Ribosome Biogenesis in Yeast: rRNA Processing and Quality Control

Applied Mycology and Biotechnology

Volumn 3, Issue C, 2003, Pages 161-185

  Nazar, Ross N ^a  

^a UNIVERSITY OF GUELPH   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 0346063902     PISSN: 18745334     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S1874-5334(03)80011-4     Document Type: Chapter

References (167)

1. A RAC protein-binding site in the internal transcribed spacer 2 of Pre-rRNA transcripts from. Abeyrathne P.D., Lalev A.I., and Nazar R.N. Schizosaccharomyces pombe. J Biol Chem 277 (2002) 21291-21299
2. Abou E.S., Good L., Melekhovets Y.F., and Nazar R.N. Inhibition of protein synthesis by an efficiently expressed mutation in the yeast 5.8S ribosomal RNA. Nucleic Acids Res 22 (1994) 686-693
3. Abou E.S., Good L., and Nazar R.N. An efficiently expressed 5.8S rRNA 'tag' for in vivo studies of yeast rRNA biosynthesis and function. Biochim Biophys Acta 1262 (1995) 164-167
4. Abou E.S., Igel H., and Ares M.J. RNase III cleaves eukaryotic preribosomal RNA at a U3 snoRNP- dependent site. 5. Cell (1996) 115-124
5. Abou E.S., and Ares M.J. Depletion of yeast RNase III blocks correct U2 3' end formation and results in polyadenylated but functional U2 snRNA. EMBO J 17 (1998) 3738-3746
6. Allmang C., Kufel J., Chanfreau G., Mitchell P., Petfalski E., and Tollervey D. Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18 (1999) 5399-5410
7. Amberg D.C., Goldstein A.L., and Cole C.N. Isolation and characterization of RAT1: an essential gene of Saccharomyces cerevisiae required for the efficient nucleocytoplasmic trafficking of mRNA. Genes Dev 6 (1992) 1173-1189
8. Balakin A.G., Smith L., and Fournier M.J. The RNA world of the nucleolus: two major families of small RNAs defined by different box elements with related functions. Cell 86 (1996) 823-834
9. Bachellerie J.P., Michot B., and Raynal F. Recognition signals for mouse pre-rRNA processing. A potential role for U3 nucleolar RNA. Mol Biol Rep 9 (1983) 79-86
10. Bachellerie J.P., and Cavaille J. Guiding ribose methylation of rRNA. Trends Biochem Sci 22 (1997) 257-261
11. Ban N., Nissen P., Hansen J., Moore P.B., and Steitz T.A. The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science 289 (2000) 905-920
12. Baudin-Baillieu A., Tollervey D., Cullin C., and Lacroute F. Functional analysis of Rrp7p, an essential yeast protein involved in pre-rRNA processing and ribosome assembly. Mol Cell Biol 17 (1997) 5023-5032
13. Beltrame M., and Tollervey D. Identification and functional analysis of two U3 binding sites on yeast pre-ribosomal RNA. EMBO J 11 (1992) 1531-1542
14. Beltrame M., Henry Y., and Tollervey D. Mutational analysis of an essential binding site for the U3 snoRNA in the 5' external transcribed spacer of yeast pre-rRNA. Nucleic Acids Res 22 (1994) 5139-5147
15. Beltrame M., and Tollervey D. Base pairing between U3 and the pre-ribosomal RNA is required for 18S rRNA synthesis. EMBO J 14 (1995) 4350-4356
16. Bjork P., Bauren G., Jin S., Tong Y.G., Burglin T.R., Hellman U., and Wieslander L. A Novel Conserved RNA-binding Domain Protein, RBD-1, Is Essential For Ribosome Biogenesis. Mol Biol Cell 13 (2002) 3683-3695
17. Bousquet-Antonelli C., Henry Y., G'elugne J.P., Caizergues-Ferrer M., and Kiss T. A small nucleolar RNP protein is required for pseudouridylation of eukaryotic ribosomal RNAs. EMBO J 16 (1997) 4770-4776
18. Bugl H., Fauman E.B., Staker B.L., Zheng F., Kushner S.R., Saper M.A., Bardwell J.C., and Jakob U. RNA methylation under heat shock control. Mol Cell 6 (2000) 349-360
19. Burger F., Daugeron M.C., and Linder P. Dbp10p, a putative RNA helicase from Saccharomyces cerevisiae, is required for ribosome biogenesis. Nucleic Acids Res 28 (2000) 2315-2323
