22 results on '"Frederic Garzoni"'
Search Results
2. The free fatty acid–binding pocket is a conserved hallmark in pathogenic β-coronavirus spike proteins from SARS-CoV to Omicron
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Christine Toelzer, Kapil Gupta, Sathish K. N. Yadav, Lorna Hodgson, Maia Kavanagh Williamson, Dora Buzas, Ufuk Borucu, Kyle Powers, Richard Stenner, Kate Vasileiou, Frederic Garzoni, Daniel Fitzgerald, Christine Payré, Gunjan Gautam, Gérard Lambeau, Andrew D. Davidson, Paul Verkade, Martin Frank, Imre Berger, and Christiane Schaffitzel
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Multidisciplinary ,SARS-CoV-2 ,Max Planck Bristol ,Spike Glycoprotein, Coronavirus ,Bristol BioDesign Institute ,Humans ,COVID-19 ,Fatty Acids, Nonesterified - Abstract
As COVID-19 persists, severe acquired respiratory syndrome coronavirus-2 (SARS-CoV-2) Variants of Concern (VOCs) emerge, accumulating spike (S) glycoprotein mutations. S receptor-binding domain (RBD) comprises a free fatty acid (FFA)-binding pocket. FFA-binding stabilizes a locked S conformation, interfering with virus infectivity. We provide evidence that the pocket is conserved in pathogenic β-coronaviruses (β-CoVs) infecting humans. SARS-CoV, MERS-CoV, SARS-CoV-2 and VOCs bind the essential FFA linoleic acid (LA), while binding is abolished by one mutation in common cold-causing HCoV-HKU1. In the SARS-CoV S structure, LA stabilizes the locked conformation while the open, infectious conformation is LA-free. Electron tomography of SARS-CoV-2 infected cells reveals that LA-treatment inhibits viral replication, resulting in fewer, deformed virions. Our results establish FFA-binding as a hallmark of pathogenic β-CoV infection and replication, highlighting potential antiviral strategies.One-Sentence SummaryFree fatty acid-binding is conserved in pathogenic β-coronavirus S proteins and suppresses viral infection and replication.
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- 2022
3. Structural basis for cell-type specific evolution of viral fitness by SARS-CoV-2
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Deborah K. Shoemark, A. Sofia F. Oliveira, Frederic Garzoni, Maia Kavanagh Williamson, Kapil Gupta, Joachim P. Spatz, K.N. Sathish Yadav, Ufuk Borucu, Imre Berger, Andrew D. Davidson, Christine Toelzer, Adrian J. Mulholland, Daniel J. Fitzgerald, David A. Matthews, Abdulaziz Almuqrin, Christiane Schaffitzel, and Oskar Staufer
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chemistry.chemical_classification ,Genetics ,Infectivity ,Cell type ,biology ,viruses ,Allosteric regulation ,RNA ,chemistry ,biology.protein ,Glycoprotein ,Furin ,Tropism ,Function (biology) - Abstract
As the global burden of SARS-CoV-2 infections escalates, so does the evolution of viral variants which is of particular concern due to their potential for increased transmissibility and pathology. In addition to this entrenched variant diversity in circulation, RNA viruses can also display genetic diversity within single infected hosts with co-existing viral variants evolving differently in distinct cell types. The BriSΔ variant, originally identified as a viral subpopulation by passaging SARS-CoV-2 isolate hCoV-19/England/02/2020, comprises in the spike glycoprotein an eight amino-acid deletion encompassing the furin recognition motif and S1/S2 cleavage site. Here, we elucidate the structure, function and molecular dynamics of this variant spike providing mechanistic insight into how the deletion correlates to viral cell tropism, ACE2 receptor binding and infectivity of this SARS-CoV-2 variant. Moreover, our study reveals long-range allosteric communication between functional regions within the spike that differ in wild-type and deletion variant. Our results support a view of SARS-CoV-2 probing multiple evolutionary trajectories in distinct cell types within the same infected host.
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- 2021
4. VLP‐factory™ and ADDomer © : Self‐assembling Virus‐Like Particle (VLP) Technologies for Multiple Protein and Peptide Epitope Display
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Daniel J. Fitzgerald, Frederic Garzoni, Christiane Schaffitzel, Duygu Sari-Ak, Kapil Gupta, Joshua C. Bufton, and Imre Berger
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viruses ,Hemagglutinin (influenza) ,BrisSynBio ,Health Informatics ,BioBrick ,immunization ,complex mixtures ,General Biochemistry, Genetics and Molecular Biology ,Epitope ,Virus ,03 medical and health sciences ,antigenic epitope ,Virus-like particle ,Antigen ,baculovirus expression vector system (BEVS) ,vaccine ,General Pharmacology, Toxicology and Pharmaceutics ,030304 developmental biology ,chemistry.chemical_classification ,0303 health sciences ,General Immunology and Microbiology ,biology ,General Neuroscience ,Bristol BioDesign Institute ,030302 biochemistry & molecular biology ,virus diseases ,Virology ,3. Good health ,Medical Laboratory Technology ,virus‐like particle (VLP) ,Capsid ,chemistry ,protein and peptide display ,MultiBac ,biology.protein ,Glycoprotein - Abstract
Virus-like particles (VLPs) play a prominent role in vaccination as safe and highly versatile alternatives to attenuated or inactivated viruses or subunit vaccines. We present here two innovations, VLP-factory™ and ADDomer© , for creating VLPs displaying entire proteins or peptide epitopes as antigens, respectively, to enable efficient vaccination. For producing these VLPs, we use MultiBac, a baculovirus expression vector system (BEVS) that we developed for producing complex protein biologics in insect cells transfected with an engineered baculovirus. VLPs are protein assemblies that share features with viruses but are devoid of genetic material, and thus considered safe. VLP-factory™ represents a customized MultiBac baculovirus tailored to produce enveloped VLPs based on the M1 capsid protein of influenza virus. We apply VLP-factory™ to create an array of influenza-derived VLPs presenting functional mutant influenza hemagglutinin (HA) glycoprotein variants. Moreover, we describe MultiBac-based production of ADDomer© , a synthetic self-assembling adenovirus-derived protein-based VLP platform designed to display multiple copies of pathogenic epitopes at the same time on one particle for highly efficient vaccination. © 2021 The Authors. Basic Protocol 1: VLP-factory™ baculoviral genome generation Basic Protocol 2: Influenza VLP array generation using VLP-factory™ Basic Protocol 3: Influenza VLP purification Basic Protocol 4: ADDomer© BioBrick design, expression, and purification Basic Protocol 5: ADDomer© candidate vaccines against infectious diseases.
