PXD001528 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Paraquat Exposure and Sod2 Knockdown have Dissimilar Impacts on the Drosophila melanogaster Carbonylated Protein Proteome |
Description | Exposure to Paraquat and RNA interference knockdown of mitochondrial superoxide dismutase (Sod2) are known to result in significant lifespan reduction, locomotor dysfunction, and mitochondrial degeneration in Drosophila melanogaster. Both perturbations increase the flux of superoxide, a progenitor reactive oxygen species, but the molecular underpinnings of the resulting phenotypes are poorly understood. Improved understanding of such processes could lead to advances in the treatment of numerous age-related disorders. Superoxide toxicity can act through protein carbonylation. Analysis of carbonylated proteins is attractive since reactive carbonyl groups are not present in the twenty canonical amino acids and are amenable to labeling and enrichment strategies. Here, carbonylated proteins were labeled with biotin hydrazide and enriched on streptavidin-coated beads. On-bead digestion was used to release carbonylated protein peptides, with relative abundance ratios versus controls obtained using the iTRAQ mass spectrometry-based proteomics approach. While Paraquat exposure and Sod2 knockdown have similar phenotypes, differences in protein carbonylation were anticipated because Paraquat exposure was expected to increase the concentration of superoxide throughout the cell while Sod2 knockdown was only expected to raise the concentration of superoxide in the mitochondrial matrix. Paraquat exposure resulted in widespread increases in carbonylated protein relative abundance: the median Paraquat-exposed to control carbonylated protein relative abundance ratio was 1.53. For Sod2 knockdown, in contrast, the median carbonylated protein relative abundance ratios were 1.13 versus the RNA interference driver control and 1.05 versus the RNA interference transgene control. However, some proteins did show large increases in carbonylated protein relative abundance on Sod2 knockdown, most notably cytochrome c oxidase subunit Vb, possibly providing some indication of the molecular basis of the Sod2-knockdown phenotype. |
HostingRepository | PRIDE |
AnnounceDate | 2014-11-26 |
AnnouncementXML | Submission_2014-11-26_04:43:26.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD001528 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | David Simpson |
SpeciesList | scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227; |
ModificationList | monohydroxylated residue; dehydrated residue; iTRAQ4plex-116 reporter+balance reagent acylated residue; iodoacetamide derivatized residue; deaminated residue |
Instrument | LTQ Orbitrap Velos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2014-11-24 01:01:00 | ID requested | |
⏵ 1 | 2014-11-26 04:43:28 | announced | |
Publication List
Narayanasamy SK, Simpson DC, Martin I, Grotewiel M, Gronert S, Paraquat exposure and Sod2 knockdown have dissimilar impacts on the Drosophila melanogaster carbonylated protein proteome. Proteomics, 14(21-22):2566-77(2014) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Drosophila melanogaster, protein carbonylation, Orbitrap, HCD, iTRAQ |
Contact List
Scott Gronert |
contact affiliation | Virginia Commonwealth University |
contact email | sgronert@vcu.edu |
lab head | |
David Simpson |
contact affiliation | Virginia Commonwealth University, Department of Chemistry |
contact email | dsimpson3@vcu.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD001528
- Label: PRIDE project
- Name: Paraquat Exposure and Sod2 Knockdown have Dissimilar Impacts on the Drosophila melanogaster Carbonylated Protein Proteome