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Transcriptional profiling of adult wild-type IFM and leg muslce in comparison to salm RNAi IFM.

ABSTRACT: Transcriptional profiling comparing adult wild-type indirect flight muscle (IFM) with wild-type leg muscle and salm RNAi IFM (Mef2-GAL4, UASsalmIR). We used 2 different salm hairpin constructs for the experiments, TF3029 and TF101052, both available from the VDRC Drosophila stock centre.

ORGANISM(S): Drosophila melanogaster

PROVIDER: GSE27502 | GEO | 2011/03/01

SECONDARY ACCESSION(S): PRJNA138427

REPOSITORIES: GEO

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Transcriptional profiling of adult wild-type IFM and leg muslce in comparison to salm RNAi IFM.

Project description:Transcriptional profiling comparing adult wild-type indirect flight muscle (IFM) with wild-type leg muscle and salm RNAi IFM (Mef2-GAL4, UASsalmIR). We used 2 different salm hairpin constructs for the experiments, TF3029 and TF101052, both available from the VDRC Drosophila stock centre. Experiments were done in biological duplicates + 1 technical replicate (1 labeled sample was hybridized on a different array)

2011-03-01 | E-GEOD-27502 | biostudies-arrayexpress

Muscle-type specific transcriptomic expression patterns in Drosophila

Project description:To complement our existing data on developmental gene expression changes in flight muscle (IFM) development in Drosophila (GSE107247, GSE63707), we performed mRNA-Seq on dissected leg samples at three stages during pupal development (30, 50 and 72h APF). We further sequenced an additional timepoint at 24h APF for RNAi knockdown of aret (Bru1) in flight muscle. Comparison of splicing and expression profiles of sarcomeric genes allowed us to identify muscle-type specific differences in gene and isoform expression between fibrillar flight muscle and tubular leg muscle. We can further trace the dynamics of exon usage in sarcomere genes across the developmental timecourse, allowing us to identify events the switch during muscle differentiation and maturation.

2020-01-11 | GSE143430 | GEO

The RNA binding protein Arrest (Aret) regulates myofibril maturation in Drosophila flight muscle

Project description:In Drosophila, fibrillar flight muscles (IFMs) enable flight, while tubular muscles mediate other body movements. Here, we use RNA-sequencing and isoform-specific reporters to show that spalt major (salm) determines fibrillar muscle physiology by regulating transcription and alternative splicing of a large set of sarcomeric proteins. We identify the RNA binding protein Arrest (Aret, Bruno) as downstream of salm. Aret shuttles between cytoplasm and nuclei, and is essential for myofibril maturation and sarcomere growth of IFMs. Molecularly, Aret regulates IFM-specific transcription and splicing of various sarcomeric targets, including Stretchin and wupA (TnI), and thus maintains muscle fiber integrity. As Aret and its sarcomeric targets are evolutionarily conserved, similar principles may regulate mammalian muscle morphogenesis. 9 samples from Drosophila melanogaster were analyzed in duplicate: control dissected wildtype flight muscle at 30h APF, 72h APF and 0 day adult, jump muscle and whole leg from 1d adult and RNAi/mutant conditions for salm (1d flight muscle) and aret (30h, 72h and 1d flight muscle)

2014-12-23 | E-GEOD-63707 | biostudies-arrayexpress

Leg muscle mdx and control

Project description:Leg muscle mdx and control: 7,14,23 day Keywords: other

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Transcriptomic signatures of flight muscle, brain and leg tissues during Drosophila pupal development

Project description:Alternative splicing produces multiple, distinct mRNA transcripts from the same gene locus. To explore tissue-type specific gene expression and alternative splicing, we generated mRNA-Seq data from pupal tissues dissected from Drosophila. This allowed us to compare expression between dissected, highly enriched brain and indirect flight muscle (IFM) samples as well as whole legs. Bioinformatic analysis allowed us to characterize tissue-specific differences in gene expression as well as alternative splicing among the three tissues, as well as to identify a multitude of novel splicing events that are not currently contained in the Drosophila annotation. This suggests that tissue or cell-type specific sequencing at multiple timepoints during the fly life cycle will help extend existing annotations, and novel splice junction discovery is an important consideration in mRNA-Seq data analysis.

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Time-restricted feeding mediated transcriptomic changes in the indirect flight muscle tissue in Drosophila obesity models

Project description:The goal of the study was to investigate the mechanistic basis for Time-restricted feeding (TRF) improvement in skeletal muscle by assessing transcriptomic data of wild type (WT), WT under High-fat diet (HFD), and genetic obesity linked mutant sphingosine kinase 2 (Sk2) under ad libitum feeding (ALF) and time-restricted feeding (TRF) conditions. Next generation sequencing was used to assess the changes along a diurnal cycle in the transcriptome of Drosophila indirect flight muscle (IFM) tissue at 3-week of age under ad libitum feeding (ALF) or time-restricted feeding (TRF).

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Transcriptomic signatures of flight muscle, brain and leg tissues during Drosophila pupal development

Project description:Transcriptomic signatures of flight muscle, brain and leg tissues during Drosophila pupal development

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Tissue-specific alteration of gene expression and function by RU486 and the GeneSwitch system

Project description:The drug-inducible GeneSwitch (GS)-Gal4 transgene expression system is routinely used in Drosophila aging and behavioral studies to avoid the confounding effects related to genetic background mutations. Here, we report transcriptional and functional defects that are induced by RU486 in a stock- and tissue-dependent manner, such as defects in flight and mitochondrial gene expression. Our findings indicate that side effects induced by RU486 need to be considered when interpreting the observed phenotypes, and proper controls, consisting of ethanol-treated GS-Gal4 flies and RU486-induced expression of mock transgenes, should always be included

2019-06-10 | GSE129815 | GEO

Transcription profiling of mouse leg muscle mdx vs. control - time series

Project description:Leg muscle mdx and control: 7,14,23 day

2008-06-11 | E-GEOD-1018 | biostudies-arrayexpress

Bruno1 regulates gene expression and splicing that is necessary for proper development of the indirect flight musculature in D. melanogaster.

Project description:Building on a previous study where we examined changes in gene expression and splicing after knockdown of Bruno 1 (Bru1, Aret) in indirect flight muscle, we have now generated a CRISPR allele bru1[M3] that results in a phenotypic null. Here we examine changes in gene expression and alternative splicing in bru1[M3] mutant IFM dissected from 1 d adult flies.

2022-06-02 | GSE205092 | GEO

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