Other

Dataset Information

0

Nucleosomal DNA has topological memory


ABSTRACT: One elusive aspect of the chromosome architecture is how it constrains the DNA topology. Nucleosomes stabilise negative DNA supercoils by restraining a DNA linking number difference (∆Lk) of about -1.26. However, whether this capacity is uniform across the genome is unknown. Here, we calculated the ∆Lk restrained by over 4000 nucleosomes in yeast cells. To achieve this, we placed each nucleosome in a circular minichromosome and performed Topo-seq, a high-throughput procedure to inspect the topology of circular DNA libraries in one gel electrophoresis. We found that nucleosomes inherently restrain distinct ∆Lk values depending on their genomic origin. Nucleosome DNA topologies differ at gene bodies (∆Lk=-1.29), intergenic regions (∆Lk=-1.23), rDNA genes (∆Lk=-1.24) and telomeric regions (∆Lk=-1.07). Nucleosomes near the transcription start and termination sites also exhibit singular DNA topologies. Our findings demonstrate that nucleosome DNA topology is imprinted by its native chromatin context and persists when the nucleosome is relocated.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE228623 | GEO | 2023/06/05

REPOSITORIES: GEO

Similar Datasets

2014-11-21 | E-GEOD-62265 | biostudies-arrayexpress
2023-12-12 | PXD018966 | Pride
2022-08-11 | PXD027238 | Pride
2019-02-27 | PXD009281 | Pride
2022-02-23 | PXD025287 | Pride
2023-12-10 | PXD041835 | Pride
2018-10-17 | GSE104699 | GEO
2023-12-12 | PXD041443 | Pride
2016-10-18 | GSE79567 | GEO
2008-12-18 | GSE13622 | GEO