메뉴 건너뛰기




Volumn 42, Issue 7, 2014, Pages 4348-4362

Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY RNA; HDA1 PROTEIN; HISTONE DEACETYLASE; HISTONE METHYLTRANSFERASE; NAB3 PROTEIN; NRD1 PROTEIN; REGULATOR PROTEIN; RNA BINDING PROTEIN; RPD3 PROTEIN; RRP6 PROTEIN; SEN1 PROTEIN; SET1 PROTEIN; TRANSCRIPTOME; UNCLASSIFIED DRUG;

EID: 84898982878     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gku100     Document Type: Article
Times cited : (43)

References (58)
  • 1
    • 84859335229 scopus 로고    scopus 로고
    • A pre-initiation complex at the 3′-end of genes drives antisense transcription independent of divergent sense transcription
    • Murray, S.C., Serra Barros, A., Brown, D.A., Dudek, P., Ayling, J. and Mellor, J. (2011) A pre-initiation complex at the 3′-end of genes drives antisense transcription independent of divergent sense transcription. Nucleic Acids Res, 40, 2432-2444.
    • (2011) Nucleic Acids Res , vol.40 , pp. 2432-2444
    • Murray, S.C.1    Serra Barros, A.2    Brown, D.A.3    Dudek, P.4    Ayling, J.5    Mellor, J.6
  • 2
    • 60549114880 scopus 로고    scopus 로고
    • Widespread bidirectional promoters are the major source of cryptic transcripts in yeast
    • Neil, H., Malabat, C., d'Aubenton-Carafa, Y., Xu, Z., Steinmetz, L.M. and Jacquier, A. (2009) Widespread bidirectional promoters are the major source of cryptic transcripts in yeast. Nature, 457, 1038-1042.
    • (2009) Nature , vol.457 , pp. 1038-1042
    • Neil, H.1    Malabat, C.2    D'Aubenton-Carafa, Y.3    Xu, Z.4    Steinmetz, L.M.5    Jacquier, A.6
  • 4
    • 33748424364 scopus 로고    scopus 로고
    • Termination of Cryptic Unstable Transcripts Is Directed by Yeast RNA-Binding Proteins Nrd1 and Nab3
    • DOI 10.1016/j.molcel.2006.07.024, PII S1097276506005259
    • Arigo, J.T., Eyler, D.E., Carroll, K.L. and Corden, J.L. (2006) Termination of cryptic unstable transcripts is directed by yeast RNA-binding proteins Nrd1 and Nab3. Mol. Cell, 23, 841-851. (Pubitemid 44344519)
    • (2006) Molecular Cell , vol.23 , Issue.6 , pp. 841-851
    • Arigo, J.T.1    Eyler, D.E.2    Carroll, K.L.3    Corden, J.L.4
  • 5
    • 33748435751 scopus 로고    scopus 로고
    • Transcription Termination and Nuclear Degradation of Cryptic Unstable Transcripts: A Role for the Nrd1-Nab3 Pathway in Genome Surveillance
    • DOI 10.1016/j.molcel.2006.07.029, PII S1097276506005314
    • Thiebaut, M., Kisseleva-Romanova, E., Rougemaille, M., Boulay, J. and Libri, D. (2006) Transcription termination and nuclear degradation of cryptic unstable transcripts: a role for the nrd1-nab3 pathway in genome surveillance. Mol. Cell, 23, 853-864. (Pubitemid 44344521)
    • (2006) Molecular Cell , vol.23 , Issue.6 , pp. 853-864
    • Thiebaut, M.1    Kisseleva-Romanova, E.2    Rougemaille, M.3    Boulay, J.4    Libri, D.5
  • 6
    • 30744467674 scopus 로고    scopus 로고
    • Nrd1 interacts with the nuclear exosome for 3′ processing of RNA polymerase II transcripts
    • DOI 10.1016/j.molcel.2005.11.028, PII S1097276505018162
    • Vasiljeva, L. and Buratowski, S. (2006) Nrd1 interacts with the nuclear exosome for 3′ processing of RNA polymerase II transcripts. Mol. Cell, 21, 239-248. (Pubitemid 43099939)
    • (2006) Molecular Cell , vol.21 , Issue.2 , pp. 239-248
    • Vasiljeva, L.1    Buratowski, S.2
  • 7
    • 49449105283 scopus 로고    scopus 로고
    • Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice
    • Gudipati, R.K., Villa, T., Boulay, J. and Libri, D. (2008) Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice. Nat. Struct. Mol. Biol., 15, 786-794.
