How does temperature impact the conformation of single DNA molecules below melting temperature?

Nucleic Acids Research
Annaël BrunetCatherine Tardin

Abstract

The double stranded DNA molecule undergoes drastic structural changes during biological processes such as transcription during which it opens locally under the action of RNA polymerases. Local spontaneous denaturation could contribute to this mechanism by promoting it. Supporting this idea, different biophysical studies have found an unexpected increase in the flexibility of DNA molecules with various sequences as a function of the temperature, which would be consistent with the formation of a growing number of locally denatured sequences. Here, we take advantage of our capacity to detect subtle changes occurring on DNA by using high throughput tethered particle motion to question the existence of bubbles in double stranded DNA under physiological salt conditions through their conformational impact on DNA molecules ranging from several hundreds to thousands of base pairs. Our results strikingly differ from previously published ones, as we do not detect any unexpected change in DNA flexibility below melting temperature. Instead, we measure a bending modulus that remains stable with temperature as expected for intact double stranded DNA.

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Citations

May 26, 2020·Nucleic Acids Research·Soichi HirokawaRob Phillips
Jun 4, 2019·Frontiers in Chemistry·Ting-Xuan LinChih-Ching Huang
Feb 6, 2019·Physical Review Letters·Sébastien GuilbaudCatherine Tardin
Oct 21, 2020·Physical Review. E·Debjyoti Majumdar, Somendra M Bhattacharjee
Jul 16, 2019·Methods : a Companion to Methods in Enzymology·Manoel ManghiAnnaël Brunet
Jul 29, 2019·Methods : a Companion to Methods in Enzymology·Jean-François AllemandLaurence Salomé
Jun 18, 2021·Physical Review. E·Debjyoti Majumdar
Apr 10, 2019·The Journal of Physical Chemistry. B·Ashok Kumar NayakUmakanta Subudhi
Aug 14, 2020·Journal of the American Chemical Society·Ashkan KarimiNathan W Luedtke
Nov 9, 2021·Chemical Reviews·Zhiwei LiYadong Yin

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