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Protein & Cell

ISSN 1674-800X

ISSN 1674-8018(Online)

CN 11-5886/Q

Postal Subscription Code 80-984

2018 Impact Factor: 7.575

Protein Cell    2024, Vol. 15 Issue (9) : 686-703    https://doi.org/10.1093/procel/pwae004
Proteomic analysis of ferroptosis pathways reveals a role of CEPT1 in suppressing ferroptosis
Xiaoguang Liu1, Zhen Chen1, Yuelong Yan1, Fereshteh Zandkarimi2, Litong Nie1, Qidong Li1, Amber Horbath1, Kellen Olszewski3,5, Lavanya Kondiparthi3, Chao Mao1, Hyemin Lee1, Li Zhuang1, Masha Poyurovsky3, Brent R. Stockwell2, Junjie Chen1,4(), Boyi Gan1,4()
1. Department of Experimental Radiation Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA
2. Department of Biological Sciences and Department of Chemistry, Columbia University, New York, NY 10027, USA
3. Kadmon Corporation, LLC (A Sanofi Company), New York, NY 10016, USA
4. The University of Texas MD Anderson Cancer Center UTHealth Graduate School of Biomedical Sciences, Houston, TX 77030, USA
5. Present address: The Barer Institute, Philadelphia, PA 19104, USA
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Abstract

Ferroptosis has been recognized as a unique cell death modality driven by excessive lipid peroxidation and unbalanced cellular metabolism. In this study, we established a protein interaction landscape for ferroptosis pathways through proteomic analyses, and identified choline/ethanolamine phosphotransferase 1 (CEPT1) as a lysophosphatidylcholine acyltransferase 3 (LPCAT3)-interacting protein that regulates LPCAT3 protein stability. In contrast to its known role in promoting phospholipid synthesis, we showed that CEPT1 suppresses ferroptosis potentially by interacting with phospholipases and breaking down certain pro-ferroptotic polyunsaturated fatty acid (PUFA)-containing phospholipids. Together, our study reveals a previously unrecognized role of CEPT1 in suppressing ferroptosis.

