#METABOLOMICS WORKBENCH Dmitri_20230825_211119 DATATRACK_ID:4249 STUDY_ID:ST002839 ANALYSIS_ID:AN004646 PROJECT_ID:PR001778 VERSION 1 CREATED_ON August 30, 2023, 4:35 am #PROJECT PR:PROJECT_TITLE Metabolites alteration during ferroptotic process in tumor cells PR:PROJECT_SUMMARY Targeting ferroptosis, an iron-dependent form of regulated cell death triggered PR:PROJECT_SUMMARY by the lethal overload of lipid peroxides, in cancer therapy is impeded by our PR:PROJECT_SUMMARY limited understanding of the intersection of tumour’s metabolic feature and PR:PROJECT_SUMMARY ferroptosis vulnerability. In the presented study, we performed metabolomics for PR:PROJECT_SUMMARY cancer cell lines treated by ferroptosis inducer RSL3 or control DMSO. PR:INSTITUTE Zhongshan Hospital Fudan University PR:LAST_NAME Bi PR:FIRST_NAME Guoshu PR:ADDRESS Zhongshan Hospital, Fudan University, No. 180, Fenglin Road, Xuhui District, PR:ADDRESS Shanghai, China PR:EMAIL 18211210035@fudan.edu.cn PR:PHONE 86 64041990 #STUDY ST:STUDY_TITLE Metabolic alteration during ferroptotic process in cancer cells. ST:STUDY_SUMMARY Targeting ferroptosis, an iron-dependent form of regulated cell death triggered ST:STUDY_SUMMARY by the lethal overload of lipid peroxides, in cancer therapy is impeded by our ST:STUDY_SUMMARY limited understanding of the intersection of tumour’s metabolic feature and ST:STUDY_SUMMARY ferroptosis vulnerability. In this study, we performed metabolomics in cancer ST:STUDY_SUMMARY cell lines pretreated with ferroptosis inducer RSL3 and control DMSO. We noted ST:STUDY_SUMMARY that the levels of a series of metabolites were significantly impacted by the ST:STUDY_SUMMARY RSL3 treatment, such as upregulated polyamines including putrescine, spermidine, ST:STUDY_SUMMARY and spermine. According to our previous study, we proved the pro-ferroptotic ST:STUDY_SUMMARY feature of polyamines in tumor cells, which was derived from the H2O2 produced ST:STUDY_SUMMARY during the polyamine metabolic process. This finding is consistent with our ST:STUDY_SUMMARY RNA-Seq data indicating upregulated ODC1 in the ferroptotic process. Therefore, ST:STUDY_SUMMARY it could be speculated that the RSL3-induced polyamine production leads to a ST:STUDY_SUMMARY positive-feedback loop that amplifies ferroptosis in tumor cells. ST:INSTITUTE Zhongshan Hospital Fudan University ST:LAST_NAME Bi ST:FIRST_NAME Guoshu ST:ADDRESS Zhongshan Hospital, Fudan University, No. 180, Fenglin Road, Xuhui District, ST:ADDRESS Shanghai, China ST:EMAIL 18211210035@fudan.edu.cn ST:PHONE 86 64041990 #SUBJECT SU:SUBJECT_TYPE Cultured cells SU:SUBJECT_SPECIES Homo sapiens SU:TAXONOMY_ID 9606 #SUBJECT_SAMPLE_FACTORS: SUBJECT(optional)[tab]SAMPLE[tab]FACTORS(NAME:VALUE pairs separated by |)[tab]Raw file names and additional sample data SUBJECT_SAMPLE_FACTORS - ND1 Treatment:Control genotype=Wild-type; RAW_FILE_NAME=ND1.raw SUBJECT_SAMPLE_FACTORS - ND2 Treatment:Control genotype=Wild-type; RAW_FILE_NAME=ND2.raw SUBJECT_SAMPLE_FACTORS - NR1 Treatment:RSL3 genotype=Wild-type; RAW_FILE_NAME=NR1.raw SUBJECT_SAMPLE_FACTORS - NR2 Treatment:RSL3 genotype=Wild-type; RAW_FILE_NAME=NR2.raw #COLLECTION CO:COLLECTION_SUMMARY For cell samples, after being washed with ice-cold PBS, the cells were collected CO:COLLECTION_SUMMARY using a cell scraper and centrifuged for 5 min at 1,000 g. The samples were CO:COLLECTION_SUMMARY homogenized in liquid N2 for 1 min and defrosted in 4°C. CO:SAMPLE_TYPE Tumor cells #TREATMENT TR:TREATMENT_SUMMARY A549 cells cultured in DMEM medium were treated with 0.5 uM RSL3 or DMSO for 24 TR:TREATMENT_SUMMARY h. #SAMPLEPREP SP:SAMPLEPREP_SUMMARY After homogenization in liquid N2, 200 μL 80% methyl alcohol was added, SP:SAMPLEPREP_SUMMARY followed by vortex for 1 min, sonication for 30 min at 4°C, and stand for 1 h SP:SAMPLEPREP_SUMMARY at -20°C. Then, the samples were centrifuged at 12,000 rpm for 15 min at 4°C, SP:SAMPLEPREP_SUMMARY and the supernatant was collected for subsequent LC-MS analysis. #CHROMATOGRAPHY CH:CHROMATOGRAPHY_TYPE LC CH:INSTRUMENT_NAME Waters Acquity CH:COLUMN_NAME Waters ACQUITY UPLC HSS T3 (100 x 2.1mm,1.8um) CH:SOLVENT_A Water containing 0.1% methanoic acid CH:SOLVENT_B Acetonitrile containing 0.1% methanoic acid CH:FLOW_GRADIENT Time:(0.01-2-4-8-10-14-15-15.1-16); Solvent A%: CH:FLOW_GRADIENT (95-95-70-50-20-0-0-95-95);Solvent B%: (5-5-30-50-80-100-100-5-5) CH:FLOW_RATE 0.35 mL/min CH:COLUMN_TEMPERATURE 45 #ANALYSIS AN:ANALYSIS_TYPE MS #MS MS:INSTRUMENT_NAME Thermo Q Exactive Orbitrap MS:INSTRUMENT_TYPE Orbitrap MS:MS_TYPE ESI MS:ION_MODE NEGATIVE MS:MS_COMMENTS Mass Scan Range 100-1200 Resolution (full scan) 70000 Resolution (HCD MS/MS MS:MS_COMMENTS scans) 17500 Spray Voltage (V) -3000 Sheath Gas Flow Rate (Arb) 35 Aux Gas Flow MS:MS_COMMENTS Rate (Arb) 8 Capillary Temperature (°C) 320 MS:MS_RESULTS_FILE ST002839_AN004646_Results.txt UNITS:pmol/l Has m/z:Yes Has RT:Yes RT units:Minutes #END