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CTCF is a Barrier for Totipotent-like Reprogramming [Cut&Run]

ABSTRACT: CTCF is a Barrier for Totipotent-like Reprogramming [Cut&Run]

PROVIDER: PRJNA693448 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13489170_1.fastq.gz	Fastqsanger.gz
	SRR13489170_2.fastq.gz	Fastqsanger.gz
	SRR13489171_1.fastq.gz	Fastqsanger.gz
	SRR13489171_2.fastq.gz	Fastqsanger.gz
	SRR13489172_1.fastq.gz	Fastqsanger.gz

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CTCF is a Barrier for Totipotent-like Reprogramming [Cut&Run]

Project description:Totipotent cells have the ability of generating embryonic and extra-embryonic tissues. Interestingly, a rare population of cells with totipotent-like potential was identified within ESC cultures. These cells, known as 2 cell (2C)-like cells, arise from ESC and display similar features to those found in the totipotent 2 cell embryo. However, the molecular determinants of 2C like conversion have not been completely elucidated. Here, we show that CTCF is a barrier for 2C-like reprogramming. Indeed, forced conversion to a 2C-like state by DUX expression was associated with DNA damage at a subset of CTCF binding sites. Endogenous or DUX-induced 2C-like ESC showed decreased CTCF enrichment at known binding sites, suggesting that acquisition of a totipotent-like state is associated with a highly dynamic chromatin architecture. Accordingly, depletion of CTCF in ESC efficiently promoted spontaneous and asynchronous conversion to a totipotent-like state. This phenotypic reprogramming was reversible upon restoration of CTCF levels. Furthermore, we showed that transcriptional activation of the ZSCAN4 cluster was necessary for successful 2C-like reprogramming. In summary, we revealed the intimate relation between CTCF and totipotent-like reprogramming.

2021-06-07 | GSE165160 | GEO

CTCF is a Barrier for Totipotent-like Reprogramming [ChIPseq]

2021-06-07 | GSE172073 | GEO

CTCF is a Barrier for Totipotent-like Reprogramming [END-seq]

2021-06-07 | GSE165161 | GEO

CTCF is a Barrier for Totipotent-like Reprogramming

Project description:CTCF is a Barrier for Totipotent-like Reprogramming

| PRJNA693449 | ENA

CTCF is a Barrier for Totipotent-like Reprogramming [ChIPseq]

Project description:CTCF is a Barrier for Totipotent-like Reprogramming [ChIPseq]

| PRJNA721955 | ENA

Identification of CTCF binding sites through CUT&RUN sequencing in the neuroblastoma cell line CLB-GA.

Project description:CUT&RUN sequencing to define binding sites for CTCF and IgG in the neuroblastoma cell line CLB-GA.

2023-02-23 | E-MTAB-12586 | biostudies-arrayexpress

CTCF is a Barrier for Totipotent-like Reprogramming [END-seq]

Project description:CTCF is a Barrier for Totipotent-like Reprogramming [END-seq]

| PRJNA693454 | ENA

Cut and Run from Caki-1, MCF7, and U251 cell lines with NRF1 and CTCF

Project description:We performed a Cut & Run assay in the associated cell lines to profile the direct binding of NRF1 and CTCF at the promoters of target genes.

2023-08-11 | GSE240699 | GEO

The homeobox transcription factor DUXBL controls exit from the totipotent 2C state [Cut&Run]

Project description:Upon exit from the totipotent 2-cell (2C) embryo stage, the 2C-associated transcriptional program needs to be efficiently silenced. However, the molecular mechanisms involved in this process remain mostly unknown. Here, we determined that the 2C-specific transcription factor DUX directly induced the expression of DUXBL to promote this silencing. CUT&RUN analysis revealed that DUXBL gained accessibility to DUX-bound regions in DUX-induced ESC while it was unable to bind those regions in uninduced cells. Importantly, DUX expression in Duxbl-knockout ESC caused increased induction of the 2C-transcriptional program, whereas DUXBL overexpression impaired 2C-associated transcription. Mechanistically, we determined that DUXBL interacted with TRIM24 and TRIM33, two members of the tripartite motif superfamily involved in gene silencing, and co-localized with them in nuclear condensates upon DUX expression. Importantly, DUXBL downregulation in mouse zygotes led to a penetrant 2C-stage arrest. Our data revealed an unexpected role for DUXBL in controlling the exit from totipotency.

2023-12-06 | GSE210890 | GEO

Tcf1-CTCF cooperativity shapes genomic architecture to promote CD8+ T cell homeostasis [CTCF Cut&Run]

Project description:Tcf1-CTCF cooperativity shapes genomic architecture to promote CD8+ T cell homeostasis [CTCF Cut&Run]

| PRJNA744774 | ENA