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HP1 drives de novo 3D genome reorganization in early Drosophila embryos (HiC)

ABSTRACT: HP1 drives de novo 3D genome reorganization in early Drosophila embryos (HiC)

PROVIDER: PRJNA590155 | ENA |

REPOSITORIES: ENA

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HP1 drives de novo 3D genome reorganization in early Drosophila embryos (HiC)

Project description:The genome of the fertilized egg becomes structurally and functionally reorganized during early embryogenesis. This includes the segregation of active and inactive chromosome regions into A and B compartments, which are a fundamental feature of genome organization in both vertebrates and invertebrates. Mutually exclusive and attractive interactions within each compartment are thought to contribute to compartment formation1,2. However, the molecular nature of compartmental forces, and thus how compartments form, remain unknown. Here we show that HP1a is a major driver of compartmental segregation in Drosophila early development. Depletion of HP1a leads to an overall decrease of compartmentalization and increased intra-chromosomal interactions. Polymer modeling analysis of Hi-C data and ChIP-seq suggest that establishment of the B compartment is driven by HP1a-mediated attractive interactions. Thus, HP1 controls the establishment of higher order 3D structure during early embryogenesis.

2021-04-03 | GSE140540 | GEO

HP1 drives de novo 3D genome reorganization in early Drosophila embryos

Project description:HP1 drives de novo 3D genome reorganization in early Drosophila embryos

| PRJNA590149 | ENA

HP1 drives de novo 3D genome reorganization in early Drosophila embryos.

Project description:Fundamental features of 3D genome organization are established de novo in the early embryo, including clustering of pericentromeric regions, the folding of chromosome arms and the segregation of chromosomes into active (A-) and inactive (B-) compartments. However, the molecular mechanisms that drive de novo organization remain unknown1,2. Here, by combining chromosome conformation capture (Hi-C), chromatin immunoprecipitation with high-throughput sequencing (ChIP-seq), 3D DNA fluorescence in situ hybridization (3D DNA FISH) and polymer simulations, we show that heterochromatin protein 1a (HP1a) is essential for de novo 3D genome organization during Drosophila early development. The binding of HP1a at pericentromeric heterochromatin is required to establish clustering of pericentromeric regions. Moreover, HP1a binding within chromosome arms is responsible for overall chromosome folding and has an important role in the formation of B-compartment regions. However, depletion of HP1a does not affect the A-compartment, which suggests that a different molecular mechanism segregates active chromosome regions. Our work identifies HP1a as an epigenetic regulator that is involved in establishing the global structure of the genome in the early embryo.

| S-EPMC8116211 | biostudies-literature

HP1 drives de novo 3D genome reorganization in early Drosophila embryos (ChIP-seq)

Project description:HP1 drives de novo 3D genome reorganization in early Drosophila embryos (ChIP-seq)

| PRJNA590156 | ENA

HP1 drives de novo 3D genome reorganization in early Drosophila embryos (RNA-seq)

Project description:HP1 drives de novo 3D genome reorganization in early Drosophila embryos (RNA-seq)

| PRJNA590154 | ENA

HP1 drives de novo 3D genome reorganization in early Drosophila embryos (RNA-seq)

2021-04-03 | GSE140541 | GEO

HP1 drives de novo 3D genome reorganization in early Drosophila embryos (ChIP-seq)

2021-04-03 | GSE140539 | GEO

HP1 drives de novo 3D genome reorganization in early Drosophila embryos

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-04-03 | GSE140542 | GEO

Reorganization of 3D chromatin architecture of rice genomes during heat stress (HiC)

Project description:Reorganization of 3D chromatin architecture of rice genomes during heat stress (HiC)

| PRJNA604027 | ENA

HiC-sequencing in human monocyte differentiation (3D-MO)

Project description:This dataset consists of in situ HiC-seq data from human monocytes, monocyte-derived dendritic cells as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. In total, the data set includes 42 samples.

2022-06-24 | E-MTAB-10848 | biostudies-arrayexpress

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