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| Status |
Public on May 12, 2022 |
| Title |
Essential role of Cp190 in physical and regulatory boundary formation in Drosophila [Capture-C] |
| Organism |
Drosophila melanogaster |
| Experiment type |
Other
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| Summary |
While Drosophila has widespread contact domains, most domain boundaries are formed independently of CTCF by unclear mechanisms. We genetically ablate the ubiquitous boundary-associated factor Cp190 and examine impacts on genome folding and developmental gene regulation in Drosophila embryos. We find that Cp190 is widely required to form fly domain boundaries that are distal from transcribed gene promoters, while promoter proximal boundaries are unaffected by Cp190 loss.
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| Overall design |
About 100 2-6 hour old embryos that were wildtype, Cp190[0], or SF1[KO] mutants were mechanically disrupted and fixed in biological triplicates, and Hi-C libraries were prepared using MseI and Csp6I as restriction enzymes. Multiplexed Hi-C libraries were subjected to two successive rounds of capture using 5'-biotinylated 120 nt oligos with viewpoints in HOX genes and control loci. Capture-C libraries were then sequenced 150 bp paired-end on a Novaseq 6000 instrument.
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| Contributor(s) |
Kaushal A, Dorier J, Wang B, Cousin P, Taschner M, Mohana G, Omer A, Semenova A, Iseli C, Waridel P, Quadroni M, Guex N, Aiden EL, Gambetta MC |
| Citation(s) |
35559678 |
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| Submission date |
Jan 12, 2022 |
| Last update date |
Jun 01, 2022 |
| Contact name |
Maria Cristina Gambetta |
| E-mail(s) |
mariacristina.gambetta@unil.ch
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| Organization name |
University of Lausanne
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| Department |
Center for Integrative Genomics
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| Street address |
Genopode Building
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| City |
Lausanne |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
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| Platforms (1) |
| GPL25244 |
Illumina NovaSeq 6000 (Drosophila melanogaster) |
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| Samples (9)
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| This SubSeries is part of SuperSeries: |
| GSE180376 |
Essential role of Cp190 in physical and regulatory boundary formation in Drosophila |
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| Relations |
| BioProject |
PRJNA796548 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE193530_RAW.tar |
280.0 Kb |
(http)(custom) |
TAR (of BEDGRAPH) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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