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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 27, 2024 |
| Title |
The disruption of CtBP regulates DUX-dependent and -independent genetic program for the 2-cell-like state in murine embryonic stem cells [RNA-seq and RRBS] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
After fertilization, maternally deposited mRNA is cleared, and de novo mRNA is transcribed from the zygotic genome through zygotic genome activation (ZGA), which is called maternal-to-zygotic transition (MZT) occurring in the mouse at 2-cell (2C) stage. 2C-like cells (2CLCs) marked by MERVL expression and transcriptionally similar to 2C embryos spontaneously emerge from mouse embryonic stem cells (mESCs). Although the emergence of 2CLCs completely depends on DUX function, a recent knockout study clearly showed that DUX is dispensable for mouse embryos, suggesting that DUX-independent molecular pathways are not recapitulated in 2CLCs. We present here that the disruption of C-terminal binding protein 1/2 (Ctbp1/2) activates DUX-dependent and -independent molecular pathway associated with the development of early mouse embryos mediated by the upregulation of Preferentially expressed antigen of melanoma family-like 7 (PRAMEL7). Furthermore, the abnormality of the gene expression profile caused by Dux KO is partially rescued by the overexpression of PRAMEL7 in mESCs. Our study provides new insights into the DUX-independent molecular pathway for developing early mouse embryos.
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| Overall design |
RNA-seq experiments of WT, Dux KO, Ctbp1/2 KO, Pramel7 KO, Dppa2 KO and Pramel7-overexpressing embryonic stem cells and RRBS experiements of WT, Ctbp1/2 DKO, Dppa2 KO and TKO embryonic stem cells.
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| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jan 22, 2024 |
| Last update date |
May 27, 2024 |
| Contact name |
Yoshiyuki Seki |
| E-mail(s) |
yseki@kwansei.ac.jp
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| Organization name |
Kwansei Gakuin University
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| Department |
School of Biological and Environmental Sciences
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| Street address |
1, Gakuen Uegahara
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| City |
Sanda |
| State/province |
hyogo |
| ZIP/Postal code |
6691330 |
| Country |
Japan |
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| Platforms (1) |
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| Samples (38)
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| GSM8030710 |
E14tg2a, CtbpDKO_rep2 |
| GSM8030711 |
E14tg2a, DuxKO_rep1 |
| GSM8030712 |
E14tg2a, DuxKO_rep2 |
| GSM8030713 |
E14tg2a, Ctbp_DuxTKO_rep1 |
| GSM8030714 |
E14tg2a, Ctbp_DuxTKO_rep2 |
| GSM8030715 |
E14tg2a, Dppa2KO_rep1 |
| GSM8030716 |
E14tg2a, Dppa2KO_rep2 |
| GSM8030717 |
E14tg2a, Dppa2_DuxTKO_rep1 |
| GSM8030718 |
E14tg2a, Dppa2_DuxTKO_rep2 |
| GSM8030719 |
E14tg2a, CtbpDKO_Dox_d0_rep1 |
| GSM8030720 |
E14tg2a, CtbpDKO_Dox_d0_rep2 |
| GSM8030721 |
E14tg2a, CtbpDKO_Dox_d3_rep1 |
| GSM8030722 |
E14tg2a, CtbpDKO_Dox_d3_rep2 |
| GSM8030723 |
E14tg2a, CtbpDKO_Dox_d9_rep1 |
| GSM8030724 |
E14tg2a, CtbpDKO_Dox_d9_rep2 |
| GSM8030725 |
E14tg2a, CtbpDKO_Dox_d12_rep1 |
| GSM8030726 |
E14tg2a, CtbpDKO_Dox_d12_rep2 |
| GSM8030727 |
E14tg2a, CtbpDKO_Dox_d18_rep1 |
| GSM8030728 |
E14tg2a, CtbpDKO_Dox_d18_rep2 |
| GSM8030729 |
E14tg2a, WT_rep3 |
| GSM8030730 |
E14tg2a, WT_rep4 |
| GSM8030731 |
E14tg2a, DuxKO_rep3 |
| GSM8030732 |
E14tg2a, DuxKO_rep4 |
| GSM8030733 |
E14tg2a, P7OE_rep1 |
| GSM8030734 |
E14tg2a, P7OE_rep2 |
| GSM8030735 |
E14tg2a, DuxKO_P7OE_rep1 |
| GSM8030736 |
E14tg2a, DuxKO_P7OE_rep2 |
| GSM8030737 |
E14tg2a, WT_rep5 |
| GSM8030738 |
E14tg2a, WT_rep6 |
| GSM8030739 |
E14tg2a, P7KO_rep1 |
| GSM8030740 |
E14tg2a, P7KO_rep2 |
| GSM8030741 |
E14tg2a, WT_RRBS |
| GSM8030742 |
E14tg2a, Dppa2KO_RRBS |
| GSM8030743 |
E14tg2a, CtbpDKO_RRBS |
| GSM8030744 |
E14tg2a, Dppa2_CtbpTKO_RRBS |
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| Relations |
| BioProject |
PRJNA1067733 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE253944_RAW.tar |
37.8 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE253944_WT_DKO_Dux_Dppa2_counts.txt.gz |
745.1 Kb |
(ftp)(http) |
TXT |
| GSE253944_WT_DuxKO_P7KO_P7OE.counts.txt.gz |
724.5 Kb |
(ftp)(http) |
TXT |
| GSE253944_iCt2_counts.txt.gz |
661.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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