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- 2021
5. Free fatty acid binding pocket in the locked structure of SARS-CoV-2 spike protein
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Christine Toelzer, Imre Berger, Frederic Garzoni, Maia Kavanagh Williamson, Julien Capin, Oskar Staufer, Joachim P. Spatz, Andrew D. Davidson, Kapil Gupta, Deborah K. Shoemark, Daniel J. Fitzgerald, Adrian J. Mulholland, Rachel Milligan, Ufuk Borucu, Christiane Schaffitzel, and K.N. Sathish Yadav
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Models, Molecular ,Linoleic acid ,viruses ,UNCOVER ,BrisSynBio ,Peptidyl-Dipeptidase A ,Linoleic Acid ,Betacoronavirus ,chemistry.chemical_compound ,Protein structure ,Report ,Fatty acid binding ,Max Planck Bristol ,Chlorocebus aethiops ,Animals ,Humans ,Protein Interaction Domains and Motifs ,Amino Acid Sequence ,Binding site ,skin and connective tissue diseases ,Vero Cells ,Peptide sequence ,chemistry.chemical_classification ,Binding Sites ,Multidisciplinary ,SARS-CoV-2 ,Cryoelectron Microscopy ,Bristol BioDesign Institute ,Biochem ,Fatty acid ,virus diseases ,Covid19 ,Protein Structure, Tertiary ,Cell biology ,respiratory tract diseases ,body regions ,Severe acute respiratory syndrome-related coronavirus ,chemistry ,Spike Glycoprotein, Coronavirus ,Middle East Respiratory Syndrome Coronavirus ,Tissue tropism ,Angiotensin-Converting Enzyme 2 ,Glycoprotein ,Reports - Abstract
Locking down the SARS-CoV-2 spike Many efforts to develop therapies against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) are focused on the spike (S) protein trimer that binds to the host receptor. Structures of trimeric S protein show its receptor-binding domain in either an up or a down conformation. Toelzer et al. produced SARS-CoV-2 S in insect cells and determined the structure by cryo–electron microscopy. In their dataset, the closed form was predominant and was stabilized by binding linoleic acid, an essential fatty acid. A similar binding pocket appears to be present in previous highly pathogenic coronaviruses, and past studies suggested links between viral infection and fatty acid metabolism. The pocket could be exploited to develop inhibitors that trap S protein in the closed conformation. Science, this issue p. 725, The SARS-CoV-2 spike binds linoleic acid, a key molecule in inflammation, immune modulation, and membrane fluidity., Coronavirus disease 2019 (COVID-19), caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), represents a global crisis. Key to SARS-CoV-2 therapeutic development is unraveling the mechanisms that drive high infectivity, broad tissue tropism, and severe pathology. Our 2.85-angstrom cryo–electron microscopy structure of SARS-CoV-2 spike (S) glycoprotein reveals that the receptor binding domains tightly bind the essential free fatty acid linoleic acid (LA) in three composite binding pockets. A similar pocket also appears to be present in the highly pathogenic severe acute respiratory syndrome coronavirus (SARS-CoV) and Middle East respiratory syndrome coronavirus (MERS-CoV). LA binding stabilizes a locked S conformation, resulting in reduced angiotensin-converting enzyme 2 (ACE2) interaction in vitro. In human cells, LA supplementation synergizes with the COVID-19 drug remdesivir, suppressing SARS-CoV-2 replication. Our structure directly links LA and S, setting the stage for intervention strategies that target LA binding by SARS-CoV-2.
