Electrophoretic mobility of supercoiled, catenated and knotted DNA molecules.

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Serval ID
serval:BIB_D98515AFF191
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Electrophoretic mobility of supercoiled, catenated and knotted DNA molecules.
Journal
Nucleic Acids Research
Author(s)
Cebrián J., Kadomatsu-Hermosa M.J., Castán A., Martínez V., Parra C., Fernández-Nestosa M.J., Schaerer C., Martínez-Robles M.L., Hernández P., Krimer D.B., Stasiak A., Schvartzman J.B.
ISSN
1362-4962 (Electronic)
ISSN-L
0305-1048
Publication state
Published
Issued date
2015
Volume
43
Number
4
Pages
e24
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Abstract
We systematically varied conditions of two-dimensional (2D) agarose gel electrophoresis to optimize separation of DNA topoisomers that differ either by the extent of knotting, the extent of catenation or the extent of supercoiling. To this aim we compared electrophoretic behavior of three different families of DNA topoisomers: (i) supercoiled DNA molecules, where supercoiling covered the range extending from covalently closed relaxed up to naturally supercoiled DNA molecules; (ii) postreplicative catenanes with catenation number increasing from 1 to ∼15, where both catenated rings were nicked; (iii) knotted but nicked DNA molecules with a naturally arising spectrum of knots. For better comparison, we studied topoisomer families where each member had the same total molecular mass. For knotted and supercoiled molecules, we analyzed dimeric plasmids whereas catenanes were composed of monomeric forms of the same plasmid. We observed that catenated, knotted and supercoiled families of topoisomers showed different reactions to changes of agarose concentration and voltage during electrophoresis. These differences permitted us to optimize conditions for their separation and shed light on physical characteristics of these different types of DNA topoisomers during electrophoresis.
Pubmed
Web of science
Open Access
Yes
Create date
24/04/2015 7:14
Last modification date
20/08/2019 15:58
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