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Thermodynamic analysis of nylon nucleic acids.

Authors
  • Liu, Yu1
  • Wang, Risheng
  • Ding, Liang
  • Sha, Ruojie
  • Lukeman, Philip S
  • Canary, James W
  • Seeman, Nadrian C
  • 1 Department of Chemistry, New York University, 100 Washington Square E., New York, NY 10003, USA.
Type
Published Article
Journal
ChemBioChem
Publisher
Wiley (John Wiley & Sons)
Publication Date
Jul 02, 2008
Volume
9
Issue
10
Pages
1641–1648
Identifiers
DOI: 10.1002/cbic.200800032
PMID: 18543259
Source
Medline
License
Unknown

Abstract

The stability and structure of nylon nucleic acid duplexes with complementary DNA and RNA strands was examined. Thermal denaturing studies of a series of oligonucleotides that contained nylon nucleic acids (1-5 amide linkages) revealed that the amide linkage significantly enhanced the binding affinity of nylon nucleic acids towards both complementary DNA (up to 26 degrees C increase in the thermal transition temperature (T(m)) for five linkages) and RNA (around 15 degrees C increase in T(m) for five linkages) compared with nonamide linked precursor strands. For both DNA and RNA complements, increasing derivatization decreased the melting temperatures of uncoupled molecules relative to unmodified strands; by contrast, increasing lengths of coupled copolymer raised T(m) from less to slightly greater than T(m) of unmodified strands. Thermodynamic data extracted from melting curves and CD spectra of nylon nucleic acid duplexes were consistent with loss of stability due to incorporation of pendent groups on the 2'-position of ribose and recovery of stability upon linkage of the side chains.

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