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The Influence of Ionic Environment and Histone Tails on Columnar Order of Nucleosome Core Particles.
Berezhnoy NV, Liu Y, Allahverdi A, Yang R, Su CJ, Liu CF, Korolev N, Nordenskiöld L.
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The nucleosome core particle (NCP) is the basic building block of chromatin. Nucleosome-nucleosome interactions are instrumental in chromatin compaction, and understanding NCP self-assembly is important for understanding chromatin structure and dynamics. Recombinant NCPs aggregated by multivalent cations form various ordered phases that can be studied by x-ray diffraction (small-angle x-ray scattering). In this work, the effects on the supramolecular structure of aggregated NCPs due to lysine histone H4 tail acetylations, histone H2A mutations (neutralizing the acidic patch of the histone octamer), and the removal of histone tails were investigated. The formation of ordered mainly hexagonal columnar NCP phases is in agreement with earlier studies; however, the highly homogeneous recombinant NCP systems used in this work display a more compact packing. The long-range order of the NCP columnar phase was found to be abolished or reduced by acetylation of the H4 tails, acidic patch neutralization, and removal of the H3 and H2B tails. Loss of nucleosome stacking upon removal of the H3 tails in combination with other tails was observed. In the absence of the H2A tails, the formation of an unknown highly ordered phase was observed.
Allahverdi,
The effects of histone H4 tail acetylations on cation-induced chromatin folding and self-association.
2011, Pubmed
Allahverdi,
The effects of histone H4 tail acetylations on cation-induced chromatin folding and self-association.
2011,
Pubmed Bertin,
H3 and H4 histone tails play a central role in the interactions of recombinant NCPs.
2007,
Pubmed Bertin,
Structure and phase diagram of nucleosome core particles aggregated by multivalent cations.
2007,
Pubmed Bertin,
Role of histone tails in the conformation and interactions of nucleosome core particles.
2004,
Pubmed Bertin,
H2A and H2B tails are essential to properly reconstitute nucleosome core particles.
2007,
Pubmed
,
Xenbase Bloomfield,
DNA condensation by multivalent cations.
1997,
Pubmed Calestagne-Morelli,
Long-range histone acetylation: biological significance, structural implications, and mechanisms.
2006,
Pubmed Castro-Hartmann,
Irregular orientation of nucleosomes in the well-defined chromatin plates of metaphase chromosomes.
2010,
Pubmed Davey,
Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 a resolution.
2002,
Pubmed
,
Xenbase de Frutos,
Aggregation of nucleosomes by divalent cations.
2001,
Pubmed Dorigo,
Nucleosome arrays reveal the two-start organization of the chromatin fiber.
2004,
Pubmed
,
Xenbase Dorigo,
Chromatin fiber folding: requirement for the histone H4 N-terminal tail.
2003,
Pubmed
,
Xenbase Dyer,
Reconstitution of nucleosome core particles from recombinant histones and DNA.
2004,
Pubmed Fan,
An advanced coarse-grained nucleosome core particle model for computer simulations of nucleosome-nucleosome interactions under varying ionic conditions.
2013,
Pubmed Finch,
Structure of nucleosome core particles of chromatin.
1977,
Pubmed Finch,
X-ray diffraction study of a new crystal form of the nucleosome core showing higher resolution.
1981,
Pubmed Garcés,
Antipolar and Anticlinic Mesophase Order in Chromatin Induced by Nucleosome Polarity and Chirality Correlations.
2015,
Pubmed Hansen,
Conformational dynamics of the chromatin fiber in solution: determinants, mechanisms, and functions.
2002,
Pubmed Horn,
Molecular biology. Chromatin higher order folding--wrapping up transcription.
2002,
Pubmed Howell,
Elucidating internucleosome interactions and the roles of histone tails.
2013,
Pubmed Kalashnikova,
The role of the nucleosome acidic patch in modulating higher order chromatin structure.
2013,
Pubmed Kan,
The H3 tail domain participates in multiple interactions during folding and self-association of nucleosome arrays.
2007,
Pubmed
,
Xenbase Korolev,
A universal description for the experimental behavior of salt-(in)dependent oligocation-induced DNA condensation.
2012,
Pubmed Korolev,
The effect of salt on oligocation-induced chromatin condensation.
2012,
Pubmed Korolev,
Physicochemical analysis of electrostatic foundation for DNA-protein interactions in chromatin transformations.
2007,
Pubmed Korolev,
Electrostatic origin of salt-induced nucleosome array compaction.
2010,
Pubmed
,
Xenbase Kurdistani,
Mapping global histone acetylation patterns to gene expression.
2004,
Pubmed Leforestier,
Spermidine-induced aggregation of nucleosome core particles: evidence for multiple liquid crystalline phases.
1999,
Pubmed Leforestier,
Liquid crystalline ordering of nucleosome core particles under macromolecular crowding conditions: evidence for a discotic columnar hexagonal phase.
1997,
Pubmed Leforestier,
Bilayers of nucleosome core particles.
