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Volumn 10, Issue 3, 2014, Pages

Chromatin Targeting Signals, Nucleosome Positioning Mechanism and Non-Coding RNA-Mediated Regulation of the Chromatin Remodeling Complex NoRC

Author keywords

[No Author keywords available]

Indexed keywords

EXODEOXYRIBONUCLEASE III; NUCLEOLAR REMODELING COMPLEX; SCAFFOLD PROTEIN; THYROID TRANSCRIPTION FACTOR 1; UNCLASSIFIED DRUG; UNTRANSLATED RNA; ADENOSINE TRIPHOSPHATASE; CHROMATIN; HISTONE; MULTIPROTEIN COMPLEX; NUCLEAR PROTEIN; NUCLEOSOME; RIBOSOME RNA;

EID: 84897456541     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1004157     Document Type: Article
Times cited : (27)

References (42)
  • 1
    • 0027477501 scopus 로고
    • Multiple functions of nucleosomes and regulatory factors in transcription
    • doi: 10.1016/0968-0004(93)90160-O
    • Workman JL, Buchman AR, (1993) Multiple functions of nucleosomes and regulatory factors in transcription. Trends Biochem Sci 18: 90-95 doi:10.1016/0968-0004(93)90160-O.
    • (1993) Trends Biochem Sci , vol.18 , pp. 90-95
    • Workman, J.L.1    Buchman, A.R.2
  • 2
    • 0028445339 scopus 로고
    • Transcriptional activation. Switched-on chromatin
    • Wolffe AP, (1994) Transcriptional activation. Switched-on chromatin. Curr Biol 4: 525-528.
    • (1994) Curr Biol , vol.4 , pp. 525-528
    • Wolffe, A.P.1
  • 3
    • 67650725820 scopus 로고    scopus 로고
    • The biology of chromatin remodeling complexes
    • doi: 10.1146/annurev.biochem.77.062706.153223
    • Clapier CR, Cairns BR, (2009) The biology of chromatin remodeling complexes. Annu Rev Biochem 78: 273-304 doi:10.1146/annurev.biochem.77.062706.153223.
    • (2009) Annu Rev Biochem , vol.78 , pp. 273-304
    • Clapier, C.R.1    Cairns, B.R.2
  • 4
    • 84873301476 scopus 로고    scopus 로고
    • ISWI Remodelers Slide Nucleosomes with Coordinated Multi-Base-Pair Entry Steps and Single-Base-Pair Exit Steps
    • doi: 10.1016/j.cell.2012.12.040
    • Deindl S, Hwang WL, Hota SK, Blosser TR, Prasad P, et al. (2013) ISWI Remodelers Slide Nucleosomes with Coordinated Multi-Base-Pair Entry Steps and Single-Base-Pair Exit Steps. Cell 152: 442-452 doi:10.1016/j.cell.2012.12.040.
    • (2013) Cell , vol.152 , pp. 442-452
    • Deindl, S.1    Hwang, W.L.2    Hota, S.K.3    Blosser, T.R.4    Prasad, P.5
  • 5
    • 80052970429 scopus 로고    scopus 로고
    • Mechanisms for ATP-dependent chromatin remodelling: the means to the end
    • doi: 10.1111/j.1742-4658.2011.08281.x
    • Flaus A, Owen-Hughes T, (2011) Mechanisms for ATP-dependent chromatin remodelling: the means to the end. FEBS J 278: 3579-3595 doi:10.1111/j.1742-4658.2011.08281.x.
    • (2011) FEBS J , vol.278 , pp. 3579-3595
    • Flaus, A.1    Owen-Hughes, T.2
  • 6
    • 67650711140 scopus 로고    scopus 로고
    • Genome-wide views of chromatin structure
    • doi: 10.1146/annurev.biochem.78.071107.134639
    • Rando OJ, Chang HY, (2009) Genome-wide views of chromatin structure. Annu Rev Biochem 78: 245-271 doi:10.1146/annurev.biochem.78.071107.134639.
