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Series GSE119447 Query DataSets for GSE119447
Status Public on Sep 27, 2018
Title Exonuclease domain-containing 1 enhances MIWI2 piRNA biogenesis via its interaction with TDRD12
Organism Mus musculus
Experiment type Other
Non-coding RNA profiling by high throughput sequencing
Summary PIWI proteins and their associated small RNAs called PIWI-interacting RNAs (piRNAs) restrict transposon activity in animal gonads to ensure fertility. Distinct biogenesis pathways load piRNAs into the PIWI proteins MILI and MIWI2 in the mouse male embryonic germline. While most of MILI piRNAs derive via a slicer-independent pathway, a MILI slicer endonuclease-initiated pathway loads nuclear MIWI2 with a series of phased piRNAs. Tudor domain-containing 12 (TDRD12) and its interaction partner Exonuclease domain-containing 1 (EXD1) are required for loading MIWI2, but only Tdrd12 is essential for fertility, leaving us with no explanation for the physiological role of Exd1. Using an artificial piRNA precursor, we demonstrate that MILI-triggered piRNA biogenesis is greatly reduced in the Exd1 mutant. The situation deteriorates in the sensitized Exd1 mutant (Exd1-/-; Tdrd12+/-), where diminished MIWI2 piRNA levels de-repress LINE1 retrotransposons, causing infertility. Thus, EXD1 enhances slicing-triggered MIWI2 piRNA biogenesis via a functional interaction with TDRD12.
 
Overall design Small RNA sequencing was used to identify differences in piRNA levels between various Exd1 and Tdrd12 mouse mutants. Total small RNAs were sequenced together with immunopurified MILI and MIWI2 associated piRNAs.
 
Contributor(s) Pandey RR, Homolka D, Olotu O, Sachidanandam R, Kotaja N, Pillai RS
Citation(s) 30257204
Submission date Sep 04, 2018
Last update date Mar 19, 2019
Contact name Ramesh Pillai
E-mail(s) ramesh.pillai@unige.ch
Organization name University of Geneva
Department Department of Molecular Biology
Street address 30, Quai Ernest-Ansermet
City Gneveva
ZIP/Postal code CH-1211
Country Switzerland
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (32)
GSM3374773 RR421_P0_Exd1+/+; Rosa26-pi/+_MIWI2 IP
GSM3374774 RR422_P0_Exd1+/-; Rosa26-pi/+_MIWI2 IP
GSM3374775 RR423_P0_Exd1-/-; Rosa26-pi/+_MIWI2 IP
Relations
BioProject PRJNA489266
SRA SRP159552

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
GSE119447_P0_IP_counts.csv.gz 962.6 Mb (ftp)(http) CSV
GSE119447_P0_small_RNA_counts.csv.gz 89.0 Mb (ftp)(http) CSV
GSE119447_P12_14_small_RNA_counts.csv.gz 496.5 Mb (ftp)(http) CSV
GSE119447_Rosa26_counts.csv.gz 215.2 Kb (ftp)(http) CSV
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Processed data are available on Series record
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