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Nucleic Acids Research, 2002, Vol. 30, No. 6 e24
© 2002 Oxford University Press

Construction and electrophoretic migration of single-stranded DNA knots and catenanes

Alexander Bucka and Andrzej Stasiak*

Laboratoire d’Analyse Ultrastructurale, Université de Lausanne, 1015 Lausanne-Dorigny, Switzerland

In recent years there has been growing interest in the question of how the particular topology of polymeric chains affects their overall dimensions and physical behavior. The majority of relevant studies are based on numerical simulation methods or analytical treatment; however, both these approaches depend on various assumptions and simplifications. Experimental verification is clearly needed but was hampered by practical difficulties in obtaining preparative amounts of knotted or catenated polymers with predefined topology and precisely set chain length. We introduce here an efficient method of production of various single-stranded DNA knots and catenanes that have the same global chain length. We also characterize electrophoretic migration of the produced single-stranded DNA knots and catenanes with increasing complexity.

* To whom correspondence should be addressed. Tel: +41 216 924282; Fax: +41 216 924105; Email: andrzej.stasiak{at}lau.unil.ch Present address:Alexander Bucka, European Patent Office, Directorate 1.2.12, NL-2280 HV Rijswijk, The Netherlands


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