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Series GSE80521 Query DataSets for GSE80521
Status Public on Apr 22, 2016
Title The genomic context and co-recruitment of SP1 affect ERRα co-activation by PGC-1α in muscle cells [array]
Organism Mus musculus
Experiment type Expression profiling by array
Summary The peroxisome proliferator-activated receptor γ co-activator 1α (PGC-1α) coordinates the transcriptional network response to promote an improved endurance capacity in skeletal muscle, e.g. by co-activating the estrogen-related receptor α (ERRα) in the regulation of oxidative substrate metabolism. Despite a close functional relationship, the interaction between these two proteins has not been studied on a genomic level. We now mapped the genome-wide binding of ERRα to DNA in skeletal muscle cell line with elevated PGC-1α and linked the DNA recruitment to global PGC-1α target gene regulation. We found that, surprisingly, ERRα co-activation by PGC-1α is only observed in the minority of all PGC-1α recruitment sites. Nevertheless, a majority of PGC-1α target gene expression is dependent on ERRα. Intriguingly, the interaction between these two proteins is controlled by the genomic context of response elements, in particular the relative GC and CpG content, monomeric and dimeric repeat binding site configuration for ERRα, and adjacent recruitment of the transcription factor SP1. These findings thus not only reveal an unprecedented insight into the regulatory network underlying muscle cell plasticity, but also strongly link the genomic context of DNA response elements to control transcription factor - co-regulator interactions.
Overall design We used microarrays to detect changes in gene expression in C2C12 cells following PGC-1alpha over-expression or GFP (control) over-expression. We used 3 biological replicates for each condition. The samples were: shGFP with GFP viral infection, shGFP with PGC-1alpha viral infection, shERRa with PGC-1alpha viral infection and the ERRa inverse agonist XCT790.
Contributor(s) Salatino S, Kupr B, Baresic M, van Nimwegen E, Handschin C
Citation(s) 27182621
Submission date Apr 21, 2016
Last update date Mar 04, 2019
Contact name Christoph Handschin
Organization name Biozentrum, University of Basel
Street address Spitalstrasse 41
City Basel
ZIP/Postal code 4056
Country Switzerland
Platforms (1)
GPL6246 [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [transcript (gene) version]
Samples (9)
GSM2129645 shGFP, GFP OV, biol. rep. 1
GSM2129646 shGFP, PGC-1a OV, biol. rep. 1
GSM2129647 shERRa, PGC-1a OV, XCT790, biol. rep. 1
This SubSeries is part of SuperSeries:
GSE80522 The genomic context and co-recruitment of SP1 affect ERRα co-activation by PGC-1α in muscle cells
BioProject PRJNA319183

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
GSE80521_RAW.tar 39.4 Mb (http)(custom) TAR (of CEL)
GSE80521_processed_data_ERRa_KD.txt.gz 2.5 Mb (ftp)(http) TXT
Processed data are available on Series record

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