Home LiteratureArticle Details
PMID: 10734186 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Degradation of ribosomal RNA precursors by the exosome.

Nucleic acids research ·Vol. 28 ·No. 8 ·2000-04-15 ·Pages 1684-91

Allmang C, Mitchell P, Petfalski E, Tollervey D

Abstract

The yeast exosome is a complex of 3'-->5' exonucleases involved in RNA processing and degradation. All 11 known components of the exosome are required during 3' end processing of the 5.8S rRNA. Here we report that depletion of each of the individual components inhibits the early pre-rRNA cleavages at sites A(0), A(1), A(2)and A(3), reducing the levels of the 32S, 20S, 27SA(2)and 27SA(3)pre-rRNAs. The levels of the 27SB pre-rRNAs were also reduced. Consequently, both the 18S and 25S rRNAs were depleted. Since none of these processing steps involves 3'-->5' exonuclease activities, the requirement for the exosome is probably indirect. Correct assembly of trans -acting factors with the pre-ribosomes may be monitored by a quality control system that inhibits pre-rRNA processing. The exosome itself degrades aberrant pre-rRNAs that arise from such inhibition. Exosome mutants stabilize truncated versions of the 23S, 21S and A(2)-C(2)RNAs, none of which are observed in wild-type cells. The putative helicase Dob1p, which functions as a cofactor for the exosome in pre-rRNA processing, also functions in these pre-rRNA degradation activities.

