Literature DB >> 20714801

Non-specific (entropic) forces as major determinants of the structure of mammalian chromosomes.

Kieran Finan1, Peter R Cook, Davide Marenduzzo.   

Abstract

Four specific forces (H-bonds, van der Waals forces, hydrophobic and charge interactions) shape the structure of proteins, and many biologists assume they will determine the shape of all structures in the cell. However, as the mass and contour length of a human chromosome are ~7 orders of magnitude larger than those of a typical protein, additional forces can become significant. We review evidence that additional non-specific (entropic) forces are major determinants of chromosomal shape and position. They are sufficient to drive the segregation (de-mixing) of newly replicated DNA to the poles of bacterial cells, while an entropic centrifuge can both form human chromosomes into territories and position them appropriately in nuclei; more locally, a depletion attraction can loop bacterial and human genomes.

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Year:  2011        PMID: 20714801     DOI: 10.1007/s10577-010-9150-y

Source DB:  PubMed          Journal:  Chromosome Res        ISSN: 0967-3849            Impact factor:   5.239


  44 in total

1.  Influences of chromosome size, gene density and nuclear position on the frequency of constitutional translocations in the human population.

Authors:  Wendy A Bickmore; Peter Teague
Journal:  Chromosome Res       Date:  2002       Impact factor: 5.239

2.  Solvation of proteins: linking thermodynamics to geometry.

Authors:  Hendrik Hansen-Goos; Roland Roth; Klaus Mecke; S Dietrich
Journal:  Phys Rev Lett       Date:  2007-09-17       Impact factor: 9.161

Review 3.  Self-organization in cell biology: a brief history.

Authors:  Eric Karsenti
Journal:  Nat Rev Mol Cell Biol       Date:  2008-03       Impact factor: 94.444

4.  What are the molecular ties that maintain genomic loops?

Authors:  Davide Marenduzzo; Inês Faro-Trindade; Peter R Cook
Journal:  Trends Genet       Date:  2007-02-05       Impact factor: 11.639

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.  Poised RNA polymerase II gives pause for thought.

Authors:  Thanasis Margaritis; Frank C P Holstege
Journal:  Cell       Date:  2008-05-16       Impact factor: 41.582

Review 7.  A model for all genomes: the role of transcription factories.

Authors:  Peter R Cook
Journal:  J Mol Biol       Date:  2009-10-21       Impact factor: 5.469

8.  Entropy-driven spatial organization of highly confined polymers: lessons for the bacterial chromosome.

Authors:  Suckjoon Jun; Bela Mulder
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-02       Impact factor: 11.205

9.  Random loop model for long polymers.

Authors:  Manfred Bohn; Dieter W Heermann; Roel van Driel
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2007-11-27

Review 10.  The concept of self-organization in cellular architecture.

Authors:  T Misteli
Journal:  J Cell Biol       Date:  2001-10-15       Impact factor: 10.539

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  12 in total

1.  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

2.  Quantified effects of chromosome-nuclear envelope attachments on 3D organization of chromosomes.

Authors:  Nicholas Allen Kinney; Alexey V Onufriev; Igor V Sharakhov
Journal:  Nucleus       Date:  2015       Impact factor: 4.197

3.  Macromolecular crowding as a regulator of gene transcription.

Authors:  Hiroaki Matsuda; Gregory Garbès Putzel; Vadim Backman; Igal Szleifer
Journal:  Biophys J       Date:  2014-04-15       Impact factor: 4.033

Review 4.  Centromeres: unique chromatin structures that drive chromosome segregation.

Authors:  Jolien S Verdaasdonk; Kerry Bloom
Journal:  Nat Rev Mol Cell Biol       Date:  2011-05       Impact factor: 94.444

5.  Epigenetic-structural changes in X chromosomes promote Xic pairing during early differentiation of mouse embryonic stem cells.

Authors:  Tetsushi Komoto; Masashi Fujii; Akinori Awazu
Journal:  Biophys Physicobiol       Date:  2022-05-10

6.  Centromere tethering confines chromosome domains.

Authors:  Jolien Suzanne Verdaasdonk; Paula Andrea Vasquez; Raymond Mario Barry; Timothy Barry; Scott Goodwin; M Gregory Forest; Kerry Bloom
Journal:  Mol Cell       Date:  2013-11-21       Impact factor: 17.970

7.  Mesoscale Modeling of Nucleosome-Binding Antibody PL2-6: Mono- versus Bivalent Chromatin Complexes.

Authors:  Christopher G Myers; Donald E Olins; Ada L Olins; Tamar Schlick
Journal:  Biophys J       Date:  2019-08-22       Impact factor: 4.033

8.  A new application of the phase-field method for understanding the mechanisms of nuclear architecture reorganization.

Authors:  S Seirin Lee; S Tashiro; A Awazu; R Kobayashi
Journal:  J Math Biol       Date:  2016-05-30       Impact factor: 2.259

Review 9.  Review series: The functions and consequences of force at kinetochores.

Authors:  Florencia Rago; Iain M Cheeseman
Journal:  J Cell Biol       Date:  2013-03-04       Impact factor: 10.539

10.  Investigation of the chromosome regions with significant affinity for the nuclear envelope in fruit fly--a model based approach.

Authors:  Nicholas Allen Kinney; Igor V Sharakhov; Alexey V Onufriev
Journal:  PLoS One       Date:  2014-03-20       Impact factor: 3.240

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