The Nuclear Poly(A)-Binding Protein Interacts with the Exosome to Promote Synthesis of Noncoding Small Nucleolar RNAs (DOI:10.1016/j.molcel.2009.12.019);The Nuclear Poly(A)-Binding Protein Interacts with the Exosome to Promote Synthesis of Noncoding Small Nucleolar RNAs

Molecular Cell

Volumn 37, Issue 1, 2010, Pages 34-45

  Lemay, Jean François ^a   D'Amours, Annie ^a   Lemieux, Caroline ^a   Lackner, Daniel H ^b   St Sauveur, Valérie G ^a   Bähler, Jürg ^b   Bachand, François ^a  

^a UNIVERSITY OF SHERBROOKE   (Canada)

^b UNIVERSITY COLLEGE LONDON   (United Kingdom)

Author keywords

PROTEINS; RNA

Indexed keywords

FUNGAL PROTEIN; PAB2 PROTEIN; POLYADENYLATED RNA; POLYADENYLIC ACID BINDING PROTEIN; SMALL NUCLEAR RNA; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; DNA MICROARRAY; EXOSOME; NONHUMAN; NUCLEAR ACCIDENT; POLYADENYLATION; PROTEIN FUNCTION; PROTEIN INTERACTION; PROTEIN PROCESSING; RNA SYNTHESIS; UPREGULATION;

EUKARYOTA; MAMMALIA; SCHIZOSACCHAROMYCETACEAE;

EID: 73649112807     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2010.01.029     Document Type: Erratum

References (64)