Keywords proteomics      ferroptosis      CEPT1      LPCAT3     
Corresponding Author(s): Junjie Chen,Boyi Gan   
Online First Date: 24 May 2024    Issue Date: 18 September 2024
 Cite this article:   
Xiaoguang Liu,Zhen Chen,Yuelong Yan, et al. Proteomic analysis of ferroptosis pathways reveals a role of CEPT1 in suppressing ferroptosis[J]. Protein Cell, 2024, 15(9): 686-703.
 URL:  
https://academic.hep.com.cn/pac/EN/10.1093/procel/pwae004
https://academic.hep.com.cn/pac/EN/Y2024/V15/I9/686
1 O Beharier, VA Tyurin, JP Goff et al. PLA2G6 guards placental trophoblasts against ferroptotic injury. Proc Natl Acad Sci U S A 2020;117:27319–27328.
https://doi.org/10.1073/pnas.2009201117
2 K Bersuker, JM Hendricks, Z Li et al. The CoQ oxidoreductase FSP1 acts parallel to GPX4 to inhibit ferroptosis. Nature 2019;575:688–692.
https://doi.org/10.1038/s41586-019-1705-2
3 AS Chauhan, X Liu, J Jing et al. STIM2 interacts with AMPK and regulates calcium-induced AMPK activation. FASEB J 2019;33:2957–2970.
https://doi.org/10.1096/fj.201801225R
4 Z Chen, M Tran, M Tang et al. Proteomic analysis reveals a novel Mutator S (MutS) partner involved in mismatch repair pathway. Mol Cell Proteomics 2016;15:1299–1308.
https://doi.org/10.1074/mcp.M115.056093
5 X Chen, C Yu, R Kang et al. Iron metabolism in ferroptosis. Front Cell Dev Biol 2020a;8:590226.
https://doi.org/10.3389/fcell.2020.590226
6 Z Chen, C Wang, A Jain et al. AMPK interactome reveals new function in non-homologous end joining DNA repair. Mol Cell Proteomics 2020b;19:467–477.
https://doi.org/10.1074/mcp.RA119.001794
7 D Chen, B Chu, X Yang et al. iPLA2beta-mediated lipid detoxification controls p53-driven ferroptosis independent of GPX4. Nat Commun 2021a;12:3644.
https://doi.org/10.1038/s41467-021-23902-6
8 Z Chen, C Wang, X Feng et al. Interactomes of SARS-CoV-2 and human coronaviruses reveal host factors potentially affecting pathogenesis. EMBO J 2021b;40:e107776.
https://doi.org/10.15252/embj.2021107776
9 F Dai, H Lee, Y Zhang et al. BAP1 inhibits the ER stress gene regulatory network and modulates metabolic stress response. Proc Natl Acad Sci U S A 2017;114:3192–3197.
https://doi.org/10.1073/pnas.1619588114
10 SJ Dixon, KM Lemberg, MR Lamprecht et al. Ferroptosis: an iron-dependent form of nonapoptotic cell death. Cell 2012;149:1060–1072.
https://doi.org/10.1016/j.cell.2012.03.042
11 SJ Dixon, GE Winter, LS Musavi et al. Human haploid cell genetics reveals roles for lipid metabolism genes in non-apoptotic cell death. ACS Chem Biol 2015;10:1604–1609.
https://doi.org/10.1021/acschembio.5b00245
12 S Doll, B Proneth, YY Tyurina et al. ACSL4 dictates ferroptosis sensitivity by shaping cellular lipid composition. Nat Chem Biol 2017;13:91–98.
https://doi.org/10.1038/nchembio.2239
13 S Doll, FP Freitas, R Shah et al. FSP1 is a glutathione-independent ferroptosis suppressor. Nature 2019;575:693–698.
https://doi.org/10.1038/s41586-019-1707-0
14 JP Friedmann Angeli, M Schneider, B Proneth et al. Inactivation of the ferroptosis regulator Gpx4 triggers acute renal failure in mice. Nat Cell Biol 2014;16:1180–1191.
https://doi.org/10.1038/ncb3064
15 B Gan, ZK Melkoumian, X Wu et al. Identification of FIP200 interaction with the TSC1-TSC2 complex and its role in regulation of cell size control. J Cell Biol 2005;170:379–389.
https://doi.org/10.1083/jcb.200411106
16 M Gao, P Monian, Q Pan et al. Ferroptosis is an autophagic cell death process. Cell Res 2016;26:1021–1032.
https://doi.org/10.1038/cr.2016.95
17 AL Henneberry, MM Wright, CR McMaster. The major sites of cellular phospholipid synthesis and molecular determinants of Fatty Acid and lipid head group specificity. Mol Biol Cell 2002;13:3148–3161.
https://doi.org/10.1091/mbc.01-11-0540
18 W Hou, Y Xie, X Song et al. Autophagy promotes ferroptosis by degradation of ferritin. Autophagy 2016;12:1425–1428.
https://doi.org/10.1080/15548627.2016.1187366
19 X Jiang, BR Stockwell, M Conrad. Ferroptosis: mechanisms, biology and role in disease. Nat Rev Mol Cell Biol 2021;22:266–282.
https://doi.org/10.1038/s41580-020-00324-8
20 VE Kagan, G Mao, F Qu et al. Oxidized arachidonic and adrenic PEs navigate cells to ferroptosis. Nat Chem Biol 2017;13:81–90.
https://doi.org/10.1038/nchembio.2238
21 P Koppula, Y Zhang, J Shi et al. The glutamate/cystine antiporter SLC7A11/xCT enhances cancer cell dependency on glucose by exporting glutamate. J Biol Chem 2017;292:14240–14249.
https://doi.org/10.1074/jbc.M117.798405