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- 2020
6. Unexpected free fatty acid binding pocket in the cryo-EM structure of SARS-CoV-2 spike protein
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Joachim P. Spatz, Christine Toelzer, Frederic Garzoni, Daniel J. Fitzgerald, Oskar Staufer, Christiane Schaffitzel, Julien Capin, Imre Berger, Ufuk Borucu, Kapil Gupta, and K.N. Sathish Yadav
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chemistry.chemical_classification ,viruses ,Linoleic acid ,virus diseases ,Fatty acid ,medicine.disease_cause ,Cell biology ,chemistry.chemical_compound ,chemistry ,Fatty acid binding ,Metabolome ,medicine ,Membrane fluidity ,Tissue tropism ,Glycoprotein ,Coronavirus - Abstract
COVID-19, caused by severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2), represents a global crisis. Key to SARS-CoV-2 therapeutic development is unraveling the mechanisms driving high infectivity, broad tissue tropism and severe pathology. Our cryo-EM structure of SARS-CoV-2 spike (S) glycoprotein reveals that the receptor binding domains (RBDs) tightly and specifically bind the essential free fatty acid (FFA) linoleic acid (LA) in three composite binding pockets. The pocket also appears to be present in the highly pathogenic coronaviruses SARS-CoV and MERS-CoV. Lipid metabolome remodeling is a key feature of coronavirus infection, with LA at its core. LA metabolic pathways are central to inflammation, immune modulation and membrane fluidity. Our structure directly links LA and S, setting the stage for interventions targeting LA binding and metabolic remodeling by SARS-CoV-2.One Sentence SummaryA direct structural link between SARS-CoV-2 spike and linoleic acid, a key molecule in inflammation, immune modulation and membrane fluidity.
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- 2020
7. X-ray Structure of the Human Karyopherin RanBP5, an Essential Factor for Influenza Polymerase Nuclear Trafficking
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Thibaut Crépin, Bruno Da Costa, Christopher Swale, Imre Berger, Andrew A. McCarthy, Frederic Garzoni, Bernard Delmas, Rob W. H. Ruigrok, Laura Sedano, Christoph Bieniossek, Institut de biologie structurale (IBS - UMR 5075), Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Grenoble Alpes (UGA), European Molecular Biology Laboratory [Grenoble] (EMBL), Virologie et Immunologie Moléculaires (VIM (UR 0892)), Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire européen de biologie moléculaire - European Molecular Biology Laboratory (EMBL Grenoble), Max Planck-Bristol Centre for Minimal Biology, F. Hoffmann-La Roche [Basel], Hofmann-La Roche pRED external collaboration programme, ANR-14-CE09-0017,RNAP-IAV,Interactions protéine-protéine et protéine-ARN au sein du complexe réplicatif du virus de la grippe de type A(2014), ANR-10-INBS-0005,FRISBI,Infrastructure Française pour la Biologie Structurale Intégrée(2010), ANR-10-LABX-0049,GRAL,Grenoble Alliance for Integrated Structural Cell Biology(2010), European Project: 279039,EC:FP7:HEALTH,FP7-HEALTH-2011-two-stage,COMPLEXINC(2011), Université Paris-Saclay, Centre Lillois d’Études et de Recherches Sociologiques et Économiques - UMR 8019 (CLERSÉ), and Université de Lille-Centre National de la Recherche Scientifique (CNRS)
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Gene isoform ,Models, Molecular ,Subfamily ,Protein Conformation ,Protein combining ,medicine.disease_cause ,Crystallography, X-Ray ,03 medical and health sciences ,Viral Proteins ,0302 clinical medicine ,Structural Biology ,Influenza A virus ,medicine ,Humans ,Point Mutation ,Molecular Biology ,Polymerase ,030304 developmental biology ,Karyopherin ,chemistry.chemical_classification ,Cell Nucleus ,human karyopherin ,0303 health sciences ,Binding Sites ,biology ,[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM] ,Chemistry ,Point mutation ,RNA-Dependent RNA Polymerase ,beta Karyopherins ,influenza polymerase assembly ,Cell biology ,Molecular Docking Simulation ,Protein Transport ,Docking (molecular) ,PA-PB1 sub-complex nuclear import ,biology.protein ,NLS-binding site ,host–pathogen interaction ,030217 neurology & neurosurgery ,Protein Binding - Abstract
International audience; Here, we describe the crystal structures of two distinct isoforms of ligand-free human karyopherin RanBP5 and investigate its global propensity to interact with influenza A virus polymerase. Our results confirm the general architecture and mechanism of the IMB3 karyopherin-β subfamily whilst also highlighting differences with the yeast orthologue Kap121p. Moreover, our results provide insight into the structural flexibility of β-importins in the unbound state. Based on docking of a nuclear localisation sequence, point mutations were designed, which suppress influenza PA-PB1 subcomplex binding to RanBP5 in a binary protein complementation assay.
