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Series GSE104834 Query DataSets for GSE104834
Status Public on Dec 27, 2018
Title SCL establishes a global repressive environment and cooperates with Polycomb RYBP-PRC1 to suppress alternative lineages in blood-fated cells [RNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Understanding the molecular basis of cell fate decision is critical to shed light onto biological processes supporting tissue formation. In particular, whether lineage-fated cells derive from multi-primed progenitors and need to establish active fate restriction mechanisms to engage in a differentiation pathway is still matter of debate. To characterise the mechanisms underlying specification of blood-fated cells from mesodermal precursors, we studied the transcriptional activity of the key hematopoietic regulator SCL/TAL1. Scl-null mouse embryos die at embryonic day E9.5 from absence of blood formation, and exhibit mis-specification of mesodermal cells into cardiomyocytes, thus offering an excellent entry point for mechanistic studies of fate determination. Using high-throughput assays from mouse ES cell-derived mesodermal cells, we showed that, in parallel with activating the blood program and repressing the cardiac and paraxial programs, SCL strongly activates expression of repressors, such as ETO2 (known partner of SCL) and RYBP (member of Polycomb repressive complex PRC1). ETO2’s association with chromatin reflects SCL’s overall genomic binding, pointing to ETO2’s modulatory, rather than purely repressive, transcriptional activities. In contrast, SCL/RYBP chromatin co-occupancy is preferentially enriched at genes normally repressed in blood-fated cells and involved in early developmental processes and alternative lineages, highlighting a relationship between SCL and RYBP/PRC1 in repressive processes. Remarkably, SCL is critical for maintaining high levels of PRC1-associated repressive histone mark H2AK119ub genome-wide. It is also required for maximal levels of repressive mark H3K27me3 on genes normally repressed. Finally, Rybp knock-down in differentiating ES cells phenocopies the cardiac phenotype of Scl-null cells, supporting a functional interaction between SCL and a critical repressive chromatin remodeling complex. Altogether, these data unveil the establishment of a repressive environment in mesodermal progenitors by a hematopoietic-specific transcriptional regulator. This leads to restriction of expression of regulators of alternative fates and uncompromised commitment towards a hematopoietic identity.
 
Overall design RNA sequencing was performed from three independent ES cell differentiation where we isolated at day 3.5 of EB formation FLK1+ mesodermal cells from WT and Scl -/- background.
 
Contributor(s) Chagraoui H, Porcher C
Citation(s) 30560907
Submission date Oct 11, 2017
Last update date May 15, 2019
Contact name Hedia Chagraoui
E-mail(s) hedia.chagraoui@imm.ox.ac.uk
Phone 00441865222309
Organization name Weatherall Institute of Molecular Medicine
Department Molecular Hematology Unit
Lab PORCHER/VYAS lab
Street address john radcliffe hospital headley way headington
City Oxford
ZIP/Postal code OX3 9DS
Country United Kingdom
 
Platforms (1)
GPL21626 NextSeq 550 (Mus musculus)
Samples (6)
GSM2808501 j1.wt1
GSM2808502 j1.scl1
GSM2808503 j1.wt2
This SubSeries is part of SuperSeries:
GSE104883 SCL establishes a global repressive environment and cooperates with Polycomb RYBP-PRC1 to suppress alternative lineages in blood-fated cells
Relations
BioProject PRJNA413958
SRA SRP119777

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE104834_cpm_table_J1_with_annotation.txt.gz 1.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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