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Series GSE76569 Query DataSets for GSE76569
Status Public on Oct 01, 2016
Title Fbxl19 recruits Rnf20 to CpG Islands and promotes H2B mono-ubiquitination [ChIP-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Rnf20 catalyzes lysine 120 mono-ubiquitination of histone H2B (H2Bub1) that has been previously invloved in normal differentiation of embryonic stem (ES) and adult stem cells. However,the mechanims underlying by which Rnf20 is recruited to its target chromosomal loci to generate H2Bub1 is still elusive. Here, we reveal that Fbxl19, a CxxC domain-containing protein, physically interacts with Rnf20, guides it preferentially to CpG island-containing target promoters, and thereby promotes mono-ubiqutination of H2B. We first show that up-regulation of Fbxl19 induces the level of global H2Bub1, while down-regulation of Fbxl19 reduces the level of H2Bub1 in mouse ES cells. Our genome-wide target mapping unveils the preferential occupancy of Fbxl19 on CpG island-containing promoters, and we further show that the binding of Fbxl19 is essential for the recruitment of Rnf20 to its target genes and subsequent H2Bub1. Altogether, our results demonstrate that Fbxl19 plays critical roles in the H2Bub1 pathway by recruiting Rnf20 to CGI target genes specifically and selectively.
Overall design ChIP sequenicngs were performed for Fbxl19 and H2Bub1 in mouse ES cells. To perform Fbxl19 ChIP-seq we generated Fbxl19-overexpressing flag-biotin tagged clones and selected overexpression (OE)-high (more than 5 fold) and OE-low (sub-endogeous level) clones. Using these two OE-high and OE-low clones, we performed ChIP-seq of Fbxl19 using Streptavidin-conjugated beads. We also conducted H2Bub1 ChIP-seq under various conditions: normal, differentiation, Fbxl19-OE, Fbxl19-KD, and Fbxl19-KD under differentaiton conditions. Input was also sequenced and used for control.
Contributor(s) Kim J
Citation(s) 28453857
Submission date Jan 06, 2016
Last update date May 15, 2019
Contact name Bum-Kyu Lee
Phone 512-232-8046
Organization name University of Texas at Austin
Street address 2506 Speedway Stop A5000
City Austin
State/province TX
ZIP/Postal code 78712
Country USA
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (21)
GSM2028087 Differentiation_H2Bub1_rep1
GSM2028088 Differentiation_H2Bub1_rep2
GSM2028089 Differentiation_input
This SubSeries is part of SuperSeries:
GSE76570 Fbxl19 recruits Rnf20 to CpG Islands and promotes H2B mono-ubiquitination
BioProject PRJNA308074
SRA SRP068136

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Supplementary file Size Download File type/resource
GSE76569_Differentiated_d4_120ub_combined.peak.txt.gz 107.0 Kb (ftp)(http) TXT
GSE76569_ES_120ub_combined.peak.txt.gz 60.6 Kb (ftp)(http) TXT
GSE76569_FBXL19_OE_high_Fbxl19_combined.peak.txt.gz 253.0 Kb (ftp)(http) TXT
GSE76569_FBXL19_OE_low_Fbxl19_combined.peak.txt.gz 41.2 Kb (ftp)(http) TXT
GSE76569_Fbxl19_KD_120ub_combined.peak.txt.gz 38.0 Kb (ftp)(http) TXT
GSE76569_Fbxl19_KD_differentiation_d4_120ub_combined.peak.txt.gz 23.0 Kb (ftp)(http) TXT
GSE76569_Fbxl19_OE_high_120ub_combined.peak.txt.gz 150.8 Kb (ftp)(http) TXT
GSE76569_Rnf20.peak.txt.gz 120.2 Kb (ftp)(http) TXT
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Processed data are available on Series record
Raw data are available in SRA
Processed data provided as supplementary file

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