20. Busch H., and Smetana K. The Nucleolus (1970), Academic Press, New York
21. Caboche M., and Bachellerie J.P. RNA methylation and control of eukaryotic RNA biosynthesis. Effects of cycloleucine, a specific inhibitor of methylation, on ribosomal RNA maturation. 74. Eur J Biochem (1977) 19-29
22. Caponigro G., and Parker R. Mechanisms and control of mRNA turnover in Saccharomyces cerevisiae. Microbiol Rev 60 (1996) 233-249
23. Cavaille J., Nicoloso M., and Bachellerie J.P. Targeted ribose methylation of RNA in vivo directed by tailored antisense RNA guides. Nature 383 (1996) 732-735
24. Chamberlain J.R., delberger D.W., Engelke D.R., Chamberlain J.R., Pagan-Ramos Kindelberger DW, and Engelke D.R. An RNase P RNA subunit mutation affects ribosomal RNA processing. Nucleic Acids Res 24 (1996) 3158-3166
25. Chamberlain J.R., Lee Y., Lane W.S., and Engelke D.R. Purification and characterization of the nuclear RNase P holoenzyme complex reveals extensive subunit overlap with RNase MRP. Genes Dev 12 (1998) 1678-1690
26. Chanfreau G., Rotondo G., Legrain P., and Jacquier A. Processing of a dicistronic small nucleolar RNA precursor by the RNA endonuclease Rntl. EMBO J 17 (1998) 3726-3737
27. Chu S., Archer R.H., Zengel J.M., and Lindahl L. The RNA of RNase MRP is required for normal processing of ribosomal RNA. Proc Natl Acad Sci U S A 91 (1994) 659-663
28. Craig N., Kass S., and Sollner-Webb B. Sequence organization and RNA structural motifs directing the mouse primary rRNA-processing event. Mol Cell Biol 11 (1991) 458-467
29. Cundliffe E. How antibiotic-producing organisms avoid suicide. Annu Rev Microbiol 43 (1989) 207-233
30. Daugeron M.C., and Linder P. Dbp7p, a putative ATP-dependent RNA helicase from Saccharomyces cerevisiae, is required for 60S ribosomal subunit assembly. RNA 4 (1998) 566-4581
31. Daugeron M.C., and Linder P. Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis. Nucleic Acids Res 29 (2001) 1144-1155
32. Daugeron M.C., Kressler D., and Linder P. Dbp9p, a putative ATP-dependent RNA helicase involved in 60S-ribosomal-subunit biogenesis, functionally interacts with Dbp6p. RNA 7 (2001) 1317-1334
33. de la Cruz J., Kressler D., Tollervey D., and Linder P. Doblp (Mtr4p) is a putative ATP-dependent RNA helicase required for the 3' end formation of 5.8S rRNA in Saccharomyces cerevisiae. EMBO J 17 (1998) 1128-1140
34. de la Cruz J., Kressler D., Rojo M., Tollervey D., and Linder P. Spb4p, an essential putative RNA helicase, is required for a late step in the assembly of 60S ribosomal subunits in Saccharomyces cerevisiae. RNA 4 (1998) 1268-1281
35. de la Cruz J., Kressler D., and Linder P. Unwinding RNA in Saccharomyces cerevisiae: DEAD-box proteins and related families. Trends Biochem Sci 24 (1999) 192-198
36. Deshmukh M., Tsay Y.F., Paulovich A.G., and Woolford Jr. J.L. Yeast ribosomal protein LI is required for the stability of newly synthesized 5S rRNA and the assembly of 60S ribosomal subunits. Mol Cell Biol 13 (1993) 2835-2845
37. Gadal O., Strauss D., Kessl J., Trumpower B., Tollervey D., and Hurt E. Nuclear export of 60s ribosomal subunits depends on Xpolp and requires a nuclear export sequence-containing factor,Nmd3p, that associates with the large subunit protein RpllOp. Mol Cell Biol 21 (2001) 3405-3415
38. Ganot P., Bortolin M.L., and Kiss T. Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs. Cell 89 (1997) 799-809
39. Gautier T., Berges T., Tollervey D., and Hurt E. Nucleolar KKE/D repeat proteins Nop56p and Nop58p interact with Noplp and are required for ribosome biogenesis. Mol Cell Biol 17 (1997) 7088-7098
40. Good L., Elela S.A., and Nazar R.N. Tetrahymena ribozyme disrupts rRNA processing in yeast. J Biol Chem 269 (1994) 22169-22172
41. Good L., Intine R.V., and Nazar R.N. The ribosomal-RNA-processing pathway in Schizosaccharomyces pombe. Eur J Biochem 247 (1997) 314-321