1. Ahn S.H., Kim M., and Buratowski S. Phosphorylation of serine 2 within the RNA polymerase II C-terminal domain couples transcription and 3′ end processing. Mol. Cell 13 (2004) 67-76
2. 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
3. Allmang C., Petfalski E., Podtelejnikov A., Mann M., Tollervey D., and Mitchell P. The yeast exosome and human PM-Scl are related complexes of 3′→5′ exonucleases. Genes Dev. 13 (1999) 2148-2158
4. Allmang C., Mitchell P., Petfalski E., and Tollervey D. Degradation of ribosomal RNA precursors by the exosome. Nucleic Acids Res. 28 (2000) 1684-1691
5. Arigo J.T., Eyler D.E., Carroll K.L., and Corden J.L. Termination of cryptic unstable transcripts is directed by yeast RNA-binding proteins Nrd1 and Nab3. Mol. Cell 23 (2006) 841-851
6. Bachand F., Lackner D.H., Bahler J., and Silver P.A. Autoregulation of ribosome biosynthesis by a translational response in fission yeast. Mol. Cell. Biol. 26 (2006) 1731-1742
7. Bienroth S., Keller W., and Wahle E. Assembly of a processive messenger RNA polyadenylation complex. EMBO J. 12 (1993) 585-594
8. Bousquet-Antonelli C., Presutti C., and Tollervey D. Identification of a regulated pathway for nuclear pre-mRNA turnover. Cell 102 (2000) 765-775
9. Buratowski S. Connections between mRNA 3′ end processing and transcription termination. Curr. Opin. Cell Biol. 17 (2005) 257-261
10. Callahan K.P., and Butler J.S. Evidence for core exosome independent function of the nuclear exoribonuclease Rrp6p. Nucleic Acids Res. 36 (2008) 6645-6655
11. Carneiro T., Carvalho C., Braga J., Rino J., Milligan L., Tollervey D., and Carmo-Fonseca M. Depletion of the yeast nuclear exosome subunit Rrp6 results in accumulation of polyadenylated RNAs in a discrete domain within the nucleolus. Mol. Cell. Biol. 27 (2007) 4157-4165
12. Carroll K.L., Pradhan D.A., Granek J.A., Clarke N.D., and Corden J.L. Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts. Mol. Cell. Biol. 24 (2004) 6241-6252
13. Chekanova J.A., Gregory B.D., Reverdatto S.V., Chen H., Kumar R., Hooker T., Yazaki J., Li P., Skiba N., Peng Q., et al. Genome-wide high-resolution mapping of exosome substrates reveals hidden features in the Arabidopsis transcriptome. Cell 131 (2007) 1340-1353
14. Decker C.J., and Parker R. A turnover pathway for both stable and unstable mRNAs in yeast: evidence for a requirement for deadenylation. Genes Dev. 7 (1993) 1632-1643
15. Dez C., Houseley J., and Tollervey D. Surveillance of nuclear-restricted pre-ribosomes within a subnucleolar region of Saccharomyces cerevisiae. EMBO J. 25 (2006) 1534-1546
16. Dheur S., Vo le T.A., Voisinet-Hakil F., Minet M., Schmitter J.M., Lacroute F., Wyers F., and Minvielle-Sebastia L. Pti1p and Ref2p found in association with the mRNA 3′ end formation complex direct snoRNA maturation. EMBO J. 22 (2003) 2831-2840
17. Dziembowski A., Lorentzen E., Conti E., and Seraphin B. A single subunit, Dis3, is essentially responsible for yeast exosome core activity. Nat. Struct. Mol. Biol. 14 (2007) 15-22
18. Fatica A., Morlando M., and Bozzoni I. Yeast snoRNA accumulation relies on a cleavage-dependent/polyadenylation-independent 3′-processing apparatus. EMBO J. 19 (2000) 6218-6229
19. Ferreira-Cerca S., Poll G., Kuhn H., Neueder A., Jakob S., Tschochner H., and Milkereit P. Analysis of the in vivo assembly pathway of eukaryotic 40S ribosomal proteins. Mol. Cell 28 (2007) 446-457
20. Garas M., Dichtl B., and Keller W. The role of the putative 3′ end processing endonuclease Ysh1p in mRNA and snoRNA synthesis. RNA 14 (2008) 2671-2684
21. Grzechnik P., and Kufel J. Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast. Mol. Cell 32 (2008) 247-258
22. Hirose Y., and Manley J.L. RNA polymerase II and the integration of nuclear events. Genes Dev. 14 (2000) 1415-1429
23. Houseley J., and Tollervey D. Yeast Trf5p is a nuclear poly(A) polymerase. EMBO Rep. 7 (2006) 205-211
24. Houseley J., LaCava J., and Tollervey D. RNA-quality control by the exosome. Nat. Rev. Mol. Cell Biol. 7 (2006) 529-539
25. Ibrahim H., Wilusz J., and Wilusz C.J. RNA recognition by 3′-to-5′ exonucleases: the substrate perspective. Biochim. Biophys. Acta 1779 (2008) 256-265
26. Kadaba S., Wang X., and Anderson J.T. Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4p-dependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA. RNA 12 (2006) 508-521
27. Kerwitz Y., Kuhn U., Lilie H., Knoth A., Scheuermann T., Friedrich H., Schwarz E., and Wahle E. Stimulation of poly(A) polymerase through a direct interaction with the nuclear poly(A) binding protein allosterically regulated by RNA. EMBO J. 22 (2003) 3705-3714
28. Kim M., Ahn S.H., Krogan N.J., Greenblatt J.F., and Buratowski S. Transitions in RNA polymerase II elongation complexes at the 3′ ends of genes. EMBO J. 23 (2004) 354-364
29. Kim M., Vasiljeva L., Rando O.J., Zhelkovsky A., Moore C., and Buratowski S. Distinct pathways for snoRNA and mRNA termination. Mol. Cell 24 (2006) 723-734
30. Kiss T., Fayet E., Jady B.E., Richard P., and Weber M. Biogenesis and intranuclear trafficking of human box C/D and H/ACA RNPs. Cold Spring Harb. Symp. Quant. Biol. 71 (2006) 407-417
31. Kuhn U., and Wahle E. Structure and function of poly(A) binding proteins. Biochim. Biophys. Acta 1678 (2004) 67-84
32. LaCava J., Houseley J., Saveanu C., Petfalski E., Thompson E., Jacquier A., and Tollervey D. RNA degradation by the exosome is promoted by a nuclear polyadenylation complex. Cell 121 (2005) 713-724
33. Lackner D.H., Beilharz T.H., Marguerat S., Mata J., Watt S., Schubert F., Preiss T., and Bahler J. A network of multiple regulatory layers shapes gene expression in fission yeast. Mol. Cell 26 (2007) 145-155
