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Caenorhabditis elegans

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

OTHER RELATED OMICS DATASETS IN: E-GEOD-37432

PROVIDER: PRJNA138745 | 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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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

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Project description:The nematode Caenorhabditis elegans contains each of the broad classes of eukaryotic small RNAs, including microRNAs (miRNAs), endogenous small-interfering RNAs (endo-siRNAs) and piwi-interacting RNAs (piRNAs). To better understand the evolution of these regulatory RNAs, we deep sequenced small RNAs from C. elegans and three closely related nematodes: C. briggsae, C. remanei and C. brenneri. The results reveal a fluid landscape of small RNA pathways with essentially no conservation of individual sequences aside from a subset of miRNAs. We identified 52 miRNA families that are conserved in each of the four species as well as numerous miRNAs that are species specific or shared between only two or three species. Despite a lack of conservation of individual piRNAs and siRNAs many of the features of each pathway, including genomic distribution, are conserved. We show that in each species, 26G siRNAs trigger stage-specific secondary siRNA formation. We also observe that piRNAs trigger siRNA formation from targets containing up to three mismatches in each species. Finally, we show that nematodes produce two distinct sex-specific classes of piRNAs, suggesting different roles for piRNAs in male and female germlines. Sequencing small RNAs from four Caenorhabditis species: C. elegans, C. briggsae, C. remanei and C. brenneri

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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.

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2016-03-11 | PXD002010 | Pride

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