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Nucleic Acids Research, 1983, Vol. 11, No. 11 3833-3851
© 1983

MOLECULAR BIOLOGY

Nucleotide sequence-directed mapping of the nucleosomes

G. Mengeritsky and E. N. Trifonov

Polymer Department, The Weizmann Institute of Science Rehovot, 76100 Israel

Received February 1, 1983. Revised April 26, 1983. Accepted May 3, 1983.

The concept of sequence–dependent deformational anisotropy of DNA proposed earlier is further elaborated and a computational procedure is developed for the sequence–directed mapping of the nucleosomes along chromatin DNA nu–cleotide sequences. The deformational anisotropy is found to be nonuniform along the molecule of the nucleosomal DNA, suggesting that the DNA superhelix in the nucleosome is slightly oval rather than circular in projection. The number of superhelical turns in the nucleosome core particle is estimated to be 2.0 ± 0.2. Preliminary mapping of the nucleosomes in various chromatin DNA sequences yields the distribution of linker lengths which shows several minima separated by about 10 base–pairs. This is explained by sterical exclusion effects due to overlapping of the nucleosoroes in space when some specific linker lengths are chosen. The mapping procedure described is tested by comparing its results with all the most accurate experimental mapping data reported so far. The comparison demonstrates that the exact positions of all the nucleosomes appear to be determined exclusively by the nucleotide sequences.


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M. Y. Tolstorukov, V. Choudhary, W. K. Olson, V. B. Zhurkin, and P. J. Park
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