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Volumn 35, Issue 16, 2007, Pages

Choreography for nucleosomes: The conformational freedom of the nucleosomal filament and its limitations

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ARTICLE; CORRELATION ANALYSIS; DNA BINDING; DNA CONFORMATION; DNA DETERMINATION; DNA HELIX; DNA SEQUENCE; EUKARYOTE; GENE CLUSTER; GENETIC STABILITY; GENETIC VARIABILITY; HETEROCHROMATIN; NUCLEOSOME; PRIORITY JOURNAL; CHEMICAL STRUCTURE; CHEMISTRY; CONFORMATION; METABOLISM; NUCLEOTIDE SEQUENCE; ROTATION;

EID: 34548745169     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm560     Document Type: Article
Times cited : (17)

References (48)
  • 1
    • 1842411320 scopus 로고    scopus 로고
    • Crystal structure of the nucleosome core particle at 2.8Å resolution
    • Luger,K., Mäder,A.W., Richmond,R.K., Sargent,D.F. and Richmond,T.J. (1997) Crystal structure of the nucleosome core particle at 2.8Å resolution. Nature, 289, 251-260.
    • (1997) Nature , vol.289 , pp. 251-260
    • Luger, K.1    Mäder, A.W.2    Richmond, R.K.3    Sargent, D.F.4    Richmond, T.J.5
  • 2
    • 0024489155 scopus 로고
    • Toward a unified model of chromatin folding
    • Widom,J. (1989) Toward a unified model of chromatin folding. Annu. Rev. Biophys. Biophys. Chem., 18, 365-95.
    • (1989) Annu. Rev. Biophys. Biophys. Chem , vol.18 , pp. 365-395
    • Widom, J.1
  • 3
    • 0344269201 scopus 로고
    • Evidence for the existence of globular units in the supranucleosomal organization of chromatin
    • Schweiger,H.E, ed, Springer, Berlin, Heidelberg, New York, pp
    • Zentgraf,H.U., Müller,U., Schecer,U. and Franke,W.W. (1981) Evidence for the existence of globular units in the supranucleosomal organization of chromatin. In Schweiger,H.E. (ed.) Int.l. Cell. Biol., Springer, Berlin, Heidelberg, New York, pp. 139-151.
    • (1981) Int.l. Cell. Biol , pp. 139-151
    • Zentgraf, H.U.1    Müller, U.2    Schecer, U.3    Franke, W.W.4
  • 4
    • 0028221098 scopus 로고
    • The three dimensional architecture of chromatin in situ: Electron tomography reveals fibers composed of a continuously variable zigzag nucleosomal ribbon
    • Horowitz,R.A., Agard,D.A., Sedat,J.M. and Woodcock,C.L. (1994) The three dimensional architecture of chromatin in situ: Electron tomography reveals fibers composed of a continuously variable zigzag nucleosomal ribbon. J. Cell. Biol., 125, 1-10.
    • (1994) J. Cell. Biol , vol.125 , pp. 1-10
    • Horowitz, R.A.1    Agard, D.A.2    Sedat, J.M.3    Woodcock, C.L.4
  • 5
    • 0025869750 scopus 로고
    • Ultrastructure of chromatin. I. Negative staining of isolated fibers
    • Woodcock,C.L., Woodcock,H. and Horowitz,R.A. (1991) Ultrastructure of chromatin. I. Negative staining of isolated fibers. J. Cell. Sci., 99, 99-106.
    • (1991) J. Cell. Sci , vol.99 , pp. 99-106
    • Woodcock, C.L.1    Woodcock, H.2    Horowitz, R.A.3
  • 6
    • 0022650876 scopus 로고
    • Chromatin fibers are left-handed double helices with a diameter and mass per unit length that depend on linker length
    • Williams,S.P., Athey,B.D., Muglia,L.J., Schappe,R.S., Gough,A.H. and Langmore,J.P. (1986) Chromatin fibers are left-handed double helices with a diameter and mass per unit length that depend on linker length. Biophys. J., 49, 233-248.
    • (1986) Biophys. J , vol.49 , pp. 233-248
    • Williams, S.P.1    Athey, B.D.2    Muglia, L.J.3    Schappe, R.S.4    Gough, A.H.5    Langmore, J.P.6
  • 8
    • 33745059535 scopus 로고    scopus 로고
    • Bancaud,A., Conde e Silva,N., Barbi,M., Wagner,G., Allemand,J.-F, Mozziconacci,J., Lavelle,C., Croquette,V., Victor,J.-M. et al. (2006) Structural plasticity of single chromatin fibers revealed by torsional manipulation. Nat. Struct. Mol. Biol., 13, 444-450.
