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ABSTRACT: RNA-seq for Drosophila melanogaster Rhino mutant ovary

PROVIDER: PRJNA436153 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6788250_1.fastq.gz	Fastqsanger.gz
	SRR6788250_2.fastq.gz	Fastqsanger.gz
	SRR6788260_1.fastq.gz	Fastqsanger.gz
	SRR6788260_2.fastq.gz	Fastqsanger.gz
	SRR6788251_1.fastq.gz	Fastqsanger.gz

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Project description:Drosophila melanogaster Rhino

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Histone methylation regulates reproductive diapause in Drosophila melanogaster

Project description:RNA-seq on Drosophila melanogaster ovary (stages 1-7) in: diapause at 12ºC (after 28 days), reproductive at 12ºC (after 28 days), and age-matched control at 25ºC in two inbred genotypes. Each biological replicate is a pool of 25 ovary pairs, and each treatment has three biological replicates.

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Project description:The larval ovary is made up of multiple cell types including germ cells and somatic cells. The diversity of cell types and transcriptional regulation is not fully understood. To get single cell resolution of larval ovary regulation, we generated single-cell RNA expression profiles (scRNA-Seq) from late third instar larval ovaries of a reference Drosophila melanogaster genotype w[1118].

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Ibf contributes to CP190 recruitment to chromatin [ChIP-seq]

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2014-04-18 | E-GEOD-52240 | biostudies-arrayexpress

The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters (ChIP-Seq)

Project description:RNA interference systems depend on the synthesis of small RNA precursors whose sequences define the target spectrum of these silencing pathways. The Drosophila Heterochromatin Protein 1 (HP1) variant Rhino permits transcription of PIWI-interacting RNA (piRNA) precursors within transposon-rich heterochromatic loci in germline cells. Current models propose that Rhino’s specific chromatin occupancy at piRNA source loci is determined by histone marks and maternally inherited piRNAs, but also imply the existence of other, undiscovered specificity cues. Here, we identify a member of the diverse family of zinc finger associated domain (ZAD)-C2H2 proteins, Kipferl, as critical Rhino cofactor in ovaries. By binding to guanosine-rich DNA motifs and interacting with the Rhino chromodomain, Kipferl recruits Rhino to specific loci and stabilizes it on chromatin. In kipferl mutant flies, Rhino is lost from most of its target chromatin loci and instead accumulates on pericentromeric satellite arrays, resulting in decreased levels of transposon targeting piRNAs and impaired fertility. Our findings reveal that DNA sequence, in addition to the H3K9me3 mark, determines the identity of piRNA source loci and provide insight into how Rhino might be caught in the crossfire of genetic conflicts.

2022-05-15 | GSE202465 | GEO

The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters (sRNA-Seq)

2022-05-15 | GSE202467 | GEO

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Project description:Drosophila melanogaster ovary piRNA sequencing

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Project description:Drosophila melanogaster (fruit fly) Head, Testis and Ovary Transcriptome RNA-seq

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Trans-generationally inherited piRNAs trigger piRNA biogenesis by changing the chromatin of piRNA clusters and inducing precursor processing [ChIP-seq]

Project description:Small non-coding RNAs that associate with Piwi proteins, called piRNAs, serve as guides for repression of diverse transposable elements in germ cells of Metazoa. In Drosophila, the genomic regions that give rise to piRNAs, the so-called piRNA clusters, are transcribed to generate long precursor molecules that are processed into mature piRNAs. How genomic regions that give rise to piRNA precursor transcripts are differentiated from the rest of the genome and how these transcripts are specifically channeled into the piRNA biogenesis pathway are not known. We found that trans-generationally inherited piRNAs provide the critical trigger for piRNA production from homologous genomic regions in the next generation by two different mechanisms. First, inherited piRNAs enhance processing of homologous transcripts into mature piRNAs by initiating the ping-pong cycle in the cytoplasm. Second, inherited piRNAs induce installment of the H3K9me3 mark on genomic piRNA cluster sequences. The HP1 homolog Rhino binds to the H3K9me3 mark through its chromodomain and is enriched over piRNA clusters. Rhino recruits the piRNA biogenesis factor Cutoff to piRNA clusters and is required for efficient transcription of piRNA precursors. We propose that trans-generationally inherited piRNAs act as an epigenetic memory for identification of substrates for piRNA biogenesis on two levels, by inducing a permissive chromatin environment for piRNA precursor synthesis and by enhancing processing of these precursors. ChIPseq of Rhino and Cutoff in Drosophila melanogaster ovaries The Rhino-BioTAP flies were made by fusing the BioTAP tag (Alekseyenko et al. 2014 )to the C-terminal region of the Rhino gene under the UASp promoter. The Cutoff-EGFP fly line (Nanos-GAL4/UASp-Cutoff-GFP), Cuff^wm25 and Cuff^qq37 were a generous gift from T. Schupbach.

2014-07-26 | E-GEOD-59604 | biostudies-arrayexpress

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