Journal
CHEMBIOCHEM
Volume 16, Issue 9, Pages 1284-1287Publisher
WILEY-V C H VERLAG GMBH
DOI: 10.1002/cbic.201500034
Keywords
DNA junctions; DNA nanotechnology; lipid oligonucleotide conjugates; nanomedicine
Funding
- NIH [R01A151964]
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The construction of nanomaterials from oligonucleotides by modular assembly invariably requires the use of branched nucleic acid architectures such as three- and four-way junctions (3WJ and 4WJ). We describe the stabilization of DNA 3WJ by using non-nucleotide lipophilic spacers to create a hydrophobic pocket within the junction space. Stabilization of nucleic acid junctions is of particular importance when constructing nanostructures in the ultra-nano size range (<20 nm) with shorter double-stranded regions. UV thermal melting studies show that lipophilic spacers strategically placed within the junction space significantly increased thermal stability. For a 3WJ with eight base pair arms, thermal stability was increased from 30.5 degrees C for the unmodified junction to a maximum stability of 55.0 degrees C. The stability of the junction can be modulated within this temperature range by using the appropriate combinations of spacers.
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