DNA bending potentials for loop-mediated nucleosome repositioning
Nucleosome repositioning is a fundamental process in gene function. DNA elasticity is a key element of loop-mediated nucleosome repositioning. Two analytical models for DNA elasticity have been proposed: the linear sub-elastic chain (SEC), which allows DNA kinking, and the worm-like chain (WLC), wit...
Saved in:
| Main Authors: | , , |
|---|---|
| Format: | Article (Journal) |
| Language: | English |
| Published: |
6 February 2012
|
| In: |
epl
Year: 2012, Volume: 97, Issue: 3 |
| ISSN: | 1286-4854 |
| DOI: | 10.1209/0295-5075/97/38004 |
| Online Access: | Verlag, Volltext: http://dx.doi.org/10.1209/0295-5075/97/38004 Verlag, Volltext: http://stacks.iop.org/0295-5075/97/i=3/a=38004 
|
| Author Notes: | M. Biswas, T. Wocjan, J. Langowski and J.C. Smith |
| Summary: | Nucleosome repositioning is a fundamental process in gene function. DNA elasticity is a key element of loop-mediated nucleosome repositioning. Two analytical models for DNA elasticity have been proposed: the linear sub-elastic chain (SEC), which allows DNA kinking, and the worm-like chain (WLC), with a harmonic bending potential. In vitro studies have shown that nucleosomes reposition in a discontiguous manner on a segment of DNA and this has also been found in ground-state calculations with the WLC analytical model. Here we study using Monte Carlo simulation the dynamics of DNA loop-mediated nucleosome repositioning at physiological temperatures using the SEC and WLC potentials. At thermal energies both models predict nearest-neighbor repositioning of nucleosomes on DNA, in contrast to the repositioning in jumps observed in experiments. This suggests a crucial role of DNA sequence in nucleosome repositioning. |
|---|---|
| Item Description: | Gesehen am 17.08.2018 |
| Physical Description: | Online Resource |
| ISSN: | 1286-4854 |
| DOI: | 10.1209/0295-5075/97/38004 |