Synthesis and properties of trans-3',4'-bridged nucleic acids having typical S-type sugar conformation

J Org Chem. 2006 Feb 17;71(4):1306-16. doi: 10.1021/jo051187l.

Abstract

The synthesis of nucleoside analogues with a conformationally restricted sugar moiety is of great interest. The present research describes the synthesis of BNA (bridged nucleic acid) monomers 1 and 2 bearing a 4,7-dioxabicyclo[4.3.0]nonane skeleton and a methoxy group at the C2' position. Conformational analysis showed that the sugar moiety of these monomers is restricted in a typical S-type conformation. It was difficult to synthesize the phosphoramidite derivative of the ribo-type monomer 1, while the phosphoramidite of the arabino-type monomer 2 was successfully prepared and incorporated into oligodeoxynucleotides (ODNs). The hybridization ability of the obtained ODN derivatives containing 2 with complementary strands was evaluated by melting temperature (T(m)) measurements. As a result, the ODN derivatives hybridized with DNA and RNA complements in a sequence-selective manner, though the stability of the duplexes was lower than that of the corresponding natural DNA/DNA or DNA/RNA duplex.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amides
  • Arabinonucleosides / chemical synthesis
  • Bridged-Ring Compounds / chemical synthesis*
  • Carbohydrate Conformation
  • Carbohydrates / chemistry*
  • DNA / metabolism
  • Nucleic Acid Denaturation
  • Nucleic Acid Hybridization
  • Nucleic Acids / chemical synthesis*
  • Oligodeoxyribonucleotides / chemical synthesis
  • Oligodeoxyribonucleotides / metabolism
  • Phosphoric Acids
  • RNA / metabolism
  • Temperature

Substances

  • Amides
  • Arabinonucleosides
  • Bridged-Ring Compounds
  • Carbohydrates
  • Nucleic Acids
  • Oligodeoxyribonucleotides
  • Phosphoric Acids
  • RNA
  • DNA
  • phosphoramidic acid