    • Bancaud,A., Conde e Silva,N., Barbi,M., Wagner,G., Allemand,J.-F, Mozziconacci,J., Lavelle,C., Croquette,V., Victor,J.-M. et al. (2006) Structural plasticity of single chromatin fibers revealed by torsional manipulation. Nat. Struct. Mol. Biol., 13, 444-450.
  • 9
    • 0032571368 scopus 로고    scopus 로고
    • Thinking about a nuclear matrix
    • Pederson,T. (1998) Thinking about a nuclear matrix. J. Mol. Biol., 277, 147-159.
    • (1998) J. Mol. Biol , vol.277 , pp. 147-159
    • Pederson, T.1
  • 10
    • 0035110880 scopus 로고    scopus 로고
    • Experimental observations of a nuclear matrix
    • Nickerson,J. (2001) Experimental observations of a nuclear matrix. J. Cell. Sci., 114, 463-74.
    • (2001) J. Cell. Sci , vol.114 , pp. 463-474
    • Nickerson, J.1
  • 11
    • 0029115144 scopus 로고
    • Probing the conformation of nucleosome linker DNA in situ with pyrimidine dimer formation
    • Pehrson,J.R. (1995) Probing the conformation of nucleosome linker DNA in situ with pyrimidine dimer formation. J. Biol. Chem., 270 22440-22444.
    • (1995) J. Biol. Chem , vol.270 , pp. 22440-22444
    • Pehrson, J.R.1
  • 12
    • 0027517831 scopus 로고
    • A chromatin folding model that incorporates linker variability generates fibers resembling the native structures
    • Woodcock,C.L., Grigoryev,S.A., Horowitz,R.A. and Whitaker,N. (1993) A chromatin folding model that incorporates linker variability generates fibers resembling the native structures. Proc. Natl Acad. Sci. USA 90, 9021-9025.
    • (1993) Proc. Natl Acad. Sci. USA , vol.90 , pp. 9021-9025
    • Woodcock, C.L.1    Grigoryev, S.A.2    Horowitz, R.A.3    Whitaker, N.4
  • 13
    • 0035509641 scopus 로고    scopus 로고
    • Chromatin: A tunable spring at work inside chromosomes
    • Ben-Haïm,E., Lesne,A. and Victor,J.-M. (2001) Chromatin: A tunable spring at work inside chromosomes. Phys. Rev. E, 64, 051921.
    • (2001) Phys. Rev. E , vol.64 , pp. 051921
    • Ben-Haïm, E.1    Lesne, A.2    Victor, J.-M.3
  • 14
    • 0035066656 scopus 로고    scopus 로고
    • DNA Folding: Structural and mechanical properties of the two-angle model for chromatin
    • Schiessel,H., Gelbart,W.M. and Bruinsma,R. (2001) DNA Folding: structural and mechanical properties of the two-angle model for chromatin. Biophys. J., 80, 1940-1956.
    • (2001) Biophys. J , vol.80 , pp. 1940-1956
    • Schiessel, H.1    Gelbart, W.M.2    Bruinsma, R.3
  • 15
    • 0031835671 scopus 로고    scopus 로고
    • Linker histone tails and N-tails of histone H3 are redundant:. scanning force microscopy studies of reconstituted fibers
    • Leuba,S.H., Bustamante,C., Van Holde,K and Zlatanova,J. (1998) Linker histone tails and N-tails of histone H3 are redundant:. scanning force microscopy studies of reconstituted fibers. Biophys. J., 74, 2830-2839.
    • (1998) Biophys. J , vol.74 , pp. 2830-2839
    • Leuba, S.H.1    Bustamante, C.2    Van Holde, K.3    Zlatanova, J.4
  • 16
    • 0345412722 scopus 로고    scopus 로고
    • Conformation of reconstituted mononucleosomes and effect of linker histone H1 binding studied by scanning force microscopy
    • Kepert,J.F., Tóth,K.F., Caudron,M., Mücke,N., Langowski,J. and Rippe,K. (2003) Conformation of reconstituted mononucleosomes and effect of linker histone H1 binding studied by scanning force microscopy. Biophys. J., 85, 4012-4022.
