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Series GSE81489 Query DataSets for GSE81489
Status Public on Dec 15, 2016
Title In fetal testis, SOX9 acts on transcription and splicing of its targets genes through binding to genomic regions with conserved signatures [RNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary In mammals, male fate is under the control of the master transcriptional regulator, SOX9: in its presence, somatic precursor cells of the embryonic gonads differentiate into Sertoli cells, the main organizers of testicular differentiation. Therefore, analyzing target genes of this transcription factor allows understanding mechanisms of cellular commitment at the genomic level. With the use of ChIP-seq in murine and bovine wild-type testes combined with RNAseq from mouse testes lacking SOX9, we identified SOX9 target genes in the mammalian fetal gonad. SOX9 in murine and bovine fetal testes binds to a large set of genes conserved among mammals, including those with well-established roles in testis and ovary development. RNAseq analysis shows that testis and ovary display sex specific RNA splicing and that SOX9 mediates both target gene transcription and differential splicing. Regions bound by SOX9 are predominantly 5’ proximal or intra-genic, and display a specific genomic features that we call "Sertoli cell signatures" or SCS. The SCS is conserved among mammals and comprises multiple binding motifs for the Sertoli reprogramming factors SOX9, GATA4 and DMRT1; indeed, independent DMRT1 ChIP-seq confirms the enrichment of the SCS. Bioinformatic analysis of SCSs regions predicts novel regulatory mechanisms prompting functional validation. For example, we detected SCS in target genes of the nuclear factor TRIM28 and we show experimentally that SOX9 and TRIM28 proteins interact in fetal testis.
Overall design examination of the role of the transcription factor SOX9 in the fetal testis
Contributor(s) Rahmoun M, Lavery R, Laurent-Chaballier S, Bellora N, Philip GK, Rossito M, Pailhoux E, Cammas F, Chung J, Bagheri-Fam S, Murphy M, Bardwell V, Zarkower D, Boizet-Bonhoure B, Clair P, R Harley V, Poulat F
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Submission date May 16, 2016
Last update date May 15, 2019
Contact name Francis Poulat
Phone (+33) 4 3435 9940
Organization name IGH CNRS-UM UMR9002
Department Genetic and Development
Street address 141 rue de la Cardonille
City Montpellier
ZIP/Postal code 34396
Country France
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (9)
GSM2154780 XX-WT rep1
GSM2154781 XX-WT rep2
GSM2154782 XX-WT rep3
This SubSeries is part of SuperSeries:
GSE81490 In fetal testis, SOX9 acts on transcription and splicing of its targets genes through binding to genomic regions with conserved signatures
BioProject PRJNA321751
SRA SRP075258

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
GSE81489_all_genes_XX-WT_vs_XY-WT.txt.gz 332.2 Kb (ftp)(http) TXT
GSE81489_all_genes_XY-KO_vs_XX-WT.txt.gz 330.7 Kb (ftp)(http) TXT
GSE81489_all_genes_XY-KO_vs_XY-WT.txt.gz 284.9 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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