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| Status |
Public on Jul 14, 2022 |
| Title |
The chromatin factor ROW cooperates with BEAF-32 in regulating long-range genes [RNA_seq_S2] |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
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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| Overall design |
mRNA profiles of S2 cells treated with RNAi to row/BEAF-32/both or non treated cells ( in triplicates)
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| Contributor(s) |
Herman N, Kadener S, Shifman S |
| Citation(s) |
36245419 |
| |
| Submission date |
Mar 23, 2021 |
| Last update date |
Oct 24, 2022 |
| Contact name |
Neta Herman |
| E-mail(s) |
[email protected], [email protected]
|
| Organization name |
Hebrew University Of Jerusalem, Migal
|
| Department |
Gentics, Nutrition
|
| Lab |
Shagiv Shifman; Opatovsky Itai
|
| Street address |
Kiryat Shemona
|
| City |
Jerusalem, Kiryat Shemona |
| ZIP/Postal code |
1101202 |
| Country |
Israel |
| |
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| Platforms (1) |
| GPL19132 |
Illumina NextSeq 500 (Drosophila melanogaster) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE169415 |
The chromatin factor ROW cooperates with BEAF-32 in regulating long-range genes |
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| Relations |
| BioProject |
PRJNA716547 |
| SRA |
SRP311790 |
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