Thermodynamics and kinetics of DNA, RNA, and hybrid oligonucleotide double-strand formation
The double strands formed by the RNA, DNA, and RNA.DNA hybrid oligonucleotides rCA/sub 5/G + rCU/sub 5/G, dCA/sub 5/G + dCt/sub 5/G and rCA/sub 5/G + dCT/sub 5/G were studied in order to determine the differences in the stability and dynamics of RNA and DNA. The thermodynamics of double-strand formation were determined by measuring the absorbance vs temperature at 260 nm for different strand concentrations. The deoxyribo-oligonucleotides were found to be more stable, due to a more favorable enthalpy, than the ribo-oligonucleotides. The double strands were found to aggregate, and the extent of aggregation was determined by analytical untracentrifugation. It was found that the double strands formed dangling ends by breaking the terminal C.G base pairs and forming all of the internal A.U base pairs. The kinetics of double-strand formation of these oligonucleotides were studied using temperature-jump kinetic techniques. The greater stability of these deoxyribo-oligonucleotides relative to the ribo-oligonucleotides was found to be due to both a faster recombination rate and a slower dissociation rate for the deoxyribo-oligonucleotides. The hybrid oligonucleotide kinetic properties were similar to the ribo-oligonucleotides. The intercalation of ethidium ion into these oligonucleotide double strands was measured by monitoring the absorbance vs temperature at two wavelengths, 260 and 283 nm.
- Research Organization:
- Lawrence Berkeley Lab., CA (USA)
- DOE Contract Number:
- AC03-76SF00098
- OSTI ID:
- 6641601
- Report Number(s):
- LBL-15125; ON: DE83003394
- Country of Publication:
- United States
- Language:
- English
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