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Abstract
formed by bisPNA openers and amixed-base (mb) oligonucleotide on double-stranded (ds)DNA enable various diagnostic and biotechnologicalmanipulations with linear DNA duplexes [1–5]. So far, thePD-loop formation requires the use of two homopyrimi-dine bisPNA oligomers to open the DNA duplex for bind-ing an oligonucleotide [6]. This condition imposes certainsequence limitations on the PD-loop-forming sites. Besides,substantial overlap between the bisPNA and oligonucleo-tide sequences is an unavoidable feature of PD-loops.Indeed, only those oligonucleotides that are longer than 10nt can form suYciently stable hybridization complexeswithin the PD-loops, whereas for their eYcient formationthe peptide nucleic acid (PNA) openers cannot be separatedby more than 10bp [6].
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