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. 1996 Oct 1;93(20):10679–10684. doi: 10.1073/pnas.93.20.10679

Targeting nucleic acid secondary structures by antisense oligonucleotides designed through in vitro selection.

R K Mishra 1, R Le Tinévez 1, J J Toulmé 1
PMCID: PMC38214  PMID: 8855239

Abstract

Using an in vitro selection approach, we have isolated oligonucleotides that can bind to a DNA hairpin structure. Complex formation of these oligonucleotides with the target hairpin involves some type of triple-stranded structure with noncanonical interaction, as indicated by bandshift assays and footprinting studies. The selected oligomers can block restriction endonuclease cleavage of the target hairpin in a sequence-specific manner. We demonstrate that in vitro selection can extend the antisense approach to functional targeting of secondary structure motifs. This could provide a basis for interfering with regulatory processes mediated by a variety of nucleic acid structures.

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