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Distinct features of nucleolus-associated domains in mouse embryonic stem cells
- Source :
- Chromosoma
- Publication Year :
- 2019
- Publisher :
- Cold Spring Harbor Laboratory, 2019.
-
Abstract
- BackgroundHeterochromatin in eukaryotic interphase cells frequently localizes to the nucleolar periphery (nucleolus-associated domains, NADs) and the nuclear lamina (lamina-associated domains, LADs). Gene expression in somatic cell NADs is generally low, but NADs have not been characterized in mammalian stem cells.ResultsHere, we generated the first genome-wide map of NADs in mouse embryonic stem cells (mESCs) via deep sequencing of chromatin associated with biochemically-purified nucleoli. As we had observed in mouse embryonic fibroblasts (MEFs), the large Type I subset of NADs overlaps with constitutive LADs and is enriched for features of constitutive heterochromatin, including late replication timing and low gene density and expression levels. Conversely, the Type II NAD subset overlaps with loci that are not lamina-associated, but in mESCs, Type II NADs are much less abundant than in MEFs. mESC NADs are also much less enriched in H3K27me3 modified regions than are NADs in MEFs. Additionally, comparision of MEF and mESC NADs revealed enrichment of developmentally regulated genes in cell type-specific NADs. Together, these data indicate that NADs are a developmentally dynamic component of heterochromatin.ConclusionsThese studies implicate association with the nucleolar periphery as a mechanism for developmentally-regulated gene silencing, and will facilitate future studies of NADs during mESC differentiation.
- Subjects :
- Heterochromatin
Nucleolus
Gene Expression
Genomics
Article
Histones
Mice
03 medical and health sciences
0302 clinical medicine
Genetics
Animals
Constitutive heterochromatin
In Situ Hybridization, Fluorescence
Genetics (clinical)
030304 developmental biology
0303 health sciences
Replication timing
Nuclear Lamina
biology
Chromosome Mapping
Computational Biology
Cell Differentiation
Mouse Embryonic Stem Cells
Fibroblasts
Embryonic stem cell
Chromatin
Cell biology
Gene Ontology
Histone
biology.protein
Nuclear lamina
Biomarkers
Cell Nucleolus
030217 neurology & neurosurgery
Subjects
Details
- Database :
- OpenAIRE
- Journal :
- Chromosoma
- Accession number :
- edsair.doi.dedup.....1a0d18056a9dbedd340465642b7de0d4