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Nucleic Acids Research, 1988, Vol. 16, No. 7 3091-3099
© 1988

Articles

Deoxycytidine methylation does not affect DNA-RNA hybrid formation or B-A transitions of (dG)n.(dC)n sequences

G. Terrance Walker

Department of Chemistry and Laboratory of Chemical Biodynamics, University of California Berkeley, CA 94720, USA

Received November 9, 1987. Revised February 5, 1988. Accepted February 5, 1988.

Optical thermal denaturation and circular dichroism (CD) experiments were performed with the following non-selfcomplcmentaiy duplex DNA, RNA and DNARNA hybrids: (I) dGAG3C3G3CTC·dGAGC3G3C3TC, (II) dGAG3m5CTC·dGAGm5C3TC, (III) rGAG3C3G3CUC·rGAGC3G3C3UC, (IV) dGAG3C3G3CTC·rGAGC3G3G3UC, (V) rGAG3C3G3CUC·dGAGC3G3C3TC, (VI) dGAG3m5C3G3m5CTC·rGAGC3G3C3UC (VII)rGAG3C3G3CUC·dGAGm5C3G3m5C3TC.Duplex stabilities ({Delta}G° at 60°C) increase in the order: I>IV>II=V=VI>VII>III. Large enthalpic stabilization is associated with intrastrand stacking of guanosine (rG) residues. CD spectroscopy indicates B-form conformations for the unmethylated and methylaled DNA (I, II), A-form geometry for the RNA (III), and DNA-RNA hybrid (IV - VII) conformations resembling but not indentical to A-RNA. C5-methyldeoxycytidine does not significantly influence DNA conformation, DNA-RNA hybrid formation, or the ability of DNA to adopt an A-type conformation in thfluoroethanol solutions.


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