    • (2008) Nat. Struct. Mol. Biol. , vol.15 , pp. 786-794
    • Gudipati, R.K.1    Villa, T.2    Boulay, J.3    Libri, D.4
  • 10
    • 49449110180 scopus 로고    scopus 로고
    • The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain
    • Vasiljeva, L., Kim, M., Mutschler, H., Buratowski, S. and Meinhart, A. (2008) The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain. Nat. Struct. Mol. Biol., 15, 795-804.
    • (2008) Nat. Struct. Mol. Biol. , vol.15 , pp. 795-804
    • Vasiljeva, L.1    Kim, M.2    Mutschler, H.3    Buratowski, S.4    Meinhart, A.5
  • 11
    • 70449953975 scopus 로고    scopus 로고
    • The complex eukaryotic transcriptome: Unexpected pervasive transcription and novel small RNAs
    • Jacquier, A. (2009) The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs. Nat. Rev., 10, 833-844.
    • (2009) Nat. Rev. , vol.10 , pp. 833-844
    • Jacquier, A.1
  • 12
    • 3042796191 scopus 로고    scopus 로고
    • Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts
    • DOI 10.1128/MCB.24.14.6241-6252.2004
    • Carroll, K.L., Pradhan, D.A., Granek, J.A., Clarke, N.D. and Corden, J.L. (2004) Identification of cis elements directing termination of yeast nonpolyadenylated snoRNA transcripts. Mol. Cell. Biol., 24, 6241-6252. (Pubitemid 38891126)
    • (2004) Molecular and Cellular Biology , vol.24 , Issue.14 , pp. 6241-6252
    • Carroll, K.L.1    Pradhan, D.A.2    Granek, J.A.3    Clarke, N.D.4    Corden, J.L.5
  • 13
    • 80054759888 scopus 로고    scopus 로고
    • Transcriptome-wide binding sites for components of the Saccharomyces cerevisiae non-poly(A) termination pathway: Nrd1, Nab3, and Sen1
    • Creamer, T.J., Darby, M.M., Jamonnak, N., Schaughency, P., Hao, H., Wheelan, S.J. and Corden, J.L. (2011) Transcriptome-wide binding sites for components of the Saccharomyces cerevisiae non-poly(A) termination pathway: Nrd1, Nab3, and Sen1. PLoS Genet., 7, e1002329.
    • (2011) PLoS Genet. , vol.7
    • Creamer, T.J.1    Darby, M.M.2    Jamonnak, N.3    Schaughency, P.4    Hao, H.5    Wheelan, S.J.6    Corden, J.L.7
  • 15
    • 79955587252 scopus 로고    scopus 로고
    • The nuclear RNA polymerase II surveillance system targets polymerase III transcripts
    • Wlotzka, W., Kudla, G., Granneman, S. and 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
  • 17
    • 80053569699 scopus 로고    scopus 로고
    • Pervasive transcription-Lessons from yeast
    • Tisseur, M., Kwapisz, M. and Morillon, A. (2011) Pervasive transcription-Lessons from yeast. Biochimie, 93, 1889-1896.
