|
| Status |
Public on Sep 15, 2016 |
| Title |
Resetting epigenetic memory by reprogramming of histone modifications in mammals |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
|
| Summary |
Polycomb group proteins and the related histone modification H3K27me3 can maintain the silencing of key developmental regulators and provide cellular memory. However, how such epigenetic state is reprogrammed and inherited between generations is poorly understood. Using an ultra-sensitive approach STAR ChIP-seq, we investigated H3K27me3 across 14 developmental stages along mouse gametogenesis and early development. Interestingly, highly pervasive H3K27me3 was found in regions depleted of transcription and DNA methylation in oocytes. Unexpectedly, we observed extensive loss of promoter H3K27me3 at Hox and other developmental genes upon fertilization. This is accompanied by global erasure of sperm H3K27me3 but inheritance of distal H3K27me3 from oocytes. The resulting allele-specific H3K27me3 patterns persist to blastocysts before being converted to canonical forms in postimplantation embryos, where both the H3K4me3/H3K27me3 bivalent promoter marks are restored at developmental genes. Together, these data revealed widespread resetting of epigenetic memory and striking plasticity of epigenome during gametogenesis and early development.
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| Overall design |
Mouse preimplantation embryos were obtained from crosses of C57BL/6N and PWK. A newly developed ChIP-seq approach (STAR ChIP-seq) and RNA-seq were performed in these embryos at variou stages in preimplantation development.
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| Contributor(s) |
Zheng H, Huang B, Zhang B, Xie W |
| Citation(s) |
27635762 |
| |
| Submission date |
Jan 08, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Bingjie Zhang |
| Organization name |
Tsinghua University
|
| Street address |
30 Shuangqing Rd
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100190 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL18480 |
Illumina HiSeq 1500 (Mus musculus) |
|
| Samples (27)
|
|
| Relations |
| BioProject |
PRJNA309055 |
| SRA |
SRP068549 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE76687_2cell_K27me3_maternal.bed.gz |
33.3 Mb |
(ftp)(http) |
BED |
| GSE76687_2cell_K27me3_paternal.bed.gz |
35.7 Mb |
(ftp)(http) |
BED |
| GSE76687_2cell_k27me3.bed.gz |
72.5 Mb |
(ftp)(http) |
BED |
| GSE76687_2cell_k27me3_broadpeak.bed.gz |
170.2 Kb |
(ftp)(http) |
BED |
| GSE76687_2cell_k27me3_maternal_broadpeak.bed.gz |
205.0 Kb |
(ftp)(http) |
BED |
| GSE76687_2cell_k27me3_paternal_broadpeak.bed.gz |
230.6 Kb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_K27me3_maternal.bed.gz |
27.1 Mb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_K27me3_paternal.bed.gz |
25.0 Mb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_k27me3.bed.gz |
64.2 Mb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_k27me3_broadpeak.bed.gz |
91.8 Kb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_k27me3_maternal_broadpeak.bed.gz |
112.1 Kb |
(ftp)(http) |
BED |
| GSE76687_E6.5_epiblast_k27me3_paternal_broadpeak.bed.gz |
136.1 Kb |
(ftp)(http) |
BED |
| GSE76687_ICM_K27me3_maternal.bed.gz |
15.0 Mb |
(ftp)(http) |
BED |
| GSE76687_ICM_K27me3_paternal.bed.gz |
14.3 Mb |
(ftp)(http) |
BED |
| GSE76687_ICM_k27me3.bed.gz |
55.4 Mb |
(ftp)(http) |
BED |
| GSE76687_ICM_k27me3_broadpeak.bed.gz |
134.1 Kb |
(ftp)(http) |
BED |
| GSE76687_ICM_k27me3_maternal_broadpeak.bed.gz |
185.3 Kb |
(ftp)(http) |
BED |
| GSE76687_ICM_k27me3_paternal_broadpeak.bed.gz |
73.7 Kb |
(ftp)(http) |
BED |
| GSE76687_MII_oocyte_k27me3.bed.gz |
47.2 Mb |
(ftp)(http) |
BED |
| GSE76687_MII_oocyte_k27me3_broadpeak.bed.gz |
183.2 Kb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_K27me3_maternal.bed.gz |
25.1 Mb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_K27me3_paternal.bed.gz |
19.5 Mb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_k27me3.bed.gz |
74.3 Mb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_k27me3_broadpeak.bed.gz |
143.1 Kb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_k27me3_maternal_broadpeak.bed.gz |
198.1 Kb |
(ftp)(http) |
BED |
| GSE76687_PN5_zygote_k27me3_paternal_broadpeak.bed.gz |
16.6 Kb |
(ftp)(http) |
BED |
| GSE76687_RAW.tar |
1.3 Gb |
(http)(custom) |
TAR (of BED) |
| GSE76687_early_2cell_alpha_amanitin_FPKM.txt.gz |
159.5 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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