Summary of Study ST003320

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR002065. The data can be accessed directly via it's Project DOI: 10.21228/M8PR7B This work is supported by NIH grant, U2C- DK119886.

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This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST003320
Study TitleTime-dependent changes in the phosphatidylcholine fatty acid composition of fibroblasts treated with acetyl-CoA carboxylase inhibitors
Study SummaryInhibition of acetyl-CoA carboxylase in NIH-3T3 fibroblasts by soraphen A or 5-(tetradecyloxy)-2-furoic acid (TOFA) and time-dependent analysis (0.17 h, 1 h, 6 h, 24 h, 48 h) of the phosphatidylcholine fatty acid composition.
Institute
University of Innsbruck
Last NameKoeberle
First NameAndreas
AddressMitterweg 24, Innsbruck, Tyrol, 6020, Austria
Emailandreas.koeberle@uibk.ac.at
Phone+43 512 507 57903
Submit Date2024-07-05
Raw Data AvailableYes
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2025-01-06
Release Version1
Andreas Koeberle Andreas Koeberle
https://dx.doi.org/10.21228/M8PR7B
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR002065
Project DOI:doi: 10.21228/M8PR7B
Project Title:Changes in phospholipid fatty acid composition under cytotoxic stress facilitate peroxidation
Project Summary:Programs leading to cell death, such as apoptosis, necroptosis, and ferroptosis, involve an oxidative component linked to lipid metabolism that influences membrane homeostasis. Emerging evidence suggests inter-program cross-talk, emphasizing the need for overarching regulatory mechanisms. We show that under specific cytotoxic stress conditions, exogenous or released polyunsaturated fatty acids (PUFAs) are channeled into overall depleting phospholipids that become vulnerable to peroxidation in the presence of associated redox stress. In fibroblasts, this reprogramming results from reduced growth factor receptor tyrosine kinase (RTK) and phosphatidylinositol-3-kinase (PI3K)/Akt signaling, which reduces de novo fatty acid biosynthesis by mechanisms that differ depending on the specific cytotoxic stressors. We conclude that alterations in PUFA metabolism during cytotoxic stress render cells prone to oxidative modifications in phospholipids.
Institute:University of Innsbruck
Department:Michael Popp Institute
Last Name:Koeberle
First Name:Andreas
Address:Mitterweg 24, Innsbruck, Tyrol, 6020, Austria
Email:andreas.koeberle@uibk.ac.at
Phone:+43 512 507 57903
Funding Source:Austrian Science Fund (FWF) (P 36299). German Research Council (GRK 1715 and KO 4589/4-1), the Phospholipid Research Center Heidelberg (AKO-2015-037/1-1, AKO-2019-070/2-1, AKO-2O22-100/2-2), the University of Jena (DRM/2013-05 and 2.7-05).
Contributors:André Gollowitzer, Helmut Pein, Konstantin Loeser, Maria Thuermer, and Andreas Koeberle

Subject:

Subject ID:SU003441
Subject Type:Cultured cells
Subject Species:Mus musculus
Taxonomy ID:10090
Species Group:Mammals

Factors:

Subject type: Cultured cells; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Sample source treatment time [hours]
SA360246HP_150322_AP7_AP8_#37 - 2cultured cells DMSO 0.17h
SA360247150321_WPF_#37 - 5cultured cells DMSO 0.17h
SA360248150321_WPF_#33 - AP11_10min_PCcultured cells DMSO 0.17h
SA360249HP_150322_AP7_AP8_#41 - 6cultured cells DMSO 0.17h
SA360250HP_150322_AP7_AP8_#3 - 2cultured cells DMSO 0.17h
SA360251HP_150322_AP7_AP8_#7 - 6cultured cells DMSO 0.17h
SA360252HP_150322_AP7_AP8_#10 - 2cultured cells DMSO 1h
SA360253150321_WPF_#59 - AP11_1h_PCcultured cells DMSO 1h
SA360254HP_150322_AP7_AP8_#48 - 6cultured cells DMSO 1h
SA360255HP_150322_AP7_AP8_#44 - 2cultured cells DMSO 1h
SA360256150321_WPF_#63 - 5cultured cells DMSO 1h
SA360257HP_150322_AP7_AP8_#57 - 2cultured cells DMSO 24h
SA360258HP_150322_AP7_AP8_#61 - 6cultured cells DMSO 24h
SA360259150321_WPFSET1_#12 - AP11_24h_PCcultured cells DMSO 24h
SA360260HP_150322_AP7_AP8_#26 - 6cultured cells DMSO 24h
SA360261150321_WPFSET1_#16 - 5cultured cells DMSO 24h
SA360262HP_150322_AP7_AP8_#22 - 2cultured cells DMSO 24h
SA360263HP_150322_AP7_AP8_#68 - 6cultured cells DMSO 48h
SA360264HP_150322_AP7_AP8_#29 - 2cultured cells DMSO 48h
SA360265HP_150322_AP7_AP8_#64 - 2cultured cells DMSO 48h
SA360266HP_150322_AP7_AP8_#33 - 6cultured cells DMSO 48h
SA360267150321_WPFSET1_#39 - AP11_48h_PCcultured cells DMSO 48h
SA360268150321_WPFSET1_#43 - 5cultured cells DMSO 48h
SA360269150321_WPF_#89 - 5cultured cells DMSO 6h
SA360270HP_150322_AP7_AP8_#15 - 2cultured cells DMSO 6h
SA360271HP_150322_AP7_AP8_#19 - 6cultured cells DMSO 6h
SA360272150321_WPF_#85 - AP11_6h_PCcultured cells DMSO 6h
SA360273HP_150322_AP7_AP8_#55 - 6cultured cells DMSO 6h
SA360274HP_150322_AP7_AP8_#51 - 2cultured cells DMSO 6h
SA360275HP_150322_AP7_AP8_#6 - 5cultured cells Soraphen 0.17h
SA360276150321_WPF_#36 - 4cultured cells Soraphen 0.17h
SA360277HP_150322_AP7_AP8_#40 - 5cultured cells Soraphen 0.17h
SA360278150321_WPF_#62 - 4cultured cells Soraphen 1h
SA360279HP_150322_AP7_AP8_#47 - 5cultured cells Soraphen 1h
SA360280HP_150322_AP7_AP8_#13 - 5cultured cells Soraphen 1h
SA360281HP_150322_AP7_AP8_#60 - 5cultured cells Soraphen 24h
SA360282150321_WPFSET1_#15 - 4cultured cells Soraphen 24h
SA360283HP_150322_AP7_AP8_#25 - 5cultured cells Soraphen 24h
SA360284HP_150322_AP7_AP8_#32 - 5cultured cells Soraphen 48h
SA360285HP_150322_AP7_AP8_#67 - 5cultured cells Soraphen 48h
SA360286150321_WPFSET1_#42 - 4cultured cells Soraphen 48h
SA360287150321_WPF_#88 - 4cultured cells Soraphen 6h
SA360288HP_150322_AP7_AP8_#54 - 5cultured cells Soraphen 6h
SA360289HP_150322_AP7_AP8_#18 - 5cultured cells Soraphen 6h
SA360290150321_WPF_#35 - 3cultured cells TOFA 0.17h
SA360291HP_150322_AP7_AP8_#5 - 4cultured cells TOFA 0.17h
SA360292HP_150322_AP7_AP8_#39 - 4cultured cells TOFA 0.17h
SA360293150321_WPF_#61 - 3cultured cells TOFA 1h
SA360294HP_150322_AP7_AP8_#46 - 4cultured cells TOFA 1h
SA360295HP_150322_AP7_AP8_#12 - 4cultured cells TOFA 1h
SA360296150321_WPFSET1_#14 - 3cultured cells TOFA 24h
SA360297HP_150322_AP7_AP8_#24 - 4cultured cells TOFA 24h
SA360298HP_150322_AP7_AP8_#59 - 4cultured cells TOFA 24h
SA360299HP_150322_AP7_AP8_#66 - 4cultured cells TOFA 48h
SA360300150321_WPFSET1_#41 - 3cultured cells TOFA 48h
SA360301HP_150322_AP7_AP8_#31 - 4cultured cells TOFA 48h
SA360302150321_WPF_#87 - 3cultured cells TOFA 6h
SA360303HP_150322_AP7_AP8_#53 - 4cultured cells TOFA 6h
SA360304HP_150322_AP7_AP8_#17 - 4cultured cells TOFA 6h
SA360305HP_150322_AP7_AP8_#21 - AP_7_24h_1cultured cells w/o 24h
SA360306HP_150322_AP7_AP8_#28 - AP_7_48h_1cultured cells w/o 48h
Showing results 1 to 61 of 61

Collection:

Collection ID:CO003434
Collection Summary:Cultured cells were washed, trypsinized, counted and flash-frozen in liquid N2 and stored at -80°C.
Sample Type:Fibroblasts
Collection Method:Trypsinization of cultured cells
Storage Conditions:-80℃

Treatment:

Treatment ID:TR003450
Treatment Summary:NIH-3T3 fibroblasts were treated with soraphen A (100 nM) or 5-(tetradecyloxy)-2-furoic acid (TOFA; 5µM) for 0.17 h, 1 h, 6 h, 24 h, and 48 h.
Treatment Vehicle:DMSO
Cell Media:DMEM + 10% FCS
Cell Envir Cond:37°C, 5% CO2

Sample Preparation:

Sampleprep ID:SP003448
Sampleprep Summary:Phospholipids were extracted from cell pellets by successive addition of PBS pH 7.4, methanol, chloroform, and saline to a final ratio of 14:34:35:17. Evaporation of the organic layer yielded a lipid film that was dissolved in methanol, diluted, and subjected to UPLC-MS/MS.
Extract Storage:-20℃

Combined analysis:

Analysis ID AN005434
Analysis type MS
Chromatography type Reversed phase
Chromatography system Waters Acquity H-Class
Column Waters ACQUITY UPLC BEH C8 (100 x 2.1mm,1.7um)
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name ABI Sciex 5500 QTrap
Ion Mode NEGATIVE
Units relative units

Chromatography:

Chromatography ID:CH004123
Chromatography Summary:Chromatographic separation of phospholipids was carried out on an Acquity BEH C8 column (1.7 μm, 2.1×100 mm, Waters, Milford, MA) using an Acquity Ultraperformance LC system (Waters).
Instrument Name:Waters Acquity H-Class
Column Name:Waters ACQUITY UPLC BEH C8 (100 x 2.1mm,1.7um)
Column Temperature:45
Flow Gradient:The gradient was ramped from 70 to 80% B over 5 min and further increased to 100% B within 2 min, followed by isocratic elution for another 2 min.
Flow Rate:0.75 mL/min
Solvent A:90% Water/10% Acetonitrile; 10 mM ammonium acetate
Solvent B:5% Water/95% Acetonitrile; 10 mM ammonium acetate
Chromatography Type:Reversed phase

MS:

MS ID:MS005160
Analysis ID:AN005434
Instrument Name:ABI Sciex 5500 QTrap
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Targeted MRM with pre-optimized settings and subsequent automated integration of selected signals using Analyst 1.6 (Sciex).
Ion Mode:NEGATIVE
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