    • (2003) Biophys. J , vol.85 , pp. 4012-4022
    • Kepert, J.F.1    Tóth, K.F.2    Caudron, M.3    Mücke, N.4    Langowski, J.5    Rippe, K.6
  • 17
    • 0042167417 scopus 로고    scopus 로고
    • Nucleosome gaping supports a functional structure for the 30nm, chromatin fiber
    • Mozziconacci,J. and Victor,J.-M. (2003) Nucleosome gaping supports a functional structure for the 30nm, chromatin fiber. J. Struct. Biol. 143, 72-76,
    • (2003) J. Struct. Biol , vol.143 , pp. 72-76
    • Mozziconacci, J.1    Victor, J.-M.2
  • 18
    • 0345698703 scopus 로고    scopus 로고
    • Interdigitated solenoid model for compact chromatin fbers
    • Daban,J.-R. and Bermúdez,A. (1998) Interdigitated solenoid model for compact chromatin fbers. Biochemistry, 37, 299-4304.
    • (1998) Biochemistry , vol.37 , pp. 299-4304
    • Daban, J.-R.1    Bermúdez, A.2
  • 19
    • 0019542662 scopus 로고
    • Structure of chromatin and the linking numner of DNA
    • Worcel,A., Strogatz,S. and Riley,D. (1981) Structure of chromatin and the linking numner of DNA. Proc. Natl Acad. Sci. USA, 78, 1461-1465.
    • (1981) Proc. Natl Acad. Sci. USA , vol.78 , pp. 1461-1465
    • Worcel, A.1    Strogatz, S.2    Riley, D.3
  • 20
    • 0021250785 scopus 로고
    • The higher ordes structure of chromatin: Evidence for a helical ribbon arrangement
    • Woodcock,C.L.F., Frado,L.L.Y. and Rattner,J.B. (1984) The higher ordes structure of chromatin: Evidence for a helical ribbon arrangement. J. Cell. Biol., 99, 42-52.
    • (1984) J. Cell. Biol , vol.99 , pp. 42-52
    • Woodcock, C.L.F.1    Frado, L.L.Y.2    Rattner, J.B.3
  • 21
    • 0021985925 scopus 로고
    • A triple helix model for the structure of chromatin fiber
    • Markarov,V., Dimitrov,S., Smirnov,V. and Pashev,J. (1985) A triple helix model for the structure of chromatin fiber. FEBS Lett., 181, 357-361.
    • (1985) FEBS Lett , vol.181 , pp. 357-361
    • Markarov, V.1    Dimitrov, S.2    Smirnov, V.3    Pashev, J.4
  • 22
    • 21844436803 scopus 로고    scopus 로고
    • X-ray structure of a tetranucleosome and its implica0cons for the chromatin fibre
    • Schalch,T., Duda,S., Sargent,D.F. and Richmond,T.J. (2005) X-ray structure of a tetranucleosome and its implica0cons for the chromatin fibre. Nature, 436, 138-141.
    • (2005) Nature , vol.436 , pp. 138-141
    • Schalch, T.1    Duda, S.2    Sargent, D.F.3    Richmond, T.J.4
  • 24
    • 0032564478 scopus 로고    scopus 로고
    • Nucleosomes, linker DNA, and, linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin
    • Bednar,J., Horowitz,R.A., Chigoryey,S.A., Carruthers,L.M., Hansen,J.C., Koster,A.J. and Woodcock,C.L. (1998) Nucleosomes, linker DNA, and, linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin. Proc. Natl Acad. Sci. USA, 95, 14173-14178.
    • (1998) Proc. Natl Acad. Sci. USA , vol.95 , pp. 14173-14178
    • Bednar, J.1    Horowitz, R.A.2    Chigoryey, S.A.3    Carruthers, L.M.4    Hansen, J.C.5    Koster, A.J.6    Woodcock, C.L.7
  • 25
    • 0031968760 scopus 로고    scopus 로고
    • Chromatin fiber structure: Morphology, molecular determinants, structural transitions
    • Zlatanova,J., Leuba,S.H. and van Holde,K. (1998) Chromatin fiber structure: Morphology, molecular determinants, structural transitions. Biophys. J., 74, 2554-2566.
    • (1998) Biophys. J , vol.74 , pp. 2554-2566
    • Zlatanova, J.1    Leuba, S.H.2    van Holde, K.3
  • 26
    • 0042733701 scopus 로고    scopus 로고
    • High concentration of DNA in condensed chromatin
    • Daban,J-R. (2003). High concentration of DNA in condensed chromatin. Biochem. Cell Biol., 81, 91-99.
    • (2003) Biochem. Cell Biol , vol.81 , pp. 91-99
    • Daban, J.-R.1
  • 27
    • 0026517738 scopus 로고
    • A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells
    • Widom,J. (1991) A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells. Proc. Natl Acad. Sci. USA, 89, 1095-1099.