42. Good L., Intine R.V., and Nazar R.N. Interdependence in the processing of ribosomal RNAs in Schizosaccharomyces pombe. J Mol Biol 273 (1997) 782-788
43. Grivell L.A., and Planta R.J. Yeast: the model 'eukaryote'?. Trends Biotechnol 8 (1990) 241-243
44. Hadjiolov A. The Nucleolus and Ribosome Biogenesis (1985), Springer-Verlag, New York
45. Harms J., Schluenzen F., Zarivach R., Bashan A., Gat S., Agmon I., Bartels H., Franceschi F., and Yonath. A high resolution structure of the large ribosomal subunit from a mesophilic eubacterium. Cell 107 (2001) 679-688
46. Harnpicharnchai P., Jakovljevic J., Horsey E., Miles T., Roman J., Rout M., Meagher D., Imai B., Guo Y., Brame C., Shabanowitz J., Hunt D.F., and Woolford Jr. J.L. Composition and functional characterization of yeast 66S ribosome assembly intermediates. Mol Cell 8 (2001) 505-515
47. Henras A., Henry Y., Bousquet-Antonelli C., Noaillac-Depeyre J., Gelugne J.P., and Caizergues-Ferrer M. Nhp2p and NoplOp are essential for the function of H/ACA snoRNPs. EMBO J 17 (1998) 7078-7090
48. Henry Y., Wood H., Morrissey J.P., Petfalski E., Kearsey S., and Tollervey D. The 5′ end of yeast 5.8S rRNA is generated by exonucleases from an upstream cleavage site. EMBO J 13 (1994) 2452-2463
49. Hershkovitz M.A., and Zimmer E.A. Conservation patterns in angiosperm rDNA ITS2 sequences. Nucleic Acids Res 24 (1996) 2857-2867
50. Heyer W.D., Johnson A.W., Reinhart U., and Kolodner R.D. Regulation and intracellular localization of Saccharomyces cerevisiae strand exchange protein 1 (Sepl/Xrnl/Keml), a multifunctional exonuclease. Mol Cell Biol 15 (1995) 2728-2736
51. Hitchen J., Ivakine E., Melekhovets Y.F., Lalev A., and Nazar R.N. Structural features in the 3' external transcribed spacer affecting intragenic processing of yeast rRNA. J Mol Biol 274 (1997) 481-490
52. Ho J.H., Kallstrom G., and Johnson A.W. Nmd3p is a Crmlp-dependent adapter protein for nuclear export of the large ribosomal subunit. J Cell Biol. 151 (2000) 1057-1066
53. Hong B., Brockenbrough J.S., Wu P., and Aris J.P. Nop2p is required for pre-rRNA processing and 60S ribosome subunit synthesis in yeast. Mol Cell Biol 17 (1997) 378-388
54. Hughes J.M., and Ares M Jr. Depletion of U3 small nucleolar RNA inhibits cleavage in the 5' external transcribed spacer of yeast pre-ribosomal RNA and impairs formation of 18S ribosomal. EMBO J 10 (1991) 4231-4239
55. Hurt E., Hannus S., Schmelzl B., Lau D., Tollervey D., and Simos G. A novel in vivo assay reveals inhibition of ribosomal nuclear export in ran-cycle and nucleoporin mutants. J Cell Biol 144 (1999) 389-401
56. Intine R.V., Good L., and Nazar R.N. Essential structural features in the Schizosaccharomyces pombe pre-rRNA 5' external transcribed spacer. J Mol Biol 286 (1999) 695-708
57. Jansen R., Tollervey D., and Hurt E.C. A U3 snoRNP protein with homology to splicing factor PRP4 and G beta domains is required for ribosomal RNA processing. EMBO J 12 (1993) 2549-2558
58. Johnson A.W. Rat1p and Xrn1p are functionally interchangeable exoribonucleases that are restricted to and required in the nucleus and cytoplasm, respectively. Mol Cell Biol 17 (1997) 6122-6130
59. Kass S., Tyc K., Steitz J.A., and Sollner-Webb B. The U3 small nucleolar ribonucleoprotein functions in the first step of preribosomal RNA processing. Cell 60 (1990) 897-908
60. Kempers-Veenstra A.E., Oliemans J., Offenberg H., Dekker A.F., Piper P.W., Planta R.J., and Klootwijk J. 3'-End formation of transcripts from the yeast rRNA operon. EMBO J 5 (1986) 2703-2710
61. Kiss-Laszlo Z., Henry Y., Bachellerie J.P., Caizergues-Ferrer M., and Kiss T. Site-specific ribose methylation of preribosomal RNA: a novel function for small nucleolar RNAs. Cell 85 (1996) 1077-1088
