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Russian Journal of Bioorganic Chemistry

, Volume 45, Issue 6, pp 677–683 | Cite as

Bridged Oligonucleotides with Smoothed Hybridization Properties as a Tool for Analysis of Nucleotide Sequences

  • I. A. PyshnayaEmail author
  • A. A. Lomzov
  • D. V. Pyshnyi
Article
  • 14 Downloads

Abstract

Bridged oligonucleotides that contain nonnucleotide inserts, i.e., diethylene glycol phosphate residues (DEG insert) have been studied. These oligonucleotide derivatives were shown to smooth the melting temperatures of their DNA duplexes of various nucleotide composition. The DEG insert has been shown to have almost no effect on the sequence specificity of modified oligonucleotides and regulate only their hybridization properties. It has been demonstrated that bridged oligonucleotides immobilized on microparticles can be successfully used to specifically and efficiently reveal DNA templates during the parallel solid-phase hybridization analysis. The use of bridged oligonucleotides along with DNA-dependent enzymes (Taq DNA polymerase and T4 DNA ligase) in this analysis has led to pronounced discrimination of wrong DNA molecules due to the covalent attachment of the label to the carrier, thus increasing the reliability of the hybridization analysis.

Keywords:

modified oligonucleotides bridged oligonucleotides nonnucleotide modifications smoothing hybridization properties enzymatic labeling melting temperature 

Notes

ACKNOWLEDGMENTS

The authors would like to thank V.V. Koval (Center of the Collective Use, ICBFM, SB RAS) for recording mass spectra of bridged oligonucleotides.

FUNDING

The design of bridged oligonucleotides was supported by the State project no. А-0309-2016-0004. The study of modified oligonucleotides in the presence of DNA-dependent enzymes was supported by the grant no. 18-14-00357 from the Russian Scientific Foundation.

COMPLIANCE WITH ETHICAL STANDARDS

This article does not contain any studies with the use of humans and animals as objects of research.

Conflict of Interests

The authors state that there is no conflict of interests.

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Copyright information

© Pleiades Publishing, Ltd. 2019

Authors and Affiliations

  • I. A. Pyshnaya
    • 1
    Email author
  • A. A. Lomzov
    • 1
  • D. V. Pyshnyi
    • 1
  1. 1.Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of SciencesNovosibirskRussia

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