34. Lebreton A., and Seraphin B. Exosome-mediated quality control: substrate recruitment and molecular activity. Biochim. Biophys. Acta 1779 (2008) 558-565
35. Lemieux C., and Bachand F. Cotranscriptional recruitment of the nuclear poly(A)-binding protein Pab2 to nascent transcripts and association with translating mRNPs. Nucleic Acids Res. 37 (2009) 3418-3430
36. Liu Q., Greimann J.C., and Lima C.D. Reconstitution, activities, and structure of the eukaryotic RNA exosome. Cell 127 (2006) 1223-1237
37. Mangus D.A., Evans M.C., and Jacobson A. Poly(A)-binding proteins: multifunctional scaffolds for the post-transcriptional control of gene expression. Genome Biol. 4 (2003) 223
38. Milligan L., Torchet C., Allmang C., Shipman T., and Tollervey D. A nuclear surveillance pathway for mRNAs with defective polyadenylation. Mol. Cell. Biol. 25 (2005) 9996-10004
39. Mitchell P., Petfalski E., Houalla R., Podtelejnikov A., Mann M., and Tollervey D. Rrp47p is an exosome-associated protein required for the 3′ processing of stable RNAs. Mol. Cell. Biol. 23 (2003) 6982-6992
40. Murakami H., Goto D.B., Toda T., Chen E.S., Grewal S.I., Martienssen R.A., and Yanagida M. Ribonuclease activity of Dis3 is required for mitotic progression and provides a possible link between heterochromatin and kinetochore function. PLoS ONE 2 (2007) e317 10.1371/journal.pone.0000317
41. Perreault A., Lemieux C., and Bachand F. Regulation of the nuclear poly(A)-binding protein by arginine methylation in fission yeast. J. Biol. Chem. 282 (2007) 7552-7562
42. Perreault A., Bellemer C., and Bachand F. Nuclear export competence of pre-40S subunits in fission yeast requires the ribosomal protein Rps2. Nucleic Acids Res. 36 (2008) 6132-6142
43. Proudfoot N. New perspectives on connecting messenger RNA 3′ end formation to transcription. Curr. Opin. Cell Biol. 16 (2004) 272-278
44. Reichow S.L., Hamma T., Ferre-D'Amare A.R., and Varani G. The structure and function of small nucleolar ribonucleoproteins. Nucleic Acids Res. 35 (2007) 1452-1464
45. Saguez C., Schmid M., Olesen J.R., Ghazy M.A., Qu X., Poulsen M.B., Nasser T., Moore C., and Jensen T.H. Nuclear mRNA surveillance in THO/sub2 mutants is triggered by inefficient polyadenylation. Mol. Cell 31 (2008) 91-103
46. Schmid M., and Jensen T.H. The exosome: a multipurpose RNA-decay machine. Trends Biochem. Sci. 33 (2008) 501-510
47. Steinmetz E.J., Conrad N.K., Brow D.A., and Corden J.L. RNA-binding protein Nrd1 directs poly(A)-independent 3′-end formation of RNA polymerase II transcripts. Nature 413 (2001) 327-331
48. Steinmetz E.J., Warren C.L., Kuehner J.N., Panbehi B., Ansari A.Z., and Brow D.A. Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase. Mol. Cell 24 (2006) 735-746
49. Tardiff D.F., Lacadie S.A., and Rosbash M. A genome-wide analysis indicates that yeast pre-mRNA splicing is predominantly posttranscriptional. Mol. Cell 24 (2006) 917-929
50. Thiebaut M., Kisseleva-Romanova E., Rougemaille M., Boulay J., and Libri D. Transcription termination and nuclear degradation of cryptic unstable transcripts: a role for the nrd1-nab3 pathway in genome surveillance. Mol. Cell 23 (2006) 853-864
51. Tusher V.G., Tibshirani R., and Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc. Natl. Acad. Sci. USA 98 (2001) 5116-5121
52. Vanacova S., and Stefl R. The exosome and RNA quality control in the nucleus. EMBO Rep. 8 (2007) 651-657
53. Vanacova S., Wolf J., Martin G., Blank D., Dettwiler S., Friedlein A., Langen H., Keith G., and Keller W. A new yeast poly(A) polymerase complex involved in RNA quality control. PLoS Biol. 3 (2005) e189 10.1371/journal.pbio.0030189
54. van Hoof A., Lennertz P., and Parker R. Yeast exosome mutants accumulate 3′-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs. Mol. Cell. Biol. 20 (2000) 441-452
55. Vasiljeva L., and Buratowski S. Nrd1 interacts with the nuclear exosome for 3′ processing of RNA polymerase II transcripts. Mol. Cell 21 (2006) 239-248
56. Vasiljeva L., Kim M., Terzi N., Soares L.M., and Buratowski S. Transcription termination and RNA degradation contribute to silencing of RNA polymerase II transcription within heterochromatin. Mol. Cell 29 (2008) 313-323
57. Wahle E. A novel poly(A)-binding protein acts as a specificity factor in the second phase of messenger RNA polyadenylation. Cell 66 (1991) 759-768
58. Wahle E. Poly(A) tail length control is caused by termination of processive synthesis. J. Biol. Chem. 270 (1995) 2800-2808
59. Wang S.W., Stevenson A.L., Kearsey S.E., Watt S., and Bahler J. Global role for polyadenylation-assisted nuclear RNA degradation in posttranscriptional gene silencing. Mol. Cell. Biol. 28 (2008) 656-665
60. West S., Gromak N., Norbury C.J., and Proudfoot N.J. Adenylation and exosome-mediated degradation of cotranscriptionally cleaved pre-messenger RNA in human cells. Mol. Cell 21 (2006) 437-443
61. Wilhelm B.T., Marguerat S., Watt S., Schubert F., Wood V., Goodhead I., Penkett C.J., Rogers J., and Bahler J. Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution. Nature 453 (2008) 1239-1243
62. Win T.Z., Draper S., Read R.L., Pearce J., Norbury C.J., and Wang S.W. Requirement of fission yeast Cid14 in polyadenylation of rRNAs. Mol. Cell. Biol. 26 (2006) 1710-1721
63. Winstall E., Sadowski M., Kuhn U., Wahle E., and Sachs A.B. The Saccharomyces cerevisiae RNA-binding protein Rbp29 functions in cytoplasmic mRNA metabolism. J. Biol. Chem. 275 (2000) 21817-21826
64. Wyers F., Rougemaille M., Badis G., Rousselle J.C., Dufour M.E., Boulay J., Regnault B., Devaux F., Namane A., Seraphin B., et al. Cryptic pol II transcripts are degraded by a nuclear quality control pathway involving a new poly(A) polymerase. Cell 121 (2005) 725-737