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Nup107 contributes to the maternal to zygotic transition by regulating the nuclear exit of pri-miRNA 427

ABSTRACT: Nup107 contributes to the maternal to zygotic transition by regulating the nuclear exit of pri-miRNA 427

PROVIDER: PRJNA1072114 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27841200_1.fastq.gz	Fastqsanger.gz
	SRR27841200_2.fastq.gz	Fastqsanger.gz
	SRR27841201_1.fastq.gz	Fastqsanger.gz
	SRR27841201_2.fastq.gz	Fastqsanger.gz
	SRR27841202_1.fastq.gz	Fastqsanger.gz

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Nup107 contributes to the maternal to zygotic transition by regulating the nuclear exit of pri-miRNA 427

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Nup107 contributes to the maternal-to-zygotic transition by preventing the premature nuclear export of pri-miR427.

Project description:Emerging evidence suggests that the nuclear pore complex can have unique compositions and distinct nucleoporin functions in different cells. Here, we show that Nup107, a key component of the NPC scaffold, varies in expression over development: it is expressed at higher levels in the blastula compared to the gastrula, suggesting a crucial role before gastrulation in Xenopus. We find that depletion of Nup107 affects the differentiation of the early germ layers leading to an expansion of the ectoderm at the expense of endoderm and mesoderm. By analyzing an RNA-sequencing time course, we observed that depletion of Nup107 affects the maternal-zygotic transition by delaying the degradation of maternal transcripts that occurs as zygotic transcription begins. The transcripts are enriched in recognition sites for miR427, a conserved microRNA that destabilizes maternal transcripts including REST, which encodes a Kruppel-type zinc-finger transcription factor that we demonstrate is crucial for ectodermal cell fates. Mechanistically, we show that Nup107 is required to prevent the premature export of pri-miR427 transcript before processing. Nup107 depletion leads to the reduced production of mature miR427 and maternal transcript stabilization. We conclude that high levels of Nup107 in the early embryo are crucial for the nuclear retention and subsequent processing of pri-miR427 transcripts that is required for timely maternal RNA clearance to enable gastrulation.

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Project description:Targeted sequencing at Microprocessor cleavage sites in pri-miRNAs to determine processing efficiency of several pri-miRNAs in vivo in one experiment

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Project description:Targeted sequencing at Microprocessor cleavage sites in pri-miRNAs to determine processing efficiency of several pri-miRNAs in vivo in one experiment

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Project description:Tulasnella sp. 427 Resequencing genome sequencing

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Bradyrhizobium diazoefficiens strain:USDA 427 | isolate:USDA 427

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MicroRNA-seq of cell lines expressing pri-miR-9 paralog constructs

Project description:MicroRNA (miRNA) biogenesis begins with Drosha cleavage, the fidelity of which is critical for downstream processing and mature miRNA target specificity. To understand how pri-miRNA sequence and structure influence Drosha cleavage, we studied the processing of three pri-miR-9 paralogs (pri-miR-9-1, pri-miR-9-2 and pri-miR-9-3), which encode the same miRNA but differ in the surrounding scaffold. We show that pri-miR-9-1 has a unique Drosha cleavage profile due to its kinked tertiary structure. Cleavage of pri-miR-9-1, but not pri-miR-9-2 or pri-miR-9-3, generates an alternative-miR-9 with a shifted seed sequence that expands the scope of its target RNAs. Here, we report the the miRNA-seq data of HEK293T and HeLa cell lines transfected with different pri-miR-9 constructs.

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