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Investigation of the ssDNA Backbone Molecule Mechanical Behavior Using Atomistic-Continuum Mechanics Method

C-N Han, C-Y Chou, C-J Wu and K-N Chiang
Advanced Microsystem Packaging and Nano-Mechanics Research Laboratory, National Tsing Hua University, TW

Keywords:
ssDNA backbone, atomistic continuum method (CAM), freely joint chain (FJC)

Abstract:
As is known, various important physiological functions and gene engineering processes, such as RNA transcription/DNA replication/DNA repair, involve specific bio-physical mechanics of DNA. Therefore, in this study, a novel single-stranded DNA (ssDNA) model based on the atomistic continuum method (CAM) is conducted to simulate the mechanical behavior of ssDNA. Through the validation of the single molecular experiment, the proposed ssDNA model could represent the ssDNA molecule in different salt buffer solution. It is often assumed that the elastic behavior of single-chain polymer can be modeled as the freely joint chain (FJC) of orientationally independent Kuhn segment. However, the mechanical characteristics of ssDNA could not be predicted accurately by the simple FJC model because the salt buffer solutions can be selected in arbitrary experiments.

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