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RNA-Seq of Notch-stimulated overgrowing Drosophila melanogaster wing imaginal discs

ABSTRACT: Aim: mRNA profile of larval wing imaginal discs of Drosophila melanogaster to study the cooperation between Notch activation and loss of epithelial polarity (scrib mutation) during neoplastic growth. Results: The combination of Notch activation and scribble mutation (NS) results in mRNA expression changes that, while partly overlapping with Notch only (N), and with scrib mutation only (S), are unique to the combination

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE185339 | GEO | 2021/10/07

REPOSITORIES: GEO

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Su(H) ChIP-on-chip of Notch-stimulated overgrowing Drosophila melanogaster wing imaginal discs

Project description:Aim: Su(H) chromatin occupancy profiling by ChIP on larval wing imaginal discs of Drosophila melanogaster to study the cooperation between Notch activation and loss of epithelial polarity (scrib mutation) during neoplastic growth. Results: The combination of Notch activation and scribble mutation (NS) does not lead to a general redeployment of Su(H) binding as compared to individual conditions (Notch only (N), and scrib mutation only (S))

2021-10-08 | GSE185490 | GEO

Single-cell transcriptomic analysis of the scrib mutant wing imaginal discs

Project description:Investigation of intratumor heterogeneity in the scrib¹ mutant wing imaginal discs. Method: Staged scrib¹ wing imaginal discs were dissected and transferred to DPBS. The wing imaginal discs were dissociated in 0.25% Trypsin-EDTA solution at 37 ℃ for 10 min. Cells were then washed in DPBS and passed through 35μm filter before library preparation. Construction of 10x single cell libraries and sequencing on Illumina platform were performed by Novogene.

2019-08-27 | GSE130566 | GEO

SmD3 protein interactome in Drosophila melanogaster wing imaginal discs

Project description:Screening for binding partners of the splicing factor SmD3 and changes in interaction upon depletion of the protein Ecdysoneless (Ecd) in the nubbin domain of third-instar larval wing imaginal discs.

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Quantitative Analysis of Wild Type and scrib mutant Drosophila wing imaginal discs Transcriptomes at different time points

Project description:Purpose: There are two goals of this study. Firstly, we want to figure out the transcriptomic differences between control and scrib¹ mutant wing imaginal discs. Secondly, we aim to investigate the transcriptomic changes as the scrib¹ mutant tumor develop over time. Methods: Total RNA was used to generate cDNA libraries and 150bp paired-end sequencing on Illumina HiSeq platform were performed by Novogene. Cleaned raw reads were mapped to the reference genome using STAR and counts are generated by featuresCounts available in Subread package. Count normalization was performed using edgeR.

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Transcriptome analysis of dNKAP knockdown and control wing imaginal discs

Project description:We report the genome-wide profiling of wing imaginal discs upon dNKAP knockdown

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Single-cell transcriptomic analysis of the scrib mutant wing imaginal discs

Project description:Single-cell transcriptomic analysis of the scrib mutant wing imaginal discs

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Single-cell transcriptomic analysis of 96hour AEL wild type wing imaginal discs

Project description:Genotype: FRT82B Method: Staged wild type wing imaginal discs were dissected and transferred to DPBS. The wing imaginal discs were dissociated in 0.25% Trypsin-EDTA solution at 37 ℃ for 10 min. Cells were then washed in DPBS and passed through 35μm filter before library preparation. Construction of 10x single cell libraries and sequencing on Illumina Hiseq platform were performed by Novogene.

2019-08-31 | GSE133204 | GEO

Genome -wide profile of SMRTER binding in Drosophila wing imaginal discs

Project description:Several co-repressors interact directly with the DNA-binding protein CSL [Su(H) in Drosophila] and are proposed to keep target genes silenced in the absence of Notch activity. To investigate co-repressor activity in the context of this well defined signalling pathway, we analysed the genome-wide binding profile of the best-characterized CSL co-repressor in Drosophila, Hairless, in Kc cells and in wing imaginal discs. The binding profile in wing discs of a second CSL interacting repressor, SMRTER, was also analysed. There was significant overlap between Hairless and Su(H), both in Kc cells and in wing discs, where they were predominantly found in chromatin with active enhancer marks. The Hairless complex was widely present at some Notch regulated enhancers in the wing disc,but no binding was detected at others, indicating that it is not essential for silencing per se. Analysis of target enhancers confirmed differential requirements for Hairless. SMRTER binding significantly overlapped with Hairless, rather than complementing it, and many enhancers were apparently co-bound by both factors. Our analysis indicates that the actions of Hairless and SMRTER gate the enhancers to Notch activity and to Ecdysone signalling respectively, to ensure that the appropriate levels and timing of target gene expression are achieved.

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Chromatin landscape changes of regenerating wing imaginal discs

Project description:We report the changes in chromatin accessibility associated with regeneration in wing imaginal discs at two developmental timepoints during L3. Wing discs were ablated using tissue-specific expression of the pro-apoptotic gene eiger at an early timepoint (day 7) when the discs retain high regenerative capacity and at a late time point (day 9) when regenerative capacity has significantly declined. ATAC-seq was performed on these discs after 40 hr of ablation and compared to identically staged unablated discs. We detect 14,142 open chromatin peaks after merging overlapping peaks from 3 biological repeats of all 4 conditions. Of these, 349 change significantly (log2fc>0.5, p<0.1) either opening or closing upon damage in early L3 discs, while only 55 open or close in late L3 discs. We describe two consequential groups of peak changes, those that are damage responsive (DR) in early L3 (222 peaks) and those that are maturity silenced (MS), open in early damaged L3 and closed in late damaged L3 (729 peaks). 28 peaks fall in the overlap of these two groups.

2020-06-11 | GSE140755 | GEO

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