Fig. 2.

The level of chromatin digestion determines the set of nucleosomes that are obtained by MNase-seq. a Electrophoresis of MNase-digested chromatin shows the characteristic “nucleosome ladder” pattern, which contains bands corresponding to mononucleosomes (1n), di-nucleosomes (2n), tri-nucleosomes (3n), and longer oligonucleosome fragments. b The length distributions of the mononucleosomal bands are marked by colored rectangles on the gel. Increasing the level of digestion reduces the undigested footprints of the nucleosomes. c These nucleosomal DNA fragments originate from different sets of nucleosomes, as illustrated by the difference in their A/T content distribution. The set of nucleosomes obtained in the early stages of digestion is originating from more A/T-rich regions compared to the set of nucleosomes obtained in the later stages of digestion. The average A/T content of the Drosophila genome is ~ 58% and is marked by the vertical dashed line