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Genome-wide identification of RNA-chromatin interactions in Arabidopsis [GRO-seq]

ABSTRACT: Genome-wide identification of RNA-chromatin interactions in Arabidopsis [GRO-seq]

PROVIDER: PRJNA752623 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR15362138.fastq.gz	Fastqsanger.gz
	SRR15362139.fastq.gz	Fastqsanger.gz
	SRR15362140.fastq.gz	Fastqsanger.gz
	SRR15362141.fastq.gz	Fastqsanger.gz
	SRR15362142.fastq.gz	Fastqsanger.gz

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Genome-wide identification of RNA-chromatin interactions in Arabidopsis [GRO-seq]

Project description:It is increasingly evident that various RNA molecules can bind chromatin to regulate gene expression and genome organization. Here we adapted a sequencing-based technique to profile RNA-chromatin interactions at a genome-wide scale in Arabidopsis seedlings. We identified more than ten thousand RNA-chromatin interactions mediated by protein-coding RNAs, long non-coding RNAs (ncRNAs) and small ncRNAs in Arabidopsis. These RNAs preferentially target genic regions, especially exonic regions. Protein-coding RNAs primarily engage in local and cis-chromosomal interactions, whereas long ncRNAs (lncRNAs) and small ncRNAs preferentially engage in trans-chromosomal interactions. RNA-chromatin interactions tend to positively correlate with DNA-DNA interactions, suggesting a role of DNA-DNA interactions in confining RNA-chromatin interactions and/or a role of RNA-chromatin interactions in shaping genome organization at a global level. We further show that some RNA-chromatin interactions undergo alterations in response to biotic and abiotic stresses. Our study provides a global view of RNA-chromatin interactions in Arabidopsis and a rich resource for future investigation of the regulatory roles of RNAs in gene expression and genome organization.

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