Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids

Lara D. Simon, Kimberly H. Abramo, Jarrett K. Sell, Linda B. McGown

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Interactions between short single-stranded DNA oligomers of homogeneous base composition and the fluorescent probes oxazole yellow (YO) and its homodimer YOYO are described. The oligomers included 15-mers and 30-mers of polydA, polydT, polydG, and polydC. Interactions between the dyes and DNA hybrids formed from complementary homogeneous strands of equal length were also investigated. No interactions were observed between the dyes and the monomeric monophosphate nucleosides A, G, T, or C. The dyes were found to interact much more strongly with the purine oligomers polydA and polydG than with the pyrimidine oligomers polydT and polydC. PolydA of both lengths has strong interactions with YOYO, whereas the polydG 30-mer interacts strongly with monomeric YO. The 15-mers of polydG and polydC of both lengths show little interaction with either dye. Interactions of the dyes with the polydA/ polydT and polydG/polydC hybrids tend to be dominated by interactions with polydA and polydG, respectively. Although dye interactions generally were facilitated by hybridization, particularly for polydA/polydT, the interactions were similar to those with the single strands and different from those that have been observed in long double-stranded DNA.

Original languageEnglish (US)
Pages (from-to)17-25
Number of pages9
JournalBiospectroscopy
Volume4
Issue number1
DOIs
StatePublished - Jan 1 1998

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Base Composition
Oligomers
DNA
Coloring Agents
Dyes
Chemical analysis
Single-Stranded DNA
Fluorescent Dyes
Nucleosides
oxazole yellow

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Simon, Lara D. ; Abramo, Kimberly H. ; Sell, Jarrett K. ; McGown, Linda B. / Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids. In: Biospectroscopy. 1998 ; Vol. 4, No. 1. pp. 17-25.
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Oxazole yellow dye interactions with short DNA oligomers of homogeneous base composition and their hybrids. / Simon, Lara D.; Abramo, Kimberly H.; Sell, Jarrett K.; McGown, Linda B.

In: Biospectroscopy, Vol. 4, No. 1, 01.01.1998, p. 17-25.

Research output: Contribution to journalArticle

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