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Nucleic Acids Research, 1980, Vol. 8, No. 20 4709-4726
© 1980

MOLECULAR BIOLOGY

Ordered distribution of modified bases in the DNA of a dinoflagellate

Robert E. Steele* and Peter M.M. Rae

Department of Biology, Yale University New Haven, CT 06511, USA

Received July 14, 1980.

In DNA of the dinoflagellate Crypthecodinium cohnii 38% of the thymine is replaced by the modified base 5-hydroxymethyluracil and {small tilde} 3% of the cytosine is replaced by 5-methylcytosine. Both of the modified bases are non-randomly distributed in the DNA. Determinations of 3' nearest neighbors show that HOMeU is preferentially located in the dinucleotides HOMeUpA and HOMeUpC. Pyrimidine tract analysis shows that HOMeU is also greatly enriched in the trinucleotide purine-HOMeU-purine. As in other eukaryotes, methylcytosine in C. cohnii DNA occurs predominantly in the dinucleotide MeCpG. By analysis of restriction endonuclease digestion patterns of C. cohnii total DNA and ribosomal DNA, we have found that the central CpG dinucleotides in the sites for the enzymes Hpa II (CCGG) and Hpa I (GCGC) are extensively methylated in both total DNA and ribosomal DNA. Results of digestion with Ava I, however, indicate that not all CpG dinucleotides in the sequence Formula are methylated in C. cohnii DNA.

*Present address: Fred Hutchinson Cancer Research Center, 1124 Columbia Street, Seattle, Washington 98104, USA


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