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RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [mRNA_seq libraries]

ABSTRACT: RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [mRNA_seq libraries]

PROVIDER: PRJNA811626 | ENA |

REPOSITORIES: ENA

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RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [mRNA_seq libraries]

Project description:Gene expression in endosperm – a seed tissue that mediates transfer of maternal resources to offspring – is under complex epigenetic control. We show here that plant-specific RNA Polymerase IV mediates parental control of endosperm gene expression. Pol IV is required for the production of small interfering RNAs that typically direct DNA methylation. We compared small RNAs, DNA methylation, and mRNAs in A. thaliana endosperm from reciprocal heterozygotes produced by crossing wild-type plants to Pol IV mutants. We find that maternally and paternally acting Pol IV have divergent effects on endosperm. Losses of maternal and paternal Pol IV impact sRNAs and DNA methylation at distinct genomic sites. Strikingly, maternally and paternally-acting Pol IV have antagonistic impacts on gene expression at some loci, divergently promoting or repressing endosperm gene expression. Antagonistic parent-of origin effects have only rarely been described and are consistent with a gene regulatory system evolving under parental conflict

2022-03-04 | GSE197714 | GEO

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [sRNA_seq libraries]

2022-03-04 | GSE197713 | GEO

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [bisulfite_sequencing]

2022-03-04 | GSE197712 | GEO

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [PareSeq]

2022-03-04 | GSE197715 | GEO

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [sRNA_seq libraries]

Project description:RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [sRNA_seq libraries]

| PRJNA811627 | ENA

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm

Project description:RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm

| PRJNA811623 | ENA

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [PareSeq]

Project description:RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [PareSeq]

| PRJNA811625 | ENA

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [bisulfite_sequencing]

Project description:RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm [bisulfite_sequencing]

| PRJNA811628 | ENA

RNA Pol IV induces antagonistic parent-of-origin effects on Arabidopsis endosperm

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

2022-03-04 | GSE197717 | GEO

Parent-of-origin effects on gene expression and DNA methylation in the maize endosperm

Project description:Imprinting describes the differential expression of alleles based upon their parent of origin. Deep sequencing of RNAs from maize endosperm and embryo tissue 14 days after pollination was used to identify imprinted genes among a set of ~12,000 genes that were expressed and contained sequence polymorphisms between the B73 and Mo17 genotypes. The analysis of parent-of-origin patterns of expression resulted in the identification of 100 putative imprinted genes in maize endosperm including 54 maternally expressed genes (MEGs) and 46 paternally expressed genes (PEGs). Three of these genes have been previously identified as imprinted while the remaining 97 genes represent novel imprinted maize genes. A genome-wide analysis of DNA methylation identified regions with reduced endosperm DNA methylation in, or near, 19 of the 100 imprinted genes. The reduced levels of DNA methylation in endosperm are caused by hypomethylation of the maternal allele for both MEGs and PEGs in all cases tested. Many of the imprinted genes with reduced DNA methylation levels also show endosperm-specific expression patterns. The imprinted maize genes were compared with imprinted genes identified in genome-wide screens of rice and Arabidopsis and at least 10 examples of conserved imprinting between maize and each of the other species were identified.

2011-12-16 | GSE33730 | GEO

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