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H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [RNA-seq]

ABSTRACT: H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [RNA-seq]

PROVIDER: PRJNA848227 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19631519.fastq.gz	Fastqsanger.gz
	SRR19631520.fastq.gz	Fastqsanger.gz
	SRR19631521.fastq.gz	Fastqsanger.gz
	SRR19631522.fastq.gz	Fastqsanger.gz
	SRR19631523.fastq.gz	Fastqsanger.gz

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H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra

Project description:H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra

| PRJNA848229 | ENA

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [RNA-seq]

Project description:The evolution of the first body axis in the animal kingdom and an extensive ability to regenerate makes Hydra, a Cnidarian, an excellent model system to understand the underlying epigenetic mechanisms. We identify that SETD8 is critical for regeneration, and H4K20me1 colocalizes with transcriptional activation machinery locally at the β-catenin bound TCF/LEF binding sites on the promoters of head-associated genes, marking an epigenetic activation node. Contrastingly, a global genome-wide analysis of the H4K20me1 occupancy revealed a negative correlation with transcriptional activation. We propose H4K20me1 as a general repressive histone mark in Cnidaria and describe its dichotomous role in transcriptional regulation in Hydra.

2023-03-09 | GSE205916 | GEO

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq ALP]

2023-03-09 | GSE205699 | GEO

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq Reg]

2023-03-09 | GSE205908 | GEO

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq Reg]

Project description:H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq Reg]

| PRJNA848216 | ENA

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq ALP]

Project description:H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra [ChIP-seq ALP]

| PRJNA847206 | ENA

H4K20me1 plays a dual role in transcriptional regulation during regeneration and axis patterning of Hydra

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

2023-03-09 | GSE205918 | GEO

The Hydra magnipapillata head regeneration transcriptome

Project description:Hydra has long been studied for its remarkable ability to regenerate its head. Previous studies focusing on molecular mechanisms of axial patterning and head regeneration using a candidate gene approach have revealed a central role for the canonical Wnt pathway. We performed a global gene expression analysis during Hydra magnipapillata head regeneration using RNA-seq to identify additional genes that are transcriptionally regulated during the regeneration of the head organizer in hydra. Differential expression analysis revealed a set of 4,978 genes with significant changes during a 48-hour head regeneration time-course that includes many key genes in the Wnt, TGF-M-NM-2/BMP and MAP kinase pathways. We observed the differential regulation of several genes that are part of the epithelial-to-mesenchymal transition in bilaterians such as Snail. We assembled 806 novel putative lincRNAs with 176 of these are differentially expressed during the time course. We observed the coordinated transcriptional regulation of several factors that regulate the effective pool of free M-NM-2-catenin that together synergize to increase the amount of M-NM-2-catenin available for transcriptional regulation of downstream genes. The differential expression of Snail and some of its interacting regulators and downstream targets suggests that a partial-EMT-like response is involved in hydra head regeneration. This time-course is a valuable resource for the study of the transcriptional dynamics of head regeneration in hydra. mRNA profiling of regenerating head from 6 time points post bisection of Hydra head (H. magnipapillata), generated by deep sequencing, in duplicates, using Illumina HiSeq2500.

2014-12-13 | E-GEOD-64127 | biostudies-arrayexpress

RNA-seq of Hydra body segments and regenerated Hydra animals

Project description:Positional RNA-sequencing of isolated Hydra body pieces and RNA-sequencing of fully regenerated Hydra animal was combined with RNA-sequencing of actively regenerating spheroids (see submission E-MTAB-9672) in order to elucidate the role of tissue stretching on regeneration and body pattern formation.

2022-10-13 | E-MTAB-9676 | biostudies-arrayexpress

Differential gene regulation in DAPT-treated Hydra reveals candidate direct Notch signalling targets

Project description:In Hydra, Notch inhibition causes defects in head patterning and prevents differentiation of proliferating nematocyte progenitor cells into mature nematocytes. To understand the molecular mechanisms by which the Notch pathway regulates these processes, we performed RNA-seq and identified genes that are differentially regulated in response to 48 h of treating the animals with the Notch inhibitor DAPT. To identify candidate direct regulators of Notch signalling, we profiled gene expression changes that occur during subsequent restoration of Notch activity and performed promoter analyses to identify RBPJ transcription factor-binding sites in the regulatory regions of Notch-responsive genes. Interrogating the available single-cell sequencing data set revealed the gene expression patterns of Notch-regulated Hydra genes. Through these analyses, a comprehensive picture of the molecular pathways regulated by Notch signalling in head patterning and in interstitial cell differentiation in Hydra emerged. As prime candidates for direct Notch target genes, in addition to Hydra (Hy)Hes, we suggest Sp5 and HyAlx. They rapidly recovered their expression levels after DAPT removal and possess Notch-responsive RBPJ transcription factorbinding sites in their regulatory regions

2021-09-27 | GSE184492 | GEO

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