Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast.

ABSTRACT:

Background

In eukaryotic organisms, DNA is packaged into chromatin structure, where most of DNA is wrapped into nucleosomes. DNA compaction and nucleosome positioning have clear functional implications, since they modulate the accessibility of genomic regions to regulatory proteins. Despite the intensive research effort focused in this area, the rules defining nucleosome positioning and the location of DNA regulatory regions still remain elusive.

Results

Naked (histone-free) and nucleosomal DNA from yeast were digested by microccocal nuclease (MNase) and sequenced genome-wide. MNase cutting preferences were determined for both naked and nucleosomal DNAs. Integration of their sequencing profiles with DNA conformational descriptors derived from atomistic molecular dynamic simu

SUBMITTER: Deniz O 

PROVIDER: S-EPMC3224377 | biostudies-literature | 2011 Oct

REPOSITORIES: biostudies-literature