Mixed-Sequence Recognition of Double-Stranded DNA Using Enzymatically Stable Phosphorothioate Invader ProbesReportar como inadecuado

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Department of Chemistry, University of Idaho, Moscow, ID 83844-2343, USA


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Academic Editor: Ramon Eritja

Abstract Development of probes that allow for sequence-unrestricted recognition of double-stranded DNA dsDNA continues to attract much attention due to the prospect for molecular tools that enable detection, regulation, and manipulation of genes. We have recently introduced so-called Invader probes as alternatives to more established approaches such as triplex-forming oligonucleotides, peptide nucleic acids and polyamides. These short DNA duplexes are activated for dsDNA recognition by installment of +1 interstrand zippers of intercalator-functionalized nucleotides such as 2′-N-pyren-1-ylmethyl-2′-N-methyl-2′-aminouridine and 2′-O-pyren-1-ylmethyluridine, which results in violation of the nearest neighbor exclusion principle and duplex destabilization. The individual probes strands have high affinity toward complementary DNA strands, which generates the driving force for recognition of mixed-sequence dsDNA regions. In the present article, we characterize Invader probes that are based on phosphorothioate backbones PS-DNA Invaders. The change from the regular phosphodiester backbone furnishes Invader probes that are much more stable to nucleolytic degradation, while displaying acceptable dsDNA-recognition efficiency. PS-DNA Invader probes therefore present themselves as interesting probes for dsDNA-targeting applications in cellular environments and living organisms. View Full-Text

Keywords: DNA recognition; oligonucleotides; pyrene DNA recognition; oligonucleotides; pyrene

Autor: Brooke A. Anderson, Saswata Karmakar and Patrick J. Hrdlicka *

Fuente: http://mdpi.com/


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