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- 2020
8. Synthetic self-assembling ADDomer platform for highly efficient vaccination by genetically encoded multiepitope display
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Véronique Josserand, Céline Terrat, Matthew Williams, Pascal Fender, Frederic Garzoni, Laurence Chaperot, Fruzsina Rabi, Emilie Stermann, Christopher J. Woods, Bernard Verrier, Joshua C. Bufton, Phil Bates, Gerardo Viedma, Mélanie Guidetti, Imre Berger, Charles Vragniau, Christiane Schaffitzel, Institut de biologie structurale (IBS - UMR 5075 ), Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS), University of Bristol [Bristol], Imophoron Ltd, Laboratoire de Biologie Tissulaire et d'ingénierie Thérapeutique UMR 5305 (LBTI), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS), Institute for Advanced Biosciences / Institut pour l'Avancée des Biosciences (Grenoble) (IAB), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Oracle Cloud Development Centre, Institut de biologie et chimie des protéines [Lyon] (IBCP), Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon, Max Planck-Bristol Centre for Minimal Biology, COIFFIER, Celine, Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Institut de biologie structurale (IBS - UMR 5075), Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Grenoble Alpes (UGA)-Centre National de la Recherche Scientifique (CNRS), Centre Hospitalier Universitaire [Grenoble] (CHU)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Etablissement français du sang - Auvergne-Rhône-Alpes (EFS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), ANIMAGE, Rhône-Alpes Genopole, University of Cambridge [UK] (CAM), Laboratoire recherche et développement, EFS, Laboratoire européen de biologie moléculaire - European Molecular Biology Laboratory (EMBL Grenoble), and European Molecular Biology Laboratory [Grenoble] (EMBL)
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Models, Molecular ,Scaffold ,minimal biology ,[SDV.BIO]Life Sciences [q-bio]/Biotechnology ,Protein Conformation ,Computer science ,viruses ,advanced computing ,Epitope ,Epitopes ,Synthetic biology ,0302 clinical medicine ,Virus-like particle ,[SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases ,Structural Biology ,Nanotechnology ,ComputingMilieux_MISCELLANEOUS ,Research Articles ,Vaccines, Synthetic ,0303 health sciences ,Multidisciplinary ,Protein therapeutics ,Vaccination ,SciAdv r-articles ,3. Good health ,Vaccinology ,Nanomedicine ,030220 oncology & carcinogenesis ,[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,Synthetic Biology ,Genetic Engineering ,Research Article ,BrisSynBio ,Computational biology ,Communicable Diseases ,Biodesign ,Adenoviridae ,Structure-Activity Relationship ,Viral Proteins ,03 medical and health sciences ,[SDV.IMM.VAC] Life Sciences [q-bio]/Immunology/Vaccinology ,Self assembling ,Humans ,[SDV.IB.BIO]Life Sciences [q-bio]/Bioengineering/Biomaterials ,030304 developmental biology ,Bristol BioDesign Institute ,[SDV.MHEP.HEG]Life Sciences [q-bio]/Human health and pathology/Hépatology and Gastroenterology ,[SDV.IMM.IMM]Life Sciences [q-bio]/Immunology/Immunotherapy ,[SDV.BIO] Life Sciences [q-bio]/Biotechnology ,SYNTHETIC BIOLOGY ,[CHIM.POLY]Chemical Sciences/Polymers ,[SDV.SP.PG]Life Sciences [q-bio]/Pharmaceutical sciences/Galenic pharmacology ,Infectious disease (medical specialty) ,Communicable Disease Control ,[SDV.IMM.VAC]Life Sciences [q-bio]/Immunology/Vaccinology ,Vaccine ,Epitope Mapping - Abstract
ADDomer is a synthetic, self-assembling, virus-like particle platform that enables highly efficient vaccination., Self-assembling virus-like particles represent highly attractive tools for developing next-generation vaccines and protein therapeutics. We created ADDomer, an adenovirus-derived multimeric protein-based self-assembling nanoparticle scaffold engineered to facilitate plug-and-play display of multiple immunogenic epitopes from pathogens. We used cryo–electron microscopy at near-atomic resolution and implemented novel, cost-effective, high-performance cloud computing to reveal architectural features in unprecedented detail. We analyzed ADDomer interaction with components of the immune system and developed a promising first-in-kind ADDomer-based vaccine candidate to combat emerging Chikungunya infectious disease, exemplifying the potential of our approach.
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- 2019
9. High-Throughput Production of Influenza Virus-Like Particle (VLP) Array by Using VLP-factory
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Duygu, Sari-Ak, Shervin, Bahrami, Magdalena J, Laska, Petra, Drncova, Daniel J, Fitzgerald, Christiane, Schaffitzel, Frederic, Garzoni, and Imre, Berger
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Hemagglutinins ,Genome, Viral ,Orthomyxoviridae ,Baculoviridae - Abstract
Baculovirus-based expression of proteins in insect cell cultures has emerged as a powerful technology to produce complex protein biologics for many applications ranging from multiprotein complex structural biology to manufacturing of therapeutic proteins including virus-like particles (VLPs). VLPs are protein assemblies that mimic live viruses but typically do not contain any genetic material, and therefore are safe and attractive alternatives to life attenuated or inactivated viruses for vaccination purposes. MultiBac is an advanced baculovirus expression vector system (BEVS) which consists of an engineered viral genome that can be customized for tailored applications. Here we describe the creation of a MultiBac-based VLP-factory
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- 2019
10. High-Throughput Production of Influenza Virus-Like Particle (VLP) Array by Using VLP-factory™, a MultiBac Baculoviral Genome Customized for Enveloped VLP Expression
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Imre Berger, Magdalena Janina Laska, Daniel J. Fitzgerald, Frederic Garzoni, Petra Drncova, Duygu Sari-Ak, Christiane Schaffitzel, Shervin Bahrami, and Vincentelli, Renaud
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0301 basic medicine ,Multiprotein complex ,viruses ,Hemagglutinin (influenza) ,Cre recombinase ,Genome ,03 medical and health sciences ,0302 clinical medicine ,Immune system ,Virus-like particle ,Virus-like particle (VLP) ,030212 general & internal medicine ,Insect cell ,biology ,Baculovirus expression vector system (BEVS) ,virus diseases ,Hemagglutinin (HA) ,Virology ,Influenza ,030104 developmental biology ,Capsid ,Structural biology ,MultiBac ,biology.protein ,Small-scale production ,Cre-LoxP fusion - Abstract
Baculovirus-based expression of proteins in insect cell cultures has emerged as a powerful technology to produce complex protein biologics for many applications ranging from multiprotein complex structural biology to manufacturing of therapeutic proteins including virus-like particles (VLPs). VLPs are protein assemblies that mimic live viruses but typically do not contain any genetic material, and therefore are safe and attractive alternatives to life attenuated or inactivated viruses for vaccination purposes. MultiBac is an advanced baculovirus expression vector system (BEVS) which consists of an engineered viral genome that can be customized for tailored applications. Here we describe the creation of a MultiBac-based VLP-factory™, based on the M1 capsid protein from influenza, and its application to produce in a parallelized fashion an array of influenza-derived VLPs containing functional mutations in influenza hemagglutinin (HA) thought to modulate the immune response elicited by the VLP.
