Collective conformations of DNA polymers assembled on surface density gradients

Journal of the American Chemical Society
Gabriel ShemerRoy H Bar-Ziv

Abstract

To study dense double-stranded DNA (dsDNA) polymer phases, we fabricated continuous density gradients of binding sites for assembly on a photochemical interface and measured both dsDNA occupancy and extension using evanescent fluorescence. Despite the abundance of available binding sites, the dsDNA density saturates after occupation of only a fraction of the available sites along the gradient. The spatial position at which the density saturates marks the onset of collective stretching of dsDNA, a direct manifestation of balancing entropic and excluded-volume interactions. The methodology presented here offers a new means to investigate dense dsDNA compartments.

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Citations

Mar 9, 2013·Proceedings of the National Academy of Sciences of the United States of America·Dan BrachaRoy H Bar-Ziv
Jul 31, 2013·Wiley Interdisciplinary Reviews. Nanomedicine and Nanobiotechnology·Shirley S Daube, Roy H Bar-Ziv
May 27, 2014·Accounts of Chemical Research·Dan BrachaRoy H Bar-Ziv
Mar 7, 2014·Journal of the American Chemical Society·Dan Bracha, Roy H Bar-Ziv
Feb 13, 2020·Langmuir : the ACS Journal of Surfaces and Colloids·Satoshi NakamuraKuniharu Ijiro

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