Configuration Transitions of Free Circular DNA System Induced by Nicks
Nicks have important functions in the biological functions of DNA-mediated systems. However, the configuration transitions of DNA molecules induced by the presence of nicks have not been quantitatively investigated. This study aims to analyze the configuration transitions of free circular DNA system...
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2015-01-01
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Series: | Journal of Nanomaterials |
Online Access: | http://dx.doi.org/10.1155/2015/546851 |
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doaj-aa6f4d1d9f7144e89dc928ae03889adf2020-11-24T22:52:05ZengHindawi LimitedJournal of Nanomaterials1687-41101687-41292015-01-01201510.1155/2015/546851546851Configuration Transitions of Free Circular DNA System Induced by NicksChao Ji0Lingyun Zhang1Pengye Wang2Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, ChinaBeijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, ChinaBeijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, ChinaNicks have important functions in the biological functions of DNA-mediated systems. However, the configuration transitions of DNA molecules induced by the presence of nicks have not been quantitatively investigated. This study aims to analyze the configuration transitions of free circular DNA system induced by nicks. Using atomic force microscopy, two configuration states were observed in the free circular DNA system with different nick numbers. To understand the transmission of torsional energy among DNA base pairs, we defined the effective length and nicking angle. In the free DNA system, a torsional energy of 233 bp can be completely released by nicks. Based on the experimental and quantitative results, we propose a physical mechanism to explain the configuration transitions of the free circular DNA system induced by nicks. This study and the presented method are very useful in understanding the physical mechanism of nicks in DNA-mediated systems.http://dx.doi.org/10.1155/2015/546851 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Chao Ji Lingyun Zhang Pengye Wang |
spellingShingle |
Chao Ji Lingyun Zhang Pengye Wang Configuration Transitions of Free Circular DNA System Induced by Nicks Journal of Nanomaterials |
author_facet |
Chao Ji Lingyun Zhang Pengye Wang |
author_sort |
Chao Ji |
title |
Configuration Transitions of Free Circular DNA System Induced by Nicks |
title_short |
Configuration Transitions of Free Circular DNA System Induced by Nicks |
title_full |
Configuration Transitions of Free Circular DNA System Induced by Nicks |
title_fullStr |
Configuration Transitions of Free Circular DNA System Induced by Nicks |
title_full_unstemmed |
Configuration Transitions of Free Circular DNA System Induced by Nicks |
title_sort |
configuration transitions of free circular dna system induced by nicks |
publisher |
Hindawi Limited |
series |
Journal of Nanomaterials |
issn |
1687-4110 1687-4129 |
publishDate |
2015-01-01 |
description |
Nicks have important functions in the biological functions of DNA-mediated systems. However, the configuration transitions of DNA molecules induced by the presence of nicks have not been quantitatively investigated. This study aims to analyze the configuration transitions of free circular DNA system induced by nicks. Using atomic force microscopy, two configuration states were observed in the free circular DNA system with different nick numbers. To understand the transmission of torsional energy among DNA base pairs, we defined the effective length and nicking angle. In the free DNA system, a torsional energy of 233 bp can be completely released by nicks. Based on the experimental and quantitative results, we propose a physical mechanism to explain the configuration transitions of the free circular DNA system induced by nicks. This study and the presented method are very useful in understanding the physical mechanism of nicks in DNA-mediated systems. |
url |
http://dx.doi.org/10.1155/2015/546851 |
work_keys_str_mv |
AT chaoji configurationtransitionsoffreecirculardnasysteminducedbynicks AT lingyunzhang configurationtransitionsoffreecirculardnasysteminducedbynicks AT pengyewang configurationtransitionsoffreecirculardnasysteminducedbynicks |
_version_ |
1725667239797981184 |