62. Koonin E.V. Pseudouridine synthases: four families of enzymes containing a putative uridine-binding motif also conserved in dUTPases and dCTP deaminases. Nucleic Acids Res 24 (1996) 2411-2415
63. Kressler D., de l.C.J., Rojo M., and Linder P. Fal1p is an essential DEAD-box protein involved in 40S-ribosomal-subunit biogenesis in Saccharomyces cerevisiae. Mol Cell Biol 17 (1997) 7283-7294
64. Kressler D., de la Cruz J., Rojo M., and Linder P. Dbp6p is an essential putative ATP-dependent RNA helicase required for 60S-ribosomal-subunit assembly in Saccharomyces cerevisiae. Mol Cell Biol 18 (1998) 1855-1865
65. Kressler D., Linder P., and de La Cruz J. Protein trans-acting factors involved in ribosome biogenesis in Saccharomyces cerevisiae. Mol Cell Biol 19 (1999) 7897-7912
66. Kressler D., Rojo M., Linder P., and de la Cruz J. Spb1p is a putative methyltransferase required for 60S ribosomal subunit biogenesis in Saccharomyces cerevisiae. Nucleic Acids Res 27 (1999) 4598-5608
67. Kruiswijk T., Planta R.J., and Krop J.M. The course of the assembly of ribosomal subunits in yeast. Biochim Biophys Acta 517 (1978) 378-389
68. Kufel J., Dichtl B., and Tollervey D. Yeast Rnt1p is required for cleavage of the pre-ribosomal RNA in the 3' ETS but not the 5' ETS. RNA 5 (1999) 909-1017
69. in press. Kufel J., Allmang C., Petfalski E., Beggs J., and Tollervey D. Lsm proteins are required for normal processing and stability of ribosomal RNAs. J Biol Chem (2002)
70. Lafontaine D., Delcour J., Glasser A.L., Desgres J., and Vandenhaute J. The DIM1 gene responsible for the conserved m6(2)Am6(2)A dimethylation in the 3'-terminal loop of 18 S rRNA is essential in yeast. J Mol Biol 241 (1994) 492-497
71. Lafontaine D., Vandenhaute J., and Tollervey D. The 18S rRNA dimethylase Dim1p is required for pre-ribosomal RNA processing in yeast. Genes Dev 9 (1995) 2470-2481
72. Lafontaine D.L., Preiss T., and Tollervey D. Yeast 18S rRNA dimethylase Dimlp: a quality control mechanism in ribosome synthesis?. Mol Cell Biol 18 (1998) 2360-2370
73. Lalev A.I., and Nazar R.N. Conserved core structure in the internal transcribed spacer 1 of the Schizosaccharomyces pombe precursor ribosomal RNA. J Mol Biol 284 (1998) 1341-1351
74. Lalev A.I., and Nazar R.N. Structural equivalence in the transcribed spacers of pre-rRNA transcripts in Schizosaccharomyces pombe. Nucleic Acids Res1999 27 (1999) 3071-3078
75. Lalev A.I., and Nazar R.N. A chaperone for ribosome maturation. J Biol Chem 276 (2001) 16655-16659
76. Lalev A.I., Abeyrathne P.D., and Nazar R.N. Ribosomal RNA maturation in Schizosaccharomyces pombe is dependent on a large ribonucleoprotein complex of the internal transcribed spacer 1. J Mol Biol 302 (2000) 65-77
77. Lane B.G., and Tamaoki T. Studies of the chain termini and alkali-stable dinucleotide sequences in 16 s and 28 s ribosomal RNA from L cells. J Mol Biol 27 (1967) 335-348
78. Lane B.G., Ofengand J., and Gray M.W. Pseudouridine in the large-subunit (23 S-like) ribosomal RNA. The site of peptidyl transfer in the ribosome?. FEBS Lett 302 (1992) 1-4
79. Lane B.G., Ofengand J., and Gray M.W. Pseudouridine and O2'-methylated nucleosides. Significance of their selective occurrence in rRNA domains that function inribosome-catalyzed synthesis of the peptide bonds in proteins. Biochimie 77 (1995) 7-15
80. Larimer F.W., and Stevens A. Disruption of the gene XRN1, coding for a 5'→3' exoribonuclease, restricts yeast cell growth. Gene 95 (1990) 85-90
81. Lee M.S., Henry M., and Silver P.A. A protein that shuttles between the nucleus and the cytoplasm is an important mediator of RNA export. Genes Dev 10 (1996) 1233-1246
82. Lee W.C., Xue Z.X., and Melese T. The NSR1 gene encodes a protein that specifically binds nuclear localization sequences and has two RNA recognition motifs. J Cell Biol 113 (1991) 1-12
