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GIAMPAOLO BARONE

Fishing for G-quadruplexes in solution with a perylene diimide derivative labeled with biotins

  • Authors: Busto, Natalia*; Calvo, Patricia; Santolaya, Javier; Leal, José M.; Guédin, Aurore; Barone, Giampaolo; Torroba, Tomás; Mergny, Jean-Louis; García, Begoña
  • Publication year: 2018
  • Type: Articolo in rivista (Articolo in rivista)
  • Key words: Biophysics; DNA; G-quadruplexes; Nucleic acids; Perilene; Catalysis; Organic Chemistry
  • OA Link: http://hdl.handle.net/10447/338541

Abstract

A new fluorescent, non-cytotoxic perylene diimide derivative with two biotins at the peri position, PDI2B, has been synthesized. This molecule is able to interact selectively with G-quadruplexes with scarce or no affinity towards single-or double-stranded DNA. These features have made it possible to design a simple, effective, safe, cheap, and selective method for fishing G-quad-ruplex structures in solution by use of PDI2B and strepta-vidin coated magnetic beads. The new cyclic method reported leads to the recovery of more than 80 % of G-quadruplex structures from solution, even in the presence of an excess of single-stranded or duplex DNA as competitors. Moreover, PDI2B is a G4 ligand that can display higher thermal stabilization and greater affinity for 2-over 3-tetrad quadruplexes, which constitutes a novel type of behavior.