Literature DB >> 18234217

Hydrodynamic studies on defined heterochromatin fragments support a 30-nm fiber having six nucleosomes per turn.

Rodolfo Ghirlando1, Gary Felsenfeld.   

Abstract

We have compared the physical properties of a 15.51-kb constitutive heterochromatin segment and a 16.17-kb facultative heterochromatin segment that form part of the chicken beta-globin locus. These segments were excised from an avian erythroleukemia cell line by restriction enzyme digestion and released from the nucleus, thus allowing measurement of the sedimentation coefficients by use of calibrated sucrose gradients. A determination of the buoyant density of the cross-linked particle in CsCl led to the total mass of the particles and their frictional coefficients, f. Despite the slight differences in nucleosome density, the measured value of f for both fragments was consistent with a rodlike particle having a diameter of 33-45 nm and a length corresponding to approximately six to seven nucleosomes per 11-nm turn. At higher ionic strengths we found no evidence of any abrupt conformational change, demonstrating that these chromatin fragments released from the nucleus did not assume the more compact conformations recently described for some reconstituted structures.

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Year:  2008        PMID: 18234217      PMCID: PMC2774144          DOI: 10.1016/j.jmb.2007.12.051

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  35 in total

1.  Distinctive higher-order chromatin structure at mammalian centromeres.

Authors:  N Gilbert; J Allan
Journal:  Proc Natl Acad Sci U S A       Date:  2001-10-09       Impact factor: 11.205

2.  Chromatin architecture of the human genome: gene-rich domains are enriched in open chromatin fibers.

Authors:  Nick Gilbert; Shelagh Boyle; Heike Fiegler; Kathryn Woodfine; Nigel P Carter; Wendy A Bickmore
Journal:  Cell       Date:  2004-09-03       Impact factor: 41.582

3.  Physical properties of a genomic condensed chromatin fragment.

Authors:  Rodolfo Ghirlando; Michael D Litt; Marie-Noëlle Prioleau; Félix Recillas-Targa; Gary Felsenfeld
Journal:  J Mol Biol       Date:  2004-02-20       Impact factor: 5.469

4.  Solenoidal model for superstructure in chromatin.

Authors:  J T Finch; A Klug
Journal:  Proc Natl Acad Sci U S A       Date:  1976-06       Impact factor: 11.205

5.  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

6.  Higher-order structures of chromatin in solution.

Authors:  P Suau; E M Bradbury; J P Baldwin
Journal:  Eur J Biochem       Date:  1979-07

7.  Hydrodynamic properties and structure of fd virus.

Authors:  J Newman; H L Swinney; L A Day
Journal:  J Mol Biol       Date:  1977-11-05       Impact factor: 5.469

8.  Correlation between histone lysine methylation and developmental changes at the chicken beta-globin locus.

Authors:  M D Litt; M Simpson; M Gaszner; C D Allis; G Felsenfeld
Journal:  Science       Date:  2001-08-09       Impact factor: 47.728

9.  Higher-order structure of nucleosome oligomers from short-repeat chromatin.

Authors:  E C Pearson; P J Butler; J O Thomas
Journal:  EMBO J       Date:  1983       Impact factor: 11.598

10.  Involvement of histone H1 in the organization of the nucleosome and of the salt-dependent superstructures of chromatin.

Authors:  F Thoma; T Koller; A Klug
Journal:  J Cell Biol       Date:  1979-11       Impact factor: 10.539

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  36 in total

1.  Evidence for short-range helical order in the 30-nm chromatin fibers of erythrocyte nuclei.

Authors:  Margot P Scheffer; Mikhail Eltsov; Achilleas S Frangakis
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-03       Impact factor: 11.205

Review 2.  Minimizing the unpredictability of transgene expression in plants: the role of genetic insulators.

Authors:  Stacy D Singer; Zongrang Liu; Kerik D Cox
Journal:  Plant Cell Rep       Date:  2011-10-11       Impact factor: 4.570

Review 3.  Genome organizing function of SATB1 in tumor progression.

Authors:  Terumi Kohwi-Shigematsu; Krzysztof Poterlowicz; Ellen Ordinario; Hye-Jung Han; Vladimir A Botchkarev; Yoshinori Kohwi
Journal:  Semin Cancer Biol       Date:  2012-07-04       Impact factor: 15.707

4.  Hierarchical looping of zigzag nucleosome chains in metaphase chromosomes.

Authors:  Sergei A Grigoryev; Gavin Bascom; Jenna M Buckwalter; Michael B Schubert; Christopher L Woodcock; Tamar Schlick
Journal:  Proc Natl Acad Sci U S A       Date:  2016-01-19       Impact factor: 11.205

5.  The effect of internucleosomal interaction on folding of the chromatin fiber.

Authors:  René Stehr; Nick Kepper; Karsten Rippe; Gero Wedemann
Journal:  Biophys J       Date:  2008-07-25       Impact factor: 4.033

6.  Revisit of Reconstituted 30-nm Nucleosome Arrays Reveals an Ensemble of Dynamic Structures.

Authors:  Bing-Rui Zhou; Jiansheng Jiang; Rodolfo Ghirlando; Davood Norouzi; K N Sathish Yadav; Hanqiao Feng; Rui Wang; Ping Zhang; Victor Zhurkin; Yawen Bai
Journal:  J Mol Biol       Date:  2018-06-27       Impact factor: 5.469

7.  Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions.

Authors:  Sergei A Grigoryev; Gaurav Arya; Sarah Correll; Christopher L Woodcock; Tamar Schlick
Journal:  Proc Natl Acad Sci U S A       Date:  2009-07-27       Impact factor: 11.205

8.  [Opposite Effects of Histone H1 and HMGN5 Protein on Distant Interactions in Chromatin].

Authors:  E V Nizovtseva; Y S Polikanov; O I Kulaeva; N Clauvelin; Y V Postnikov; W K Olson; V M Studitsky
Journal:  Mol Biol (Mosk)       Date:  2019 Nov-Dec

9.  Spatially confined folding of chromatin in the interphase nucleus.

Authors:  Julio Mateos-Langerak; Manfred Bohn; Wim de Leeuw; Osdilly Giromus; Erik M M Manders; Pernette J Verschure; Mireille H G Indemans; Hinco J Gierman; Dieter W Heermann; Roel van Driel; Sandra Goetze
Journal:  Proc Natl Acad Sci U S A       Date:  2009-02-20       Impact factor: 11.205

10.  Learning a weighted sequence model of the nucleosome core and linker yields more accurate predictions in Saccharomyces cerevisiae and Homo sapiens.

Authors:  Sheila M Reynolds; Jeff A Bilmes; William Stafford Noble
Journal:  PLoS Comput Biol       Date:  2010-07-08       Impact factor: 4.475

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