83. Lee W.C., Zabetakis D., and Melese T. NSR1 is required for pre-rRNA processing and for the proper maintenance of steady-state levels of ribosomal subunits. Mol Cell Biol 12 (1992) 3865-3871
84. Lee Y., Melekhovets Y.F., and Nazar R.N. Termination as a factor in "quality control" during ribosome biogenesis. J Biol Chem 270 (1995) 28003-28005
85. Lee Y., and Nazar R.N. Ribosomal 5 S rRNA maturation in Saccharomyces cerevisiae. J Biol Chem 272 (1997) 15206-15212
86. Li H.V., Zagorski J., and Fournier M.J. Depletion of U14 small nuclear RNA (snR128) disrupts production of 18S rRNA in Saccharomyces cerevisiae. Mol Cell Biol 10 (1990) 1145-1152
87. Liang W.Q., and Fournier M.J. U14 base-pairs with 18S rRNA: a novel snoRNA interaction required for rRNA processing. Genes Dev 9 (1995) 2433-2443
88. Liang W.Q., Clark J.A., and Fournier M.J. 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 (1997) 4124-4132
89. Lygerou Z., Allmang C., Tollervey D., and Seraphin B. Accurate processing of a eukaryotic precursor ribosomal RNA by ribonuclease MRP in vitro. Science 272 (1996) 268-270
90. Maden B.E. The numerous modified nucleotides in eukaryotic ribosomal RNA. Prog Nucleic Acid Res Mol Biol 39 (1990) 241-303
91. Mager W.H., and Planta R.J. Coordinate expression of ribosomal protein genes in yeast as a function of cellular growth rate. Mol Cell Biochem. 104 (1991) 181-187
92. Maxwell E.S. The small nucleolar RNAs. Annu Rev Biochem 64 (1995) 897-934
93. Melekhovets Y.F., Good L., Elela S.A., Nazar R.N., and Fournier M.J. Intragenic processing in yeast rRNA is dependent on the 3' external transcribed spacer. J Mol Biol 239 (1994) 170-180
94. Michot B., Joseph N., Mazan S., and Bachellerie J.P. Evolutionarily conserved structural features in the ITS2 of mammalian pre-rRNAs and potential interactions with thesnoRNA U8 detected by comparative analysis of new mouse sequences. Nucleic Acids Res 27 (1999) 2271-2282
95. Mitchell P., Petfalski E., Shevchenko A., Mann M., and Tollervey D. The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'→5' exoribonucleases. Cell 91 (1997) 457-466
96. Mitchell P., Petfalski E., and Tollervey D. The 3′ end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism. Genes Dev 10 (1996) 502-513
97. Mougey E.B., O'Reilly M., Osheim Y., Miller Jr. O., Beyer A., and Sollner-Webb B. The terminal balls characteristic of eukaryotic rRNA transcription units in chromatin spreads are rRNA processing complexes (1993)
98. Moy T.I., and Silver P.A. Nuclear export of the small ribosomal subunit requires the ran-GTPase cycle and certain nucleoporins. Genes Dev. 13 (1993) 2118-2133
99. Munholland J.M., and Nazar R.N. Methylation of ribosomal RNA as a possible factor in cell differentiation. Cancer Res 47 (1987) 169-172
100. Musters W., Boon K., van d.S.C., van H.H., and Planta R.J. Functional analysis of transcribed spacers of yeast ribosomal DNA. EMBO J 9 (1990) 3989-3996
101. Musters W., Venema J., van der Linden G., van Heerikhuizen H., Klootwijk J., and Planta R.J. A system for the analysis of yeast ribosomal DNA mutations. Mol Cell Biol 9 (1989) 551-559
102. Musters W., Venema J., van d.L.G., van H.H., Klootwijk J., and Planta R.J. A system for the analysis of yeast ribosomal DNA mutations. Genes Dev 5 (1989) 1609-1619
103. Nazar R.N., Sitz T.O., and Busch H. Tissue specific differences in the 2'-O-methylation of eukaryotic 5.8S ribosomal RNA. FEBS Lett 59 (1975) 83-87
104. Nazar R.N., Lo A.C., Wildeman A.G., and Sitz T.O. Effect of 2'-O-methylation on the structure of mammalian 5.8S rRNAs and the 5.8S-28S rRNA junction. Nucleic Acids Res 11 (1983) 5989-6001
105. Nazar R.N., Wong W.M., and Abrahamson J.L. Nucleotide sequence of the 18-25 S ribosomal RNA intergenic region from a thermophile, Thermomyces lanuginosus. J Biol Chem 262 (1987) 7523-7527
