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Chen, Hu; Liu, Yanhui; Zhou, Zhen; Hu, Lin; Ou-Yang, Zhong-Can; Yan, Jie; Chen, H , Natl Univ Singapore, Dept Phys, 2 Sci Dr 3, Singapore 117542, Singapore
Temperature dependence of circular DNA topological states
Source PublicationPHYSICAL REVIEW E
KeywordDouble Helix Entropic Elasticity Free-energy Cyclization Fluctuations Simulations Kinking Length Twist
AbstractCircular double-stranded DNA has different topological states which are defined by their linking numbers. Equilibrium distribution of linking numbers can be obtained by closing a linear DNA into a circle by ligase. Using Monte Carlo simulation, we predict the temperature dependence of the linking number distribution of small circular DNAs. Our predictions are based on flexible defect excitations that resulted from local melting or unstacking of DNA base pairs. We found that the reduced bending rigidity alone can lead to measurable changes of the variance of linking number distribution of short circular DNAs. If the defect is accompanied by local unwinding, the effect becomes much more prominent. The predictions can be easily investigated in experiments, providing a new method to study the micromechanics of sharply bent DNAs and the thermal stability of specific DNA sequences. Furthermore, the predictions are directly applicable to the studies of binding of DNA-distorting proteins that can locally reduce DNA rigidity, form DNA kinks, or introduce local unwinding.
2009
ISSN1539-3755
Volume79Issue:4Pages:-
Subject AreaPhysics
Indexed BySCI
Funding OrganizationMinistry of Education of Singapore[R144000143112, R144000171101]; Chinese Academy of Sciences ; Ministry of Education of Singapore[R144000143112, R144000171101]; Chinese Academy of Sciences ; Ministry of Education of Singapore[R144000143112, R144000171101]; Chinese Academy of Sciences ; Ministry of Education of Singapore[R144000143112, R144000171101]; Chinese Academy of Sciences
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Cited Times:7[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.itp.ac.cn/handle/311006/5350
Collection理论物理所科研产出_SCI论文
Corresponding AuthorChen, H , Natl Univ Singapore, Dept Phys, 2 Sci Dr 3, Singapore 117542, Singapore
Recommended Citation
GB/T 7714
Chen, Hu,Liu, Yanhui,Zhou, Zhen,et al. Temperature dependence of circular DNA topological states[J]. PHYSICAL REVIEW E,2009,79(4):-.
APA Chen, Hu.,Liu, Yanhui.,Zhou, Zhen.,Hu, Lin.,Ou-Yang, Zhong-Can.,...&Chen, H , Natl Univ Singapore, Dept Phys, 2 Sci Dr 3, Singapore 117542, Singapore.(2009).Temperature dependence of circular DNA topological states.PHYSICAL REVIEW E,79(4),-.
MLA Chen, Hu,et al."Temperature dependence of circular DNA topological states".PHYSICAL REVIEW E 79.4(2009):-.
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