    • (2009) Annu Rev Biochem , vol.78 , pp. 245-271
    • Rando, O.J.1    Chang, H.Y.2
  • 7
    • 79956316470 scopus 로고    scopus 로고
    • A packing mechanism for nucleosome organization reconstituted across a eukaryotic genome
    • doi: 10.1126/science.1200508
    • Zhang Z, Wippo CJ, Wal M, Ward E, Korber P, et al. (2011) A packing mechanism for nucleosome organization reconstituted across a eukaryotic genome. Science 332: 977-980 doi:10.1126/science.1200508.
    • (2011) Science , vol.332 , pp. 977-980
    • Zhang, Z.1    Wippo, C.J.2    Wal, M.3    Ward, E.4    Korber, P.5
  • 8
    • 33845707730 scopus 로고    scopus 로고
    • NoRC-dependent nucleosome positioning silences rRNA genes
    • doi: 10.1038/sj.emboj.7601454
    • Li J, Längst G, Grummt I, (2006) NoRC-dependent nucleosome positioning silences rRNA genes. EMBO J 25: 5735-5741 doi:10.1038/sj.emboj.7601454.
    • (2006) EMBO J , vol.25 , pp. 5735-5741
    • Li, J.1    Längst, G.2    Grummt, I.3
  • 9
    • 35348984181 scopus 로고    scopus 로고
    • DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes
    • doi: 10.1073/pnas.0702430104
    • Rippe K, Schrader A, Riede P, Strohner R, Lehmann E, et al. (2007) DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes. Proc Natl Acad Sci USA 104: 15635-15640 doi:10.1073/pnas.0702430104.
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 15635-15640
    • Rippe, K.1    Schrader, A.2    Riede, P.3    Strohner, R.4    Lehmann, E.5
  • 10
    • 78650536985 scopus 로고    scopus 로고
    • Human ISWI chromatin-remodeling complexes sample nucleosomes via transient binding reactions and become immobilized at active sites
    • doi: 10.1073/pnas.1003438107
    • Erdel F, Schubert T, Marth C, Längst G, Rippe K, (2010) Human ISWI chromatin-remodeling complexes sample nucleosomes via transient binding reactions and become immobilized at active sites. Proc Natl Acad Sci USA 107: 19873-19878 doi:10.1073/pnas.1003438107.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 19873-19878
    • Erdel, F.1    Schubert, T.2    Marth, C.3    Längst, G.4    Rippe, K.5
  • 11
    • 33745122231 scopus 로고    scopus 로고
    • Identification of multiple distinct Snf2 subfamilies with conserved structural motifs
    • doi: 10.1093/nar/gkl295
    • Flaus A, Martin D, Barton G, Owen-Hughes T, (2006) Identification of multiple distinct Snf2 subfamilies with conserved structural motifs. Nucleic Acids Res 34: 2887-2905 doi:10.1093/nar/gkl295.
    • (2006) Nucleic Acids Res , vol.34 , pp. 2887-2905
    • Flaus, A.1    Martin, D.2    Barton, G.3    Owen-Hughes, T.4
  • 12
    • 84876079745 scopus 로고    scopus 로고
    • DNA looping facilitates targeting of a chromatin remodeling enzyme
    • doi: 10.1016/j.molcel.2013.02.005
    • Yadon AN, Singh BN, Hampsey M, Tsukiyama T, (2013) DNA looping facilitates targeting of a chromatin remodeling enzyme. Mol Cell 50: 93-103 doi:10.1016/j.molcel.2013.02.005.
    • (2013) Mol Cell , vol.50 , pp. 93-103
    • Yadon, A.N.1    Singh, B.N.2    Hampsey, M.3    Tsukiyama, T.4
  • 13
    • 80052656113 scopus 로고    scopus 로고
    • Targeting chromatin remodelers: signals and search mechanisms
    • doi: 10.1016/j.bbagrm.2011.06.005
    • Erdel F, Krug J, Längst G, Rippe K, (2011) Targeting chromatin remodelers: signals and search mechanisms. Biochim Biophys Acta 1809: 497-508 doi:10.1016/j.bbagrm.2011.06.005.