106. Nazar R.N., Good L., Intine R., Lee Y., and Melekhovets Y.F. RNA processing as a "quality control" factor in ribosome biogenesis. Abstracts, RNA'96, First Annual Meeting of the RNA Society. Madison (1996) 503-503
107. Ni J., Tien A.L., and Fournier M.J. Small nucleolar RNAs direct site-specific synthesis of pseudouridine in ribosomal RNA. Cell 89 (1997) 565-573
108. Nicoloso M., Qu L.H., Michot B., and Bachellerie J.P. Intron-encoded, antisense small nucleolar RNAs: the characterization of nine novel species points to their direct role as guides for the 2'-O-ribose methylati. J Mol Biol 260 (1996) 178-195
109. Nogi Y., Yano R., and Nomura M. Synthesis of large rRNAs by RNA polymerase II in mutants of Saccharomyces cerevisiae defective in RNA polymerase I. Proc Natl Acad Sci U S A 88 (1991) 3962-3966
110. O'Day C.L., Chavanikamannil F., and Abelson J. 18S rRNA processing requires the RNA helicase-like protein Rrp3. Nucleic Acids Res 24 (1996) 3201-3207
111. Ofengand J., and Bakin A. Mapping to nucleotide resolution of pseudouridine residues in large subunit ribosomal RNAs from representative eukaryotes,prokaryotes, archaebacteria, mitochondria and chloroplasts. J Mol Biol 266 (1997) 246-268
112. Ohtake Y., and Wickner R.B. Yeast virus propagation depends critically on free 60S ribosomal subunit concentration. Mol Cell Biol 15 (1995) 2772-2781
113. Peculis B.A., and Steitz J.A. Disruption of U8 nucleolar snRNA inhibits 5.8S and 28S rRNA processing in the Xenopus oocyte. Cell 73 (1993) 1233-1245
114. Piper P.W., Bellatin J.A., and Lockheart A. Altered maturation of sequences at the 3' terminus of 5S gene transcripts in a Saccharomyces cerevisiae mutant that lacks a RNA processing endonuclease. EMBO J 2 (1983) 353-359
115. Planta R.J., and Mager W.H. The list of cytoplasmic ribosomal proteins of Saccharomyces cerevisiae. Yeast 14 (1998) 471-477
116. Raue H.A., and Planta R.J. Ribosome biogenesis in yeast. Prog Nucleic Acid Res Mol Biol 41 (1991) 89-129
117. Raue H.A. A novel pathway for ITS1 processing in yeast that bypasses both the A2 and A3 sites. Abstracts, The Dynamics of Ribosome Structure and Function: Ribosome Meeting 2002, Queenstown (2002) 79-79
118. Ripmaster T.L., Vaughn G.P., and Woolford Jr. J.L. DRS1 to DRS7, novel genes required for ribosome assembly and function in Saccharomyces cerevisiae. Mol Cell Biol 13 (1993) 7901-7912
119. Ro-Choi T.S. Nucleolar snoRNA and ribosome production. Mol Cells 7 (1997) 451-467
120. Rotondo G., and Frendewey D. Purification and characterization of the Pacl ribonuclease of Schizosaccharomyces pombe. Nucleic Acids Res 24 (1996) 2377-2386
121. Rottman F., Friderici K., Comstock P., and Khan M.K. Influence of 2'-O-alkylation on the structure of single-stranded polynucleotides and the stability of 2'-O-alkylated polynucleotide complexes. Biochemistry 13 (1974) 2762-2771
122. Sachs A.B., and Davis R.W. The poly(A) binding protein is required for poly(A) shortening and 60S ribosomal subunit-dependent translation initiation. Cell 58 (1989) 857-867
123. Savino R., and Gerbi S.A. In vivo disruption of Xenopus U3 snRNA affects ribosomal RNA processing. EMBO J 9 (1990) 2299-2308
124. Schimmang T., Tollervey D., Kern H., Frank R., and Hurt E.C. A yeast nucleolar protein related to mammalian fibrillarin is associated with small nucleolar RNA and is essential for viability. EMBO J 8 (1989) 4015-4024
125. Schmitt M.E., and Clayton D.A. Nuclear RNase MRP is required for correct processing of pre-5.8S rRNA in Saccharomyces cerevisiae. Mol Cell Biol 13 (1993) 7935-7941
126. Schmitt M.E., and Clayton D.A. Characterization of a unique protein component of yeast RNase MRP: an RNA-binding protein with a zinc-cluster domain. Genes Dev 8 (1994) 2617-2628
