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RNA targets of Gal-3 in differentiated mouse embryonic stem cells (mESC)

ABSTRACT: RNA targets of Gal-3 in differentiated mouse embryonic stem cells (mESC)

PROVIDER: PRJEB38940 | ENA |

REPOSITORIES: ENA

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RNA targets of Gal-3 in differentiated mouse embryonic stem cells (mESC)

Project description:Galectin-3 (Gal-3) has emerged as a novel RNA-binding protein. Here we applied eCLIP to identify the RNAs bound by Gal-3 in mouse embryonic stem cells differentiated by deprivation of the leukaemia inhibitory factor (LIF) for 7 days.

2023-05-27 | E-MTAB-9264 | biostudies-arrayexpress

RNA-seq of wild-type, Gal-1 knockout, Gal-3 knockout and Gal-1/Gal-3 double knockout mouse embryonic stem cells (mESC) deprived of LIF for 7 days

Project description:Galectin-1 (Gal-1) and Galectin-3 (Gal-3) are conserved carbohydrate-binding proteins that also display RNA-binding activity. We generated mouse embryonic stem cells (mESC) constitutively depleted of Gal-1 and/or Gal-3 using CRISPR-Cas9, and assessed the transcriptomic effects of the individual or concomitant depletion of Gal-1 and Gal-3 in mESCs differentiated by deprivation of the leukaemia inhibitory factor (LIF) for 7 days. Wild-type cells were employed as control.

2023-05-27 | E-MTAB-9262 | biostudies-arrayexpress

RNA-seq of wild-type, Gal-1 knockout, Gal-3 knockout and Gal-1/Gal-3 double knockout mouse embryonic stem cells (mESC) deprived of LIF for 7 days

Project description:RNA-seq of wild-type, Gal-1 knockout, Gal-3 knockout and Gal-1/Gal-3 double knockout mouse embryonic stem cells (mESC) deprived of LIF for 7 days

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Changes in replisome composition underlie the rewiring of DNA replication during embryonic stem cell reprogramming

Project description:Pluripotent stem cells can give rise to the three embryonic germ layers and the characterization of their properties is crucial to exploit their therapeutic potential. Mouse embryonic stem cells (mESCs) are isolated and usually maintained in vitro in a primed state that resembles the post-implantation epiblast features. Furthermore, primed mESCs can be de-differentiated to a naive state that resembles the pre-implantation inner cell mass (ICM). Cell differentiation or genotoxic stress, among others, can alter DNA replication, which is a flexible process able to adapt to different cellular contexts. Here, we demonstrate that primed-to-naive mESC reprogramming triggers replication fork slowdown, increased fork asymmetry and a compensatory activation of dormant origins. Using iPOND (“isolation of proteins on nascent DNA”) coupled to mass spectrometry we have characterized the changes in replisome composition between naive and primed mESCs. Several DNA repair factors, including MRE11 nuclease, are enriched in naive mESCs forks, while factors involved in ubiquitin-dependent protein metabolism are enriched in primed mESC forks. We report that primed-to-naive mESC de-differentiation promotes recruitment of MRE11 to the forks in response to transcription-replication conflicts, underlying the DNA replication rewiring required for efficient mESC reprogramming.

2024-04-03 | PXD041946 | Pride

scRNAseq of embryoid bodies derived from control mESC or mESC pulsed with DUX expression

Project description:scRNAseq identifies extra-embryonic cell type preference for DUX-pulsed mESC differentiating into embryoid bodies.

2021-05-21 | GSE149266 | GEO

Vibrio harveyi strain:Gal 88 | isolate:Gal 88

Project description:Vibrio harveyi strain:Gal 88 | isolate:Gal 88 Genome sequencing

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