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Volumn 18, Issue 10, 2012, Pages 1934-1945

Air proteins control differential TRAMP substrate specificity for nuclear RNA surveillance

Author keywords

Noncoding RNAs; Polyadenylation; RNA exosome; RNA surveillance; TRAMP complex

Indexed keywords

AIR1 PROTEIN; AIR2 PROTEIN; NUCLEAR RNA; RNA BINDING PROTEIN; TRAMP PROTEIN; UNCLASSIFIED DRUG;

EID: 84866606784     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.033431.112     Document Type: Article
Times cited : (25)

References (64)
  • 3
    • 0033119535 scopus 로고    scopus 로고
    • DNA polymerase beta-like nucleotidyl-transferase superfamily: Identification of three new families, classification and evolutionary history
    • Aravind L, Koonin EV. 1999. DNA polymerase beta-like nucleotidyl- transferase superfamily: Identification of three new families, classification and evolutionary history. Nucleic Acids Res 27: 1609-1618.
    • (1999) Nucleic Acids Res , vol.27 , pp. 1609-1618
    • Aravind, L.1    Koonin, E.V.2
  • 4
    • 33344478052 scopus 로고    scopus 로고
    • Regulation of yeast NRD1 expression by premature transcription termination
    • Arigo JT, Carroll KL, Ames JM, Corden JL. 2006. Regulation of yeast NRD1 expression by premature transcription termination. Mol Cell 21: 641-651.
    • (2006) Mol Cell , vol.21 , pp. 641-651
    • Arigo, J.T.1    Carroll, K.L.2    Ames, J.M.3    Corden, J.L.4
  • 5
    • 34250895717 scopus 로고    scopus 로고
    • Widespread use of poly(A) tail length control to accentuate expression of the yeast transcriptome
    • Beilharz TH, Preiss T. 2007. Widespread use of poly(A) tail length control to accentuate expression of the yeast transcriptome. RNA 13: 982-997.
    • (2007) RNA , vol.13 , pp. 982-997
    • Beilharz, T.H.1    Preiss, T.2
  • 6
    • 0028266818 scopus 로고
    • Evidence that the pathway of transferrin receptor mRNA degradation involves an endonucleolytic cleavage within the 3′ UTR and does not involve poly(A) tail shortening
    • Binder R, Horowitz JA, Basilion JP, Koeller DM, Klausner RD, Harford JB. 1994. Evidence that the pathway of transferrin receptor mRNA degradation involves an endonucleolytic cleavage within the 3′ UTR and does not involve poly(A) tail shortening. EMBO J 13: 1969-1980.
    • (1994) EMBO J , vol.13 , pp. 1969-1980
    • Binder, R.1    Horowitz, J.A.2    Basilion, J.P.3    Koeller, D.M.4    Klausner, R.D.5    Harford, J.B.6
  • 7
    • 0032557455 scopus 로고    scopus 로고
    • Rrp6p, the yeast homologue of the human PM-Scl 100-kDa autoantigen, is essential for efficient 5.8S rRNA 3′ end formation
    • Briggs MW, Burkard KT, Butler JS. 1998. Rrp6p, the yeast homologue of the human PM-Scl 100-kDa autoantigen, is essential for efficient 5.8S rRNA 3′ end formation. J Biol Chem 273: 13255-13263.
    • (1998) J Biol Chem , vol.273 , pp. 13255-13263
    • Briggs, M.W.1    Burkard, K.T.2    Butler, J.S.3
  • 8
    • 34249057729 scopus 로고    scopus 로고
    • RNAi-dependent and -independent RNA turnover mechanisms contribute to heterochromatic gene silencing
    • Buhler M, Haas W, Gygi SP, Moazed D. 2007. RNAi-dependent and -independent RNA turnover mechanisms contribute to heterochromatic gene silencing. Cell 129: 707-721.