    • (2011) Biochimie , vol.93 , pp. 1889-1896
    • Tisseur, M.1    Kwapisz, M.2    Morillon, A.3
  • 19
    • 2942560254 scopus 로고    scopus 로고
    • Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene
    • DOI 10.1038/nature02538
    • Martens, J.A., Laprade, L. and Winston, F. (2004) Intergenic transcription is required to repress the Saccharomyces cerevisiae SER3 gene. Nature, 429, 571-574. (Pubitemid 38737662)
    • (2004) Nature , vol.429 , Issue.6991 , pp. 571-574
    • Martens, J.A.1    Laprade, L.2    Winston, F.3
  • 20
    • 27744533201 scopus 로고    scopus 로고
    • Regulation of an intergenic transcript controls adjacent gene transcription in Saccharomyces cerevisiae
    • DOI 10.1101/gad.1367605
    • Martens, J.A., Wu, P.Y. and Winston, F. (2005) Regulation of an intergenic transcript controls adjacent gene transcription in Saccharomyces cerevisiae. Genes Dev., 19, 2695-2704. (Pubitemid 41627936)
    • (2005) Genes and Development , vol.19 , Issue.22 , pp. 2695-2704
    • Martens, J.A.1    Wu, P.-Y.J.2    Winston, F.3
  • 22
    • 33750814968 scopus 로고    scopus 로고
    • Antisense Transcription Controls Cell Fate in Saccharomyces cerevisiae
    • DOI 10.1016/j.cell.2006.09.038, PII S0092867406013006
    • Hongay, C.F., Grisafi, P.L., Galitski, T. and Fink, G.R. (2006) Antisense transcription controls cell fate in Saccharomyces cerevisiae. Cell, 127, 735-745. (Pubitemid 44716254)
    • (2006) Cell , vol.127 , Issue.4 , pp. 735-745
    • Hongay, C.F.1    Grisafi, P.L.2    Galitski, T.3    Fink, G.R.4
  • 23
    • 56849093493 scopus 로고    scopus 로고
    • A ncRNA modulates histone modification and mRNA induction in the yeast GAL gene cluster
    • Houseley, J., Rubbi, L., Grunstein, M., Tollervey, D. and Vogelauer, M. (2008) A ncRNA modulates histone modification and mRNA induction in the yeast GAL gene cluster. Mol. Cell, 32, 685-695.
    • (2008) Mol. Cell , vol.32 , pp. 685-695
    • Houseley, J.1    Rubbi, L.2    Grunstein, M.3    Tollervey, D.4    Vogelauer, M.5
  • 24
    • 67649550089 scopus 로고    scopus 로고
    • H3 lysine 4 di-and tri-methylation deposited by cryptic transcription attenuates promoter activation
    • Pinskaya, M., Gourvennec, S. and Morillon, A. (2009) H3 lysine 4 di-and tri-methylation deposited by cryptic transcription attenuates promoter activation. EMBO J., 28, 1697-1707.
    • (2009) EMBO J. , vol.28 , pp. 1697-1707
    • Pinskaya, M.1    Gourvennec, S.2    Morillon, A.3
  • 26
    • 64249111489 scopus 로고    scopus 로고
    • Dimethylation of H3K4 by Set1 recruits the Set3 histone deacetylase complex to 5′ transcribed regions
    • Kim, T. and Buratowski, S. (2009) Dimethylation of H3K4 by Set1 recruits the Set3 histone deacetylase complex to 5′ transcribed regions. Cell, 137, 259-272.
    • (2009) Cell , vol.137 , pp. 259-272
    • Kim, T.1    Buratowski, S.2
  • 27
    • 84856782922 scopus 로고    scopus 로고
    • Decapping of long noncoding RNAs regulates inducible genes
    • Geisler, S., Lojek, L., Khalil, A.M., Baker, K.E. and Coller, J. (2012) Decapping of long noncoding RNAs regulates inducible genes. Mol. Cell, 45, 279-291.
    • (2012) Mol. Cell , vol.45 , pp. 279-291
    • Geisler, S.1    Lojek, L.2    Khalil, A.M.3    Baker, K.E.4    Coller, J.5
  • 29
    • 36048951040 scopus 로고    scopus 로고
    • Antisense RNA Stabilization Induces Transcriptional Gene Silencing via Histone Deacetylation in S cerevisiae
    • DOI 10.1016/j.cell.2007.09.014, PII S0092867407012019
    • Camblong, J., Iglesias, N., Fickentscher, C., Dieppois, G. and Stutz, F. (2007) Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S cerevisiae. Cell, 131, 706-717. (Pubitemid 350087198)
    • (2007) Cell , vol.131 , Issue.4 , pp. 706-717
    • Camblong, J.1    Iglesias, N.2    Fickentscher, C.3    Dieppois, G.4    Stutz, F.5
  • 30
    • 67649666831 scopus 로고    scopus 로고
    • Trans-acting antisense RNAs mediate transcriptional gene cosuppression in S cerevisiae
    • Camblong, J., Beyrouthy, N., Guffanti, E., Schlaepfer, G., Steinmetz, L.M. and Stutz, F. (2009) Trans-acting antisense RNAs mediate transcriptional gene cosuppression in S cerevisiae. Genes Dev., 23, 1534-1545.
