ArticleChromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology2011
Chromosome dynamics, molecular crowding, and diffusion in the interphase cell nucleus: a Monte Carlo lattice simulation study.
Article in Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 40 citations in OpenAlex.
- Review
- Random Motion of Chromatin Is Influenced by Lamin A Interconnections.Biophysical journal · 2018Article
- Out of the Randomness: Correlating Noise in Biological Systems.Biophysical journal · 2018Review
- Uniform Contraction-Expansion Description of Relative Centromere and Telomere Motion.Biophysical journal · 2015Article
- Loss of lamin A function increases chromatin dynamics in the nuclear interior.Nature communications · 2015Article
- Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling.Nucleic acids research · 2015Article
- Chromatin as dynamic 10-nm fibers.Chromosoma · 2014Review
- Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes.Nucleic acids research · 2014Article
- Effects of supercoiling on enhancer-promoter contacts.Nucleic acids research · 2014Article
- Influences of excluded volume of molecules on signaling processes on the biomembrane.PloS one · 2013Article
- Interphase chromatin organisation in Arabidopsis nuclei: constraints versus randomness.Chromosoma · 2012Article
- Cell cycle-dependent mobility of Cdc45 determined in vivo by fluorescence correlation spectroscopy.PloS one · 2012Article
- Structure determination of genomic domains by satisfaction of spatial restraints.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2011Review
- Flexible and dynamic nucleosome fiber in living mammalian cells.Nucleus (Austin, Tex.)Article
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Using Monte Carlo simulations, we have investigated the decondensation of chromosomes during interphase and the diffusive transport of spherical probe particles in the chromatin network. The chromatin fibers are modeled as semiflexible polymer chains on a fixed three-dimensional grid, taking into account their flexibility and eventual chain crossing by the aid of topoisomerases. The network thus created will obstruct the diffusion of macromolecules. A result of our simulations is that crowding of diffusing molecules leaves the dynamics of the chromosomes and the behavior of other diffusing molecules qualitatively unaffected. Furthermore, the capability of the simulated chromatin network to trap diffusing molecules over long times is lower than that measured in microrheological experiments. Microrheology is a technique that allows to determine the viscoelastic properties of a material by the motion of embedded tracer particles. Long-time trapping requires a stiff network, as only such a network quickly responds to the diffusive fluctuations of tracers and prevents them from squeezing through meshes. A high degree of crosslinking amplifies this effect. The presence of a flexible and uncrosslinked polymer simply increases the effective viscosity sensed by tracer particles. The diffusion of tracers in our simulations reveals rather viscous than elastic chromatin networks, suggesting that chromatin alone cannot account for the high elasticity of the cell nucleus.
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