    • (2007) Cell , vol.129 , pp. 707-721
    • Buhler, M.1    Haas, W.2    Gygi, S.P.3    Moazed, D.4
  • 9
    • 0033960962 scopus 로고    scopus 로고
    • A nuclear 3′-5′ exonuclease involved in mRNA degradation interacts with Poly(A) polymerase and the hnRNA protein Npl3p
    • Burkard KT, Butler JS. 2000. A nuclear 3′-5′ exonuclease involved in mRNA degradation interacts with Poly(A) polymerase and the hnRNA protein Npl3p. Mol Cell Biol 20: 604-616.
    • (2000) Mol Cell Biol , vol.20 , pp. 604-616
    • Burkard, K.T.1    Butler, J.S.2
  • 10
    • 57149094672 scopus 로고    scopus 로고
    • Evidence for core exosome independent function of the nuclear exoribonuclease Rrp6p
    • Callahan KP, Butler JS. 2008. Evidence for core exosome independent function of the nuclear exoribonuclease Rrp6p. Nucleic Acids Res 36: 6645-6655.
    • (2008) Nucleic Acids Res , vol.36 , pp. 6645-6655
    • Callahan, K.P.1    Butler, J.S.2
  • 12
    • 44349084822 scopus 로고    scopus 로고
    • The mRNA encoding the yeast ARE-binding protein Cth2 is generated by a novel 3′processing pathway
    • Ciais D, Bohnsack MT, Tollervey D. 2008. The mRNA encoding the yeast ARE-binding protein Cth2 is generated by a novel 3′processing pathway. Nucleic Acids Res 36: 3075-3084.
    • (2008) Nucleic Acids Res , vol.36 , pp. 3075-3084
    • Ciais, D.1    Bohnsack, M.T.2    Tollervey, D.3
  • 13
    • 0032481316 scopus 로고    scopus 로고
    • Dob1p (Mtr4p) is a putative ATP-dependent RNA helicase required for the 3′ end formation of 5.8S rRNA in Saccharomyces cerevisiae
    • de la Cruz J, Kressler D, Tollervey D, Linder P. 1998. Dob1p (Mtr4p) is a putative ATP-dependent RNA helicase required for the 3′ end formation of 5.8S rRNA in Saccharomyces cerevisiae. EMBO J 17: 1128-1140.
    • (1998) EMBO J , vol.17 , pp. 1128-1140
    • De La Cruz, J.1    Kressler, D.2    Tollervey, D.3    Linder, P.4
  • 14
    • 36049041612 scopus 로고    scopus 로고
    • RNA quality control in eukaryotes
    • Doma MK, Parker R. 2007. RNA quality control in eukaryotes. Cell 131: 660-668.
    • (2007) Cell , vol.131 , pp. 660-668
    • Doma, M.K.1    Parker, R.2
  • 15
    • 29844458585 scopus 로고    scopus 로고
    • Contributions of Trf4p- And Trf5p-dependent polyadenylation to the processing and degradative functions of the yeast nuclear exosome
    • Egecioglu DE, Henras AK, Chanfreau GF. 2006. Contributions of Trf4p- and Trf5p-dependent polyadenylation to the processing and degradative functions of the yeast nuclear exosome. RNA 12: 26-32.
    • (2006) RNA , vol.12 , pp. 26-32
    • Egecioglu, D.E.1    Henras, A.K.2    Chanfreau, G.F.3
  • 16
    • 10044286102 scopus 로고    scopus 로고
    • 5-Fluorouracil enhances exosome-dependent accumulation of polyadenylated rRNAs
    • Fang F, Hoskins J, Butler JS. 2004. 5-Fluorouracil enhances exosome-dependent accumulation of polyadenylated rRNAs. Mol Cell Biol 24: 10766-10776.
    • (2004) Mol Cell Biol , vol.24 , pp. 10766-10776
    • Fang, F.1    Hoskins, J.2    Butler, J.S.3
  • 17
    • 67650492477 scopus 로고    scopus 로고
    • Mechanisms of nuclear mRNA quality control
    • Fasken MB, Corbett AH. 2009. Mechanisms of nuclear mRNA quality control. RNA Biol 6: 237-241.