    • (2011) Biochim Biophys Acta , vol.1809 , pp. 497-508
    • Erdel, F.1    Krug, J.2    Längst, G.3    Rippe, K.4
  • 14
    • 0842347401 scopus 로고    scopus 로고
    • Recruitment of the nucleolar remodeling complex NoRC establishes ribosomal DNA silencing in chromatin
    • Strohner R, Németh A, Nightingale KP, Grummt I, Becker PB, et al. (2004) Recruitment of the nucleolar remodeling complex NoRC establishes ribosomal DNA silencing in chromatin. Mol Cell Biol 24: 1791-1798.
    • (2004) Mol Cell Biol , vol.24 , pp. 1791-1798
    • Strohner, R.1    Németh, A.2    Nightingale, K.P.3    Grummt, I.4    Becker, P.B.5
  • 15
    • 0035801407 scopus 로고    scopus 로고
    • NoRC-a novel member of mammalian ISWI-containing chromatin remodeling machines
    • doi: 10.1093/emboj/20.17.4892
    • Strohner R, Németh A, Jansa P, Hofmann-Rohrer U, Santoro R, et al. (2001) NoRC-a novel member of mammalian ISWI-containing chromatin remodeling machines. EMBO J 20: 4892-4900 doi:10.1093/emboj/20.17.4892.
    • (2001) EMBO J , vol.20 , pp. 4892-4900
    • Strohner, R.1    Németh, A.2    Jansa, P.3    Hofmann-Rohrer, U.4    Santoro, R.5
  • 16
    • 84875263916 scopus 로고    scopus 로고
    • Epigenetic control of RNA polymerase I transcription in mammalian cells
    • doi: 10.1016/j.bbagrm.2012.10.004
    • Grummt I, Längst G, (2013) Epigenetic control of RNA polymerase I transcription in mammalian cells. Biochim Biophys Acta 1829: 393-404 doi:10.1016/j.bbagrm.2012.10.004.
    • (2013) Biochim Biophys Acta , vol.1829 , pp. 393-404
    • Grummt, I.1    Längst, G.2
  • 17
    • 3242885608 scopus 로고    scopus 로고
    • The chromatin remodeling complex NoRC and TTF-I cooperate in the regulation of the mammalian rRNA genes in vivo
    • doi: 10.1093/nar/gkh732
    • Németh A, Strohner R, Grummt I, Längst G, (2004) The chromatin remodeling complex NoRC and TTF-I cooperate in the regulation of the mammalian rRNA genes in vivo. Nucleic Acids Res 32: 4091-4099 doi:10.1093/nar/gkh732.
    • (2004) Nucleic Acids Res , vol.32 , pp. 4091-4099
    • Németh, A.1    Strohner, R.2    Grummt, I.3    Längst, G.4
  • 18
    • 33646147563 scopus 로고    scopus 로고
    • Intergenic transcripts regulate the epigenetic state of rRNA genes
    • doi: 10.1016/j.molcel.2006.03.028
    • Mayer C, Schmitz K-M, Li J, Grummt I, Santoro R, (2006) Intergenic transcripts regulate the epigenetic state of rRNA genes. Mol Cell 22: 351-361 doi:10.1016/j.molcel.2006.03.028.
    • (2006) Mol Cell , vol.22 , pp. 351-361
    • Mayer, C.1    Schmitz, K.-M.2    Li, J.3    Grummt, I.4    Santoro, R.5
  • 19
    • 48649106585 scopus 로고    scopus 로고
    • The structure of NoRC-associated RNA is crucial for targeting the chromatin remodelling complex NoRC to the nucleolus
    • doi: 10.1038/embor.2008.109
    • Mayer C, Neubert M, Grummt I, (2008) The structure of NoRC-associated RNA is crucial for targeting the chromatin remodelling complex NoRC to the nucleolus. EMBO Rep 9: 774-780 doi:10.1038/embor.2008.109.
    • (2008) EMBO Rep , vol.9 , pp. 774-780
    • Mayer, C.1    Neubert, M.2    Grummt, I.3
  • 20
    • 0039837085 scopus 로고    scopus 로고
    • Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences
    • doi: 10.1006/jmbi.1999.2686, 1999
    • Thåström A, et al. (1999) Thåström A, Lowary PT, Widlund HR, Cao H, et al. (1999) Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences. J Mol Biol 288: 213-229 doi:10.1006/jmbi.1999.2686.
