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Caenorhabditis elegans

ABSTRACT: A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress [ChIP-seq]

PROVIDER: PRJNA345015 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR4319290.fastq.gz	Fastqsanger.gz
	SRR4319281.fastq.gz	Fastqsanger.gz
	SRR4319291.fastq.gz	Fastqsanger.gz
	SRR4319282.fastq.gz	Fastqsanger.gz
	SRR4319292.fastq.gz	Fastqsanger.gz

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Caenorhabditis elegans

Project description:A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress [RNA-seq]

| PRJNA345014 | ENA

A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress

Project description:A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress

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The activity of the Caenorhabditis elegans Aquarius helicase EMB-4 enables the nuclear RNAi machinery to engage nascent RNA

Project description:Germline small RNA pathways initiate silencing of repetitive elements in animals and an interplay of nuclear small RNAs and chromatin modifications maintain this silencing, protecting the germline from spreading of transposable elements. In C. elegans germline, nuclear argonaute protein HRDE-1 initiates the transcriptional silencing pathway that is crucial for long term and heritable silencing of genes and repetitive regions. Here, we show that HRDE-1 interacts with components of the splicing machinery and the exon-junction complex. One such factor is the conserved RNA helicase EMB-4/AQR that binds introns and recruits the exon-junction proteins to newly spliced RNA. Our data shows that EMB-4/AQR is required for the transcriptional silencing pathway initiated by HRDE-1 and it functions by removing the intronic barriers to silencing thorugh its helicase function.

2017-06-30 | PXD004416 | Pride

A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress [RNA-seq]

Project description:Repetitive sequences derived from transposons make up a large fraction of eukaryotic genomes and must be silenced to protect genome integrity. Repetitive elements are often found in heterochromatin; however, the roles and interactions of heterochromatin proteins in repeat regulation are poorly understood. Here we show that a diverse set of C. elegans heterochromatin proteins act together with the piRNA and nuclear RNAi pathways to silence repetitive elements and prevent genotoxic stress in the germ line. Mutants in genes encoding HPL-2/HP1, LIN-13, LIN-61, LET-418/Mi-2, and H3K9me2 histone methyltransferase MET-2/SETDB1 also show functionally redundant sterility, increased germline apoptosis, DNA repair defects, and interactions with small RNA pathways. Remarkably, fertility of heterochromatin mutants could be partially restored by inhibiting cep-1/p53, endogenous meiotic double strand breaks, or the expression of MIRAGE1 DNA transposons. Functional redundancy among these factors and pathways underlies the importance of safeguarding the genome through multiple means.

2017-03-11 | GSE87523 | GEO

A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress [ChIP-seq]

2017-03-11 | GSE87522 | GEO

Caenorhabditis elegans

Project description:The Conserved Intron Binding Protein EMB-4 Plays Differential Roles in Germline Small RNA Pathways of C. elegans

| PRJNA369752 | ENA

Caenorhabditis elegans

Project description:Regulation of germline gene expression in C. elegans germline stem cells.

| PRJNA288637 | ENA

Caenorhabditis elegans

Project description:Germline pro-aging signal

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Transcritome profiling of plp-1-mutant Caenorhabditis elegans

Project description:Through high-throuhgput RNA-sequencing, this study identifies mRNAs that are differentially expressed between plp-1(ok2155) and wild-type C. elegans. Analysed results are published in Development. 2020 Oct 13:dev.195578. doi: 10.1242/dev.195578. PMID: 33051256 Abstract of the publication: The germ line genome is guarded against invading foreign genetic elements by small RNA-dependent gene-silencing pathways. Components of these pathways localize to, or form distinct aggregates in the vicinity of, germ granules. These components and their dynamics in and out of granules are currently being intensively studied. Here, we report the identification of PLP-1, a C. elegans protein related to the human single-stranded nucleic acid-binding protein called Pur-alpha, as a component of germ granules in C. elegans We show that PLP-1 is essential for silencing different types of transgenes in the germ line, and for suppressing the expression of several endogenous genes controlled by the germline gene-silencing pathways. Our results reveal that PLP-1 functions downstream of small RNA biogenesis during initiation of gene silencing. Based on these results and the earlier findings that Pur-alpha proteins interact with both RNA and protein, we propose PLP-1 couples certain RNAs with their protein partners in the silencing complex. Its orthologs localized on RNA granules may similarly contribute to germline gene silencing in other organisms.

2020-11-07 | GSE161011 | GEO

Caenorhabditis elegans

Project description:no germline males vs reference

| PRJNA89775 | ENA