Rational tangle surgery and Xer recombination on catenanes
Isabel K. Darcy, Kai Ishihara, Ram K. Medikonduri, Koya Shimokawa
TL;DR
This paper models the action of protein recombinases on circular DNA, specifically catenanes, using rational tangle surgery to understand how knot types change during Xer recombination.
Contribution
It applies rational tangle surgery techniques to analyze Xer recombination on DNA catenanes, providing a mathematical framework for understanding knot transformations.
Findings
Characterizes band surgeries on specific knots and links
Applies tangle model to DNA recombination processes
Provides mathematical insights into DNA knot transformations
Abstract
The protein recombinase can change the knot type of circular DNA. The action of a recombinase converting one knot into another knot is normally mathematically modeled by band surgery. Band surgeries on a 2-bridge knot N((4mn-1)/(2m)) yielding a (2,2k)-torus link are characterized. We apply this and other rational tangle surgery results to analyze Xer recombination on DNA catenanes using the tangle model for protein-bound DNA.
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