Small nucleolar RNAs direct site-specific synthesis of pseudouridine in ribosomal RNA

Cell

Volumn 89, Issue 4, 1997, Pages 565-573

  Ni, Jingwei ^a   Tien, Amy L ^a   Fournier, Maurille J ^a  

^a UNIVERSITY OF MASSACHUSETTS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PSEUDOURIDINE; RIBOSOME RNA;

ARTICLE; METHYLATION; PRIORITY JOURNAL; PROTEIN FOLDING; RNA STRUCTURE; RNA SYNTHESIS; STRUCTURE ANALYSIS;

EID: 0030771087     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0092-8674(00)80238-X     Document Type: Article

References (44)

1. Bachellerie, J.-P., Michot, B., Nicoloso, M., Balakin, A., Ni, J., and Fournier, M.J. (1995). Antisense snoRNAs: a family of nucleolar RNAs with long complementarities to rRNA. Trends Biochem. Sci. 20, 261-264.
2. Bakin, A., and Ofengand, J. (1993). Four newly located pseudouridylate residues in Escherichia coli 23S ribosomal RNA are all at the peptidyltransferase center: analysis by the application of a new sequencing technique. Biochemistry 32, 9754-9762.
3. Bakin, A., and Ofengand, J. (1995). Mapping of the 13 pseudouridine residues in Saccharomyces cerevisiae small subunit ribosomal RNA to nucleotide resolution. Nucleic Acids Res. 23, 3290-3294.
4. Bakin, A., Lane, B.G., and Ofengand, J. (1994). Clustering of pseudouridine residues around the peptidyltransferase center of yeast cytoplasmic and mitochondrial ribosomes. Biochemistry 33, 13475-13483.
5. Balakin, A.G., Schneider, G.S., Corbett, M.S., Ni, J., and Fournier, M.J. (1993). SnR31, snR32, and snR33: three novel, non-essential snRNAs from Saccharomyces cerevisiae. Nucleic Acids Res. 21, 5391-5397.
6. Balakin, A.G., Smith, L., and Fournier, M.J. (1996). The RNA world of the nucleolus: two major families of small RNAs defined by different box elements with related functions. Cell 86, 823-834.
7. Cavaille, J., Nicoloso, M., and Bachellerie, J.-P. (1996). Targeted ribose methylation of RNA in vivo directed by tailored antisense RNA guides. Nature 383, 732-735.
8. Chen, B., and Przybyla, A.E. (1994). An efficient site-directed mutagenesis method based on PCR. Biotechniques 17, 657-659.
9. Clark, M.W., Yip, M.L.R., Campbell, J., and Abelson, J. (1990). SSB-1 of the yeast Saccharomyces cerevisiae is a nucleolar-specific, silver-binding protein that is associated with the snR10 and snR11 small nuclear RNAs. J. Cell Biol. 11, 1741-1751.
10. Enright, C.A., Maxwell, E.S., Eliceiri, G.L., and Sollner-Webb, B. (1996). 5′ETS rRNA processing facilitated by four small RNAs: U14, E3, U17, and U3. RNA 2, 1094-1099. Erratum: RNA 2, 1318.
11. Goldwasser, E., and Heinrikson, R.L. (1966). The biochemistry of pseudouridine. Prog. Nucleic Acids Res. Mol. Biol. 5, 399-416.
12. Huang, G.M., Jarmolowski, A., Struck, J.C.R., and Fournier, M.J. (1992). Accumulation of U14 small nuclear RNA in Saccharomyces cerevisiae requires box C, box D, and a 5′, 3′ terminal stem. Mol. Cell. Biol. 12, 4456-4463.
13. Kammen, H.O., Marvel, C.C., Hardy, L., and Penhoet, E.E. (1988). Purification, structure, and properties of Escherichia coli tRNA pseudouridine synthase I. J. Biol. Chem. 263, 2255-2263.
14. Kiss, T., Bortolin, M.L., and Filipowicz, W. (1996). Characterization of the intron-encoded U19 RNA, a new mammalian small nucleolar RNA that is not associated with fibrillarin. Mol. Cell. Biol. 16, 1391-1400.
15. Kiss-Laszlo, Z., Henry, Y., Bachellerie, J.-P., Caizergues-Ferrer, M., and Kiss, T. (1996). Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. Cell 85, 1077-1088.
16. Koonin, E.V. (1996). Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases. Nucleic Acids Res. 24, 2411-2415.
17. Lane, B.G., Ofengand, J., and Gray, M.W. (1992). Pseudouridine in the large-subunit (23 S-like) ribosomal RNA. The site of peptidyl transfer in the ribosome? FEBS Lett. 302, 1-4.
18. 2′ -methylated nucleosides. Significance of their selective occurrence in rRNA domains that function in ribosome-catalyzed synthesis of the peptide bonds in proteins. Biochimie 77, 7-15.
