ArticleNucleic acids research2017
Spatial confinement induces hairpins in nicked circular DNA.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Article
- The condensin holocomplex cycles dynamically between open and collapsed states.Nature structural & molecular biology · 2020Article
- Active topological glass.Nature communications · 2020Article
- Confinement-Induced Ordering and Self-Folding of Cellulose Nanofibrils.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2019Article
- Structure and Properties of DNA Molecules Over The Full Range of Biologically Relevant Supercoiling States.Scientific reports · 2018Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In living cells, DNA is highly confined in space with the help of condensing agents, DNA binding proteins and high levels of supercoiling. Due to challenges associated with experimentally studying DNA under confinement, little is known about the impact of spatial confinement on the local structure of the DNA. Here, we have used well characterized slits of different sizes to collect high resolution atomic force microscopy images of confined circular DNA with the aim of assessing the impact of the spatial confinement on global and local conformational properties of DNA. Our findings, supported by numerical simulations, indicate that confinement imposes a large mechanical stress on the DNA as evidenced by a pronounced anisotropy and tangent-tangent correlation function with respect to non-constrained DNA. For the strongest confinement we observed nanometer sized hairpins and interwound structures associated with the nicked sites in the DNA sequence. Based on these findings, we propose that spatial DNA confinement in vivo can promote the formation of localized defects at mechanically weak sites that could be co-opted for biological regulatory functions.
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