MeSH Terms
Hydrolysis Multienzyme Complexes/metabolism RNA Helicases/metabolism RNA Precursors/metabolism RNA Processing, Post-Transcriptional RNA, Ribosomal/metabolism Saccharomyces cerevisiae/enzymology,genetics
Chemicals
Multienzyme Complexes RNA Precursors RNA, Ribosomal RNA Helicases
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Allmang C
Institute of Cell and Molecular Biology, Swann Building, King's Buildings, The University of Edinburgh, Mayfield Road, Edinburgh EH9 3JR, UK.
Mitchell P
Petfalski E
Tollervey D
References (39)
39 references, click to expand
  1. The exosome: a proteasome for RNA?
    Cell. 1999 Nov 12;99(4):347-50 PMID: 10571176
  2. Functions of the exosome in rRNA, snoRNA and snRNA synthesis.
    EMBO J. 1999 Oct 1;18(19):5399-410 PMID: 10508172
  3. Yeast exosome mutants accumulate 3'-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs.
    Mol Cell Biol. 2000 Jan;20(2):441-52 PMID: 10611222
  4. A nuclear 3'-5' exonuclease involved in mRNA degradation interacts with Poly(A) polymerase and the hnRNA protein Npl3p.
    Mol Cell Biol. 2000 Jan;20(2):604-16 PMID: 10611239
  5. Ribosome synthesis in Saccharomyces cerevisiae.
    Annu Rev Genet. 1999;33:261-311 PMID: 10690410
  6. Some characteristics of processing sites in ribosomal precursor RNA of yeast.
    Nucleic Acids Res. 1980 Jul 11;8(13):2907-20 PMID: 6253896
  7. The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript.
    Nucleic Acids Res. 1981 Oct 10;9(19):4847-62 PMID: 7312619
  8. Fungal small nuclear ribonucleoproteins share properties with plant and vertebrate U-snRNPs.
    EMBO J. 1987 Feb;6(2):469-76 PMID: 2953599
  9. Depletion of Saccharomyces cerevisiae ribosomal protein L16 causes a decrease in 60S ribosomal subunits and formation of half-mer polyribosomes.
    Genes Dev. 1988 Feb;2(2):160-72 PMID: 3282992
  10. Internal transcribed spacer 1 of the yeast precursor ribosomal RNA. Higher order structure and common structural motifs.
    Biochemistry. 1990 Jun 26;29(25):5911-8 PMID: 2116901
  11. Depletion of yeast ribosomal proteins L16 or rp59 disrupts ribosome assembly.
    J Cell Biol. 1990 Dec;111(6 Pt 1):2261-74 PMID: 2277060
  12. A temperature sensitive mutant of Saccharomyces cerevisiae defective in pre-rRNA processing.
    Nucleic Acids Res. 1991 Sep 25;19(18):5059-64 PMID: 1923772
  13. 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 RNA.
    EMBO J. 1991 Dec;10(13):4231-9 PMID: 1756730
  14. A new rRNA processing mutant of Saccharomyces cerevisiae.
    Nucleic Acids Res. 1992 Jan 25;20(2):295-301 PMID: 1741255
  15. Identification and functional analysis of two U3 binding sites on yeast pre-ribosomal RNA.
    EMBO J. 1992 Apr;11(4):1531-42 PMID: 1563354
  16. The 5' end of yeast 5.8S rRNA is generated by exonucleases from an upstream cleavage site.
    EMBO J. 1994 May 15;13(10):2452-63 PMID: 7515008
  17. The POP1 gene encodes a protein component common to the RNase MRP and RNase P ribonucleoproteins.
    Genes Dev. 1994 Jun 15;8(12):1423-33 PMID: 7926742
  18. Birth of the snoRNPs: the evolution of RNase MRP and the eukaryotic pre-rRNA-processing system.
    Trends Biochem Sci. 1995 Feb;20(2):78-82 PMID: 7701567
  19. Evolutionarily conserved structural elements are critical for processing of Internal Transcribed Spacer 2 from Saccharomyces cerevisiae precursor ribosomal RNA.
    J Mol Biol. 1995 Jun 30;250(1):24-36 PMID: 7602595
  20. Two distinct recognition signals define the site of endonucleolytic cleavage at the 5'-end of yeast 18S rRNA.
    EMBO J. 1995 Oct 2;14(19):4883-92 PMID: 7588617
  21. Mutations in nucleolar proteins lead to nucleolar accumulation of polyA+ RNA in Saccharomyces cerevisiae.
    Mol Biol Cell. 1995 Sep;6(9):1103-10 PMID: 8534909
  22. Processing of the yeast pre-rRNA at sites A(2) and A(3) is linked.
    RNA. 1996 Jan;2(1):63-73 PMID: 8846297
  23. The 3' end of yeast 5.8S rRNA is generated by an exonuclease processing mechanism.
    Genes Dev. 1996 Feb 15;10(4):502-13 PMID: 8600032
  24. One-step PCR mediated strategy for the construction of conditionally expressed and epitope tagged yeast proteins.
    Nucleic Acids Res. 1996 Sep 1;24(17):3469-71 PMID: 8811105
  25. RRP5 is required for formation of both 18S and 5.8S rRNA in yeast.
    EMBO J. 1996 Oct 15;15(20):5701-14 PMID: 8896463
  26. Pop3p is essential for the activity of the RNase MRP and RNase P ribonucleoproteins in vivo.
    EMBO J. 1997 Jan 15;16(2):417-29 PMID: 9029160
  27. A novel protein shared by RNase MRP and RNase P.
    RNA. 1997 Apr;3(4):382-91 PMID: 9085845
  28. The yeast La protein is required for the 3' endonucleolytic cleavage that matures tRNA precursors.
    Cell. 1997 May 2;89(3):393-402 PMID: 9150139
  29. Saccharomyces cerevisiae Nip7p is required for efficient 60S ribosome subunit biogenesis.
    Mol Cell Biol. 1997 Sep;17(9):5001-15 PMID: 9271378
  30. Comparative sequence analysis of ribonucleases HII, III, II PH and D.
    Nucleic Acids Res. 1997 Aug 15;25(16):3187-95 PMID: 9241229
  31. The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'-->5' exoribonucleases.
    Cell. 1997 Nov 14;91(4):457-66 PMID: 9390555
  32. Dob1p (Mtr4p) is a putative ATP-dependent RNA helicase required for the 3' end formation of 5.8S rRNA in Saccharomyces cerevisiae.
    EMBO J. 1998 Feb 16;17(4):1128-40 PMID: 9463390
  33. The 3' to 5' degradation of yeast mRNAs is a general mechanism for mRNA turnover that requires the SKI2 DEVH box protein and 3' to 5' exonucleases of the exosome complex.
    EMBO J. 1998 Mar 2;17(5):1497-506 PMID: 9482746
  34. Yeast 18S rRNA dimethylase Dim1p: a quality control mechanism in ribosome synthesis?
    Mol Cell Biol. 1998 Apr;18(4):2360-70 PMID: 9528805
  35. The role of the 3' external transcribed spacer in yeast pre-rRNA processing.
    J Mol Biol. 1998 Apr 24;278(1):67-78 PMID: 9571034
  36. Rrp6p, the yeast homologue of the human PM-Scl 100-kDa autoantigen, is essential for efficient 5.8 S rRNA 3' end formation.
    J Biol Chem. 1998 May 22;273(21):13255-63 PMID: 9582370
  37. The exosome subunit Rrp43p is required for the efficient maturation of 5.8S, 18S and 25S rRNA.
    Nucleic Acids Res. 1999 Mar 1;27(5):1283-8 PMID: 9973615
  38. The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases.
    Genes Dev. 1999 Aug 15;13(16):2148-58 PMID: 10465791
  39. Protein trans-acting factors involved in ribosome biogenesis in Saccharomyces cerevisiae.
    Mol Cell Biol. 1999 Dec;19(12):7897-912 PMID: 10567516
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/28.8.1684
Published
2000-04-15
Pages
1684-91
Language
English
Region
England
NLM ID
0411011
PMCID
PMC102825
Subset
IM
Grants
Wellcome Trust · United Kingdom
External Links
PubMed source DOI: 10.1093/nar/28.8.1684 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2