A parallel stranded G-quadruplex composed of threose nucleic acid (TNA)

Biopolymers. 2017 Mar;107(3). doi: 10.1002/bip.22999.

Abstract

G-rich sequences can adopt four-stranded helical structures, called G-quadruplexes, that self-assemble around monovalent cations like sodium (Na+ ) and potassium (K+ ). Whether similar structures can be formed from xeno-nucleic acid (XNA) polymers with a shorter backbone repeat unit is an unanswered question with significant implications on the fold space of functional XNA polymers. Here, we examine the potential for TNA (α-l-threofuranosyl nucleic acid) to adopt a four-stranded helical structure based on a planar G-quartet motif. Using native polyacrylamide gel electrophoresis (PAGE), circular dichroism (CD) and solution-state nuclear magnetic resonance (NMR) spectroscopy, we show that despite a backbone repeat unit that is one atom shorter than the backbone repeat unit found in DNA and RNA, TNA can self-assemble into stable G-quadruplex structures that are similar in thermal stability to equivalent DNA structures. However, unlike DNA, TNA does not appear to discriminate between Na+ and K+ ions, as G-quadruplex structures form equally well in the presence of either ion. Together, these findings demonstrate that despite a shorter backbone repeat unit, TNA is capable of self-assembling into stable G-quadruplex structures.

Keywords: quadruplex; synthetic genetics; xeno-nucleic acids.

MeSH terms

  • Circular Dichroism
  • G-Quadruplexes*
  • Magnetic Resonance Spectroscopy
  • Native Polyacrylamide Gel Electrophoresis
  • Nucleic Acid Conformation
  • Nucleic Acids / chemical synthesis
  • Nucleic Acids / chemistry*
  • Oligonucleotides / chemical synthesis
  • Oligonucleotides / chemistry
  • Tetroses / chemistry*

Substances

  • Nucleic Acids
  • Oligonucleotides
  • Tetroses
  • erythrose