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Novel assemblies based on oligonucleotides containing intercalating nucleic acid monomers.

Asmaa Abdelrahman1,2, Alaa S Gouda1,3, Per T Jørgensen1

  • 1Biomolecular Nanoscale Engineering Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Odense M, Denmark.

Nucleosides, Nucleotides & Nucleic Acids
|November 2, 2019
PubMed
Summary

This study introduces twisted intercalating nucleic acid (TINA) and naphthalene linkers for stabilizing double-helical structures. One TINA construct successfully formed a thermostable duplex, demonstrating potential in nucleic acid nanotechnology.

Keywords:
DNAnaphthalenepi-interactionspyrenesupramolecule

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Oligonucleotide Chemistry

Background:

  • Oligonucleotide-based structures are crucial in molecular biology and nanotechnology.
  • Stabilizing double-helical nucleic acid structures is key for various applications.
  • Novel chemical modifications are needed to enhance duplex stability and functionality.

Purpose of the Study:

  • To explore the potential of twisted intercalating nucleic acid (TINA) and naphthalene-functionalized linkers.
  • To investigate the formation of stable double-helical structures and self-assemblies.
  • To evaluate the biophysical properties and structural characteristics of novel oligonucleotide constructs.

Main Methods:

  • Synthesis and characterization of four distinct oligonucleotide designs.
  • UV thermal melting experiments to assess duplex stability.
  • Circular dichroism and fluorescence spectroscopy for biophysical analysis.
  • Molecular modeling to elucidate structural and thermodynamic properties.

Main Results:

  • One TINA-containing construct demonstrated significant ability to form a thermostable duplex.
  • Investigated self-assembly properties and duplex formation capabilities of the designed constructs.
  • Biophysical data provided insights into the stability and behavior of the TINA-modified duplex.

Conclusions:

  • Twisted intercalating nucleic acid (TINA) and naphthalene linkers show promise in stabilizing nucleic acid duplexes.
  • The TINA modification can lead to the formation of highly stable double-helical structures.
  • This work lays the foundation for developing advanced oligonucleotide-based materials and therapeutics.