    • (2009) Genes Dev. , vol.23 , pp. 1534-1545
    • Camblong, J.1    Beyrouthy, N.2    Guffanti, E.3    Schlaepfer, G.4    Steinmetz, L.M.5    Stutz, F.6
  • 32
    • 2942561052 scopus 로고    scopus 로고
    • Genome-wide analysis of mRNA stability using transcription inhibitors and microarrays reveals posttranscriptional control of ribosome biogenesis factors
    • DOI 10.1128/MCB.24.12.5534-5547.2004
    • Grigull, J., Mnaimneh, S., Pootoolal, J., Robinson, M.D. and Hughes, T.R. (2004) Genome-wide analysis of mRNA stability using transcription inhibitors and microarrays reveals posttranscriptional control of ribosome biogenesis factors. Mol. Cell. Biol., 24, 5534-5547. (Pubitemid 38738184)
    • (2004) Molecular and Cellular Biology , vol.24 , Issue.12 , pp. 5534-5547
    • Grigull, J.1    Mnaimneh, S.2    Pootoolal, J.3    Robinson, M.D.4    Hughes, T.R.5
  • 33
    • 52049084405 scopus 로고    scopus 로고
    • The anchor-away technique: Rapid, conditional establishment of yeast mutant phenotypes
    • Haruki, H., Nishikawa, J. and Laemmli, U.K. (2008) The anchor-away technique: rapid, conditional establishment of yeast mutant phenotypes. Mol. Cell, 31, 925-932.
    • (2008) Mol. Cell , vol.31 , pp. 925-932
    • Haruki, H.1    Nishikawa, J.2    Laemmli, U.K.3
  • 35
    • 1542328960 scopus 로고    scopus 로고
    • Identification and distinct regulation of yeast TATA box-containing genes
    • DOI 10.1016/S0092-8674(04)00205-3, PII S0092867404002053
    • Basehoar, A.D., Zanton, S.J. and Pugh, B.F. (2004) Identification and distinct regulation of yeast TATA box-containing genes. Cell, 116, 699-709. (Pubitemid 38326728)
    • (2004) Cell , vol.116 , Issue.5 , pp. 699-709
    • Basehoar, A.D.1    Zanton, S.J.2    Pugh, B.F.3
  • 36
    • 84855306788 scopus 로고    scopus 로고
    • A genomic model of condition-specific nucleosome behavior explains transcriptional activity in yeast
    • Zaugg, J.B. and Luscombe, N.M. (2012) A genomic model of condition-specific nucleosome behavior explains transcriptional activity in yeast. Genome Res., 22, 84-94.
    • (2012) Genome Res. , vol.22 , pp. 84-94
    • Zaugg, J.B.1    Luscombe, N.M.2
  • 40
  • 42
    • 3142590372 scopus 로고    scopus 로고
    • Set1 is required for meiotic S-phase onset, double-strand break formation and middle gene expression
    • DOI 10.1038/sj.emboj.7600204
    • Sollier, J., Lin, W., Soustelle, C., Suhre, K., Nicolas, A., Geli, V. and de La Roche Saint-Andre, C. (2004) Set1 is required for meiotic S-phase onset, double-strand break formation and middle gene expression. EMBO J., 23, 1957-1967. (Pubitemid 38902074)
    • (2004) EMBO Journal , vol.23 , Issue.9 , pp. 1957-1967
    • Sollier, J.1    Lin, W.2    Soustelle, C.3    Suhre, K.4    Nicolas, A.5    Geli, V.6    De La Roche Saint-Andre, C.7
  • 44
    • 0038601738 scopus 로고    scopus 로고
    • Saccharomyces cerevisiae Set1 p is a methyltransferase specific for lysine 4 of histone H3 and is required for efficient gene expression
    • DOI 10.1002/yea.995
    • Boa, S., Coert, C. and Patterton, H.G. (2003) Saccharomyces cerevisiae Set1p is a methyltransferase specific for lysine 4 of histone H3 and is required for efficient gene expression. Yeast, 20, 827-835. (Pubitemid 36850048)
    • (2003) Yeast , vol.20 , Issue.9 , pp. 827-835
    • Boa, S.1    Coert, C.2    Patterton, H.-G.3
  • 49
    • 84860848751 scopus 로고    scopus 로고
    • Yeast Swd2 is essential because of antagonism between Set1 histone methyltransferase complex and APT (associated with Pta1) termination factor
    • Soares, L.M. and Buratowski, S. (2012) Yeast Swd2 is essential because of antagonism between Set1 histone methyltransferase complex and APT (associated with Pta1) termination factor. J. Biol. Chem., 287, 15219-15231.
