PXD035841

PXD035841 is an original dataset announced via ProteomeXchange.

Title	Proteomic and phosphoproteomic profiling of ARPE19 cells and Abca4-/-Rdh8-/- mice exposed to stress
Description	To obtain an unbiased, thorough understanding of the biological pathways implicated in atRAL-induced cytotoxicity and PDE inhibitor-mediated cytoprotection, we performed a mass spectrometry-based quantitative proteomic analysis of ARPE19 cells, using stable-isotope labeling of amino acids in cell culture (SILAC). We identified differentially expressed proteins in ARPE19 cells exposed to stress (60 μM atRAL or 5 mM H2O2) in the absence or presence of PDE inhibitor (10 μM BAY 60-7550, rolipram, or BC11-38), relative to vehicle-treated controls. We also performed combined label-free mass spectrometry-based quantitative proteomic and phosphoproteomic analyses of retinas from the Abca4-/-Rdh8-/- double-knockout (dKO) light-sensitive mouse model of photoreceptor degeneration. First, we identified differentially expressed proteins in retinas exposed to bright-light stress (10,000 lux for 30 min) relative to unstressed controls. Next, we identified differentially expressed proteins in PDE inhibitor-treated mice (2 mg/kg intraperitoneal BAY 60-7550, rolipram, or BC11-38) exposed to stress relative to DMSO vehicle-treated controls. Altogether, these analyses provided insights into the proteomic and phosphoproteomic changes induced by stress and modulated by PDE-inhibitor therapy.
HostingRepository	PRIDE
AnnounceDate	2024-01-26
AnnouncementXML	Submission_2024-01-26_07:29:56.232.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fangyuan Gao
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-07 03:04:44	ID requested
⏵ 1	2024-01-26 07:29:57	announced

Luu JC, Saadane A, Leinonen H, Choi EH, Gao F, Lewandowski D, Halabi M, Sander CL, Wu A, Wang JM, Singh R, Gao S, Lessieur EM, Dong Z, Palczewska G, Mullins RF, Peachey NS, Kiser PD, Tabaka M, Kern TS, Palczewski K, Stress resilience-enhancing drugs preserve tissue structure and function in degenerating retina via phosphodiesterase inhibition. Proc Natl Acad Sci U S A, 120(19):e2221045120(2023) [pubmed]

10.1073/pnas.2221045120;

submitter keyword: phosphodiesterases,Vision, cell culture, stress, neuroprotection, neurodegeneration, retina, LC-MS/MS

Krzysztof Palczewski
contact affiliation	1.Center for Translational Vision Research, Gavin Herbert Eye Institute, Department of Ophthalmology, University of California-Irvine, Irvine, CA 92697, USA 2.Department of Ophthalmic Research, Cleveland Clinic, Cleveland, OH 44195, USA 3.Department of Physiology & Biophysics, School of Medicine, University of California-Irvine, Irvine, CA 92697, USA
contact email	kpalczew@uci.edu
lab head
Fangyuan Gao
contact affiliation	University of California, Irvine
contact email	fangyuag@hs.uci.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2024/01/PXD035841

PRIDE project URI

• PRIDE
  1. PXD035841
     1. Label: PRIDE project
     2. Name: Proteomic and phosphoproteomic profiling of ARPE19 cells and Abca4-/-Rdh8-/- mice exposed to stress