    • (1999) J Mol Biol , vol.288 , pp. 213-229
    • Thåström, A.1    Thåström, A.2    Lowary, P.T.3    Widlund, H.R.4    Cao, H.5
  • 21
    • 77956519705 scopus 로고    scopus 로고
    • DNA sequence encoded repression of rRNA gene transcription in chromatin
    • doi: 10.1093/nar/gkq263
    • Felle M, Exler JH, Merkl R, Dachauer K, Brehm A, et al. (2010) DNA sequence encoded repression of rRNA gene transcription in chromatin. Nucleic Acids Res 38: 5304-5314 doi:10.1093/nar/gkq263.
    • (2010) Nucleic Acids Res , vol.38 , pp. 5304-5314
    • Felle, M.1    Exler, J.H.2    Merkl, R.3    Dachauer, K.4    Brehm, A.5
  • 22
    • 0024584528 scopus 로고
    • Specific recognition of cruciform DNA by nuclear protein HMG1
    • Bianchi ME, Beltrame M, Paonessa G, (1989) Specific recognition of cruciform DNA by nuclear protein HMG1. Science 243: 1056-1059.
    • (1989) Science , vol.243 , pp. 1056-1059
    • Bianchi, M.E.1    Beltrame, M.2    Paonessa, G.3
  • 23
    • 0033603212 scopus 로고    scopus 로고
    • Nucleosome movement by CHRAC and ISWI without disruption or trans-displacement of the histone octamer
    • Längst G, Bonte EJ, Corona DFV, Becker PB, (1999) Nucleosome movement by CHRAC and ISWI without disruption or trans-displacement of the histone octamer. Cell 97: 843-852.
    • (1999) Cell , vol.97 , pp. 843-852
    • Längst, G.1    Bonte, E.J.2    Corona, D.F.V.3    Becker, P.B.4
  • 24
    • 0026630130 scopus 로고
    • Intrinsically bent DNA flanks both sides of an RNA polymerase I transcription start site. Both regions display novel electrophoretic mobility
    • Schroth GP, Siino JS, Cooney CA, Th'ng JP, Ho PS, et al. (1992) Intrinsically bent DNA flanks both sides of an RNA polymerase I transcription start site. Both regions display novel electrophoretic mobility. J Biol Chem 267: 9958-9964.
    • (1992) J Biol Chem , vol.267 , pp. 9958-9964
    • Schroth, G.P.1    Siino, J.S.2    Cooney, C.A.3    Th'ng, J.P.4    Ho, P.S.5
  • 25
    • 1842301048 scopus 로고    scopus 로고
    • Structural analysis of mouse rDNA: coincidence between nuclease hypersensitive sites, DNA curvature and regulatory elements in the intergenic spacer
    • Längst G, Schätz T, Langowski J, Grummt I, (1997) Structural analysis of mouse rDNA: coincidence between nuclease hypersensitive sites, DNA curvature and regulatory elements in the intergenic spacer. Nucleic Acids Res 25: 511-517.
    • (1997) Nucleic Acids Res , vol.25 , pp. 511-517
    • Längst, G.1    Schätz, T.2    Langowski, J.3    Grummt, I.4
  • 26
    • 0030810226 scopus 로고    scopus 로고
    • Curvature and sequence analysis of eukaryotic promoters
    • doi: 10.1080/07391102.1997.10508191
    • Schätz T, Langowski J, (1997) Curvature and sequence analysis of eukaryotic promoters. J Biomol Struct Dyn 15: 265-275 doi:10.1080/07391102.1997.10508191.
    • (1997) J Biomol Struct Dyn , vol.15 , pp. 265-275
    • Schätz, T.1    Langowski, J.2
  • 27
    • 79952279871 scopus 로고    scopus 로고
    • Dissecting chromatin interactions in living cells from protein mobility maps
    • doi: 10.1007/s10577-010-9155-6
    • Erdel F, Müller-Ott K, Baum M, Wachsmuth M, Rippe K, (2011) Dissecting chromatin interactions in living cells from protein mobility maps. Chromosome Res 19: 99-115 doi:10.1007/s10577-010-9155-6.
