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Series GSE130723 Query DataSets for GSE130723
Status Public on Nov 13, 2020
Title H4K20me3 methyltransferase SUV420H2 shapes the chromatin landscape of pluripotent embryonic stem cells
Organism Mus musculus
Experiment type Other
Summary Heterochromatin, which is a densely packed chromatin state that is transcriptionally silent, is a critical regulator of gene expression. However, it is unclear how the repressive histone modification, H4K20me3, or the histone methyltransferase, SUV420H2, regulate embryonic stem (ES) cell fate by patterning the epigenetic landscape. Here, we report that depletion of SUV420H2 leads to a near complete loss of H4K20me3 genome-wide, dysregulated gene expression, and delayed ES cell differentiation. SUV420H2-bound regions are enriched with repetitive DNA elements, which are de-repressed in SUV420H2 knockout ES cells. Moreover, SUV420H2 regulation of H4K20me3-marked heterochromatin controls chromatin architecture, including fine-scale interactions between gene regulatory elements in pluripotent ES cells. SUV420H2 plays a critical role in stabilizing the three-dimensional (3D) chromatin landscape of ES cells, where loss of SUV420H2 results in A/B compartment switching, perturbed chromatin insulation, and altered chromatin interactions of pericentric heterochromatin, indicative of localized decondensation. In addition, depletion of SUV420H2 resulted in compromised interactions between H4K20me3 and gene regulatory regions. Together, these findings describe a novel role for SUV420H2 in regulating the chromatin landscape of ES cells.
Overall design Hi-C of wild-type and SUV420H2 knockout undifferentiated murine ES cells
Contributor(s) Kidder BL
Citation(s) 33144397
NIH grant(s)
Grant ID Grant title Affiliation Name
K22 HL126842 Regulation of chromatin and genome stability by the H4K20 methyltransferase SMYD5 WAYNE STATE UNIVERSITY Benjamin L Kidder
Submission date May 05, 2019
Last update date Nov 15, 2020
Contact name Benjamin L Kidder
Organization name Wayne State University
Department Oncology
Lab Laboratory of Epigenomics
Street address 4100 John R St
City Detroit
State/province MI
ZIP/Postal code 48201
Country USA
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (6)
GSM3752487 H4K20me3_WT_mESC_rep1
GSM3752488 H4K20me3_WT_mESC_rep2
GSM3752489 H4K20me3_SUV420H2_KO_mESC_rep1
This SubSeries is part of SuperSeries:
GSE130725 H4K20me3 methyltransferase SUV420H2 shapes the three-dimensional chromatin landscape of pluripotent embryonic stem cells
BioProject PRJNA541180
SRA SRP195401

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
GSE130723_RAW.tar 27.8 Gb (http)(custom) TAR (of HIC)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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