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Function, targets and evolution of Caenorhabditis elegans piRNAs

ABSTRACT: Function, targets and evolution of Caenorhabditis elegans piRNAs

OTHER RELATED OMICS DATASETS IN: E-GEOD-37432

PROVIDER: PRJNA160127 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR185587.fastq.gz	Fastqsanger.gz
	SRR185588.fastq.gz	Fastqsanger.gz
	SRR185589.fastq.gz	Fastqsanger.gz
	SRR185590.fastq.gz	Fastqsanger.gz
	SRR185591.fastq.gz	Fastqsanger.gz

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Similar Datasets

Function, targets and evolution of Caenorhabditis elegans piRNAs

Project description:This SuperSeries is composed of the following subset Series: GSE28617: Function, targets and evolution of Caenorhabditis elegans piRNAs (small RNA-Seq) GSE37432: Function, targets and evolution of Caenorhabditis elegans piRNAs (mRNA) Refer to individual Series

2012-06-17 | E-GEOD-37433 | biostudies-arrayexpress

Function, targets and evolution of Caenorhabditis elegans piRNAs (mRNA)

Project description:piRNAs are required to maintain germline integrity and fertility but their mechanism of action is poorly understood. Here we demonstrate that C. elegans piRNAs silence transcripts in trans through imperfectly complementary sites. We find that target silencing is independent of Piwi endonuclease activity or “slicing”. Instead, we show that piRNAs initiate a localized secondary endogenous small interfering RNA (endo-siRNA) response. Endogenous protein-coding gene, pseudogene and transposon transcripts exhibit Piwi-dependent endo-siRNAs at sites complementary to piRNAs and are derepressed in Piwi mutants. Genomic loci of piRNA biogenesis are depleted of protein-coding genes but not pseudogenes or transposons. Our data suggest that nematode piRNA clusters are evolving to generate piRNAs against active mobile elements. Thus, piRNAs provide heritable, sequence-specific triggers for RNAi in C. elegans. Affymetrix mRNA expression data from wild-type and two independent prg-1;prg-2 double mutant C. elegans strains (mRNA)

2012-06-17 | E-GEOD-37432 | biostudies-arrayexpress

Function, targets and evolution of Caenorhabditis elegans piRNAs (mRNA)

2012-06-18 | GSE37432 | GEO

Function, targets and evolution of Caenorhabditis elegans piRNAs (small RNA-Seq)

2012-06-18 | GSE28617 | GEO

Function, targets and evolution of Caenorhabditis elegans piRNAs (small RNA-Seq)

Project description:piRNAs are required to maintain germline integrity and fertility but their mechanism of action is poorly understood. Here we demonstrate that C. elegans piRNAs silence transcripts in trans through imperfectly complementary sites. We find that target silencing is independent of Piwi endonuclease activity or “slicing”. Instead, we show that piRNAs initiate a localized secondary endogenous small interfering RNA (endo-siRNA) response. Endogenous protein-coding gene, pseudogene and transposon transcripts exhibit Piwi-dependent endo-siRNAs at sites complementary to piRNAs and are derepressed in Piwi mutants. Genomic loci of piRNA biogenesis are depleted of protein-coding genes but not pseudogenes or transposons. Our data suggest that nematode piRNA clusters are evolving to generate piRNAs against active mobile elements. Thus, piRNAs provide heritable, sequence-specific triggers for RNAi in C. elegans. 7 small RNA libraries were sequenced as part of 25 flow cell lanes on the Illumina GA II platform. Samples were treated with tobacco acid pyrophosphatase to allow cloning of small RNAs with a 5'-triphosphate. Samples were labelled for multiplexing using 4-bp 5'-barcodes or barcodes included in Illumina TruSeq adapters. In most cases a single flow cell lane included several multiplexed libraries.

2012-06-18 | E-GEOD-28617 | biostudies-arrayexpress

Function, targets, and evolution of Caenorhabditis elegans piRNAs.

Project description:Piwi-interacting RNAs (piRNAs) are small RNAs required to maintain germline integrity and fertility, but their mechanism of action is poorly understood. Here we demonstrate that Caenorhabditis elegans piRNAs silence transcripts in trans through imperfectly complementary sites. Target silencing is independent of Piwi endonuclease activity or "slicing." Instead, piRNAs initiate a localized secondary endogenous small interfering RNA (endo-siRNA) response. Endogenous protein-coding gene and transposon transcripts exhibit Piwi-dependent endo-siRNAs at sites complementary to piRNAs and are derepressed in Piwi mutants. Genomic loci of piRNA biogenesis are depleted of protein-coding genes and tend to overlap the start and end of transposons in sense and antisense, respectively. Our data suggest that nematode piRNA clusters are evolving to generate piRNAs against active mobile elements. Thus, piRNAs provide heritable, sequence-specific triggers for RNA interference in C. elegans.

| S-EPMC3951736 | biostudies-literature

Caenorhabditis elegans

Project description:Function, targets and evolution of Caenorhabditis elegans piRNAs (mRNA)

| PRJNA160201 | ENA

Caenorhabditis elegans

Project description:Function, targets and evolution of Caenorhabditis elegans piRNAs (small RNA-Seq)

| PRJNA138745 | ENA

Function, targets and evolution of Caenorhabditis elegans piRNAs

Project description:This SuperSeries is composed of the SubSeries listed below.

2012-06-18 | GSE37433 | GEO

Widespread roles for piRNAs and WAGO-class siRNAs in shaping the germline transcriptome of Caenorhabditis elegans

Project description:To explore the roles of piRNAs and WAGO-class 22G-RNAs in regulating gene expression and transposon silencing in Caenorhabditis elegans, we used RNA-seq to assess changes in small RNA and mRNA levels in prg-1 and mut-16 mutants, which disable the piRNA and WAGO-class 22G-RNA pathways respectively. We identified numerous roles for piRNAs and WAGO-class 22G-RNAs in regulating germline genes, including transposons, histones, and spermatogenic and oogenic transcripts.

2019-12-03 | GSE141243 | GEO

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