Chin. Phys. Lett.  2018, Vol. 35 Issue (11): 118701    DOI: 10.1088/0256-307X/35/11/118701
CROSS-DISCIPLINARY PHYSICS AND RELATED AREAS OF SCIENCE AND TECHNOLOGY |
Effect of Torsion on Cisplatin-Induced DNA Condensation
Bo Li1,2†, Chao Ji3†, Xi-Ming Lu1,2, Yu-Ru Liu1, Wei Li1, Shuo-Xing Dou1,2, Hui Li1**, Peng-Ye Wang1,2**
1National Laboratory for Condensed Matter Physics and Key Laboratory of Soft Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190
2School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049
3School of Bioscience and Biotechnology, Weifang Medical University, Weifang 261053
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Bo Li, Chao Ji, Xi-Ming Lu et al  2018 Chin. Phys. Lett. 35 118701
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Abstract We investigate the effect of torsion on DNA condensation with the covalently closed circular DNA as the torsion-constrained system, using an atomic force microscope. It is found that there are two stages in the DNA condensation process under torsional constraint. At the early stage, the low torsion will accelerate DNA condensation by promoting the formation of micro-loops or intersection structures; while at the later stage, the increasing torsion will slow it down by preventing the crosslinking of cisplatin and DNA since the DNA molecule becomes more rigid. Our results show the important role of torsion in DNA condensation and sheds new light on the mechanism for DNA condensation.
Received: 25 July 2018      Published: 23 October 2018
PACS:  87.14.gk (DNA)  
  87.64.Dz (Scanning tunneling and atomic force microscopy)  
  87.10.Pq (Elasticity theory)  
Fund: Supported by the National Natural Science Foundation of China under Grant Nos 11674383, 11774407 and 11874415, the Key Research Program of Frontier Sciences of Chinese Academy of Sciences under Grant No QYZDB-SSW-SLH045, the National Key Research and Development Program under Grant No 2016YFA0301500, the Higher Educational Science and Technology Program of Shandong Province under Grant No J16LM06, the Natural Science Foundation of Shandong Province under Grant No ZR2014AQ025, and the Program of Shandong Provincial Government International Exchanges.
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https://cpl.iphy.ac.cn/10.1088/0256-307X/35/11/118701       OR      https://cpl.iphy.ac.cn/Y2018/V35/I11/118701
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Bo Li
Chao Ji
Xi-Ming Lu
Yu-Ru Liu
Wei Li
Shuo-Xing Dou
Hui Li
Peng-Ye Wang
[1]Luger K et al 1997 Nature 389 251
[2]Lim C J et al 2013 Nucl. Acids Res. 41 746
[3]Nelson P 1999 Proc. Natl. Acad. Sci. USA 96 14342
[4]Liu L F and Wang J C 1987 Proc. Natl. Acad. Sci. USA 84 7024
[5]Alexandrov A I et al 1999 Genetica 106 131
[6]Pruss G J and Drlica K 1989 Cell 56 521
[7]Crisona N J et al 1994 J. Mol. Biol. 243 437
[8]Vologodskii A and Cozzarelli N R 1996 Biophys. J. 70 2548
[9]Chaney S G et al 2004 J. Inorg. Biochem. 98 1551
[10]Jamieson E R and Lippard S J 1999 Chem. Rev. 99 2467
[11]Reedijk J 1999 Chem. Rev. 99 2499
[12]Rosenberg B 1978 Biochimie 60 859
[13]Pinto A L and Lippard S J 1985 Biochim. Biophys. Acta 780 167
[14]Bruhn S L, Toney J H and Lippard S J 1990 Prog. Inorg. Chem. 38 477
[15]Bancroft D P, Lepre C A and Lippard S J 1990 J. Am. Chem. Soc. 112 6860
[16]Reedijk J 2003 Proc. Natl. Acad. Sci. USA 100 3611
[17]Onoa G B et al 1998 Nucl. Acids Res. 26 1473
[18]Fang Y and Hoh J H 1998 J. Am. Chem. Soc. 120 8903
[19]Lee N K et al 2008 Phys. Rev. Lett. 101 248101
[20]Husale S, Grange W and Hegner M 2002 Single Mol. 3 91
[21]Rivetti C, Guthold M and Bustamante C 1996 J. Mol. Biol. 264 919
[22]Lodge J K, Kazic T and Berg D E 1989 J. Bacteriol. 171 2181
[23]Chen H and Yan J 2008 Phys. Rev. E 77 041907
[24]Hou X M et al 2009 Nucl. Acids Res. 37 1400
[25]Yan J and Marko J F 2003 Phys. Rev. E 68 011905
[26]Liu Y R et al 2013 Arch. Biochem. Biophys. 536 12
[27]Zhang H Y et al 2013 PLOS ONE 8 e71556
[28]Ji C, Zhang L Y and Wang P Y 2013 Phys. Rev. E 88 042703
[29]Ju H P et al 2014 Sci. Chin. Phys. Mech. Astron. 57 2114
[30]Cherstvy A G 2011 J. Biol. Phys. 37 227
[31]Wang Y W and Yang G C 2017 Chin. Phys. B 26 128706
[32]Ran S Y and Jia J L 2015 Chin. Phys. B 24 128702
[33]Estevez-Torres A and Baigl D 2011 Soft Matter 7 6746
[34]Hultgren A and Rau D C 2004 Biochemistry 43 8272
[35]Walter N G et al 2008 Nat. Methods 5 475
[36]Ran S Y, Sun B and Li M 2007 Physics 36 228 (in Chinese)
[37]Deniz A A, Mukhopadhyay S and Lemke E A 2008 J. R. Soc. Interface 5 15
[38]Ran S Y et al 2011 J. Phys. Chem. B 115 4568
[39]Fu W B et al 2006 J. Am. Chem. Soc. 128 15040
[40]Wilson R W and Bloomfield V A 1979 Biochemistry 18 2192
[41]Ji C et al 2014 Chin. Sci. Bull. 59 3085
[42]Sheinin M Y et al 2013 Nat. Commun. 4 2579
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