Design and Visualization of DNA/RNA Nanostructures from Branched Oligonucleotides Using Blender Software

A. Yu Bakulina, Z. V. Rad’kova, E. A. Burakova, E. Benassi, T. S. Zatsepin, A. A. Fokina, D. A. Stetsenko

Research output: Contribution to journalArticlepeer-review

Abstract

Recently, three-dimensional nucleic acid nanostructures have attracted great interest, which have been made available through the DNA origami technique. We have proposed a different way of constructing nucleic acid nanoobjects, namely, template-directed assembly employing branched oligonucleotides as templates and building blocks, which include nonnucleotidic linkers, particularly, branching units for connecting three or more oligonucleotide chains. For the design and 3D modelling of such nanostructures as DNA tetrahedron, DNA cube and DNA fullerene C24, we have used Blender software. As we found, Blender not only allows one to visualize complex DNA and RNA nanostructures, but also helps to choose the parameters for their synthesis.

Original languageEnglish
Pages (from-to)608-618
Number of pages11
JournalRussian Journal of Bioorganic Chemistry
Volume45
Issue number6
DOIs
Publication statusPublished - 1 Nov 2019

Keywords

  • branched oligonucleotides
  • click chemistry
  • computer modelling
  • DNA nanotechnology
  • nucleic acids
  • solid-phase synthesis
  • template-directed assembly

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