    • (2011) Chromosome Res , vol.19 , pp. 99-115
    • Erdel, F.1    Müller-Ott, K.2    Baum, M.3    Wachsmuth, M.4    Rippe, K.5
  • 28
    • 74149088040 scopus 로고    scopus 로고
    • Intergenic transcripts originating from a subclass of ribosomal DNA repeats silence ribosomal RNA genes in trans
    • doi: 10.1038/embor.2009.254
    • Santoro R, Schmitz K-M, Sandoval J, Grummt I, (2010) Intergenic transcripts originating from a subclass of ribosomal DNA repeats silence ribosomal RNA genes in trans. EMBO Rep 11: 52-58 doi:10.1038/embor.2009.254.
    • (2010) EMBO Rep , vol.11 , pp. 52-58
    • Santoro, R.1    Schmitz, K.-M.2    Sandoval, J.3    Grummt, I.4
  • 30
    • 84859300824 scopus 로고    scopus 로고
    • Nucleosome recognition and spacing by chromatin remodelling factor ISW1a
    • doi: 10.1042/BST20110748
    • Richmond TJ, (2012) Nucleosome recognition and spacing by chromatin remodelling factor ISW1a. Biochem Soc Trans 40: 347-350 doi:10.1042/BST20110748.
    • (2012) Biochem Soc Trans , vol.40 , pp. 347-350
    • Richmond, T.J.1
  • 31
    • 33845356072 scopus 로고    scopus 로고
    • The chromatin-remodeling enzyme ACF is an ATP-dependent DNA length sensor that regulates nucleosome spacing
    • doi: 10.1038/nsmb1170
    • Yang JG, Madrid TS, Sevastopoulos E, Narlikar GJ, (2006) The chromatin-remodeling enzyme ACF is an ATP-dependent DNA length sensor that regulates nucleosome spacing. Nat Struct Mol Biol 13: 1078-1083 doi:10.1038/nsmb1170.
    • (2006) Nat Struct Mol Biol , vol.13 , pp. 1078-1083
    • Yang, J.G.1    Madrid, T.S.2    Sevastopoulos, E.3    Narlikar, G.J.4
  • 32
    • 84875196326 scopus 로고    scopus 로고
    • Determinants of nucleosome positioning
    • doi: 10.1038/nsmb.2506
    • Struhl K, Segal E, (2013) Determinants of nucleosome positioning. Nat Struct Mol Biol 20: 267-273 doi:10.1038/nsmb.2506.
    • (2013) Nat Struct Mol Biol , vol.20 , pp. 267-273
    • Struhl, K.1    Segal, E.2
  • 33
    • 0030862982 scopus 로고    scopus 로고
    • The role of chromatin in transcriptional regulation
    • Li Q, Wrange O, Eriksson P, (1997) The role of chromatin in transcriptional regulation. Int J Biochem Cell Biol 29: 731-742.
    • (1997) Int J Biochem Cell Biol , vol.29 , pp. 731-742
    • Li, Q.1    Wrange, O.2    Eriksson, P.3
  • 34
    • 79961164933 scopus 로고    scopus 로고
    • Histone occupancy in vivo at the 601 nucleosome binding element is determined by transcriptional history
    • doi: 10.1128/MCB.05599-11
    • Perales R, Zhang L, Bentley D, (2011) Histone occupancy in vivo at the 601 nucleosome binding element is determined by transcriptional history. Mol Cell Biol 31: 3485-3496 doi:10.1128/MCB.05599-11.
    • (2011) Mol Cell Biol , vol.31 , pp. 3485-3496
    • Perales, R.1    Zhang, L.2    Bentley, D.3
  • 35
    • 72949099668 scopus 로고    scopus 로고
    • Dynamics of nucleosome remodelling by individual ACF complexes
    • doi: 10.1038/nature08627
    • Blosser TR, Yang JG, Stone MD, Narlikar GJ, Zhuang X, (2009) Dynamics of nucleosome remodelling by individual ACF complexes. Nature 462: 1022-1027 doi:10.1038/nature08627.