    • (1991) Proc. Natl Acad. Sci. USA , vol.89 , pp. 1095-1099
    • Widom, J.1
  • 28
    • 0027424469 scopus 로고
    • Twist constraints on linker DNA in the 30-nm chromatin fiber: Implications for nucleosome phasing
    • Yao,J., Lowary,P.-T. and Widom,J. (1993) Twist constraints on linker DNA in the 30-nm chromatin fiber: Implications for nucleosome phasing. Proc. Natl Acad. Sci. USA, 90, 9364-9368.
    • (1993) Proc. Natl Acad. Sci. USA , vol.90 , pp. 9364-9368
    • Yao, J.1    Lowary, P.-T.2    Widom, J.3
  • 29
    • 0029583420 scopus 로고
    • Chromatin conformation and salt-induced compaction: Three-dimensional structural information from cryoelectron microscopy
    • Bednar,J., Horowitz,R.A., Dubochet,J. and Wooodcock,C.L. (1995) Chromatin conformation and salt-induced compaction: Three-dimensional structural information from cryoelectron microscopy. J. Cell Biol. 131, 1365-1376.
    • (1995) J. Cell Biol , vol.131 , pp. 1365-1376
    • Bednar, J.1    Horowitz, R.A.2    Dubochet, J.3    Wooodcock, C.L.4
  • 30
    • 0034663606 scopus 로고    scopus 로고
    • DNase I digestion reveals alternating asymmetrical protection of the nucleosome by higher order chromatin structure
    • Staynov,D.Z. (2000) DNase I digestion reveals alternating asymmetrical protection of the nucleosome by higher order chromatin structure. Nucleic Acids Res., 28, 3092-3099.
    • (2000) Nucleic Acids Res , vol.28 , pp. 3092-3099
    • Staynov, D.Z.1
  • 31
    • 0019087066 scopus 로고
    • Sea urchin sperm chromatin structure as probed by pancreatic DNase I: Evidence for a novel cutting periodicity
    • Arceci,R.J. and Gross,P.R. (1980) Sea urchin sperm chromatin structure as probed by pancreatic DNase I: Evidence for a novel cutting periodicity. Dev. Biol., 80, 210-224.
    • (1980) Dev. Biol , vol.80 , pp. 210-224
    • Arceci, R.J.1    Gross, P.R.2
  • 32
    • 0019573979 scopus 로고
    • Nucleodisome - a new repeat unit of chromatin revealed in nuclei of pigeon erythrocytes by DNase I digestion
    • Khachatrian,A.T., Pospelov,V.A., Svetlikova,S.B. and Vorob'ev,V.I. (1981) Nucleodisome - a new repeat unit of chromatin revealed in nuclei of pigeon erythrocytes by DNase I digestion. FEBS Lett., 128 90-92.
    • (1981) FEBS Lett , vol.128 , pp. 90-92
    • Khachatrian, A.T.1    Pospelov, V.A.2    Svetlikova, S.B.3    Vorob'ev, V.I.4
  • 33
    • 0020488634 scopus 로고
    • Avian erythrocyte chromatin degradation: The progressive exposure of the dinucleosomal repeat by bovine-pancreatic-DNAase-I-armed probes and free DNAase-I
    • Burgoyne,L.A. and Skinner,J.D. (1982) Avian erythrocyte chromatin degradation: The progressive exposure of the dinucleosomal repeat by bovine-pancreatic-DNAase-I-armed probes and free DNAase-I. Nucleic Acids Res., 10, 665-673.
    • (1982) Nucleic Acids Res , vol.10 , pp. 665-673
    • Burgoyne, L.A.1    Skinner, J.D.2
  • 34
    • 0020476280 scopus 로고
    • On the mechanism of nucleodisome splitting off by nucleases
    • Pospelov,V.A. and Svetlikova,S.B. (1982) On the mechanism of nucleodisome splitting off by nucleases. FEBS Lett., 146, 157-160.
    • (1982) FEBS Lett , vol.146 , pp. 157-160
    • Pospelov, V.A.1    Svetlikova, S.B.2
  • 35
    • 0002093485 scopus 로고
    • Possible nucleosome arrangements in the higher-order structure of chromatin
    • Staynov,D.Z. (1983) Possible nucleosome arrangements in the higher-order structure of chromatin. Int. J. Biol. Macromol., 5, 3-9.
