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Adamoski D, Dias MM, Quesñay JEN, Yang Z, Zagoriy I, Steyer AM, Rodrigues CT, da Silva Bastos AC, da Silva BN, Costa RKE, de Abreu FMO, Islam Z, Cassago A, van Heel MG, Consonni SR, Mattei S, Mahamid J, Portugal RV, Ambrosio ALB, Dias SMG. Molecular mechanism of glutaminase activation through filamentation and the role of filaments in mitophagy protection. Nat Struct Mol Biol 2023; 30:1902-1912. [PMID: 37857822 DOI: 10.1038/s41594-023-01118-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Accepted: 09/06/2023] [Indexed: 10/21/2023]
Abstract
Glutaminase (GLS), which deaminates glutamine to form glutamate, is a mitochondrial tetrameric protein complex. Although inorganic phosphate (Pi) is known to promote GLS filamentation and activation, the molecular basis of this mechanism is unknown. Here we aimed to determine the molecular mechanism of Pi-induced mouse GLS filamentation and its impact on mitochondrial physiology. Single-particle cryogenic electron microscopy revealed an allosteric mechanism in which Pi binding at the tetramer interface and the activation loop is coupled to direct nucleophile activation at the active site. The active conformation is prone to enzyme filamentation. Notably, human GLS filaments form inside tubulated mitochondria following glutamine withdrawal, as shown by in situ cryo-electron tomography of cells thinned by cryo-focused ion beam milling. Mitochondria with GLS filaments exhibit increased protection from mitophagy. We reveal roles of filamentous GLS in mitochondrial morphology and recycling.
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Affiliation(s)
- Douglas Adamoski
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
| | - Marilia Meira Dias
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- Cancer Research UK Beatson Institute, Glasgow, UK
| | - Jose Edwin Neciosup Quesñay
- Sao Carlos Institute of Physics, University of Sao Paulo, Sao Carlos, Brazil
- Institute of Chemistry, University of São Paulo, São Paulo, Brazil
| | - Zhengyi Yang
- EMBL Imaging Centre, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Ievgeniia Zagoriy
- Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Anna M Steyer
- EMBL Imaging Centre, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Camila Tanimoto Rodrigues
- Sao Carlos Institute of Physics, University of Sao Paulo, Sao Carlos, Brazil
- Biological Sciences Department, School of Science, Purdue University, Lafayette, IN, USA
| | - Alliny Cristiny da Silva Bastos
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- Division of Medical Oncology, Department of Internal Medicine, Washington University School of Medicine, St. Louis, MO, USA
| | - Bianca Novaes da Silva
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas, Campinas, Brazil
| | - Renna Karoline Eloi Costa
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
| | | | - Zeyaul Islam
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- Diabetes Research Center, Qatar Biomedical Research Institute, Hamad Bin Khalifa University, Qatar Foundation, Doha, Qatar
| | - Alexandre Cassago
- Brazilian Nanotechnology National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
- SLAC National Accelerator Laboratory, Stanford University, Menlo Park, CA, USA
| | - Marin Gerard van Heel
- Brazilian Nanotechnology National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
| | - Sílvio Roberto Consonni
- Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas, Campinas, Brazil
| | - Simone Mattei
- EMBL Imaging Centre, European Molecular Biology Laboratory, Heidelberg, Germany
- Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Julia Mahamid
- Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany
- Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Rodrigo Villares Portugal
- Brazilian Nanotechnology National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil
| | | | - Sandra Martha Gomes Dias
- Brazilian Biosciences National Laboratory, Brazilian Center for Research in Energy and Materials, Campinas, Brazil.
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Ceccato-Antonini SR, Shirahigue LD, Varano A, da Silva BN, Brianti CS, de Azevedo FA. Citrus essential oil: would it be feasible as antimicrobial in the bioethanol industry? Biotechnol Lett 2023; 45:1-12. [PMID: 36333539 DOI: 10.1007/s10529-022-03320-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Revised: 10/23/2022] [Accepted: 10/28/2022] [Indexed: 11/06/2022]
Abstract
Essential oils (EOs) extracted from Citrus peels contain 85%-99% volatile components (a mixture of monoterpenes, sesquiterpenes, and their oxygenated derivatives) and 1%-15% non-volatile compounds. Citrus EOs have been long known for their antimicrobial properties, owing to which these EOs have a diverse range of applications. However, no studies have reported the applicability of Citrus EOs for the control of bacterial and yeast contaminants in the bioethanol industry. In this regard, the present review aimed to explore the feasibility of Citrus EOs in this industry. The Web of Science database was searched for reports that described the association of Citrus EOs with the most common microorganisms in the bioethanol industry to evaluate the efficacy of these EOs as antimicrobial agents in this context. The objective of the review was to suggest a novel antimicrobial that could replace sulfuric acid and antibiotics as the commonly used antimicrobial agents in the bioethanol industry. Citrus EOs exhibit antibacterial activity against Lactobacillus, which is the main bacterial genus that contaminates this fermentation process. The present report also confirms the selective action of these EOs on the contaminating yeasts and not/less on ethanol-producing yeast Saccharomyces cerevisiae, however further studies should be conducted to investigate the effects of Citrus EOs in yeast-bacterium co-culture.