    • (2009) RNA Biol , vol.6 , pp. 237-241
    • Fasken, M.B.1    Corbett, A.H.2
  • 19
    • 53949109201 scopus 로고    scopus 로고
    • Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast
    • Grzechnik P, Kufel J. 2008. Polyadenylation linked to transcription termination directs the processing of snoRNA precursors in yeast. Mol Cell 32: 247-258.
    • (2008) Mol Cell , vol.32 , pp. 247-258
    • Grzechnik, P.1    Kufel, J.2
  • 20
    • 0037088811 scopus 로고    scopus 로고
    • A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast
    • doi: 10.1093/nar/30.6.e23
    • Gueldener U, Heinisch J, Koehler GJ, Voss D, Hegemann JH. 2002. A second set of loxP marker cassettes for Cre-mediated multiple gene knockouts in budding yeast. Nucleic Acids Res 30: e23. doi: 10.1093/nar/30.6.e23.
    • (2002) Nucleic Acids Res , vol.30
    • Gueldener, U.1    Heinisch, J.2    Koehler, G.J.3    Voss, D.4    Hegemann, J.H.5
  • 21
    • 77957014655 scopus 로고    scopus 로고
    • Structure and function of the polymerase core of TRAMP, a RNA surveillance complex
    • Hamill S, Wolin SL, Reinisch KM. 2010. Structure and function of the polymerase core of TRAMP, a RNA surveillance complex. Proc Natl Acad Sci 107: 15045-15050.
    • (2010) Proc Natl Acad Sci , vol.107 , pp. 15045-15050
    • Hamill, S.1    Wolin, S.L.2    Reinisch, K.M.3
  • 23
    • 50949097255 scopus 로고    scopus 로고
    • RNA-based 5-fluorouracil toxicity requires the pseudouridylation activity of Cbf5p
    • Hoskins J, Butler JS. 2008. RNA-based 5-fluorouracil toxicity requires the pseudouridylation activity of Cbf5p. Genetics 179: 323-330.
    • (2008) Genetics , vol.179 , pp. 323-330
    • Hoskins, J.1    Butler, J.S.2
  • 24
    • 33645739358 scopus 로고    scopus 로고
    • Yeast Trf5p is a nuclear poly(A) polymerase
    • Houseley J, Tollervey D. 2006. Yeast Trf5p is a nuclear poly(A) polymerase. EMBO Rep 7: 205-211.
    • (2006) EMBO Rep , vol.7 , pp. 205-211
    • Houseley, J.1    Tollervey, D.2
  • 26
    • 37149034478 scopus 로고    scopus 로고
    • Trf4 targets ncRNAs from telomeric and rDNA spacer regions and functions in rDNA copy number control
    • Houseley J, Kotovic K, El Hage A, Tollervey D. 2007. Trf4 targets ncRNAs from telomeric and rDNA spacer regions and functions in rDNA copy number control. EMBO J 26: 4996-5006.
    • (2007) EMBO J , vol.26 , pp. 4996-5006
    • Houseley, J.1    Kotovic, K.2    El Hage, A.3    Tollervey, D.4
  • 28
    • 0034693216 scopus 로고    scopus 로고
    • Novel RING finger proteins, Air1p and Air2p, interact with Hmt1p and inhibit the arginine methylation of Npl3p
    • Inoue K, Mizuno T, Wada K, Hagiwara M. 2000. Novel RING finger proteins, Air1p and Air2p, interact with Hmt1p and inhibit the arginine methylation of Npl3p. J Biol Chem 275: 32793-32799.
    • (2000) J Biol Chem , vol.275 , pp. 32793-32799
    • Inoue, K.1    Mizuno, T.2    Wada, K.3    Hagiwara, M.4
  • 29
    • 0021815518 scopus 로고
    • Properties of REP3: A cisacting locus required for stable propagation of the Saccharomyces cerevisiae plasmid 2mm circle
    • Jayaram M, Sutton A, Broach JR. 1985. Properties of REP3: A cisacting locus required for stable propagation of the Saccharomyces cerevisiae plasmid 2mm circle. Mol Cell Biol 5: 2466-2475.