19. Lygerou, Z., Allmang, C., Tollervey, D., and Seraphin, B. (1996). Accurate processing of a eukaryotic precursor ribosomal RNA by ribonuclease MRP in vitro. Science 272, 268-270.
20. Maden, T. (1996). Click here for methylation. Nature 383, 675-676.
21. Maden, B.E.H. (1990). The numerous modified nucleotides in eukaryotic ribosomal RNA. Prog. Nucleic Acid Res. Mol. Biol. 39, 241-303.
22. Maxwell, E.S., and Fournier, M.J. (1995). The small nucleolar RNAs. Annu. Rev. Biochem. 35, 897-934.
23. Morrissey, J.P., and Tollervey, D. (1993). Yeast snR30 is a small nucleolar RNA required for 18S rRNA synthesis. Mol. Cell. Biol. 13, 2469-2477.
24. Nicoloso, M., Qu, L.-H., Michot, B., and Bachellerie, J.-P. (1996). Intron-encoded, antisense small nucleolar RNAs: the characterization of nine novel species points to their direct role as guides for the 2′-O-ribose methylation of rRNAs. J. Mol. Biol. 260, 178-195.
25. Nurse, K., Wrzesinski, J., Bakin, A., Lane, B.G., and Ofengand, J. (1995). Purification, cloning, and properties of the tRNA ψ55 synthase from Escherichia coli. RNA 1, 102-112.
26. Ofengand, J., Bakin, A., Wrzesinski, J., Nurse, K., and Lane, B.G. (1995). The pseudouridine residues of ribosomal RNA. Biochem. Cell. Biol. 73, 915-924.
27. Parker, R., Simmons, T., Shuster, E.O., Siliciano, P.G., and Guthrie, C. (1988). Genetic analysis of small nuclear RNAs in Saccharomyces cerevisiae: viable sextuple mutant. Mol. Cell. Biol. 8, 3150-3159.
28. Patton, J.R. (1994). Pseudouridine formation in small nuclear RNAs. Biochimie 76, 1129-1132.
29. Peculis, B.A., and Mount, S.M. (1996). Ribosomal RNA: small nucleolar RNAs make their mark. Curr. Biol. 6, 1413-1415.
30. Peculis, B.A., and Steitz, J.A. (1994). Sequence and structural elements critical for U8 snRNP function in Xenopus oocytes are evolutionarily conserved. Genes Dev. 8, 2241-2255.
31. Reddy, R., and Busch, H. (1988). Small nuclear RNAs: RNA sequence, structure, and modifications. In Structure and Function of Major and Minor Small Nuclear Ribonucleoprotein Particles, M.L. Birnstiel, ed. (New York: Springer-Verlag), pp. 1-37.
32. Samarsky, D.A., Balakin, A.G., and Fournier, M.J. (1995). Characterization of three new snRNAs from Saccharomyces cerevisiae: snR34, snR35 and snR36. Nucleic Acids Res. 23, 2548-2554.
33. 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.
34. Simos, G., Tekotte, H., Grosjean, H., Segref, A., Sharma, K., Tollervey, D., and Hurt, E.C. (1996). Nuclear pore proteins are involved in the biogenesis of functional tRNA. EMBO J. 15, 2270-2284.
35. Terns, M.P., Grimm, C., Lund, E., and Dahlberg, J.E. (1995). A common maturation pathway for small nucleolar RNAs. EMBO J. 14, 4860-4871.
36. Tollervey, D. (1987). A yeast small nuclear RNA is required for normal processing of pre-ribosomal RNA. EMBO J. 13, 4169-4175.
37. Tollervey, D. (1996). Small nucleolar RNAs guide ribosomal RNA methylation. Science 273, 1056-1057.
38. Tyc, K., and Steitz, J.A. (1989). U3, U8 and U13 comprise a new class of mammalian snRNPs localized in the cell nucleolus. EMBO J. 8, 3113-3119.
39. Tycowski, K.T., Shu, M.D., and Steitz, J.A. (1996a). A mammalian gene with introns instead of exons generating stable RNA products. Nature 379, 464-466.
40. Tycowski, K.T., Smith, C.M., Shu, M.D., and Steitz, J.A. (1996b). A small nucleolar RNA requirement for site-specific ribose methylation of rRNA in Xenopus. Proc. Natl. Acad. Sci. USA 93, 14480-14485.
41. Venema, J., and Tollervey, D. (1995). Processing of pre-ribosomal RNA in Saccharomyces cerevisiae. Yeast 11, 1629-1650.
42. Wise, J.A., Tollervey, D., Maloney, D., Swerdlow, H., Dunn, E.J., and Guthrie, C. (1983). Yeast contains small nuclear RNAs encoded by single copy genes. Cell 35 743-751.
43. Wrzesinski, J., Bakin, A., Nurse, K., Lane, B.G., and Ofengand, J. (1995a). Purification, cloning, and properties of the 16S RNA pseudouridine 516 synthase from Escherichia coli. Biochemistry 34, 8904-8913.
44. phe. RNA 1, 437-448.