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Affiliation(s)
- Sandra Regina Ceccato-Antonini
- Dept Tecnologia Agroindustrial e Socio-Economia Rural, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Campus de Araras, Via Anhanguera Km 174, Araras, SP, 13600-970, Brasil.
| | - Ligianne Din Shirahigue
- Dept Tecnologia Agroindustrial e Socio-Economia Rural, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Campus de Araras, Via Anhanguera Km 174, Araras, SP, 13600-970, Brasil
| | - Amanda Varano
- Dept Tecnologia Agroindustrial e Socio-Economia Rural, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Campus de Araras, Via Anhanguera Km 174, Araras, SP, 13600-970, Brasil
| | - Bianca Novaes da Silva
- Dept Tecnologia Agroindustrial e Socio-Economia Rural, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Campus de Araras, Via Anhanguera Km 174, Araras, SP, 13600-970, Brasil
| | - Carina Sawaya Brianti
- Dept Tecnologia Agroindustrial e Socio-Economia Rural, Centro de Ciências Agrárias, Universidade Federal de São Carlos, Campus de Araras, Via Anhanguera Km 174, Araras, SP, 13600-970, Brasil
| | - Fernando Alves de Azevedo
- Centro de Citricultura Sylvio Moreira, Instituto Agronômico (IAC), Via Anhanguera Km 158, Cordeirópolis, SP, 13490-970, Brasil
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E Costa RK, Rodrigues CT, H Campos JC, Paradela LS, Dias MM, Novaes da Silva B, de Valega Negrao CVZ, Gonçalves KDA, Ascenção CFR, Adamoski D, Mercaldi GF, Bastos ACS, Batista FAH, Figueira AC, Cordeiro AT, Ambrosio ALB, Guido RVC, Dias SMG. High-Throughput Screening Reveals New Glutaminase Inhibitor Molecules. ACS Pharmacol Transl Sci 2021; 4:1849-1866. [PMID: 34927015 DOI: 10.1021/acsptsci.1c00226] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2021] [Indexed: 11/29/2022]
Abstract
The glutaminase (GLS) enzyme hydrolyzes glutamine into glutamate, an important anaplerotic source for the tricarboxylic acid cycle in rapidly growing cancer cells under the Warburg effect. Glutamine-derived α-ketoglutarate is also an important cofactor of chromatin-modifying enzymes, and through epigenetic changes, it keeps cancer cells in an undifferentiated state. Moreover, glutamate is an important neurotransmitter, and deregulated glutaminase activity in the nervous system underlies several neurological disorders. Given the proven importance of glutaminase for critical diseases, we describe the development of a new coupled enzyme-based fluorescent glutaminase activity assay formatted for 384-well plates for high-throughput screening (HTS) of glutaminase inhibitors. We applied the new methodology to screen a ∼30,000-compound library to search for GLS inhibitors. The HTS assay identified 11 glutaminase inhibitors as hits that were characterized by in silico, biochemical, and glutaminase-based cellular assays. A structure-activity relationship study on the most promising hit (C9) allowed the discovery of a derivative, C9.22, with enhanced in vitro and cellular glutaminase-inhibiting activity. In summary, we discovered a new glutaminase inhibitor with an innovative structural scaffold and described the molecular determinants of its activity.
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Affiliation(s)
- Renna K E Costa
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil.,Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas-UNICAMP, 13083-970 Campinas-SP, Brazil
| | - Camila T Rodrigues
- Sao Carlos Institute of Physics (IFSC), University of Sao Paulo (USP), 13563-120 Sao Carlos-SP, Brazil
| | - Jean C H Campos
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Luciana S Paradela
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil.,Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas-UNICAMP, 13083-970 Campinas-SP, Brazil
| | - Marilia M Dias
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Bianca Novaes da Silva
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Cyro von Zuben de Valega Negrao
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil.,Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas-UNICAMP, 13083-970 Campinas-SP, Brazil
| | - Kaliandra de Almeida Gonçalves
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Carolline F R Ascenção
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil.,Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas-UNICAMP, 13083-970 Campinas-SP, Brazil
| | - Douglas Adamoski
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil.,Graduate Program in Genetics and Molecular Biology, Institute of Biology, University of Campinas-UNICAMP, 13083-970 Campinas-SP, Brazil
| | - Gustavo Fernando Mercaldi
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Alliny C S Bastos
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Fernanda A H Batista
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Ana Carolina Figueira
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Artur T Cordeiro
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Andre L B Ambrosio
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
| | - Rafael V C Guido
- Sao Carlos Institute of Physics (IFSC), University of Sao Paulo (USP), 13563-120 Sao Carlos-SP, Brazil
| | - Sandra M G Dias
- Brazilian Biosciences National Laboratory (LNBio), Center for Research in Energy and Materials (CNPEM), 13083-100 Campinas-SP, Brazil
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