Modified DNA bearing 5(methoxycarbonylmethyl)-2'-deoxyuridine: preparation by PCR with thermophilic DNA polymerase and postsynthetic derivatization

Chembiochem. 2003 Jul 7;4(7):584-8. doi: 10.1002/cbic.200200539.

Abstract

A thymidine analogue bearing a methyl ester at the C5 position was accepted as a substrate by the thermophilic family B DNA polymerases, KOD Dash, Pwo, and Vent(exo-), to form the corresponding PCR product, but not by the thermophilic family A DNA polymerases, Taq, Tth, and T7 thermosequenase. Modified DNA containing this analogue was prepared by PCR on a large scale with KOD Dash DNA polymerase and 5(methoxycarbonylmethyl)-2'-deoxyuridine 5'-triphosphate as a substrate. The methyl ester of the modified DNA was further allowed to react with tris(2-aminoethyl)amine or histamine by an ester-amide exchange reaction to form the corresponding derivatized DNA bearing a tris(2-aminoethyl)amine or histamine moiety. Hydrolysis of the methyl ester of the modified DNA gave a functionalized DNA bearing an anionic carboxyl group. The derivatized DNA could act as a template for the PCR with KOD Dash DNA polymerase and the natural 2'-deoxythymidine 5'-triphosphate or the modified thymidine analogue as a substrate. The postsynthetic derivatization of the modified DNA may expand the variety of structurally modified DNA produced by PCR.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amines / chemistry
  • DNA / biosynthesis*
  • DNA / chemical synthesis*
  • DNA / chemistry
  • DNA-Directed DNA Polymerase / metabolism*
  • Deoxyuridine / analogs & derivatives*
  • Deoxyuridine / chemistry
  • Histamine / chemistry
  • Hydrolysis
  • Polymerase Chain Reaction
  • Pyrococcus / enzymology
  • Templates, Genetic

Substances

  • Amines
  • Histamine
  • DNA
  • DNA-Directed DNA Polymerase
  • Deoxyuridine