Odijk Excluded Volume Interactions during the Unfolding of DNA Confined in a Nanochannel

Jeffrey G. Reifenberger, Han Cao, Kevin D. Dorfman

Research output: Contribution to journalArticlepeer-review

7 Scopus citations


We report experimental data on the unfolding of human and E. coli genomic DNA molecules shortly after injection into a 45 nm nanochannel. The unfolding dynamics are deterministic, consistent with previous experiments and modeling in larger channels, and do not depend on the biological origin of the DNA. The measured entropic unfolding force per friction per unit contour length agrees with that predicted by combining the Odijk excluded volume with numerical calculations of the Kirkwood diffusivity of confined DNA. The time scale emerging from our analysis has implications for genome mapping in nanochannels, especially as the technology moves toward longer DNA, by setting a lower bound for the delay time before making a measurement.

Original languageEnglish (US)
Pages (from-to)1172-1180
Number of pages9
Issue number3
StatePublished - Feb 13 2018

Bibliographical note

Funding Information:
This work was supported by NIH R01-HG006851. We thank Hui-Min Chuang and Aditya Bhandari for assistance in computing the ionic-strength-dependent parameters.

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