    • (2009) Nature , vol.462 , pp. 1022-1027
    • Blosser, T.R.1    Yang, J.G.2    Stone, M.D.3    Narlikar, G.J.4    Zhuang, X.5
  • 36
    • 84878563251 scopus 로고    scopus 로고
    • Large-scale organization of ribosomal DNA chromatin is regulated by Tip5
    • doi: 10.1093/nar/gkt218
    • Zillner K, Filarsky M, Rachow K, Weinberger M, Längst G, et al. (2013) Large-scale organization of ribosomal DNA chromatin is regulated by Tip5. Nucleic Acids Res 41: 5251-5262 doi:10.1093/nar/gkt218.
    • (2013) Nucleic Acids Res , vol.41 , pp. 5251-5262
    • Zillner, K.1    Filarsky, M.2    Rachow, K.3    Weinberger, M.4    Längst, G.5
  • 37
    • 0037009366 scopus 로고    scopus 로고
    • The chromatin remodeling complex NoRC targets HDAC1 to the ribosomal gene promoter and represses RNA polymerase I transcription
    • Zhou Y, Santoro R, Grummt I, (2002) The chromatin remodeling complex NoRC targets HDAC1 to the ribosomal gene promoter and represses RNA polymerase I transcription. EMBO J 21: 4632-4640.
    • (2002) EMBO J , vol.21 , pp. 4632-4640
    • Zhou, Y.1    Santoro, R.2    Grummt, I.3
  • 38
    • 0036844024 scopus 로고    scopus 로고
    • The nucleolar remodeling complex NoRC mediates heterochromatin formation and silencing of ribosomal gene transcription
    • doi: 10.1038/ng1010
    • Santoro R, Li J, Grummt I, (2002) The nucleolar remodeling complex NoRC mediates heterochromatin formation and silencing of ribosomal gene transcription. Nat Genet 32: 393-396 doi:10.1038/ng1010.
    • (2002) Nat Genet , vol.32 , pp. 393-396
    • Santoro, R.1    Li, J.2    Grummt, I.3
  • 39
    • 77958576363 scopus 로고    scopus 로고
    • Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes
    • doi: 10.1101/gad.590910
    • Schmitz K-M, Mayer C, Postepska A, Grummt I, (2010) Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes. Genes Dev 24: 2264-2269 doi:10.1101/gad.590910.
    • (2010) Genes Dev , vol.24 , pp. 2264-2269
    • Schmitz, K.-M.1    Mayer, C.2    Postepska, A.3    Grummt, I.4
  • 40
    • 80052490463 scopus 로고    scopus 로고
    • Nucleosomes protect DNA from DNA methylation in vivo and in vitro
    • doi: 10.1093/nar/gkr263
    • Felle M, Hoffmeister H, Rothammer J, Fuchs A, Exler JH, et al. (2011) Nucleosomes protect DNA from DNA methylation in vivo and in vitro. Nucleic Acids Res 39: 6956-6969 doi:10.1093/nar/gkr263.
    • (2011) Nucleic Acids Res , vol.39 , pp. 6956-6969
    • Felle, M.1    Hoffmeister, H.2    Rothammer, J.3    Fuchs, A.4    Exler, J.H.5
  • 41
    • 0024431827 scopus 로고
    • Assembly of nucleosomes and chromatin in vitro
    • Rhodes D, Laskey RA, (1989) Assembly of nucleosomes and chromatin in vitro. Meth Enzymol 170: 575-585.
    • (1989) Meth Enzymol , vol.170 , pp. 575-585
    • Rhodes, D.1    Laskey, R.A.2
  • 42
    • 0035930334 scopus 로고    scopus 로고
    • ISWI induces nucleosome sliding on nicked DNA
    • Längst G, Becker PB, (2001) ISWI induces nucleosome sliding on nicked DNA. Mol Cell 8: 1085-1092.
    • (2001) Mol Cell , vol.8 , pp. 1085-1092
    • Längst, G.1    Becker, P.B.2


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