127. Senger B., Lafontaine D.L., Graindorge J.S., Gadal O., Camasses A., Sanni A., Gamier J.M., Breitenbach M., Hurt E., and Fasiolo F. The nucle(ol)ar Tif6p and Efl1p are required for a late cytoplasmic step of ribosome synthesis. Mol Cell 8 (2001) 1363-1373
128. Sharma K., Venema J., and Tollervey D. The 5′ end of the 18S rRNA can be positioned from within the mature rRNA. RNA 5 (1999) 678-686
129. Siegmund A., Grant A., Angeletti C., Malone L., Nichols J.W., and Rudolph H.K. Loss of Drs2p does not abolish transfer of fluorescence-labeled phospholipids across the plasma membrane of Saccharomyces cerevisiae. J Biol Chem 273 (1998) 34399-34405
130. Singh H., and Lane B.G. The separation, estimation, and characterization of alkali-stable oligonucleotides derived from commercial ribonucleate preparations. Can J Biochem 42 (1964) 87-93
131. Sirum-Connolly K., and Mason T.L. Functional requirement of a site-specific ribose methylation in ribosomal RNA. Science 262 (1993) 1886-1889
132. Smith C.M., and Steitz J.A. Sno storm in the nucleolus: new roles for myriad small RNPs. Cell 89 (1997) 669-672
133. Song X., and Nazar R.N. Modification of rRNA as a 'quality control mechanism' in ribosome biogenesis. FEBS Lett 523 (2002) 182-186
134. Spasov K., Perdomo L.I., Evakine E., and Nazar R.N. RAC protein directs the complete removal of the 3' external transcribed spacer by the Pacl nuclease. Mol Cell 9 (2002) 433-437
135. Stage-Zimmermann T., Schmidt U., and Silver P.A. Factors affecting nuclear export of the 60S ribosomal subunit in vivo. Mol Biol Cell 11 (2000) 3777-3789
136. Subrahmanyam C.S., Cassidy B., Busch H., and Rothblum L.I. Nucleotide sequence of the region between the 18S rRNA sequence and the 28S rRNA sequence of rat ribosomal DNA. Nucleic Acids Res 10 (1982) 3667-3680
137. Sun C., and Woolford Jr. J.L. The yeast NOP4 gene product is an essential nucleolar protein required for pre-rRNA processing and accumulation of 60S ribosomal subunits. EMBO J 13 (1994) 3127-3135
138. Tague B.W., and Gerbi S.A. Processing of the large rRNA precursor: two proposed categories of RNA-RNA interactions in eukaryotes. J Mol Evol 20 (1984) 362-367
139. Tollervey D. A yeast small nuclear RNA is required for normal processing of pre-ribosomal RNA. EMBO J 6 (1987) 4169-4175
140. Tollervey D., Lehtonen H., Jansen R., Kern H., and Hurt E.C. Temperature-sensitive mutations demonstrate roles for yeast fibrillarin in pre-rRNA processing, pre-rRNA methylation, and ribosome assembly. Cell 72 (1993) 443-457
141. Tuteja R., and Tuteja N. Nucleolin: a multifunctional major nucleolar phosphoprotein. Crit Rev Biochem Mol Biol 33 (1998) 407-436
142. Tycowski K.T., Shu M.D., and Steitz J.A. Requirement for intron-encoded U22 small nucleolar RNA in 18S ribosomal RNA maturation. Science 266 (1994) 1558-1561
143. Udem S.A., and Warner JR. The cytoplasmic maturation of a ribosomal precursor ribonucleic acid in yeast. J Biol Chem 248 (1973) 1412-1416
144. Ursic D., Himmel K.L., Gurley K.A., Webb F., and Culbertson M.R. The yeast SEN1 gene is required for the processing of diverse RNA classes. Nucleic Acids Res. 25 (1997) 4778-4785
145. Valasek L., Hasek J., Nielsen K.H., and Hinnebusch A.G. Dual function of eIF3j/Hcrlp in processing 20 S pre-rRNA and translation initiation. J Biol Chem 276 (2001) 43351-43360
146. van der Sande C.A., Kwa M., van Nues R.W., van Heerikhuizen H., Raue H.A., and Planta R.J. Functional analysis of internal transcribed spacer 2 of Saccharomyces cerevisiae ribosomal DNA. J Mol Biol 223 (1992) 899-910
147. van Nues R.W., Rientjes J.M., van der S.C., Zerp S.F., Sluiter C., Venema J., Planta R.J., and Raue H.A. Separate structural elements within internal transcribed spacer 1 of Saccharomyces cerevisiae precursor ribosomal RNA direct the formation of 17S and 26S. Nucleic Acids Res 22 (1994) 912-919
