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Series GSE186970 Query DataSets for GSE186970
Status Public on Aug 08, 2023
Title A feedback loop between heterochromatin and the nucleopore complex controls germ-cell to oocyte transition during Drosophila oogenesis [mRNA-Seq]
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Summary Germ cells differentiate into oocytes that become totipotent upon fertilization. How the highly specialized oocyte acquires this distinct cell fate is poorly understood. During Drosophila oogenesis, H3K9me3 histone methyltransferase SETDB1 translocates from the cytoplasm to the nucleus of germ cells concurrent with oocyte specification. Here, we discovered that nuclear SETDB1 is required to silence a cohort of differentiation-promoting genes by mediating their heterochromatinization. Intriguingly, SETDB1 is also required for the upregulation of 18 of the ~30 nucleoporins (Nups) that comprise the nucleopore complex (NPC). NPCs in turn anchor SETDB1-dependent heterochromatin at the nuclear periphery to maintain H3K9me3 and gene silencing in the egg chambers. Aberrant gene expression due to loss of SETDB1 or Nups results in loss of oocyte identity, cell death and sterility. Thus, a feedback loop between heterochromatin and NPCs promotes transcriptional reprogramming at the onset of oocyte specification that is critical to establish oocyte identity.
 
Overall design mRNA-seq of duplicate samples of ovaries from germline SETDB1 KD, wde KD and Nup154 KD as a developmental control
 
Contributor(s) Sarkar K, Kotb N, Lemus A, Martin ET, McCarthy A, Camacho J, Iqbal A, Valm AM, Sammons M, Rangan P
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Submission date Nov 02, 2021
Last update date Aug 09, 2023
Contact name Prashanth Rangan
E-mail(s) [email protected]
Phone 5184423485
Organization name RNA Institute
Department Biological Sciences
Lab Rangan Lab
Street address 1400 Washington
City Albany
State/province NY
ZIP/Postal code 12222
Country USA
 
Platforms (1)
GPL19132 Illumina NextSeq 500 (Drosophila melanogaster)
Samples (12)
GSM5664540 1_NGVP16_1_S1
GSM5664541 21_Nup154RNAi_1_S21
GSM5664542 22_Nup154RNAi_2_S22
This SubSeries is part of SuperSeries:
GSE186982 A feedback loop between heterochromatin and the nucleopore complex controls germ-cell to oocyte transition during Drosophila oogenesis
Relations
BioProject PRJNA777061
SRA SRP344178

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
GSE186970_RAW.tar 750.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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