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Poly(A) mRNA-seq of Drosophila embryos at NC14 depleted of Beaf-32, CTCF or CP190

ABSTRACT: Poly(A) mRNA-seq of Drosophila embryos at NC14 depleted of Beaf-32, CTCF or CP190

PROVIDER: PRJEB54710 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR9951950_1.fastq.gz	Fastqsanger.gz
	ERR9951950_2.fastq.gz	Fastqsanger.gz
	ERR9951951_1.fastq.gz	Fastqsanger.gz
	ERR9951951_2.fastq.gz	Fastqsanger.gz
	ERR9951942_1.fastq.gz	Fastqsanger.gz

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Poly(A) mRNA-seq of Drosophila embryos at NC14 depleted of Beaf-32, CTCF or CP190

Project description:Profiling of genes expression changes caused by the depletion of either Beaf-32, CP190 or CTCF during early embryogenesis. Gene expression changes were profiled in embryos at NC14 (manually-selected). Beaf-32 and CP190 were depleted using RNAi and CTCF by using maternal/zygotic null embryos. Poly(A) mRNA-seq was performed from three biological replicates.

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The chromatin factor ROW cooperates with BEAF-32 in regulating long-range genes [RNA_seq_flyheads]

Project description:Chromatin insulators are involved in transcription regulation and long-range chromatin contacts. In Drosophila the Boundary Element-Associated Factor Of 32kD (BEAF-32) binds to promoters of housekeeping genes and the boundaries of Topological Associated Domains (TAD) and is involved in the regulation of long-range targets by mechanisms that remain incompletely understood. Here we show that Relative-Of-WOC (ROW), which is part of the Heterochromatin Protein 1c (HP1c) complex, is essential for the long-range transcription regulation mediated by BEAF-32. We found that ROW physically interacts with the insulator complex proteins BEAF-32 and Chromator, as well as with HP1c, HP1b, and Without Children (WOC). Moreover, we found that ROW binds AT-rich sequences flanked by BEAF-32 motifs, which are located at promoters of housekeeping genes and in TAD boundaries. In agreement with these results, the genome distribution of ROW strongly correlated with BEAF-32 and WOC, but at a lower level with HP1c and HP1b. Knockdown of row resulted in downregulation of genes that are long-range targets of BEAF-32, are indirectly bound by BEAF-32 and ROW, and enriched with factors associated with RNA polymerase II pausing. These results suggest that ROW and BEAF-32 are involved in the recruitment of protein complexes required for transcription activation and long-range contacts between promoters of housekeeping and inducible genes.

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