Non-random cleavage of SV40 DNA in the compact minichromosome and free in solution by micrococcal nuclease

The distribution of the primary cleavage sites produced by micrococcal nuclease on SV40 DNA in the compact minichromosome was analysed. Minichromosomes purified by improved method were digested in mild conditions in order to minimize possible changes in nucleosomal and supranucleosomal arrangement. The primary cuts were found to be non-randomly and unevenly distributed through the whole SV40 genome and those located in the “early” half of SV40 DNA were mapped. Some of them were also preferentially attacked on the naked DNA treated under the same conditions. Possible relation of the results to the nucleosomal organization of the compact minichromosome is discussed.