2001,
Pubmed Lewis,
Histone accessibility determined by lysine-specific acetylation in chicken erythrocyte nuclei.
1988,
Pubmed Liu,
Influence of histone tails and H4 tail acetylations on nucleosome-nucleosome interactions.
2011,
Pubmed
,
Xenbase Livolant,
Are liquid crystalline properties of nucleosomes involved in chromosome structure and dynamics?
2006,
Pubmed Lowary,
New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning.
1998,
Pubmed Luger,
Preparation of nucleosome core particle from recombinant histones.
1999,
Pubmed
,
Xenbase Luger,
Crystal structure of the nucleosome core particle at 2.8 A resolution.
1997,
Pubmed Luger,
The histone tails of the nucleosome.
1998,
Pubmed Luger,
Expression and purification of recombinant histones and nucleosome reconstitution.
1999,
Pubmed Mangenot,
Phase diagram of nucleosome core particles.
2003,
Pubmed Mangenot,
Salt-induced conformation and interaction changes of nucleosome core particles.
2002,
Pubmed Mangenot,
X-ray diffraction characterization of the dense phases formed by nucleosome core particles.
2003,
Pubmed Matulis,
Thermodynamics of DNA binding and condensation: isothermal titration calorimetry and electrostatic mechanism.
2000,
Pubmed McBryant,
Determinants of histone H4 N-terminal domain function during nucleosomal array oligomerization: roles of amino acid sequence, domain length, and charge density.
2009,
Pubmed
,
Xenbase Perry,
Histone acetylation increases the solubility of chromatin and occurs sequentially over most of the chromatin. A novel model for the biological role of histone acetylation.
1982,
Pubmed Perry,
The effect of histone hyperacetylation on the nuclease sensitivity and the solubility of chromatin.
1981,
Pubmed Pollard,
Functional interaction between GCN5 and polyamines: a new role for core histone acetylation.
1999,
Pubmed Raspaud,
Spermine-induced aggregation of DNA, nucleosome, and chromatin.
1999,
Pubmed Robinson,
EM measurements define the dimensions of the "30-nm" chromatin fiber: evidence for a compact, interdigitated structure.
2006,
Pubmed Robinson,
30 nm chromatin fibre decompaction requires both H4-K16 acetylation and linker histone eviction.
2008,
Pubmed
,
Xenbase Roccatano,
Structural flexibility of the nucleosome core particle at atomic resolution studied by molecular dynamics simulation.
,
Pubmed Routh,
Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure.
2008,
Pubmed Safinya,
Structures of lipid-DNA complexes: supramolecular assembly and gene delivery.
2001,
Pubmed Schalch,
X-ray structure of a tetranucleosome and its implications for the chromatin fibre.
2005,
Pubmed
,
Xenbase Scheffer,
Nucleosomes stacked with aligned dyad axes are found in native compact chromatin in vitro.
2012,
Pubmed Schneidman-Duhovny,
FoXS: a web server for rapid computation and fitting of SAXS profiles.
2010,
Pubmed Shogren-Knaak,
Histone H4-K16 acetylation controls chromatin structure and protein interactions.
2006,
Pubmed Song,
Cryo-EM study of the chromatin fiber reveals a double helix twisted by tetranucleosomal units.
2014,
Pubmed
,
Xenbase Szerlong,
Activator-dependent p300 acetylation of chromatin in vitro: enhancement of transcription by disruption of repressive nucleosome-nucleosome interactions.
2010,
Pubmed Tse,
Disruption of higher-order folding by core histone acetylation dramatically enhances transcription of nucleosomal arrays by RNA polymerase III.
1998,
Pubmed
,
Xenbase Turner,
Histone acetylation and control of gene expression.
1991,
Pubmed Vasudevan,
Crystal structures of nucleosome core particles containing the '601' strong positioning sequence.
2010,
Pubmed
,
Xenbase Wang,
Effects of histone acetylation on the solubility and folding of the chromatin fiber.
2001,
Pubmed Wang,
Acetylation mimics within individual core histone tail domains indicate distinct roles in regulating the stability of higher-order chromatin structure.
2008,
Pubmed
,
Xenbase Wang,
Site-specific binding affinities within the H2B tail domain indicate specific effects of lysine acetylation.
2007,
Pubmed
,
Xenbase Wolffe,
Chromatin disruption and modification.
1999,
Pubmed Woodcock,
Higher-order structure of chromatin and chromosomes.
2001,
Pubmed Woodcock,
Role of linker histone in chromatin structure and function: H1 stoichiometry and nucleosome repeat length.
2006,
Pubmed Zhou,
The nucleosome surface regulates chromatin compaction and couples it with transcriptional repression.
2007,
Pubmed Zhou,
Histone H4 K16Q mutation, an acetylation mimic, causes structural disorder of its N-terminal basic patch in the nucleosome.
2012,
Pubmed Zhou,
Structural Mechanisms of Nucleosome Recognition by Linker Histones.
2015,
Pubmed