    • (2012) J. Biol. Chem. , vol.287 , pp. 15219-15231
    • Soares, L.M.1    Buratowski, S.2
  • 50
  • 51
    • 84866392310 scopus 로고    scopus 로고
    • Set3 HDAC mediates effects of overlapping noncoding transcription on gene induction kinetics
    • Kim, T., Xu, Z., Clauder-Munster, S., Steinmetz, L.M. and Buratowski, S. (2012) Set3 HDAC mediates effects of overlapping noncoding transcription on gene induction kinetics. Cell, 150, 1158-1169.
    • (2012) Cell , vol.150 , pp. 1158-1169
    • Kim, T.1    Xu, Z.2    Clauder-Munster, S.3    Steinmetz, L.M.4    Buratowski, S.5
  • 53
    • 43449096915 scopus 로고    scopus 로고
    • Chromatin decouples promoter threshold from dynamic range
    • DOI 10.1038/nature06867, PII NATURE06867
    • Lam, F.H., Steger, D.J. and O'Shea, E.K. (2008) Chromatin decouples promoter threshold from dynamic range. Nature, 453, 246-250. (Pubitemid 351667976)
    • (2008) Nature , vol.453 , Issue.7192 , pp. 246-250
    • Lam, F.H.1    Steger, D.J.2    O'Shea, E.K.3
  • 54
    • 84869083002 scopus 로고    scopus 로고
    • RNA polymerase II collision interrupts convergent transcription
    • Hobson, D.J., Wei, W., Steinmetz, L.M. and Svejstrup, J.Q. (2012) RNA polymerase II collision interrupts convergent transcription. Mol. Cell, 48, 365-374.
    • (2012) Mol. Cell , vol.48 , pp. 365-374
    • Hobson, D.J.1    Wei, W.2    Steinmetz, L.M.3    Svejstrup, J.Q.4
  • 55
    • 84861381437 scopus 로고    scopus 로고
    • The S cerevisiae Nrd1-Nab3 transcription termination pathway acts in opposition to ras signaling and mediates response to nutrient depletion
    • Darby, M.M., Serebreni, L., Pan, X., Boeke, J.D. and Corden, J.L. (2012) The S cerevisiae Nrd1-Nab3 transcription termination pathway acts in opposition to ras signaling and mediates response to nutrient depletion. Mol. Cell. Biol, 32, 1762-1775.
    • (2012) Mol. Cell. Biol , vol.32 , pp. 1762-1775
    • Darby, M.M.1    Serebreni, L.2    Pan, X.3    Boeke, J.D.4    Corden, J.L.5
  • 57
    • 33845751052 scopus 로고    scopus 로고
    • Cytoplasmic decay of intergenic transcripts in Saccharomyces cerevisiae
    • DOI 10.1128/MCB.01023-06
    • Thompson, D.M. and Parker, R. (2007) Cytoplasmic decay of intergenic transcripts in Saccharomyces cerevisiae. Mol. Cell. Biol., 27, 92-101. (Pubitemid 46013235)
    • (2007) Molecular and Cellular Biology , vol.27 , Issue.1 , pp. 92-101
    • Thompson, D.M.1    Parker, R.2
  • 58
    • 69249217649 scopus 로고    scopus 로고
    • Regulatory roles of natural antisense transcripts
    • Faghihi, M.A. and Wahlestedt, C. (2009) Regulatory roles of natural antisense transcripts. Nat. Rev. Mol. Cell Biol., 10, 637-643.
    • (2009) Nat. Rev. Mol. Cell Biol. , vol.10 , pp. 637-643
    • Faghihi, M.A.1    Wahlestedt, C.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.