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Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [ATAC-Seq]

ABSTRACT: Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [ATAC-Seq]

PROVIDER: PRJNA649438 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12343560_1.fastq.gz	Fastqsanger.gz
	SRR12343560_2.fastq.gz	Fastqsanger.gz
	SRR12343561_1.fastq.gz	Fastqsanger.gz
	SRR12343561_2.fastq.gz	Fastqsanger.gz
	SRR12343562_1.fastq.gz	Fastqsanger.gz

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Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [DNA methylation]

Project description:Alternation between morphologically distinct haploid and diploid life forms is a defining feature of most plant and algal life cycles, yet the underlying molecular mechanisms that govern these transitions remain unclear. Here, we explore the dynamic relationship between chromatin accessibility and epigenetic modifications during life form transitions in Arabidopsis. The diploid-to-haploid life form transition is governed by the loss of H3K9me2 and DNA demethylation of transposon-associated cis-regulatory elements, which is associated with dramatic changes in chromatin accessibility and transcriptional reprogramming. In contrast, the global loss of H3K27me3 in the haploid form shapes a chromatin accessibility landscape that is poised to re-initiate the transition back to diploid life after fertilization. These distinct epigenetic reprogramming events rewire transcription through major reorganization of the regulatory epigenome to guide the alternation of generations in flowering plants.

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Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [RNA-Seq]

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Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [Small RNA-Seq]

Project description:Alternation between morphologically distinct haploid and diploid life forms is a defining feature of most plant and algal life cycles, yet the underlying molecular mechanisms that govern these transitions remain unclear. Here, we explore the dynamic relationship between chromatin accessibility and epigenetic modifications during life form transitions in Arabidopsis. The diploid-to-haploid life form transition is governed by the loss of H3K9me2 and DNA demethylation of transposon-associated cis-regulatory elements. This event is associated with dramatic changes in chromatin accessibility and transcriptional reprogramming. In contrast, the global loss of H3K27me3 in the haploid form shapes a chromatin accessibility landscape that is poised to re-initiate the transition back to diploid life after fertilization. Hence, distinct epigenetic reprogramming events rewire transcription through major reorganization of the regulatory epigenome to guide the alternation of generations in flowering plants.

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Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [RNA-Seq]

Project description:Epigenetic reprogramming events rewire transcription during the alternation of generations in Arabidopsis [RNA-Seq]

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Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis

Project description:Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis

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Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis.

Project description:Alternation between morphologically distinct haploid and diploid life forms is a defining feature of most plant and algal life cycles, yet the underlying molecular mechanisms that govern these transitions remain unclear. Here, we explore the dynamic relationship between chromatin accessibility and epigenetic modifications during life form transitions in Arabidopsis. The diploid-to-haploid life form transition is governed by the loss of H3K9me2 and DNA demethylation of transposon-associated cis-regulatory elements. This event is associated with dramatic changes in chromatin accessibility and transcriptional reprogramming. In contrast, the global loss of H3K27me3 in the haploid form shapes a chromatin accessibility landscape that is poised to re-initiate the transition back to diploid life after fertilisation. Hence, distinct epigenetic reprogramming events rewire transcription through major reorganisation of the regulatory epigenome to guide the alternation of generations in flowering plants.

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Project description:IRF4-dependent division-coupled reprogramming events [IRF4cKO.ATACseq]

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IRF4-dependent division-coupled reprogramming events [IRF4cKO.RNAseq]

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Project description:Embryonic stem cells are maintained in a self-renewing and pluripotent state by multiple regulatory pathways. Pluripotent-specific transcriptional networks are sequentially reactivated as somatic cells reprogram to achieve pluripotency. How epigenetic regulators modulate this process and contribute to somatic cell reprogramming is not clear. Here we perform a functional RNAi screen to identify the earliest epigenetic regulators required for reprogramming. We identify components of the SAGA histone acetyltransferase complex, in particular Gcn5, as critical regulators of reprogramming initiation. Furthermore, we show in mouse pluripotent stem cells that Gcn5 strongly associates with Myc and that upon initiation of somatic reprogramming, Gcn5 and Myc form a positive feed forward loop that activates a distinct alternative splicing network and the early acquisition of pluripotency-associated splicing events. These studies expose a Myc-SAGA pathway that drives expression of an essential alternative splicing regulatory network during somatic cell reprogramming. Examination of Myc-chromatin interactions in reprogramming cells

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