Literature DB >> 22157002

Toward convergence of experimental studies and theoretical modeling of the chromatin fiber.

Tamar Schlick1, Jeff Hayes, Sergei Grigoryev.   

Abstract

Understanding the structural organization of eukaryotic chromatin and its control of gene expression represents one of the most fundamental and open challenges in modern biology. Recent experimental advances have revealed important characteristics of chromatin in response to changes in external conditions and histone composition, such as the conformational complexity of linker DNA and histone tail domains upon compact folding of the fiber. In addition, modeling studies based on high-resolution nucleosome models have helped explain the conformational features of chromatin structural elements and their interactions in terms of chromatin fiber models. This minireview discusses recent progress and evidence supporting structural heterogeneity in chromatin fibers, reconciling apparently contradictory fiber models.

Mesh:

Substances:

Year:  2011        PMID: 22157002      PMCID: PMC3285299          DOI: 10.1074/jbc.R111.305763

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  99 in total

1.  Rapid exchange of histone H1.1 on chromatin in living human cells.

Authors:  M A Lever; J P Th'ng; X Sun; M J Hendzel
Journal:  Nature       Date:  2000-12-14       Impact factor: 49.962

2.  Pulling a single chromatin fiber reveals the forces that maintain its higher-order structure.

Authors:  Y Cui; C Bustamante
Journal:  Proc Natl Acad Sci U S A       Date:  2000-01-04       Impact factor: 11.205

3.  The effect of linker histone's nucleosome binding affinity on chromatin unfolding mechanisms.

Authors:  Rosana Collepardo-Guevara; Tamar Schlick
Journal:  Biophys J       Date:  2011-10-05       Impact factor: 4.033

4.  Comprehensive structural analysis of mutant nucleosomes containing lysine to glutamine (KQ) substitutions in the H3 and H4 histone-fold domains.

Authors:  Wakana Iwasaki; Hiroaki Tachiwana; Koichiro Kawaguchi; Takehiko Shibata; Wataru Kagawa; Hitoshi Kurumizaka
Journal:  Biochemistry       Date:  2011-08-17       Impact factor: 3.162

5.  Constitutive heterochromatin reorganization during somatic cell reprogramming.

Authors:  Eden Fussner; Ugljesa Djuric; Mike Strauss; Akitsu Hotta; Carolina Perez-Iratxeta; Fredrik Lanner; F Jeffrey Dilworth; James Ellis; David P Bazett-Jones
Journal:  EMBO J       Date:  2011-04-05       Impact factor: 11.598

6.  Nucleosome linker DNA contacts and induces specific folding of the intrinsically disordered H1 carboxyl-terminal domain.

Authors:  Tamara L Caterino; He Fang; Jeffrey J Hayes
Journal:  Mol Cell Biol       Date:  2011-04-04       Impact factor: 4.272

7.  Crystal structure of the human centromeric nucleosome containing CENP-A.

Authors:  Hiroaki Tachiwana; Wataru Kagawa; Tatsuya Shiga; Akihisa Osakabe; Yuta Miya; Kengo Saito; Yoko Hayashi-Takanaka; Takashi Oda; Mamoru Sato; Sam-Yong Park; Hiroshi Kimura; Hitoshi Kurumizaka
Journal:  Nature       Date:  2011-07-10       Impact factor: 49.962

8.  Replacement of histone H3 with CENP-A directs global nucleosome array condensation and loosening of nucleosome superhelical termini.

Authors:  Tanya Panchenko; Troy C Sorensen; Christopher L Woodcock; Zhong-Yuan Kan; Stacey Wood; Michael G Resch; Karolin Luger; S Walter Englander; Jeffrey C Hansen; Ben E Black
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-26       Impact factor: 11.205

9.  Dynamic binding of histone H1 to chromatin in living cells.

Authors:  T Misteli; A Gunjan; R Hock; M Bustin; D T Brown
Journal:  Nature       Date:  2000-12-14       Impact factor: 49.962

10.  From crystal and NMR structures, footprints and cryo-electron-micrographs to large and soft structures: nanoscale modeling of the nucleosomal stem.

Authors:  Sam Meyer; Nils B Becker; Sajad Hussain Syed; Damien Goutte-Gattat; Manu Shubhdarshan Shukla; Jeffrey J Hayes; Dimitar Angelov; Jan Bednar; Stefan Dimitrov; Ralf Everaers
Journal:  Nucleic Acids Res       Date:  2011-08-10       Impact factor: 16.971

View more
  60 in total

1.  Short nucleosome repeats impose rotational modulations on chromatin fibre folding.

Authors:  Sarah J Correll; Michaela H Schubert; Sergei A Grigoryev
Journal:  EMBO J       Date:  2012-03-30       Impact factor: 11.598

2.  Elucidating internucleosome interactions and the roles of histone tails.

Authors:  Steven C Howell; Kurt Andresen; Isabel Jimenez-Useche; Chongli Yuan; Xiangyun Qiu
Journal:  Biophys J       Date:  2013-07-02       Impact factor: 4.033

3.  Structure-driven homology pairing of chromatin fibers: the role of electrostatics and protein-induced bridging.

Authors:  A G Cherstvy; V B Teif
Journal:  J Biol Phys       Date:  2013-01-17       Impact factor: 1.365

4.  Micro- and nanofluidic technologies for epigenetic profiling.

Authors:  Toshiki Matsuoka; Byoung Choul Kim; Christopher Moraes; Minsub Han; Shuichi Takayama
Journal:  Biomicrofluidics       Date:  2013-07-24       Impact factor: 2.800

5.  Open and closed: the roles of linker histones in plants and animals.

Authors:  Ryan S Over; Scott D Michaels
Journal:  Mol Plant       Date:  2013-11-22       Impact factor: 13.164

6.  Emergence of chromatin hierarchical loops from protein disorder and nucleosome asymmetry.

Authors:  Akshay Sridhar; Stephen E Farr; Guillem Portella; Tamar Schlick; Modesto Orozco; Rosana Collepardo-Guevara
Journal:  Proc Natl Acad Sci U S A       Date:  2020-03-12       Impact factor: 11.205

7.  Topological polymorphism of the two-start chromatin fiber.

Authors:  Davood Norouzi; Victor B Zhurkin
Journal:  Biophys J       Date:  2015-05-19       Impact factor: 4.033

8.  Changing chromatin fiber conformation by nucleosome repositioning.

Authors:  Oliver Müller; Nick Kepper; Robert Schöpflin; Ramona Ettig; Karsten Rippe; Gero Wedemann
Journal:  Biophys J       Date:  2014-11-04       Impact factor: 4.033

9.  Learning the Formation Mechanism of Domain-Level Chromatin States with Epigenomics Data.

Authors:  Wen Jun Xie; Bin Zhang
Journal:  Biophys J       Date:  2019-04-11       Impact factor: 4.033

10.  Bridging chromatin structure and function over a range of experimental spatial and temporal scales by molecular modeling.

Authors:  Stephanie Portillo-Ledesma; Tamar Schlick
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2019-08-06
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.