22 P Koppula, Y Zhang, L Zhuang et al. Amino acid transporter SLC7A11/xCT at the crossroads of regulating redox homeostasis and nutrient dependency of cancer. Cancer Commun (Lond) 2018;38:12.
https://doi.org/10.1186/s40880-018-0288-x
23 P Koppula, K Olszewski, Y Zhang et al. KEAP1 deficiency drives glucose dependency and sensitizes lung cancer cells and tumors to GLUT inhibition. iScience 2021a;24:102649.
https://doi.org/10.1016/j.isci.2021.102649
24 P Koppula, L Zhuang, B Gan. Cystine transporter SLC7A11/ xCT in cancer: ferroptosis, nutrient dependency, and cancer therapy. Protein Cell 2021b;12:599–620.
https://doi.org/10.1007/s13238-020-00789-5
25 VAN Kraft, CT Bezjian, S Pfeiffer et al. GTP cyclohydrolase 1/tetrahydrobiopterin counteract ferroptosis through lipid remodeling. ACS Cent Sci 2020;6:41–53.
https://doi.org/10.1021/acscentsci.9b01063
26 H Lee, F Dai, L Zhuang et al. BAF180 regulates cellular senescence and hematopoietic stem cell homeostasis through p21. Oncotarget 2016;7:19134–19146.
https://doi.org/10.18632/oncotarget.8102
27 H Lee, F Zandkarimi, Y Zhang et al. Energy-stress-mediated AMPK activation inhibits ferroptosis. Nat Cell Biol 2020;22:225–234.
https://doi.org/10.1038/s41556-020-0461-8
28 H Lee, A Horbath, L Kondiparthi et al. Cell cycle arrest induces lipid droplet formation and confers ferroptosis resistance. Nat Commun 2024;15:79–79.
https://doi.org/10.1038/s41467-023-44412-7
29 G Lei, Y Zhang, P Koppula et al. The role of ferroptosis in ionizing radiation-induced cell death and tumor suppression. Cell Res 2020;30:146–162.
https://doi.org/10.1038/s41422-019-0263-3
30 G Lei, Y Zhang, T Hong et al. Ferroptosis as a mechanism to mediate p53 function in tumor radiosensitivity. Oncogene 2021;40:3533–3547.
https://doi.org/10.1038/s41388-021-01790-w
31 G Lei, L Zhuang, B Gan. Targeting ferroptosis as a vulnerability in cancer. Nat Rev Cancer 2022;22:381–396.
https://doi.org/10.1038/s41568-022-00459-0
32 X Li, W Wang, J Wang et al. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. Mol Syst Biol 2015;11:775.
https://doi.org/10.15252/msb.20145504
33 X Li, KM Tran, KE Aziz et al. Defining the protein-protein interaction network of the human protein tyrosine phosphatase family. Mol Cell Proteomics 2016a;15:3030–3044.
https://doi.org/10.1074/mcp.M116.060277
34 X Li, W Wang, Y Xi et al. FOXR2 interacts with MYC to promote its transcriptional activities and tumorigenesis. Cell Rep 2016b;16:487–497.
https://doi.org/10.1016/j.celrep.2016.06.004
35 D Liang, AM Minikes, X Jiang. Ferroptosis at the intersection of lipid metabolism and cellular signaling. Mol Cell 2022;82:2215–2227.
https://doi.org/10.1016/j.molcel.2022.03.022
36 A Lin, HL Piao, L Zhuang et al. FoxO transcription factors promote AKT Ser473 phosphorylation and renal tumor growth in response to pharmacologic inhibition of the PI3K-AKT pathway. Cancer Res 2014a;74:1682–1693.
https://doi.org/10.1158/0008-5472.CAN-13-1729
37 A Lin, J Yao, L Zhuang et al. The FoxO-BNIP3 axis exerts a unique regulation of mTORC1 and cell survival under energy stress. Oncogene 2014b;33:3183–3194.
https://doi.org/10.1038/onc.2013.273
38 X Liu, B Gan. lncRNA NBR2 modulates cancer cell sensitivity to phenformin through GLUT1. Cell Cycle 2016;15:3471–3481.
https://doi.org/10.1080/15384101.2016.1249545
39 X Liu, ZD Xiao, L Han et al. LncRNA NBR2 engages a metabolic checkpoint by regulating AMPK under energy stress. Nat Cell Biol 2016;18:431–442.
https://doi.org/10.1038/ncb3328
40 X Liu, K Olszewski, Y Zhang et al. Cystine transporter regulation of pentose phosphate pathway dependency and disulfide stress exposes a targetable metabolic vulnerability in cancer. Nat Cell Biol 2020;22:476–486.
https://doi.org/10.1038/s41556-020-0496-x
41 X Liu, L Nie, Y Zhang et al. Actin cytoskeleton vulnerability to disulfide stress mediates disulfidptosis. Nat Cell Biol 2023;25:404–414.
https://doi.org/10.1038/s41556-023-01091-2
42 JD Mancias, X Wang, SP Gygi et al. Quantitative proteomics identifies NCOA4 as the cargo receptor mediating ferritinophagy. Nature 2014;509:105–109.
https://doi.org/10.1038/nature13148
43 C Mao, X Liu, Y Zhang et al. DHODH-mediated ferroptosis defence is a targetable vulnerability in cancer. Nature 2021;593:586–590.
https://doi.org/10.1038/s41586-021-03539-7
44 F Rohrig, A Schulze. The multifaceted roles of fatty acid synthesis in cancer. Nat Rev Cancer 2016;16:732–749.
https://doi.org/10.1038/nrc.2016.89
