Optimal Kinematics of a Looped Filament

Francesca Maggioni (), Florian A. Potra () and Marida Bertocchi ()
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Francesca Maggioni: University of Bergamo
Florian A. Potra: University of Maryland
Marida Bertocchi: University of Bergamo

Journal of Optimization Theory and Applications, 2013, vol. 159, issue 2, No 11, 489-506

Abstract: Abstract New kinematics of supercoiling of closed filaments as solutions of the elastic energy minimization are proposed. The analysis is based on the thin rod approximation of the linear elastic theory, under conservation of the self-linking number. The elastic energy is evaluated by means of bending contribution and torsional influence. Time evolution functions are described by means of piecewise polynomial transformations based on cubic spline functions. In contrast with traditional interpolation, the parameters, which define the cubic splines representing the evolution functions, are considered as the unknowns in a nonlinear optimization problem. We show how the coiling process is associated with conversion of mean twist energy into bending energy through the passage by an inflexional configuration in relation to geometric characteristics of the filament evolution. These results provide new insights on the folding mechanism and associated energy contents and may find useful applications in folding of macromolecules and DNA packing in cell biology.

Keywords: Kinematics of curves; DNA supercoiling; Writhing; Twist; Deformation energy; Nonlinear optimization; Cubic B-spline representation (search for similar items in EconPapers)
Date: 2013
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DOI: 10.1007/s10957-013-0330-8

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