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- 2019
11. A network of SMG-8, SMG-9 and SMG-1 C-terminal insertion domain regulates UPF1 substrate recruitment and phosphorylation
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Frederic Garzoni, Thomas Bock, Matthias W. Hentze, Karine Huard, Andreas E. Kulozik, Aurélien Deniaud, Simonas Masiulis, Martin Beck, Manikandan Karuppasamy, Gabriele Neu-Yilik, Kathrin Kerschgens, and Christiane Schaffitzel
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Models, Molecular ,Protein Serine-Threonine Kinases ,Biology ,Ribosome ,Phosphatidylinositol 3-Kinases ,03 medical and health sciences ,0302 clinical medicine ,Protein structure ,stomatognathic system ,Structural Biology ,Genetics ,Phosphorylation ,Kinase activity ,Binding site ,030304 developmental biology ,0303 health sciences ,Binding Sites ,Effector ,Kinase ,Cryoelectron Microscopy ,Molecular biology ,Protein Structure, Tertiary ,Cell biology ,Protein kinase domain ,Multiprotein Complexes ,RNA Helicases ,030217 neurology & neurosurgery ,Protein Binding - Abstract
Mammalian nonsense-mediated mRNA decay (NMD) is a eukaryotic surveillance mechanism that degrades mRNAs containing premature translation termination codons. Phosphorylation of the essential NMD effector UPF1 by the phosphoinositide-3-kinase-like kinase (PIKK) SMG-1 is a key step in NMD and occurs when SMG-1, its two regulatory factors SMG-8 and SMG-9, and UPF1 form a complex at a terminating ribosome. Electron cryo-microscopy of the SMG-1–8–9-UPF1 complex shows the head and arm architecture characteristic of PIKKs and reveals different states of UPF1 docking. UPF1 is recruited to the SMG-1 kinase domain and C-terminal insertion domain, inducing an opening of the head domain that provides access to the active site. SMG-8 and SMG-9 interact with the SMG-1 C-insertion and promote high-affinity UPF1 binding to SMG-1–8–9, as well as decelerated SMG-1 kinase activity and enhanced stringency of phosphorylation site selection. The presence of UPF2 destabilizes the SMG-1–8–9-UPF1 complex leading to substrate release. Our results suggest an intricate molecular network of SMG-8, SMG-9 and the SMG-1 C-insertion domain that governs UPF1 substrate recruitment and phosphorylation by SMG-1 kinase, an event that is central to trigger mRNA decay.
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- 2015
12. New insights into HCV replication in original cells from Aedes mosquitoes
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Yassine Rechoum, Emmanuel Drouet, Frederic Garzoni, Pascal Fender, Olivier François, Alban Caporossi, Sylvie Larrat, Catherine Fallecker, Patrice Morand, Marie Anne Petit, Imre Berger, Institut de biologie structurale (IBS - UMR 5075 ), Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Institut de Biologie et Pathologie [CHU Grenoble] (IBP), CHU Grenoble-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Biologie Computationnelle et Mathématique (TIMC-IMAG-BCM), Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble - UMR 5525 (TIMC-IMAG), Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP )-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019]), Laboratoire européen de biologie moléculaire - European Molecular Biology Laboratory (EMBL Grenoble), European Molecular Biology Laboratory [Grenoble] (EMBL), The School of Biochemistry [Bristol, U.K.], University of Bristol [Bristol], Centre de Recherche en Cancérologie de Lyon (UNICANCER/CRCL), Centre Léon Bérard [Lyon]-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), C. F. is the recipient of MENRT fellowship (French Ministry of Higher Education and Research). I.B. and F.G. acknowledge funding from the European Commission (EC) Framework Program (FP) 7 through the projects ComplexINC (contract nr. 279,039) and Biostruct-X (contract nr. 283,570). This work used the platforms of the Grenoble Instruct Center (ISBG: UMS 3518 CNRS-CEA-UJF-EMBL) with support from FRISBI (ANR-10-INSB-05-02) and GRAL (ANR-10-LABX-49-01) within the Grenoble Partnership for Structural Biology (PSB)., ANR-10-INBS-0005,FRISBI,Infrastructure Française pour la Biologie Structurale Intégrée(2010), ANR-10-LABX-0049,GRAL,Grenoble Alliance for Integrated Structural Cell Biology(2010), European Project: 279039,EC:FP7:HEALTH,FP7-HEALTH-2011-two-stage,COMPLEXINC(2011), European Project: 283570,EC:FP7:INFRA,FP7-INFRASTRUCTURES-2011-1,BIOSTRUCT-X(2011), Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut de biologie structurale ( IBS - UMR 5075 ), Université Joseph Fourier - Grenoble 1 ( UJF ) -Commissariat à l'énergie atomique et aux énergies alternatives ( CEA ) -Centre