45 M Soula, RA Weber, O Zilka et al. Metabolic determinants of cancer cell sensitivity to canonical ferroptosis inducers. Nat Chem Biol 2020;16:1351–1360.
https://doi.org/10.1038/s41589-020-0613-y
46 M Srivastava, Z Chen, H Zhang et al. Replisome dynamics and their functional relevance upon DNA damage through the PCNA interactome. Cell Rep 2018;25:3869–3883.e4.
https://doi.org/10.1016/j.celrep.2018.11.099
47 BR Stockwell. Ferroptosis turns 10: emerging mechanisms, physiological functions, and therapeutic applications. Cell 2022;185:2401–2421.
https://doi.org/10.1016/j.cell.2022.06.003
48 WY Sun, VA Tyurin, K Mikulska-Ruminska et al. Phospholipase iPLA2beta averts ferroptosis by eliminating a redox lipid death signal. Nat Chem Biol 2021;17:465–476.
https://doi.org/10.1038/s41589-020-00734-x
49 G Teo, G Liu, J Zhang et al. SAINTexpress: improvements and additional features in significance analysis of INTeractome software. J Proteomics 2014;100:37–43.
https://doi.org/10.1016/j.jprot.2013.10.023
50 C Wang, Z Chen, L Nie et al. Extracellular signal-regulated kinases associate with and phosphorylate DHPS to promote cell proliferation. Oncogenesis 2020a;9:85.
https://doi.org/10.1038/s41389-020-00271-1
51 C Wang, Z Chen, D Su et al. C17orf53 is identified as a novel gene involved in inter-strand crosslink repair. DNA Repair (Amst) 2020b;95:102946.
https://doi.org/10.1016/j.dnarep.2020.102946
52 C Wang, X Feng, D Su et al. Integrated screens uncover a cell surface tumor suppressor gene KIRREL involved in Hippo pathway. Proc Natl Acad Sci U S A 2022;119:e2121779119.
https://doi.org/10.1073/pnas.2121779119
53 SE Wenzel, YY Tyurina, J Zhao et al. PEBP1 wardens ferroptosis by enabling lipoxygenase generation of lipid death signals. Cell 2017;171:628–641.e26.
https://doi.org/10.1016/j.cell.2017.09.044
54 S Wu, C Mao, L Kondiparthi et al. A ferroptosis defense mechanism mediated by glycerol-3-phosphate dehydrogenase 2 in mitochondria. Proc Natl Acad Sci U S A 2022;119:e2121987119.
https://doi.org/10.1073/pnas.2121987119
55 ZD Xiao, L Han, H Lee et al. Energy stress-induced lncRNA FILNC1 represses c-Myc-mediated energy metabolism and inhibits renal tumor development. Nat Commun 2017;8:783.
https://doi.org/10.1038/s41467-017-00902-z
56 B Yan, Y Ai, Q Sun et al. Membrane damage during ferroptosis is caused by oxidation of phospholipids catalyzed by the oxidoreductases POR and CYB5R1. Mol Cell 2021;81:355–369.e10.
https://doi.org/10.1016/j.molcel.2020.11.024
57 Y Yan, H Teng, Q Hang et al. SLC7A11 expression level dictates differential responses to oxidative stress in cancer cells. Nat Commun 2023;14:3673.
https://doi.org/10.1038/s41467-023-39401-9
58 WS Yang, R SriRamaratnam, ME Welsch et al. Regulation of ferroptotic cancer cell death by GPX4. Cell 2014;156:317–331.
https://doi.org/10.1016/j.cell.2013.12.010
59 WS Yang, KJ Kim, MM Gaschler et al. Peroxidation of polyunsaturated fatty acids by lipoxygenases drives ferroptosis. Proc Natl Acad Sci U S A 2016;113:E4966–E4975.
https://doi.org/10.1073/pnas.1603244113
60 H Yuan, X Li, X Zhang et al. Identification of ACSL4 as a biomarker and contributor of ferroptosis. Biochem Biophys Res Commun 2016;478:1338–1343.
https://doi.org/10.1016/j.bbrc.2016.08.124
61 Y Zhang, J Shi, X Liu et al. BAP1 links metabolic regulation of ferroptosis to tumour suppression. Nat Cell Biol 2018;20:1181–1192.
https://doi.org/10.1038/s41556-018-0178-0
62 H Zhang, Z Chen, Y Ye et al. SLX4IP acts with SLX4 and XPF-ERCC1 to promote interstrand crosslink repair. Nucleic Acids Res 2019a;47:10181–10201.
https://doi.org/10.1093/nar/gkz769
63 Y Zhang, H Tan, JD Daniels et al. Imidazole ketone erastin induces ferroptosis and slows tumor growth in a mouse lymphoma model. Cell Chem Biol 2019b;26:623–633.e9.
https://doi.org/10.1016/j.chembiol.2019.01.008
64 H Zhang, Y Xiong, D Su et al. TDP1-independent pathways in the process and repair of TOP1-induced DNA damage. Nat Commun 2022;13:4240.
https://doi.org/10.1038/s41467-022-31801-7
65 Y Zhou, B Zhou, L Pache et al. Metascape provides a biologist- oriented resource for the analysis of systems- level datasets. Nat Commun 2019;10:1523.
https://doi.org/10.1038/s41467-019-09234-6
66 Y Zou, H Li, ET Graham et al. Cytochrome P450 oxidoreductase contributes to phospholipid peroxidation in ferroptosis. Nat Chem Biol 2020;16:302–309.
https://doi.org/10.1038/s41589-020-0472-6
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