Related Experiment Video
Updated: Jun 19, 2026

Atomic Force Microscopy Investigations of DNA Lesion Recognition in Nucleotide Excision Repair
Published on: May 24, 2017
Ultrasonic cleavage of nicked DNA
I A Il'icheva1, D Yu Nechipurenko, S L Grokhovsky
1Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Vavilov str. 32, Moscow, Russia. grok@imb.ac.ru.
Abstract:
Structural properties of nicked dsDNA have been an object of numerous studies due to their special role in reparation processes. Here we report experimental results covering ultrasound irradiation of a nicked dsDNA fragments. We have quantitatively estimated ultrasonic cleavage rates in these fragments using the polyacrylamide gel electrophoresis. Data reveal cleavage enhancement in the regions of about 10 b. p. up and down the nick. The intensity of ultrasonic cleavage near the nick is one order of magnitude higher than intensity of ultrasonic cleavage in the same sites of the intact dsDNA fragments. At the same time, the cleavage rates in positions beyond the regions around the nick markedly grow weak comparing to the sequence-specific cleavage rates of intact dsDNA. Thus, the presence of the nick serves as an expressive structural alteration which exceeds any modulation of the structure caused by the base-pair sequence.
Related Concept Videos
Nucleotide Excision Repair
Nucleotide Excision Repair
Cells are regularly exposed to mutagens—factors in the environment that can damage DNA and generate mutations. UV radiation is one of the most common mutagens and is estimated to introduce a significant number of changes in DNA. These include bends or kinks in the structure, which can block DNA replication or transcription. If these errors are not fixed, the damage can cause mutations, which in turn can result in cancer or disease depending on which sequences are...
Single-Strand DNA Binding Proteins
Homologous Recombination
Maxam-Gilbert Sequencing
Challenges of the Maxam-Gilbert Method
The...
Fixing Double-strand Breaks

