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Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RNA-Seq]

ABSTRACT: Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RNA-Seq]

PROVIDER: PRJNA883173 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21673157_1.fastq.gz	Fastqsanger.gz
	SRR21673157_2.fastq.gz	Fastqsanger.gz
	SRR21673158_1.fastq.gz	Fastqsanger.gz
	SRR21673158_2.fastq.gz	Fastqsanger.gz
	SRR21673159_1.fastq.gz	Fastqsanger.gz

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Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RIP-Seq]

Project description:Bombyx Vasa (BmVasa) assembles non-membranous organelle, nuage or Vasa bodies, in germ cells, known as the center for Siwi-dependent transposon silencing and concomitant Ago3-piRISC biogenesis. However, details of the body assembly remain unclear. Here, we show that the N-terminal intrinsically disordered region (N-IDR) and RNA helicase domain of BmVasa are responsible for self-association and RNA binding, respectively, but N-IDR is also required for full RNA-binding activity. Both domains are essential for Vasa body assembly in vivo and droplet formation in vitro via phase separation. FAST-iCLIP reveals that BmVasa preferentially binds transposon mRNAs. Loss of Siwi function derepresses transposons but has marginal effects on BmVasa-RNA binding. This study shows that BmVasa assembles nuage by phase separation via its ability to self-associate and bind newly exported transposon mRNAs. This unique property of BmVasa allows transposon mRNAs to be sequestered and enriched in nuage, resulting in effective Siwi-dependent transposon repression and Ago3-piRISC biogenesis.

2023-03-06 | GSE213914 | GEO

Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RNA-Seq]

2023-03-06 | GSE213915 | GEO

Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association

Project description:Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association

| PRJNA883166 | ENA

Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RIP-Seq]

Project description:Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association [RIP-Seq]

| PRJNA883171 | ENA

Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association.

| S-EPMC10081994 | biostudies-literature

Bombyx Vasa sequesters transposon mRNAs in nuage via phase separation requiring RNA binding and self-association

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

2023-03-06 | GSE213917 | GEO

UAP56 couples piRNA clusters to the perinuclear transposon silencing machinery [tiling array]

Project description:The transposon silencing piRNAs are produced from precursors that are encoded by heterochromatic clusters and processed in the perinuclear nuage. We show that the Drosophila nuclear DEAD box protein UAP56, previously implicated in mRNA splicing and nuclear export, co-localizes with the cluster-associated HP1 homologue Rhino. Prominent nuclear foci containing Rhi and UAP56 localize directly across the nuclear envelope from Vasa, a conserved DEAD box protein and core nuage component that is required for piRNA production, and piRNA precursors immunoprecipitate with both UAP56 and Vasa. A uap56 point mutation that prevents UAP56 protein co-localization with Rhino also disrupts nuage organization, transposon silencing, and expression of dual strand piRNA clusters. By contrast, this allele significantly increases ectopic piRNAs from protein coding genes. We therefore propose that UAP56 and Vasa organize a piRNA-processing compartment that spans the nuclear envelope, increasing the efficiency and specificity of piRNA biogenesis. 3 replicates of each sample (uap56, vasa), total RNA samples hybridized to tiling array.

2012-11-28 | E-GEOD-35636 | biostudies-arrayexpress

UAP56 couples piRNA clusters to the perinuclear transposon silencing machinery [RNA-Seq and RIP-Seq]

Project description:The transposon silencing piRNAs are produced from precursors that are encoded by heterochromatic clusters and processed in the perinuclear nuage. We show that the Drosophila nuclear DEAD box protein UAP56, previously implicated in mRNA splicing and nuclear export, co-localizes with the cluster-associated HP1 homologue Rhino. Prominent nuclear foci containing Rhi and UAP56 localize directly across the nuclear envelope from Vasa, a conserved DEAD box protein and core nuage component that is required for piRNA production, and piRNA precursors immunoprecipitate with both UAP56 and Vasa. A uap56 point mutation that prevents UAP56 protein co-localization with Rhino also disrupts nuage organization, transposon silencing, and expression of dual strand piRNA clusters. By contrast, this allele significantly increases ectopic piRNAs from protein coding genes. We therefore propose that UAP56 and Vasa organize a piRNA-processing compartment that spans the nuclear envelope, increasing the efficiency and specificity of piRNA biogenesis. RNA-Seq: 3 samples examined: w1118, uap56 mutant un-oxidized, uap56 mutant oxidized RIP-Seq: 6 samples: UAP56-Venus, sz-Venus, and wild type w1 with anti-flag and input control each.

2012-11-28 | E-GEOD-35637 | biostudies-arrayexpress