PXD002428 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | DDX3Y and other Male Specific Region of Y Chromosome Genes may modulate neuronal differentiation and mediate various biological pathways in addition to their well described role regulating spermatogenesis |
Description | Human tissue based proteomics projects are challenging due to low abundance of proteins and tissue specificity of protein expression. In this study, we aimed to develop a cell-based approach to profile the male specific region of the Y chromosome (MSY) proteins. First, we profiled the expression of 23 Y chromosome genes and 15 of their X-linked homologues during neural cell differentiation from NT2 cells at three different developmental stages using qRT-PCR, western blotting and immunofluorescent (IF) techniques. The expression level of 12 Y-linked genes significantly increased over neural differentiation. Including RBMY1, EIF1AY, DDX3Y1, HSFY1, BPY2, PCDH11Y, UTY, RPS4Y1, USP9Y, SRY, PRY, and ZFY. Subsequently, DDX3Y was selected as a candidate for knockdown as it was significantly expressed in neural progenitor cells and it is known to be expressed in a gender specific manner and play a role in spermatogenesis. A siRNA-mediated DDX3Y knockdown in neural progenitor cells impaired cell cycle progression and increased apoptosis, consequently interrupting differentiation. Label-free quantitative shotgun proteomics based on a spectral counting approach was then used to characterize the proteomic profile of the cells after DDX3Y knockdown. Among 920 reproducibly identified proteins detected, 74 proteins were differentially expressed following DDX3Y siRNA treatment compared to mock treated cells. Functional grouping indicated these proteins were associated with cell cycle, cell-to-cell signaling, apoptosis and other important networks such as RNA processing and transcription regulation. Disease-based analysis confirmed DDX3Y involvement primarily in neurological and RNA metabolism disorders. Our results confirm that MSY genes are expressed in male neuronal cells, and demonstrate that Y linked DDX3 (DDX3Y) could play a multifunctional role in neural cell development in a sexually dimorphic manner. |
HostingRepository | PRIDE |
AnnounceDate | 2015-09-17 |
AnnouncementXML | Submission_2015-09-17_06:12:25.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Mehdi Mirzaei |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | LTQ |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2015-06-26 01:24:08 | ID requested | |
⏵ 1 | 2015-09-17 06:12:26 | announced | |
Publication List
Vakilian H, Mirzaei M, Sharifi Tabar M, Pooyan P, Habibi Rezaee L, Parker L, Haynes PA, Gourabi H, Baharvand H, Salekdeh GH, DDX3Y, a Male-Specific Region of Y Chromosome Gene, May Modulate Neuronal Differentiation. J Proteome Res, 14(9):3474-83(2015) [pubmed] |
Keyword List
ProteomeXchange project tag: Chromosome-centric Human Proteome Project (C-HPP) |
curator keyword: Biomedical |
submitter keyword: Chromosome Centric Human Proteome Project (C-HPP), Cell-based Human Proteome Project, Y-linked genes, DDX3Y, Shotgun Proteomics, Apoptosis, Cell Cycle, RNA metabolism. |
Contact List
Ghasem Hosseini Salekdeh |
contact affiliation | Royan Institute-Tehran, Iran |
contact email | hsalekdeh@yahoo.com |
lab head | |
Mehdi Mirzaei |
contact affiliation | macquarie university |
contact email | mehdi.mirzaei@mq.edu.au |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD002428
- Label: PRIDE project
- Name: DDX3Y and other Male Specific Region of Y Chromosome Genes may modulate neuronal differentiation and mediate various biological pathways in addition to their well described role regulating spermatogenesis