    • (1985) Mol Cell Biol , vol.5 , pp. 2466-2475
    • Jayaram, M.1    Sutton, A.2    Broach, J.R.3
  • 30
    • 4143105544 scopus 로고    scopus 로고
    • Sitespecific recombination and partitioning systems in the stable high copy propagation of the 2μm yeast plasmid
    • Jayaram M, Mehta S, Uzri D, Voziyanov Y, Velmurugan S. 2004. Sitespecific recombination and partitioning systems in the stable high copy propagation of the 2μm yeast plasmid. Prog Nucleic Acid Res Mol Biol 77: 127-172.
    • (2004) Prog Nucleic Acid Res Mol Biol , vol.77 , pp. 127-172
    • Jayaram, M.1    Mehta, S.2    Uzri, D.3    Voziyanov, Y.4    Velmurugan, S.5
  • 32
    • 0038618744 scopus 로고    scopus 로고
    • EBNA1 partitions Epstein-Barr virus plasmids in yeast cells by attaching to human EBNA1-binding protein 2 on mitotic chromosomes
    • Kapoor P, Frappier L. 2003. EBNA1 partitions Epstein-Barr virus plasmids in yeast cells by attaching to human EBNA1-binding protein 2 on mitotic chromosomes. J Virol 77: 6946-6956.
    • (2003) J Virol , vol.77 , pp. 6946-6956
    • Kapoor, P.1    Frappier, L.2
  • 33
    • 0035862947 scopus 로고    scopus 로고
    • Reconstitution of Epstein-Barr virus-based plasmid partitioning in budding yeast
    • Kapoor P, Shire K, Frappier L. 2001. Reconstitution of Epstein-Barr virus-based plasmid partitioning in budding yeast. EMBO J 20: 222-230.
    • (2001) EMBO J , vol.20 , pp. 222-230
    • Kapoor, P.1    Shire, K.2    Frappier, L.3
  • 34
    • 1942452749 scopus 로고    scopus 로고
    • Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae
    • Kellis M, Birren BW, Lander ES. 2004. Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae. Nature 428: 617-624.
    • (2004) Nature , vol.428 , pp. 617-624
    • Kellis, M.1    Birren, B.W.2    Lander, E.S.3
  • 35
    • 2942614836 scopus 로고    scopus 로고
    • Polyadenylation of rRNA in Saccharomyces cerevisiae
    • Kuai L, Fang F, Butler JS, Sherman F. 2004. Polyadenylation of rRNA in Saccharomyces cerevisiae. Proc Natl Acad Sci 101: 8581-8586.
    • (2004) Proc Natl Acad Sci , vol.101 , pp. 8581-8586
    • Kuai, L.1    Fang, F.2    Butler, J.S.3    Sherman, F.4
  • 37
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • doi: 10.1186/gb-2009-10-3-r25
    • Langmead B, Trapnell C, Pop M, Salzberg SL. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25. doi: 10.1186/gb-2009-10-3-r25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 38
    • 21244437042 scopus 로고    scopus 로고
    • Multiple RNA surveillance pathways limit aberrant expression of iron uptake mRNAs and prevent iron toxicity in S. cerevisiae
    • Lee A, Henras AK, Chanfreau G. 2005. Multiple RNA surveillance pathways limit aberrant expression of iron uptake mRNAs and prevent iron toxicity in S. cerevisiae. Mol Cell 19: 39-51.
    • (2005) Mol Cell , vol.19 , pp. 39-51
    • Lee, A.1    Henras, A.K.2    Chanfreau, G.3
  • 42
  • 43
    • 0023661340 scopus 로고
    • Antagonistic controls regulate copy number of the yeast 2μ plasmid
    • Murray JA, Scarpa M, Rossi N, Cesareni G. 1987. Antagonistic controls regulate copy number of the yeast 2μ plasmid. EMBO J 6: 4205-4212.
