Locked nucleic acids and intercalating nucleic acids in the design of easily denaturing nucleic acids: Thermal stability studies.

V.V. Filichev, K.M.H. Hilmy, Ulf B. Christensen, Erik Bjerreg. Pedersen, Bolle Ravindra Babu, Jesper Wengel

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

Abstrakt

Intercalating nucleic acids (INA®s) with insertions of (R)‐1‐O‐(1‐pyrenylmethyl)glycerol were hybridized with locked nucleic acids (LNAs). INA/LNA duplexes were found to be less stable than the corresponding DNA/LNA duplexes when the INA monomer was inserted as a bulge close to the LNA monomers in the opposite strand. This property was used to make “quenched” complements that possess LNA in hairpins and in duplexes and are consequently more accessible for targeting native DNA. The duplex between a fully modified 13‐mer LNA sequence and a complementary INA with six pyrene residues inserted after every second base as a bulge was found to be very unstable (Tm=30.1 °C) in comparison with the unmodified double‐stranded DNA (Tm=48.7 °C) and the corresponding duplexes of LNA/DNA (Tm=81.6 °C) and INA/DNA (Tm=66.4 °C). A thermal melting experiment of a mixture of an LNA hairpin, with five LNA nucleotides in the stem, and its complementary DNA sequence gave a transition with an extremely low increase in optical density (hyperchromicity). When two INA monomers were inserted into the stem of the LNA hairpin, the same experiment resulted in a significant hyperchromicity comparable with the one obtained for the corresponding DNA/DNA duplex.

OriginalsprogEngelsk
TidsskriftChemBioChem
Vol/bind5
Udgave nummer12
Sider (fra-til)1673-1679
ISSN1439-4227
DOI
StatusUdgivet - 2004

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