文献类型：期刊文献

英文题名：Complex phase transition of DNA condensation under crowding confinement conditions

作者：Gu, Lingyun[1,2];Zhou, Qian[1];Zhou, Haiping[3];Gao, Qingqing[1];Peng, Yixue[1];Song, Xiaoyi[1];Liu, Yong[1];Zhou, Xun[2];Liu, Yanhui[1]

机构：[1]Guizhou Univ, Coll Phys, Guiyang 550025, Guizhou, Peoples R China;[2]Guizhou Normal Univ, Sch Phys & Elect Sci, Guiyang 550025, Guizhou, Peoples R China;[3]Shaoxing Univ, Dept Comp Sci & Engn, Shaoxing 31200, Peoples R China

年份：2018

卷号：507

起止页码：489

外文期刊名：PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

收录：SCI-EXPANDED(收录号：WOS:000437385100041)、、EI(收录号：20182105235799)、Scopus(收录号：2-s2.0-85047251952)、WOS

基金：This research was supported by the National Natural Science Foundation of China under Grant Nos. 11047022, 11204045, and 11464004, Guizhou Provincial Tracking Key Program of Social Development, China (SY20123089, SZ20113069), the Research Foundation for Young University Teachers from Guizhou University, China (201311), College Innovation Talent Team of Guizhou Province, China (2014)32, the Research Foundation for Talents Recruitment program of Guizhou University, China (201404) and the State Scholarship Fund, China (20173015). Lingyun Gu and Qian Zhou contribute equally to this work.

语种：英文

外文关键词：DNA condensation; Phase transition; Monte Carlo simulation; Crowding effects; Confinement

外文摘要：The mechanism underlying the crowding effects that assist the condensation process by multivalent cations under confinement is not yet reported. Based on the strong correlation model, Monte Carlo simulation was implemented to detect the crowding effects on DNA condensation within a capsule-like space, and its geometry controlled by the aspect ratio. With the addition of crowders, the condensed conformations confined within the spherical space (aspect ratio is 1) become more compact than those without crowders. The DNA-condensed conformations undergo a transition from the initial random coil structure to toroid structure, followed by the extended rod-like structure, and finally to totally compacted structure. The critical volume fraction corresponding to the transition from the rodlike structure to totally compacted structure pertained to the crowder size proportionally. Moreover, the critical volume fraction corresponding to the phase transition strongly depends on the confinement geometry, the critical volume fraction for the case with constant radius is inversely proportional to the aspect ratio. Conversely, the case with constant cylinder length showed that the critical volume fraction is proportional to the aspect ratio. These phenomena are consistent with their corresponding phase diagram re-expressed in the space of volume fraction and aspect ratio. The effects of confinement geometry and crowder size on the response of DNA condensation to crowding are elucidated and generalized into the space diagram in the space of aspect ratio and crowder size. When the aspect ratio less than 1.6 and the crowder size larger than 2.0 nm or when the aspect ratio >= 1.6 and the crowder size larger than the critical c d(c)*, the DNA conformation undergo the transition from the initial random coil structure to toroid structure, followed by totally compacted structure; when the aspect ratio >= 1.6 and the crowder size >= d(c)*, the DNA condensed conformations will be condensed further from the totally compacted structure to the extended rod-like structure. Furthermore, the transition from the totally compacted structure to the extended rod-like structure is entirely due to the crowder size and the confinement geometry between the de Gennes and Odijk regimes. (C) 2018 Published by Elsevier B.V.