    • (1987) EMBO J , vol.6 , pp. 4205-4212
    • Murray, J.A.1    Scarpa, M.2    Rossi, N.3    Cesareni, G.4
  • 44
    • 0026770680 scopus 로고
    • Conditional defect in mRNA 3′ end processing caused by a mutation in the gene for poly(A) polymerase
    • Patel D, Butler JS. 1992. Conditional defect in mRNA 3′ end processing caused by a mutation in the gene for poly(A) polymerase. Mol Cell Biol 12: 3297-3304.
    • (1992) Mol Cell Biol , vol.12 , pp. 3297-3304
    • Patel, D.1    Butler, J.S.2
  • 45
    • 0042834089 scopus 로고    scopus 로고
    • Contribution of domain structure to the RNA 3′ end processing and degradation functions of the nuclear exosome subunit Rrp6p
    • Phillips S, Butler JS. 2003. Contribution of domain structure to the RNA 3′ end processing and degradation functions of the nuclear exosome subunit Rrp6p. RNA 9: 1098-1107.
    • (2003) RNA , vol.9 , pp. 1098-1107
    • Phillips, S.1    Butler, J.S.2
  • 46
    • 11844257593 scopus 로고    scopus 로고
    • Coordinated remodeling of cellular metabolism during iron deficiency through targeted mRNA degradation
    • Puig S, Askeland E, Thiele DJ. 2005. Coordinated remodeling of cellular metabolism during iron deficiency through targeted mRNA degradation. Cell 120: 99-110.
    • (2005) Cell , vol.120 , pp. 99-110
    • Puig, S.1    Askeland, E.2    Thiele, D.J.3
  • 47
    • 44349183685 scopus 로고    scopus 로고
    • Cooperation of two mRNA-binding proteins drives metabolic adaptation to iron deficiency
    • Puig S, Vergara SV, Thiele DJ. 2008. Cooperation of two mRNA-binding proteins drives metabolic adaptation to iron deficiency. Cell Metab 7: 555-564.
    • (2008) Cell Metab , vol.7 , pp. 555-564
    • Puig, S.1    Vergara, S.V.2    Thiele, D.J.3
  • 48
    • 75249087100 scopus 로고    scopus 로고
    • EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
    • Robinson MD, McCarthy DJ, Smyth GK. 2010. edgeR: A Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26: 139-140.
    • (2010) Bioinformatics , vol.26 , pp. 139-140
    • Robinson, M.D.1    McCarthy, D.J.2    Smyth, G.K.3
  • 49
    • 14044265699 scopus 로고    scopus 로고
    • The nuclear exosome contributes to autogenous control of NAB2 mRNA levels
    • Roth KM, Wolf MK, Rossi M, Butler JS. 2005. The nuclear exosome contributes to autogenous control of NAB2 mRNA levels. Mol Cell Biol 25: 1577-1585.
    • (2005) Mol Cell Biol , vol.25 , pp. 1577-1585
    • Roth, K.M.1    Wolf, M.K.2    Rossi, M.3    Butler, J.S.4
  • 50
    • 66449135943 scopus 로고    scopus 로고
    • Regulation of NAB2 mRNA 3′-end formation requires the core exosome and the Trf4p component of the TRAMP complex
    • Roth KM, Byam J, Fang F, Butler JS. 2009. Regulation of NAB2 mRNA 3′-end formation requires the core exosome and the Trf4p component of the TRAMP complex. RNA 15: 1045-1058.
    • (2009) RNA , vol.15 , pp. 1045-1058
    • Roth, K.M.1    Byam, J.2    Fang, F.3    Butler, J.S.4
  • 52
    • 0037205292 scopus 로고    scopus 로고
    • Cid13 is a cytoplasmic poly(A) polymerase that regulates ribonucleotide reductase mRNA
    • Saitoh S, Chabes A, McDonald WH, Thelander L, Yates JR, Russell P. 2002. Cid13 is a cytoplasmic poly(A) polymerase that regulates ribonucleotide reductase mRNA. Cell 109: 563-573.
    • (2002) Cell , vol.109 , pp. 563-573
    • Saitoh, S.1    Chabes, A.2    McDonald, W.H.3    Thelander, L.4    Yates, J.R.5    Russell, P.6
  • 53
    • 68249083958 scopus 로고    scopus 로고
    • Distinct roles of non-canonical poly(A) polymerases in RNA metabolism
    • doi: 10.1371/journal.pgen.1000555.
