Summary of Study ST002839
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 PR001778. The data can be accessed directly via it's Project DOI: 10.21228/M8WB1S This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
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.
| Study ID | ST002839 |
| Study Title | Metabolic alteration during ferroptotic process in cancer cells. |
| Study Summary | Targeting ferroptosis, an iron-dependent form of regulated cell death triggered by the lethal overload of lipid peroxides, in cancer therapy is impeded by our limited understanding of the intersection of tumour’s metabolic feature and ferroptosis vulnerability. In this study, we performed metabolomics in cancer cell lines pretreated with ferroptosis inducer RSL3 and control DMSO. We noted that the levels of a series of metabolites were significantly impacted by the RSL3 treatment, such as upregulated polyamines including putrescine, spermidine, and spermine. According to our previous study, we proved the pro-ferroptotic feature of polyamines in tumor cells, which was derived from the H2O2 produced during the polyamine metabolic process. This finding is consistent with our RNA-Seq data indicating upregulated ODC1 in the ferroptotic process. Therefore, it could be speculated that the RSL3-induced polyamine production leads to a positive-feedback loop that amplifies ferroptosis in tumor cells. |
| Institute | Zhongshan Hospital Fudan University |
| Last Name | Bi |
| First Name | Guoshu |
| Address | Zhongshan Hospital, Fudan University, No. 180, Fenglin Road, Xuhui District, Shanghai, China |
| 18211210035@fudan.edu.cn | |
| Phone | 86 64041990 |
| Submit Date | 2023-08-25 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-09-07 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001778 |
| Project DOI: | doi: 10.21228/M8WB1S |
| Project Title: | Metabolites alteration during ferroptotic process in tumor cells |
| Project Summary: | Targeting ferroptosis, an iron-dependent form of regulated cell death triggered by the lethal overload of lipid peroxides, in cancer therapy is impeded by our limited understanding of the intersection of tumour’s metabolic feature and ferroptosis vulnerability. In the presented study, we performed metabolomics for cancer cell lines treated by ferroptosis inducer RSL3 or control DMSO. |
| Institute: | Zhongshan Hospital Fudan University |
| Last Name: | Bi |
| First Name: | Guoshu |
| Address: | Zhongshan Hospital, Fudan University, No. 180, Fenglin Road, Xuhui District, Shanghai, China |
| Email: | 18211210035@fudan.edu.cn |
| Phone: | 86 64041990 |
Subject:
| Subject ID: | SU002949 |
| Subject Type: | Cultured cells |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
Subject type: Cultured cells; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA307469 | ND1 | Control |
| SA307470 | ND2 | Control |
| SA307471 | NR1 | RSL3 |
| SA307472 | NR2 | RSL3 |
| Showing results 1 to 4 of 4 |
Collection:
| Collection ID: | CO002942 |
| Collection Summary: | For cell samples, after being washed with ice-cold PBS, the cells were collected using a cell scraper and centrifuged for 5 min at 1,000 g. The samples were homogenized in liquid N2 for 1 min and defrosted in 4°C. |
| Sample Type: | Tumor cells |
Treatment:
| Treatment ID: | TR002958 |
| Treatment Summary: | A549 cells cultured in DMEM medium were treated with 0.5 uM RSL3 or DMSO for 24 h. |
Sample Preparation:
| Sampleprep ID: | SP002955 |
| Sampleprep Summary: | After homogenization in liquid N2, 200 μL 80% methyl alcohol was added, followed by vortex for 1 min, sonication for 30 min at 4°C, and stand for 1 h at -20°C. Then, the samples were centrifuged at 12,000 rpm for 15 min at 4°C, and the supernatant was collected for subsequent LC-MS analysis. |
Combined analysis:
| Analysis ID | AN004645 | AN004646 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Waters Acquity | Waters Acquity |
| Column | Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um) | Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | pmol/l | pmol/l |
Chromatography:
| Chromatography ID: | CH003496 |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um) |
| Column Temperature: | 45 |
| Flow Gradient: | Time:(0.01-2-4-8-10-14-15-15.1-16); Solvent A%: (95-95-70-50-20-0-0-95-95);Solvent B%: (5-5-30-50-80-100-100-5-5) |
| Flow Rate: | 0.35 mL/min |
| Solvent A: | Water containing 0.1% methanoic acid |
| Solvent B: | Acetonitrile containing 0.1% methanoic acid |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS004392 |
| Analysis ID: | AN004645 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Mass Scan Range 100-1200 Resolution (full scan) 70000 Resolution (HCD MS/MS scans) 17500 Spray Voltage (V) 3800 Sheath Gas Flow Rate (Arb) 35 Aux Gas Flow Rate (Arb) 8 Capillary Temperature (°C) 320 |
| Ion Mode: | POSITIVE |
| MS ID: | MS004393 |
| Analysis ID: | AN004646 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Mass Scan Range 100-1200 Resolution (full scan) 70000 Resolution (HCD MS/MS scans) 17500 Spray Voltage (V) -3000 Sheath Gas Flow Rate (Arb) 35 Aux Gas Flow Rate (Arb) 8 Capillary Temperature (°C) 320 |
| Ion Mode: | NEGATIVE |