National de la Recherche Scientifique ( CNRS ) -Université Grenoble Alpes ( UGA ), Institut de Biologie et Pathologie [CHU Grenoble] ( IBP ), CHU Grenoble-Université Grenoble Alpes ( UGA ), Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications [Grenoble] ( TIMC-IMAG ), Université Joseph Fourier - Grenoble 1 ( UJF ) -Institut polytechnique de Grenoble - Grenoble Institute of Technology ( Grenoble INP ) -IMAG-Centre National de la Recherche Scientifique ( CNRS ) -Université Grenoble Alpes ( UGA ), Laboratoire européen de biologie moléculaire - European Molecular Biology Laboratory ( EMBL Grenoble ), European Molecular Biology Laboratory [Grenoble] ( EMBL ), University of Bristol [UK], Centre de Recherche en Cancérologie de Lyon ( CRCL ), Centre Léon Bérard [Lyon]-Université Claude Bernard Lyon 1 ( UCBL ), Université de Lyon-Université de Lyon-Institut National de la Santé et de la Recherche Médicale ( INSERM ) -Centre National de la Recherche Scientifique ( CNRS ), ANR-10-INSB-05-02,FRISBI, ANR-10-LABX-49-01,Labex GRAL, European Project : 279039,EC:FP7:HEALTH,FP7-HEALTH-2011-two-stage,COMPLEXINC ( 2011 ), European Project : 283570,EC:FP7:INFRA,FP7-INFRASTRUCTURES-2011-1,BIOSTRUCT-X ( 2011 ), Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-CHU Grenoble, BMC, BMC, Infrastructure Française pour la Biologie Structurale Intégrée - - FRISBI2010 - ANR-10-INBS-0005 - INBS - VALID, Grenoble Alliance for Integrated Structural Cell Biology - - GRAL2010 - ANR-10-LABX-0049 - LABX - VALID, New Technologies and Production Tools for Complex Protein Biologics - COMPLEXINC - - EC:FP7:HEALTH2011-11-01 - 2015-10-31 - 279039 - VALID, and Transnational access and enhancement of integrated Biological Structure determination at synchrotron X-ray radiation facilities - BIOSTRUCT-X - - EC:FP7:INFRA2011-09-01 - 2016-02-29 - 283570 - VALID
- Subjects
0301 basic medicine ,Human hepatocytes ,[SDV]Life Sciences [q-bio] ,Hepacivirus ,Virus Replication ,Polymerase Chain Reaction ,0302 clinical medicine ,Aedes aegypti ,Viral Envelope Proteins ,Aedes ,Genotype ,Phylogeny ,Mosquito cell ,chemistry.chemical_classification ,education.field_of_study ,biology ,virus diseases ,Hepatitis C virus (HCV) ,Aedes albopictus ,Hepatitis C ,3. Good health ,[SDV] Life Sciences [q-bio] ,Infectious Diseases ,RNA, Viral ,030211 gastroenterology & hepatology ,Sequence Analysis ,Population ,Cell Line ,Microbiology ,03 medical and health sciences ,Virology ,Animals ,Humans ,education ,Polymorphism, Genetic ,Insect cell ,[ SDV ] Life Sciences [q-bio] ,Research ,fungi ,biology.organism_classification ,Insect Vectors ,030104 developmental biology ,chemistry ,Cell culture ,Mutation ,Hepatocytes ,Peptides ,Glycoprotein ,HCV pseudo particles - Abstract
Background The existing literature about HCV association with, and replication in mosquitoes is extremely poor. To fill this gap, we performed cellular investigations aimed at exploring (i) the capacity of HCV E1E2 glycoproteins to bind on Aedes mosquito cells and (ii) the ability of HCV serum particles (HCVsp) to replicate in these cell lines. Methods First, we used purified E1E2 expressing baculovirus-derived HCV pseudo particles (bacHCVpp) so we could investigate their association with mosquito cell lines from Aedes aegypti (Aag-2) and Aedes albopictus (C6/36). We initiated a series of infections of both mosquito cells (Ae aegypti and Ae albopictus) with the HCVsp (Lat strain - genotype 3) and we observed the evolution dynamics of viral populations within cells over the course of infection via next-generation sequencing (NGS) experiments. Results Our binding assays revealed bacHCVpp an association with the mosquito cells, at comparable levels obtained with human hepatocytes (HepaRG cells) used as a control. In our infection experiments, the HCV RNA (+) were detectable by RT-PCR in the cells between 21 and 28 days post-infection (p.i.). In human hepatocytes HepaRG and Ae aegypti insect cells, NGS experiments revealed an increase of global viral diversity with a selection for a quasi-species, suggesting a structuration of the population with elimination of deleterious mutations. The evolutionary pattern in Ae albopictus insect cells is different (stability of viral diversity and polymorphism). Conclusions These results demonstrate for the first time that natural HCV could really replicate within Aedes mosquitoes, a discovery which may have major consequences for public health as well as in vaccine development. Electronic supplementary material The online version of this article (doi:10.1186/s12985-017-0828-z) contains supplementary material, which is available to authorized users.
