Literature DB >> 20452954

Chromatin higher-order structure and dynamics.

Christopher L Woodcock1, Rajarshi P Ghosh.   

Abstract

The primary role of the nucleus as an information storage, retrieval, and replication site requires the physical organization and compaction of meters of DNA. Although it has been clear for many years that nucleosomes constitute the first level of chromatin compaction, this contributes a relatively small fraction of the condensation needed to fit the typical genome into an interphase nucleus or set of metaphase chromosomes, indicating that there are additional "higher order" levels of chromatin condensation. Identifying these levels, their interrelationships, and the principles that govern their occurrence has been a challenging and much discussed problem. In this article, we focus on recent experimental advances and the emerging evidence indicating that structural plasticity and chromatin dynamics play dominant roles in genome organization. We also discuss novel approaches likely to yield important insights in the near future, and suggest research areas that merit further study.

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Year:  2010        PMID: 20452954      PMCID: PMC2857170          DOI: 10.1101/cshperspect.a000596

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  128 in total

1.  Subnuclear compartmentalization of immunoglobulin loci during lymphocyte development.

Authors:  Steven T Kosak; Jane A Skok; Kay L Medina; Roy Riblet; Michelle M Le Beau; Amanda G Fisher; Harinder Singh
Journal:  Science       Date:  2002-04-05       Impact factor: 47.728

2.  EM measurements define the dimensions of the "30-nm" chromatin fiber: evidence for a compact, interdigitated structure.

Authors:  Philip J J Robinson; Louise Fairall; Van A T Huynh; Daniela Rhodes
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-14       Impact factor: 11.205

3.  Focused-ion-beam thinning of frozen-hydrated biological specimens for cryo-electron microscopy.

Authors:  Michael Marko; Chyongere Hsieh; Richard Schalek; Joachim Frank; Carmen Mannella
Journal:  Nat Methods       Date:  2007-02-04       Impact factor: 28.547

Review 4.  Molecular crowding effects on structure and stability of DNA.

Authors:  Daisuke Miyoshi; Naoki Sugimoto
Journal:  Biochimie       Date:  2008-02-21       Impact factor: 4.079

5.  Nuclear architecture of rod photoreceptor cells adapts to vision in mammalian evolution.

Authors:  Irina Solovei; Moritz Kreysing; Christian Lanctôt; Süleyman Kösem; Leo Peichl; Thomas Cremer; Jochen Guck; Boris Joffe
Journal:  Cell       Date:  2009-04-17       Impact factor: 41.582

Review 6.  Macromolecular crowding and its potential impact on nuclear function.

Authors:  Karsten Richter; Michelle Nessling; Peter Lichter
Journal:  Biochim Biophys Acta       Date:  2008-07-30

7.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

Authors:  K Luger; A W Mäder; R K Richmond; D F Sargent; T J Richmond
Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

8.  Curvilinear, three-dimensional motion of chromatin domains and nucleoli in neuronal interphase nuclei.

Authors:  U De Boni; A H Mintz
Journal:  Science       Date:  1986-11-14       Impact factor: 47.728

9.  Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription.

Authors:  Séverine Chambeyron; Wendy A Bickmore
Journal:  Genes Dev       Date:  2004-05-15       Impact factor: 11.361

10.  Supercoils in human DNA.

Authors:  P R Cook; I A Brazell
Journal:  J Cell Sci       Date:  1975-11       Impact factor: 5.285

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  136 in total

Review 1.  Nucleosome structural studies.

Authors:  Song Tan; Curt A Davey
Journal:  Curr Opin Struct Biol       Date:  2010-12-19       Impact factor: 6.809

2.  The genome in space and time: does form always follow function? How does the spatial and temporal organization of a eukaryotic genome reflect and influence its functions?

Authors:  Zhijun Duan; Carl Anthony Blau
Journal:  Bioessays       Date:  2012-07-06       Impact factor: 4.345

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.  DNA double-strand breaks: linking gene expression to chromosome morphology and mobility.

Authors:  Yang Zhang; Dieter W Heermann
Journal:  Chromosoma       Date:  2013-08-28       Impact factor: 4.316

5.  Physical origin of the contact frequency in chromosome conformation capture data.

Authors:  Seungsoo Hahn; Dongsup Kim
Journal:  Biophys J       Date:  2013-10-15       Impact factor: 4.033

6.  Hereditary Hemorrhagic Telangiectasia: Breakpoint Characterization of a Novel Large Deletion in ACVRL1 Suggests the Causing Mechanism.

Authors:  Laura Boeri; Orietta Radi; Cecilia Canzonieri; Elisabetta Buscarini; Agnese Scatigno; Antonella Minelli; Federica Ornati; Fabio Pagella; Cesare Danesino; Carla Olivieri
Journal:  Mol Syndromol       Date:  2013-02-28

Review 7.  Chromatin dynamics: interplay between remodeling enzymes and histone modifications.

Authors:  Sarah G Swygert; Craig L Peterson
Journal:  Biochim Biophys Acta       Date:  2014-02-28

Review 8.  "Looping In" Mechanics: Mechanobiologic Regulation of the Nucleus and the Epigenome.

Authors:  Eric N Dai; Su-Jin Heo; Robert L Mauck
Journal:  Adv Healthc Mater       Date:  2020-04-14       Impact factor: 9.933

9.  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

10.  Surface structures consisting of chromatin fibers in isolated barley (Hordeum vulgare) chromosomes revealed by helium ion microscopy.

Authors:  Channarong Sartsanga; Rinyaporn Phengchat; Kiichi Fukui; Toshiyuki Wako; Nobuko Ohmido
Journal:  Chromosome Res       Date:  2021-02-22       Impact factor: 5.239

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