Sequence-dependent twist-bend coupling in DNA minicircles

Abstract

Sequence-dependent coupling between DNA bending and its helical twist in DNA minicircles.

Dynamics of a DNA minicircle: Poloidal rotation and in‐plane circular vibration

“…The poloidal rotation occurs very rapidly as shown by the sudden changes in the poloidal angle by more than 200° within 100–200 ns. In our previous work, 26 we observed that the poloidal rotation is ceased when a structural defect called the kink occurs. Therefore, the continuous variation of the poloidal orientation in Figure 2a suggests that the DNA minicircle remains stable for 5 μs without any structural defect.…”

“…26 Here, we investigated internal dynamic of a DNA minicircle with the sequence of (AT) 45 /(AT) 45 by extending previous MD simulation duration to 5 μs. 26 In our previous work, the focus was entirely on the coupling between DNA bending and its helical twist, not the dynamics of DNA minicircles. Although the time correlation function (TCF) for the poloidal rotation was calculated, the result was discussed to justify the length of the MD simulation.…”

“…In addition, the correlation between sharp DNA bending and twisting between base pair has been suggested using the ideal, sequence‐independent DNA model 21–25 . Very recently, we performed the 1‐μs‐long MD simulations of DNA minicircles with various DNA sequences to reveal the sequence‐dependent coupling between DNA bending and its helical twist 26 …”

Demonstration of programmable light intensity of a micro-LED with a Hf-based ferroelectric ITZO TFT for Mura-free displays

“…Recent studies show that such low-temperature processes for deposition and annealing under 400 °C are sufficient to crystallize HZO films. [42][43][44]. Therefore, it will be compatible with TFT technologies.…”

Noncoding RNA therapeutics for substance use disorder

“…Third, instead of injecting RNA-based therapeutics directly into the brain in preclinical models, researchers are encouraged to test clinically relevant routes of administration for ncRNA treatments. For example, multiple studies have demonstrated the promise of intranasal administration as a way to bypass the blood-brain barrier ( 196 , 197 , 231 , 248 – 253 ). Intrathecal injections of modified ASOs and siRNAs and nanoparticle-containing nucleic acids have also achieved high brain uptake in preclinical and clinical studies ( 131 , 200 , 254 ) and should also be employed in SUD experiments.…”