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Rivera-Mejías P, Narbona-Pérez ÁJ, Hasberg L, Kroczek L, Bahat A, Lawo S, Folz-Donahue K, Schumacher AL, Ahola S, Mayer FC, Giavalisco P, Nolte H, Lavandero S, Langer T. The mitochondrial protease OMA1 acts as a metabolic safeguard upon nuclear DNA damage. Cell Rep 2023; 42:112332. [PMID: 37002921 DOI: 10.1016/j.celrep.2023.112332] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Revised: 02/02/2023] [Accepted: 03/20/2023] [Indexed: 04/03/2023] Open
Abstract
The metabolic plasticity of mitochondria ensures cell development, differentiation, and survival. The peptidase OMA1 regulates mitochondrial morphology via OPA1 and stress signaling via DELE1 and orchestrates tumorigenesis and cell survival in a cell- and tissue-specific manner. Here, we use unbiased systems-based approaches to show that OMA1-dependent cell survival depends on metabolic cues. A metabolism-focused CRISPR screen combined with an integrated analysis of human gene expression data found that OMA1 protects against DNA damage. Nucleotide deficiencies induced by chemotherapeutic agents promote p53-dependent apoptosis of cells lacking OMA1. The protective effect of OMA1 does not depend on OMA1 activation or OMA1-mediated OPA1 and DELE1 processing. OMA1-deficient cells show reduced glycolysis and accumulate oxidative phosphorylation (OXPHOS) proteins upon DNA damage. OXPHOS inhibition restores glycolysis and confers resistance against DNA damage. Thus, OMA1 dictates the balance between cell death and survival through the control of glucose metabolism, shedding light on its role in cancerogenesis.
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Affiliation(s)
- Pablo Rivera-Mejías
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany; Center for Advanced Chronic Diseases (ACCDiS), Faculty of Chemical and Pharmaceutical Sciences & Faculty of Medicine, University of Chile, Santiago 8380492, Chile
| | | | - Lidwina Hasberg
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | - Lara Kroczek
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | - Amir Bahat
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | - Steffen Lawo
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | - Kat Folz-Donahue
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | | | - Sofia Ahola
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | | | | | - Hendrik Nolte
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany
| | - Sergio Lavandero
- Center for Advanced Chronic Diseases (ACCDiS), Faculty of Chemical and Pharmaceutical Sciences & Faculty of Medicine, University of Chile, Santiago 8380492, Chile; Cardiology Division, Department of Internal Medicine, University of Texas Southwestern Medical Center, Dallas, TX 75390-8573, USA
| | - Thomas Langer
- Max Planck Institute for Biology of Ageing, 50931 Cologne, Germany; Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, 50931 Cologne, Germany.
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MacVicar T, Ohba Y, Nolte H, Mayer FC, Tatsuta T, Sprenger HG, Lindner B, Zhao Y, Li J, Bruns C, Krüger M, Habich M, Riemer J, Schwarzer R, Pasparakis M, Henschke S, Brüning JC, Zamboni N, Langer T. Lipid signalling drives proteolytic rewiring of mitochondria by YME1L. Nature 2019; 575:361-365. [PMID: 31695197 DOI: 10.1038/s41586-019-1738-6] [Citation(s) in RCA: 90] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2018] [Accepted: 09/19/2019] [Indexed: 01/18/2023]
Abstract
Reprogramming of mitochondria provides cells with the metabolic flexibility required to adapt to various developmental transitions such as stem cell activation or immune cell reprogramming, and to respond to environmental challenges such as those encountered under hypoxic conditions or during tumorigenesis1-3. Here we show that the i-AAA protease YME1L rewires the proteome of pre-existing mitochondria in response to hypoxia or nutrient starvation. Inhibition of mTORC1 induces a lipid signalling cascade via the phosphatidic acid phosphatase LIPIN1, which decreases phosphatidylethanolamine levels in mitochondrial membranes and promotes proteolysis. YME1L degrades mitochondrial protein translocases, lipid transfer proteins and metabolic enzymes to acutely limit mitochondrial biogenesis and support cell growth. YME1L-mediated mitochondrial reshaping supports the growth of pancreatic ductal adenocarcinoma (PDAC) cells as spheroids or xenografts. Similar changes to the mitochondrial proteome occur in the tumour tissues of patients with PDAC, suggesting that YME1L is relevant to the pathophysiology of these tumours. Our results identify the mTORC1-LIPIN1-YME1L axis as a post-translational regulator of mitochondrial proteostasis at the interface between metabolism and mitochondrial dynamics.
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Affiliation(s)
- Thomas MacVicar
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany
| | - Yohsuke Ohba
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany
| | - Hendrik Nolte
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany.,Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany
| | | | - Takashi Tatsuta
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany
| | - Hans-Georg Sprenger
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany.,Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany
| | - Barbara Lindner
- Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany
| | - Yue Zhao
- Department of General, Visceral and Cancer Surgery, University Hospital of Cologne, Cologne, Germany
| | - Jiahui Li
- Department of General, Visceral and Cancer Surgery, University Hospital of Cologne, Cologne, Germany
| | - Christiane Bruns
- Department of General, Visceral and Cancer Surgery, University Hospital of Cologne, Cologne, Germany
| | - Marcus Krüger
- Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany.,Center for Molecular Medicine, University of Cologne, Cologne, Germany
| | - Markus Habich
- Institute for Biochemistry, University of Cologne, Cologne, Germany
| | - Jan Riemer
- Institute for Biochemistry, University of Cologne, Cologne, Germany
| | - Robin Schwarzer
- Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany
| | - Manolis Pasparakis
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany.,Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany.,Center for Molecular Medicine, University of Cologne, Cologne, Germany
| | - Sinika Henschke
- Max-Planck-Institute for Metabolism Research, Cologne, Germany
| | - Jens C Brüning
- Center for Molecular Medicine, University of Cologne, Cologne, Germany.,Max-Planck-Institute for Metabolism Research, Cologne, Germany.,Center for Endocrinology, Diabetes and Preventive Medicine (CEPD), University Hospital of Cologne, Cologne, Germany
| | - Nicola Zamboni
- Molecular Systems Biology, ETH Zürich, Zürich, Switzerland
| | - Thomas Langer
- Max-Planck-Institute for Biology of Ageing, Cologne, Germany. .,Institute of Genetics and Cologne Excellence Cluster on Cellular Stress Responses in Aging-Associated Diseases (CECAD), University of Cologne, Cologne, Germany. .,Center for Molecular Medicine, University of Cologne, Cologne, Germany.
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