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Simulations of Stretching Single Stranded DNA

Published online by Cambridge University Press:  21 March 2011

Abhishek Singh
Materials Science and Engineering, North Carolina State University, 911 Partners Way, Raleigh, NC, 27695 USA
Yaroslava G. Yingling
Materials Science and Engineering, North Carolina State University, 911 Partners Way, Raleigh, NC, 27695 USA
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Molecular dynamics simulations were performed to estimate sequence dependent force required to stretch single stranded DNA (ssDNA) homo oligonucleotides. Simulations suggest that polyA and polyC oligonucleotides exhibit similar force profiles and corresponding elongation. Among single stranded DNA strands polyT is the most flexible and needs the most force to unwind from an equilibrium folded structure. In contrast, polyG had a very small recoverable deformation prior to a non-linear stretching. Our results indicate that mechanical properties of ssDNA chains are directly related to their sequence.

Research Article
Copyright © Materials Research Society 2011

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