    • San Paolo S, Vanacova S, Schenk L, Scherrer T, Blank D, Keller W, Gerber AP. 2009. Distinct roles of non-canonical poly(A) polymerases in RNA metabolism. PLoS Genet 5: e1000555. doi: 10.1371/journal.pgen.1000555.
    • (2009) PLoS Genet , vol.5
    • San Paolo, S.1    Vanacova, S.2    Schenk, L.3    Scherrer, T.4    Blank, D.5    Keller, W.6    Gerber, A.P.7
  • 54
    • 0025978949 scopus 로고
    • Getting started with yeast
    • Sherman F. 1991. Getting started with yeast. Methods Enzymol 194: 3-21.
    • (1991) Methods Enzymol , vol.194 , pp. 3-21
    • Sherman, F.1
  • 55
    • 0021886560 scopus 로고
    • Signals for transcription initiation and termination in the Saccharomyces cerevisiae plasmid 2μm circle
    • Sutton A, Broach JR. 1985. Signals for transcription initiation and termination in the Saccharomyces cerevisiae plasmid 2μm circle. Mol Cell Biol 5: 2770-2780.
    • (1985) Mol Cell Biol , vol.5 , pp. 2770-2780
    • Sutton, A.1    Broach, J.R.2
  • 57
    • 0033981301 scopus 로고    scopus 로고
    • Yeast exosome mutants accumulate 3′-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs
    • van Hoof A, Lennertz P, Parker R. 2000. Yeast exosome mutants accumulate 3′-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs. Mol Cell Biol 20: 441-452.
    • (2000) Mol Cell Biol , vol.20 , pp. 441-452
    • Van Hoof, A.1    Lennertz, P.2    Parker, R.3
  • 58
    • 0023812075 scopus 로고
    • Copy number and partition of the Saccharomyces cerevisiae 2mm plasmid controlled by transcription regulators
    • Veit BE, Fangman WL. 1988. Copy number and partition of the Saccharomyces cerevisiae 2mm plasmid controlled by transcription regulators. Mol Cell Biol 8: 4949-4957.
    • (1988) Mol Cell Biol , vol.8 , pp. 4949-4957
    • Veit, B.E.1    Fangman, W.L.2
  • 59
    • 37849048952 scopus 로고    scopus 로고
    • Global role for polyadenylation-assisted nuclear RNA degradation in posttranscriptional gene silencing
    • Wang SW, Stevenson AL, Kearsey SE, Watt S, Bahler J. 2008. Global role for polyadenylation-assisted nuclear RNA degradation in posttranscriptional gene silencing. Mol Cell Biol 28: 656-665.
    • (2008) Mol Cell Biol , vol.28 , pp. 656-665
    • Wang, S.W.1    Stevenson, A.L.2    Kearsey, S.E.3    Watt, S.4    Bahler, J.5
  • 60
    • 31544440417 scopus 로고    scopus 로고
    • Adenylation and exosome-mediated degradation of cotranscriptionally cleaved premessenger RNA in human cells
    • West S, Gromak N, Norbury CJ, Proudfoot NJ. 2006. Adenylation and exosome-mediated degradation of cotranscriptionally cleaved premessenger RNA in human cells. Mol Cell 21: 437-443.
    • (2006) Mol Cell , vol.21 , pp. 437-443
    • West, S.1    Gromak, N.2    Norbury, C.J.3    Proudfoot, N.J.4
  • 62
    • 79955587252 scopus 로고    scopus 로고
    • The nuclear RNA polymerase II surveillance system targets polymerase III transcripts
    • Wlotzka W, Kudla G, Granneman S, Tollervey D. 2011. The nuclear RNA polymerase II surveillance system targets polymerase III transcripts. EMBO J 30: 1790-1803.
    • (2011) EMBO J , vol.30 , pp. 1790-1803
    • Wlotzka, W.1    Kudla, G.2    Granneman, S.3    Tollervey, D.4


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