148. van Nues R.W., Rientjes J.M., Morre S.A., Mollee E., Planta R.J., Venema J., and Raue H.A. Evolutionarily conserved structural elements are critical for processing of Internal Transcribed Spacer 2 from Saccharomyces cerevisiae precursor ribosoma. J Mol Biol 250 (1995) 24-36
149. van Nues R.W., Venema J., Rientjes J.M., Dirks-Mulder A., and Raue H.A. Processing of eukaryotic pre-rRNA: the role of the transcribed spacers. Biochem Cell Biol 73 (1995) 789-801
150. van Nues R.W., Venema J., Planta R.J., and Raue H.A. Variable region VI of Saccharomyces cerevisiae 18S rRNA participates in biogenesis and function of the small ribosomal subunit. Chromosoma 105 (1997) 523-531
151. Vanrobays E., Gleizes P.E., Bousquet-Antonelli C., Noaillac-Depeyre J., Caizergues-Ferrer M., and Gelugne J.P. Processing of 20S pre-rRNA to 18S ribosomal RNA in yeast requires RrplOp, an essential non-ribosomal cytoplasmic protein. EMBO J 20 (2001) 4204-4213
152. Van Ryk D.I., Lee Y., and Nazar R.N. Unbalanced ribosome assembly in Saccharomyces cerevisiae expressing mutant 5 S rRNAs. J Biol Chem 267 (1992) 16177-16181
153. Vaughan MH Jr., Soeiro R., Warner J.R., and Darnell Jr. J.E. The effects of methionine deprivation on ribosome synthesis in HeLa cells. Proc Natl Acad Sci U S A 58 (1967) 1527-1534
154. Venema J., Henry Y., and Tollervey D. Two distinct recognition signals define the site of endonucleolytic cleavage at the 5'-end of yeast 18S rRNA. EMBO J 14 (1995) 4883-4892
155. Venema J., Bousquet-Antonelli C., Gelugne J.P., Caizergues-Ferrer M., and Tollervey D. Roklp is a putative RNA helicase required for rRNA processing. Mol Cell Biol 17 (1997) 3398-3407
156. Venema J., and Tollervey D. Ribosome synthesis in Saccharomyces cerevisiae. Annu Rev Genet 33 (1999) 261-311
157. Vilardell J., and Warner J.R. Ribosomal protein L32 of Saccharomyces cerevisiae influences both the splicing of its own transcript and the processing of rRNA. Mol Cell Biol 17 (1997) 1959-1965
158. Walker K., Wong W.M., and Nazar R.N. Termination region in rRNA genes from a eucaryotic thermophile, Thermomyces lanuginosus. Mol Cell Biol 10 (1990) 377-381
159. Warner J.R. The economics of ribosome biosynthesis in yeast. Trends Biochem Sci 24 (1999) 437-440
160. Weaver P.L., Sun C., and Chang T.H. Dbp3p, a putative RNA helicase in Saccharomyces cerevisiae, is required for efficient pre-rRNA processing predominantly at site A3. Mol Cell Biol 17 (1997) 1354-1365
161. Wolin S.L., and Cedervall T. The la protein. Annu Rev Biochem 71 (2000) 375-403
162. Woolford J.L., and Warner J.R. The ribosome and its synthesis. In: Broach J.R., and Jones E.W. (Eds). The molecular and cellular biology of the yeast Saccharomyces: genome dynamics, protein synthesis, and energetics Vol. 1 (2000), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y 587-626
163. Wu P., Brockenbrough J.S., Paddy M.R., and Aris J.P. NCL1, a novel gene for a non-essential nuclear protein in Saccharomyces cerevisiae. Gene 220 (1998) 109-117
164. Yeh L.C., and Lee J.C. Structural analysis of the internal transcribed spacer 2 of the precursor ribosomal RNA from Saccharomyces cerevisiae. J Mol Biol 211 (1990) 699-712
165. Yeh L.C., Thweatt R., and Lee J.C. Internal transcribed spacer 1 of the yeast precursor ribosomal RNA. Higher order structure and common structural motifs. Biochemistry 29 (1990) 5911-5918
166. Yusupov M.M., Yusupova G.Z., Baucom A., Lieberman K., Earnest T.N., Cate J.H., and Noller H.F. Crystal structure of the ribosome at 5.5 A resolution. Science 292 (2000) 883-896
167. Zanchin N.I., and Goldfarb D.S. Nip7p interacts with Nop8p, an essential nucleolar protein required for 60S ribosome biogenesis, and the exosome subunit Rrp43p. Mol Cell Biol 19 (1999) 1518-1525