- Published
- 2016
13. The MultiBac Baculovirus/Insect Cell Expression Vector System for Producing Complex Protein Biologics
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Duygu, Sari, Kapil, Gupta, Deepak Balaji, Thimiri Govinda Raj, Alice, Aubert, Petra, Drncová, Frederic, Garzoni, Daniel, Fitzgerald, and Imre, Berger
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Gene Expression Regulation, Viral ,Models, Molecular ,Transcription, Genetic ,Genetic Vectors ,Protein complexes ,Protein Engineering ,Transfection ,Article ,Structure-Activity Relationship ,Viral Proteins ,Drug Discovery ,Electron microscopy ,Animals ,Humans ,Baculovirus ,Databases, Protein ,Protein Structure, Quaternary ,Gene transfer ,Synthetic biology ,X-ray crystallography ,Vaccines ,Computational Biology ,Insect cell expression system ,Recombinant Proteins ,Virus-like particles (VLPs) ,Lepidoptera ,Protein Subunits ,Multiprotein Complexes ,MultiBac ,Protein Multimerization ,Structural biology ,Baculoviridae - Abstract
Multiprotein complexes regulate most if not all cellular functions. Elucidating the structure and function of these complex cellular machines is essential for understanding biology. Moreover, multiprotein complexes by themselves constitute powerful reagents as biologics for the prevention and treatment of human diseases. Recombinant production by the baculovirus/insect cell expression system is particularly useful for expressing proteins of eukaryotic origin and their complexes. MultiBac, an advanced baculovirus/insect cell system, has been widely adopted in the last decade to produce multiprotein complexes with many subunits that were hitherto inaccessible, for academic and industrial research and development. The MultiBac system, its development and numerous applications are presented. Future opportunities for utilizing MultiBac to catalyze discovery are outlined.
- Published
- 2016
14. Structural characterization of recombinant IAV polymerase reveals a stable complex between viral PA-PB1 heterodimer and host RanBP5
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Alice Labaronne, Christopher Swale, Imre Berger, Laura Tengo, Thibaut Crépin, Rob W. H. Ruigrok, Alexandre Monod, Frederic Garzoni, Stephen Cusack, Jean-Marie Bourhis, Guy Schoehn, Institut de biologie structurale (IBS - UMR 5075 ), Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS), European Molecular Biology Laboratory [Grenoble] (EMBL), Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes [2016-2019] (UGA [2016-2019])-Institut de Recherche Interdisciplinaire de Grenoble (IRIG), and Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)
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0301 basic medicine ,Gene Expression Regulation, Viral ,Protein subunit ,viruses ,RNA-dependent RNA polymerase ,RNA-binding protein ,RNA-binding proteins ,Article ,03 medical and health sciences ,Viral Proteins ,Influenza, Human ,Humans ,Promoter Regions, Genetic ,Polymerase ,Host factor ,Genetics ,Multidisciplinary ,030102 biochemistry & molecular biology ,biology ,[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM] ,RNA ,virus diseases ,SAXS ,Viral proteins ,biochemical phenomena, metabolism, and nutrition ,RNA-Dependent RNA Polymerase ,beta Karyopherins ,Protein Subunits ,030104 developmental biology ,Influenza A virus ,biology.protein ,RNA, Viral ,Beta Karyopherins ,Nuclear transport ,Protein Multimerization ,Protein Binding - Abstract
The genome of influenza A virus (IAV) comprises eight RNA segments (vRNA) which are transcribed and replicated by the heterotrimeric IAV RNA-dependent RNA-polymerase (RdRp). RdRp consists of three subunits (PA, PB1 and PB2) and binds both the highly conserved 3′- and 5′-ends of the vRNA segment. The IAV RdRp is an important antiviral target, but its structural mechanism has remained largely elusive to date. By applying a polyprotein strategy, we produced RdRp complexes and define a minimal human IAV RdRp core complex. We show that PA-PB1 forms a stable heterodimeric submodule that can strongly interact with 5′-vRNA. In contrast, 3′-vRNA recognition critically depends on the PB2 N-terminal domain. Moreover, we demonstrate that PA-PB1 forms a stable and stoichiometric complex with host nuclear import factor RanBP5 that can be modelled using SAXS and we show that the PA-PB1-RanPB5 complex is no longer capable of 5′-vRNA binding. Our results provide further evidence for a step-wise assembly of IAV structural components, regulated by nuclear transport mechanisms and host factor binding.
- Published
- 2016
15. The MultiBac Baculovirus/Insect Cell Expression Vector System for Producing Complex Protein Biologics
- Author
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Daniel J. Fitzgerald, Imre Berger, Frederic Garzoni, Kapil Gupta, Duygu Sari, Alice Aubert, Deepak B. Thimiri Govinda Raj, Petra Drncová, and Vega, M Cristina
- Subjects
0301 basic medicine ,Protein complexes ,Cellular functions ,Biology ,03 medical and health sciences ,Synthetic biology ,Electron microscopy ,Baculovirus ,Gene transfer ,X-ray crystallography ,Vaccines ,Insect cell ,Expression vector ,030102 biochemistry & molecular biology ,Bristol BioDesign Institute ,Industrial research ,Insect cell expression system ,Cell biology ,Virus-like particles (VLPs) ,Lepidoptera ,Cellular machines ,030104 developmental biology ,Structural biology ,Complex protein ,MultiBac - Abstract
Multiprotein complexes regulate most if not all cellular functions. Elucidating the structure and function of these complex cellular machines is essential for understanding biology. Moreover, multiprotein complexes by themselves constitute powerful reagents as biologics for the prevention and treatment of human diseases. Recombinant production by the baculovirus/insect cell expression system is particularly useful for expressing proteins of eukaryotic origin and their complexes. MultiBac, an advanced baculovirus/insect cell system, has been widely adopted in the last decade to produce multiprotein complexes with many subunits that were hitherto inaccessible, for academic and industrial research and development. The MultiBac system, its development and numerous applications are presented. Future opportunities for utilizing MultiBac to catalyze discovery are outlined.
