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Series GSE68617 Query DataSets for GSE68617
Status Public on Nov 06, 2015
Title Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Transposable elements (TEs) have been active in the mammalian genome for hundreds of millions of years and each TE has had a distinct period of transpositional activity, followed by inactivation. Mice carrying reporter transgenes can be used to model transcriptional silencing at TEs. A mutagenesis screen for modifiers of epigenetic gene silencing produced a line with a null mutation in Trim33. Heterozygous mutants displayed increased expression of the reporter transgene. ChIP-seq of Trim33 in testis revealed 9,109 peaks, mostly at promoters, across the mouse genome. Trim33 was enriched at many RLTR10B elements that are among the youngest retrotransposons in the mouse genome. RNA-seq revealed that testis of mice haploinsufficient for Trim33 had altered expression of a small group of genes. The gene with the most significant increase, Nmnat3, was found to be transcribed from an upstream RLTR10B element. We show that Trim33 is involved in repressing RLTR10B elements in mouse testis.
Overall design Examination of Trim33 binding using ChIP sequencing and the result of Trim33 haploinsufficiency using RNA sequencing, in mouse testis
Contributor(s) Isbel L, Oey H, Spurling A, Daxinger L, Whitelaw E
Citation(s) 26624618
Submission date May 06, 2015
Last update date May 15, 2019
Contact name Luke Thomas Isbel
Organization name SAiGENCI
Lab Isbel
Street address 4 North Terrace, AHMS, Lvl 9
City Adelaide
State/province South Australia
ZIP/Postal code 5000
Country Australia
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (9)
GSM1677142 Trim33_ChIP-seq
GSM1677143 Input_ChIP-seq
GSM1677144 Trim33.WT1.testis.RNAseq
BioProject PRJNA283211
SRA SRP058063

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Supplementary file Size Download File type/resource
GSE68617_RAW.tar 321.0 Mb (http)(custom) TAR (of BW, TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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