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| Status |
Public on Jun 19, 2023 |
| Title |
Transcriptomic profiling reveals a role for pro-survival and stress responsive genes in suppressing fly parkin phenotypes. |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
For examining the gene expression changes due to loss of the innate immunity gene STING in a parkin mutant fly background, we performed RNA-sequencing to compare the transcriptomes of the stingRG5, park25, and stingRG5; park25 mutant flies, using the shared background stock w1118 as a wild-type control. There were significant differences in the expression patterns of stress-repsonsive genes in the double mutants, compared to either single mutant strain alone. These underlying changes to the transcriptional landscape in sting-/- flies necessitates further study to better understand the role of stress-responsive genes in mitigating mitochondrial and oxidative damage during development or disease.
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| Overall design |
Total fly lysates (10 flies each, with 2-3 biological replicas per group) were analysed with RNA-Seq, DESeq2, and GSEA for gene expression changes in mutant alleles (park25, stingRG5, double) compared to wild-type w1118 controls
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| Contributor(s) |
Moehlman AT, Youle RJ, Kanfer G |
| Citation missing |
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| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| FI2 GM138078 |
Understanding the role of innate immunity and Sting-mediated inflammation in models of Parkinsons's Disease in Drosophila melanogaster |
NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE |
Andrew Moehlman |
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| Submission date |
May 19, 2023 |
| Last update date |
Jun 19, 2023 |
| Contact name |
Richard Youle |
| E-mail(s) |
youle@helix.nih.gov
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| Organization name |
National Institute of Neurological Disorders and Stroke, NIH
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| Department |
Surgical Neurology Branch
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| Lab |
Biochemistry Section
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| Street address |
35 Convent Drive, 2C917
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| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
| GPL25244 |
Illumina NovaSeq 6000 (Drosophila melanogaster) |
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| Samples (11)
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| GSM7398458 |
Flies, park , Rep1 |
| GSM7398459 |
Flies, park , Rep2 |
| GSM7398460 |
Flies, park , Rep3 |
| GSM7398461 |
Flies, sting , Rep1 |
| GSM7398462 |
Flies, sting , Rep2 |
| GSM7398463 |
Flies, Double mutant , Rep1 |
| GSM7398464 |
Flies, Double mutant , Rep2 |
| GSM7398465 |
Flies, Double mutant , Rep3 |
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| Relations |
| BioProject |
PRJNA974468 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE232950_merged_gene_counts.txt.gz |
464.1 Kb |
(ftp)(http) |
TXT |
| GSE232950_zr6381_AM_Processed_Data.xlsx |
12.6 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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