    • (1983) Int. J. Biol. Macromol , vol.5 , pp. 3-9
    • Staynov, D.Z.1
  • 36
    • 0023447159 scopus 로고
    • Chromatin higher-order structure studied by neutron scattering and scanning transmission electron microscopy
    • Gerchman,S.E. and Ramakrishnan,V. (1987) Chromatin higher-order structure studied by neutron scattering and scanning transmission electron microscopy. Proc. Natl Acad. Sci. USA, 84, 7802-7806.
    • (1987) Proc. Natl Acad. Sci. USA , vol.84 , pp. 7802-7806
    • Gerchman, S.E.1    Ramakrishnan, V.2
  • 37
    • 30644479149 scopus 로고    scopus 로고
    • A physical model for the condensation and decondensation of eukaryotic chromosomes
    • Mozziconacci,J., Lavelle,C., Barbi,M., Lesne,A. and Victor,J.-M. (2006) A physical model for the condensation and decondensation of eukaryotic chromosomes. FEBS Lett., 580, 368-372.
    • (2006) FEBS Lett , vol.580 , pp. 368-372
    • Mozziconacci, J.1    Lavelle, C.2    Barbi, M.3    Lesne, A.4    Victor, J.-M.5
  • 38
    • 20444377701 scopus 로고    scopus 로고
    • Electrostatic mechanism of nucleosomal array folding revealed by computer simulation
    • Sun,J., Zhang,Q. and Seblick,T. (2005) Electrostatic mechanism of nucleosomal array folding revealed by computer simulation. Proc. Natl Acad. Sci. USA, 102, 8180-8185.
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 8180-8185
    • Sun, J.1    Zhang, Q.2    Seblick, T.3
  • 39
    • 33750807408 scopus 로고    scopus 로고
    • Role of histone tails in chromatin folding revealed by a mesoscopic oligonucleosome model
    • Arya,G. and Schlick,T. (2006) Role of histone tails in chromatin folding revealed by a mesoscopic oligonucleosome model. Proc. Natl Acad. Sci. USA, 103, 16236-16241.
    • (2006) Proc. Natl Acad. Sci. USA , vol.103 , pp. 16236-16241
    • Arya, G.1    Schlick, T.2
  • 40
    • 33644855266 scopus 로고    scopus 로고
    • Regulation of higher-order chromatin structures by nucleosome-remodelling factors
    • Varga-Weisz,P.D. and Becker,P.D. (2006) Regulation of higher-order chromatin structures by nucleosome-remodelling factors. Curr. Opin. Gen. Dev., 16, 151-156.
    • (2006) Curr. Opin. Gen. Dev , vol.16 , pp. 151-156
    • Varga-Weisz, P.D.1    Becker, P.D.2
  • 41
    • 0034649663 scopus 로고    scopus 로고
    • Dynamic binding of histone H1 to chromatin in live cells
    • Misteli,J., Gunjan,A., Hock,R., Bustin,M. and Brown,D.T. (2000) Dynamic binding of histone H1 to chromatin in live cells. Nature, 408 877-881.
    • (2000) Nature , vol.408 , pp. 877-881
    • Misteli, J.1    Gunjan, A.2    Hock, R.3    Bustin, M.4    Brown, D.T.5
  • 42
    • 0034882165 scopus 로고    scopus 로고
    • Higher-order folding of heterochromatin: Protein bridges span the nucleosomc arrays
    • Grigoryev,S.A. (2001) Higher-order folding of heterochromatin: Protein bridges span the nucleosomc arrays. Biochem. Cell Biol., 79, 227-241.
    • (2001) Biochem. Cell Biol , vol.79 , pp. 227-241
    • Grigoryev, S.A.1
  • 45
    • 33644827669 scopus 로고    scopus 로고
    • Electrostatic interactions with histone tails may bend linker DNA in chromatin
    • Perico,A., La Penna,G. and Arcesi,L. (2006) Electrostatic interactions with histone tails may bend linker DNA in chromatin. Biopolymers, 81, 20-28.
    • (2006) Biopolymers , vol.81 , pp. 20-28
    • Perico, A.1    La Penna, G.2    Arcesi, L.3
  • 46
    • 29244467484 scopus 로고    scopus 로고
    • (2906) Role of linker histone in chromatin structure and function: H1 stoichiometry and nucleosome repeat length
    • Woodcock,C.L., Skoultchi,A.I. and Fan,Y. (2906) Role of linker histone in chromatin structure and function: H1 stoichiometry and nucleosome repeat length. Chromosome Res., 14, 17-25.
    • Chromosome Res , vol.14 , pp. 17-25
    • Woodcock, C.L.1    Skoultchi, A.I.2    Fan, Y.3


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