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DNA condensation and size effects of DNA condensation agent |
Yan-Hui Liu1,2( ), Chong-Ming Jiang3, Xin-Miao Guo1, Yan-Lin Tang1, Lin Hu1() |
| 1. College of Science, Guizhou University, Guiyang 550025, China; 2. State Key Laboratory of Theoretical Physics, Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing 100190, China; 3. Department of Physics, Sun Yat-Sen University, Guangzhou 510275, China |
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Abstract Based on the model of the strong correlation of counterions condensed on DNA molecule, by tailoring interaction potential, interduplex spacing and correlation spacing between condensed counterions on DNA molecule and interduplex spacing fluctuation strength, toroidal configuration, rod-like configuration and two-hole configurations are possible. The size effects of counterion structure on the toroidal structure can be detected by this model. The autocorrelation function of the tangent vectors is found as an effective way to detect the structure of toroidal conformations and the generic pathway of the process of DNA condensation. The generic pathway of all of the configurations involves an initial nucleation loop, and the next part of the DNA chain is folded on the top of the initial nucleation loop with different manners, in agreement with the recent experimental results.
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DNA condensation
Monte Carlo simulation
size effects of condensation agent
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Corresponding Author(s):
Liu Yan-Hui,Email:ionazati@itp.ac.cn; Hu Lin,Email:lhu@gzu.edu.cn
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Issue Date: 01 August 2013
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