H-Bond Templated Oligomer Synthesis Using a Covalent Primer

J Am Chem Soc. 2022 Sep 21;144(37):17307-17316. doi: 10.1021/jacs.2c08119. Epub 2022 Sep 9.

Abstract

Template-directed synthesis of nucleic acids in the polymerase chain reaction is based on the use of a primer, which is elongated in the replication process. The attachment of a high affinity primer to the end of a template chain has been implemented for templating the synthesis of triazole oligomers. A covalent ester base-pair was used to attach a primer to a mixed sequence template. The resulting primed template has phenol recognition units on the template, which can form noncovalent base-pairs with phosphine oxide monomers via H-bonding, and an alkyne group on the primer, which can react with the azide group on a phosphine oxide monomer. Competition reactions between azides bearing phosphine oxide and phenol recognition groups were used to demonstrate a substantial template effect, due to H-bonding interactions between the phenols on the template and phosphine oxides on the azide. The largest rate acceleration was observed when a phosphine oxide 2-mer was used, because this compound binds to the template with a higher affinity than compounds that can only make one H-bond. The 31P NMR spectrum of the product duplex shows that the H-bonds responsible for the template effect are present in the product, and this result indicates that the covalent ester base-pairs and noncovalent H-bonded base-pairs developed here are geometrically compatible. Following the templated reaction, it is possible to regenerate the template and liberate the copy strand by hydrolysis of the ester base-pair used to attach the primer, thus completing a formal replication cycle.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alkynes
  • Azides*
  • Esters
  • Nucleic Acids*
  • Oxides
  • Phenol
  • Phosphines
  • Templates, Genetic
  • Triazoles

Substances

  • Alkynes
  • Azides
  • Esters
  • Nucleic Acids
  • Oxides
  • Phosphines
  • Triazoles
  • Phenol
  • phosphine