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A small RNA pathway mediates allelic dosage in endosperm

ABSTRACT: A small RNA pathway mediates allelic dosage in endosperm

OTHER RELATED OMICS DATASETS IN: GSE94792GSE94787

PROVIDER: PRJNA374335 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5245170.fastq.gz	Fastqsanger.gz
	SRR5245180.fastq.gz	Fastqsanger.gz
	SRR5245190.fastq.gz	Fastqsanger.gz
	SRR5245161.fastq.gz	Fastqsanger.gz
	SRR5245171.fastq.gz	Fastqsanger.gz

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A small RNA pathway mediates allelic dosage in endosperm [sRNA-seq]

Project description:A small RNA pathway mediates allelic dosage in endosperm [sRNA-seq]

| PRJNA374333 | ENA

A small RNA pathway mediates allelic dosage in endosperm [sRNA-seq]

Project description:Balance between maternal and paternal genomes within the triploid endosperm is necessary for normal seed development. The majority of endosperm genes are expressed in a 2:1 maternal:paternal ratio, reflecting genomic DNA content. Here we find that the 2:1 transcriptional ratio is, unexpectedly, actively regulated. In A. thaliana and A. lyrata, endosperm 24 nt small RNAs are reduced in TEs and enriched in genes compared to the embryo. We find an inverse relationship between the parent-of-origin of sRNAs and mRNAs, with genes more likely to be associated with maternally than paternally biased sRNAs. Disruption of the Pol IV sRNA pathway causes a shift toward maternal allele mRNA expression for many genes. Furthermore, paternal inheritance of an RNA Pol IV mutation is sufficient to rescue seed abortion caused by excess paternal genome dosage. Thus, RNA Pol IV mediates transcriptional balance between maternally and paternally inherited genomes in endosperm.

2017-12-15 | GSE94787 | GEO

A small RNA pathway mediates allelic dosage in endosperm [mRNA-seq]

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A small RNA pathway mediates allelic dosage in endosperm

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

2017-12-15 | GSE94792 | GEO

Paternally-acting canonical RNA-directed DNA methylation pathway genes sensitizes Arabidopsis endosperm to paternal dosage [Bisulfite-seq]

Project description:Seed development is sensitive to parental dosage, with excess maternal or paternal genomes creating reciprocal phenotypes. Paternal genomic excess results in extensive endosperm proliferation without cellularization and eventual seed abortion. We previously showed that loss of the RNA POL IV gene nrpd1 in tetraploid fathers represses seed abortion in paternal excess crosses. Here we show genetically that RNA-directed DNA methylation (RdDM) pathway activity in the paternal parent is sufficient to determine the viability of paternal excess seeds. The status of the RdDM pathway in paternal excess endosperm does not impact seed viability. Comparison of endosperm transcriptomes, DNA methylation, and small RNAs from balanced and paternal excess endosperm demonstrates that paternal excess seed abortion is unlikely to be dependent on either transposable element or imprinted gene mis-regulation. We suggest instead that loss of paternal RdDM modulates expression at a small subset of genes and desensitizes endosperm to paternal excess. Finally, using allele-specific transcription data, we present evidence of a transcriptional buffering system that up37 regulates maternal alleles and represses paternal alleles in response to excess paternal genomic dosage. These findings prompt reconsideration of models for dosage sensitivity in endosperm.

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Paternally-acting canonical RNA-directed DNA methylation pathway genes sensitizes Arabidopsis endosperm to paternal dosage [RNA-Seq]

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Paternally-acting canonical RNA-directed DNA methylation pathway genes sensitizes Arabidopsis endosperm to paternal dosage [miRNA-Seq]

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