- Published
- 2016
16. Robots, pipelines, polyproteins: Enabling multiprotein expression in prokaryotic and eukaryotic cells
- Author
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Arnaud Poterszman, Didier Busso, Timothy J. Richmond, Christophe Romier, Christoph Bieniossek, Lakshmi Sumitra Vijayachandran, Christiane Schaffitzel, Imre Berger, Cristina Viola, Frederic Garzoni, Simon Trowitzsch, and Maxime Chaillet
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Cell ,Polyprotein ,NMR, nuclear magnetic resonance (spectroscopy) ,Protein Engineering ,Recombineering ,ACEMBL ,Automation ,0302 clinical medicine ,polh, polyhedrin baculoviral very late promoter ,Baculovirus ,Cloning, Molecular ,MOI, multiplicity of infection ,Mammalian host ,Cells, Cultured ,Genetics ,Insect cells ,0303 health sciences ,dpa, day of proliferation arrest ,HT, high throughput ,Sf9, Sf21, Spodoptera frugiperda cell lines 9 or 21, respectively ,E. coli, Escherichia coli ,Academies and Institutes ,Robotics ,EGFP, enhanced green fluorescent protein ,TEV, tobacco etch virus, resp. a protease (N1A) from this virus ,kb, kilo base ,Recombinant Proteins ,Europe ,medicine.anatomical_structure ,SDS–PAGE, sodium dodecylsulfate–polyacryamide gel electrophoresis ,MultiBac ,BEVS ,Ori, origin of replication ,R6Kγ, bacteriophage R6Kγ ,Structural biology ,Baculoviridae ,Polyproteins ,Green Fluorescent Proteins ,High-throughput ,Computational biology ,Biology ,Spodoptera ,FRET, fluorescence resonance energy transfer ,Article ,03 medical and health sciences ,tcs, TEV protease cleavage site ,ORF, open reading frame ,kDa, kilo dalton ,medicine ,Escherichia coli ,Animals ,Humans ,BEVS, baculovirus expression vector system ,CFP, cyan florescent protein ,pET-MCN ,030304 developmental biology ,Cloning ,Automation, Laboratory ,EM, electron microscopy ,Protein engineering ,CMV, cytomegalovirus ,YFP, yellow fluorescent protein ,Luminescent Proteins ,Förster resonance energy transfer ,dsRed, red fluorescent protein ,Multiprotein Complexes ,Heterologous expression ,SLIC, sequence and ligation independent cloning ,p10, p10 baculoviral late promoter ,030217 neurology & neurosurgery - Abstract
Multiprotein complexes catalyze vital biological functions in the cell. A paramount objective of the SPINE2 project was to address the structural molecular biology of these multiprotein complexes, by enlisting and developing enabling technologies for their study. An emerging key prerequisite for studying complex biological specimens is their recombinant overproduction. Novel reagents and streamlined protocols for rapidly assembling co-expression constructs for this purpose have been designed and validated. The high-throughput pipeline implemented at IGBMC Strasbourg and the ACEMBL platform at the EMBL Grenoble utilize recombinant overexpression systems for heterologous expression of proteins and their complexes. Extension of the ACEMBL platform technology to include eukaryotic hosts such as insect and mammalian cells has been achieved. Efficient production of large multicomponent protein complexes for structural studies using the baculovirus/insect cell system can be hampered by a stoichiometric imbalance of the subunits produced. A polyprotein strategy has been developed to overcome this bottleneck and has been successfully implemented in our MultiBac baculovirus expression system for producing multiprotein complexes.
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- 2011
17. New baculovirus expression tools for recombinant protein complex production
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Yan Nie, Christoph Bieniossek, Frederic Garzoni, Imre Berger, and Simon Trowitzsch
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Multiprotein complex ,Insecta ,Genetic Vectors ,Computational biology ,Biology ,law.invention ,Cell Line ,03 medical and health sciences ,Transduction (genetics) ,Plasmid ,Structural Biology ,law ,Transduction, Genetic ,Animals ,Cloning, Molecular ,030304 developmental biology ,Sf21 ,Genetics ,0303 health sciences ,030302 biochemistry & molecular biology ,Reproducibility of Results ,Molecular machine ,Recombinant Proteins ,Eukaryotic Cells ,Structural biology ,Multiprotein Complexes ,Recombinant DNA ,Transcription factor II D ,Baculoviridae - Abstract
Most eukaryotic proteins exist as large multicomponent assemblies with many subunits, which act in concert to catalyze specific cellular activities. Many of these molecular machines are only present in low amounts in their native hosts, which impede purification from source material. Unraveling their structure and function at high resolution will often depend on heterologous overproduction. Recombinant expression of multiprotein complexes for structural studies can entail considerable, sometimes inhibitory, investment in both labor and materials, in particular if altering and diversifying of the individual subunits are necessary for successful structure determination. Our laboratory has addressed this challenge by developing technologies that streamline the complex production and diversification process. Here, we review several of these developments for recombinant multiprotein complex production using the MultiBac baculovirus/insect cell expression system which we created. We also addressed parallelization and automation of gene assembly for multiprotein complex expression by developing robotic routines for multigene vector generation. In this contribution, we focus on several improvements of baculovirus expression system performance which we introduced: the modifications of the transfer plasmids, the methods for generation of composite multigene baculoviral DNA, and the simplified and standardized expression procedures which we delineated using our MultiBac system.
- Published
- 2010
- Full Text
- View/download PDF
18. Polyproteins in structural biology
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Maxime Chaillet, Frederic Garzoni, Thibaut Crépin, Alexandre Monod, