., Adams, A.E.M., Drubin, D.G. and Haarer, B.K. (1991) Immunofluorescence methods for yeast. Methods Enzymol. 194, 565-602.
38. Py, B., Higgins, C.F., Krisch, H.M. and Carpousis, A.J. (1996) A DEAD- box RNA helicase in the Escherichia coli RNA degradosome. Nature, 381, 169-172.
39. Ripmaster, T.L., Vaughn, G.P and Woolford, J.L., Jr (1992) A putative ATP-dependent RNA helicase involved in Saccharomyces cerevisiae ribosome assembly. Proc. Natl Acad. Sci. USA, 89, 11131-11135.
40. Sachs, A.B. and Davis, R.W. (1990) Translation initiation and ribosomal biogenesis: involvement of a putative rRNA helicase and RPL46. Science, 247, 1077-1079.
41. Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
42. Schmidt, A., Bickle, M., Beck, T. and Hall, M.N. (1997) The yeast phosphatidylinositol kinase homolog TOR2 activates RHO1 and RHO2 via the exchange factor ROM2. Cell, 88, 531-542.
43. Stevens, A., Hsu, C.L., Isham, K.R. and Larimer, F.W. (1991) Fragments of the internal transcribed spacer 1 of pre-rRNA accumulate in Saccharomyces cerevisiae lacking 5′→3′ exoribonuclease 1. J. Bacteriol., 173, 7024-7028.
44. Stotz, A. and Linder, P. (1990) The ADE2 gene from Saccharomyces cerevisiae: sequence and new vectors. Gene, 95, 91-98.
45. Sun, C. and Woolford, J.L.Jr (1994) The yeast NOP4 gene product is an essential nucleolar protein required for pre-rRNA processing and accumulation of 60S ribosomal subunits. EMBO J., 13, 3127-3135.
46. Tollervey, D. and Kiss, T. (1997) Function and synthesis of small nucleolar RNAs. Curr. Opin. Cell Biol., 9, 337-342.
47. Tollervey, D., Lehtonen, H., Jansen, R., Kern, H. and Hurt, E.C. (1993) Temperature-sensitive mutations demonstrate roles for yeast fibrillarin in pre-rRNA processing. pre-rRNA methylation, and ribosome assembly. Cell, 72, 443-457.
48. van Nues, R.W., Venema, J., Rientjes, J.M.J., Dirks-Mulder, A. and Raue, H.A. (1995) Processing of eukaryotic pre-rRNA: the role of the transcribed spacers. Biochem. Cell Biol., 73, 789-801.
49. Venema, J. and Tollervey, D. (1995) Processing of pre-ribosomal RNA in Saccharomyces cerevisiae. Yeast, 11, 1629-1650.
50. Venema, J., Bousquet-Antonelli, C., Gelugne, J.-P., Caizergues-Ferrer, M. and Tollervey, D. (1997a) Roklp is a putative RNA helicase required for rRNA processing. Mol. Cell. Biol., 17, 3398-3407.
51. Venema, J., Planta, R.J. and Raué, H.A. (1997b) In vivo mutational analysis of ribosomal RNA in Saccharomyces cerevisiae. In Martin, R. (ed.), Protein Synthesis: Methods and Protocols. Humana Press, Totowa, NJ, in press.
52. Vilardell, J. and Warner, J.R. (1997) Ribosomal protein L32 of Saccharomyces cerevisiae influences both the splicing of its own transcript and the processing of rRNA. Mol. Cell. Biol., 17, 1959-1965.
53. Wach, A., Brachat, A., Alberti-Segui, C., Rebischung, C. and Philippsen, P. (1997) Heterologous HIS3 marker and GFP reporter modules for PCR-targeting in Saccharomyces cerevisiae. Yeast, 13, 1065-1075.
54. Ward, A. (1990) Single-step purification of shuttle vectors from yeast for high frequency back-transformation into E.coli. Nucleic Acids Res., 18, 5319.
55. 3. Mol. Cell. Biol., 17, 1354-1365.
56. Widner, W.R. and Wickner, R.B. (1993) Evidence that the SKI antiviral system of Saccharomyces cerevisiae acts by blocking expression of viral mRNA. Mol. Cell. Biol., 13, 4331-4341.
57. Woolford, J.L.Jr and Warner, J.R. (1991) The ribosome and its synthesis. In Broach, J.R., Pringle, J.R. and Jones, E.W. (eds), The Molecular and Cellular Biology of the Yeast Saccharomyces. Genome Dynamics, Protein Synthesis and Energetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 587-626.
58. Yeh, L.-C.C. and Lee, J.C. (1990) Structural analysis of the internal transcribed spacer 2 of the precursor ribosomal RNA from Saccharomyces cerevisiae. J. Mol. Biol., 211, 699-712.
59. Yeh, L.-C.C. and Lee, J.C. (1992) Structure analysis of the 5′ external transcribed spacer of the precursor ribosomal RNA from Saccharomyces cerevisiae. J. Mol. Biol., 228, 827-839.
60. Zanchin, N.I.T., Roberts, P., DeSilva, A., Sherman, F. and Goldfarb, D.S. (1997) Sacchoromyces cerevisiae Nip7p is required for efficient 60S ribosome subunit biogenesis. Mol. Cell. Biol., 17, 5001-5015.