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Series GSE92677 Query DataSets for GSE92677
Status Public on Nov 18, 2018
Title Kmt2b conveys monovalent and bivalent H3K4me3 in spermatogonial stem cells at germline and embryonic promoters
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The mammalian male germline is sustained by a pool of spermatogonial stem cells (SSCs) that can transmit both genetic and epigenetic information to offspring. However, the mechanisms underlying epigenetic transmission remain unclear. The histone methyltransferase Kmt2b is highly expressed in SSCs and required for the SSC-to-progenitor transition. At the stem cell stage, Kmt2b catalyzes H3K4me3 at bivalent H3K27me3-marked promoters as well as at promoters of a new class of genes lacking H3K27me3, which we call monovalent. Monovalent genes are mainly activated in late spermatogenesis while the bivalent genes are mainly not expressed until embryonic development. These data suggest that SSCs are epigenetically primed by Kmt2b in two distinguishable ways for the upregulation of gene expression during the spermatogenic program and through the male germline into the embryo. Because Kmt2b is also the major H3K4 methyltransferase for bivalent promoters in embryonic stem cells, we also propose that Kmt2b has the capacity to epigenetically prime stem cells.
Overall design ChIP-seq (H3K4me3 and H3K27me3) and RNA-seq were performed using Kmt2b control (F/F) and knockout (FC/FC) germline stem cells (GSCs). H3K9me3 ChIP-seq was performed using Kmt2bF/F samples. All experiments were done using duplicate cell lines.
Contributor(s) Tomizawa S, Kobayashi Y, Shirakawa T, Watanabe K, Mizoguchi K, Hoshi I, Nakajima K, Nakabayashi J, Singh S, Dahl A, Alexopoulou D, Seki M, Suzuki Y, Royo H, Peters AH, Anastassiadis K, Stewart AF, Ohbo K
Citation(s) 30504434
Submission date Dec 21, 2016
Last update date May 15, 2019
Contact name Shin-ichi Tomizawa
Organization name Yokohama City University
Department School of Medicine
Lab Histology
Street address 3-9 Fukuura, Kanazawa-ku
City Yokohama
State/province Kanagawa
ZIP/Postal code 236-0004
Country Japan
Platforms (3)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (20)
GSM2434424 H3K4me3_FF_ChIPSeq_rep1
GSM2434425 H3K4me3_FF_ChIPSeq_rep2
GSM2434426 H3K4me3_FCFC_ChIPSeq_rep1
BioProject PRJNA358322
SRA SRP095450

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
GSE92677_ChIPseq_RPM.txt.gz 1.2 Mb (ftp)(http) TXT
GSE92677_RNAseq_pipeline.txt.gz 668.0 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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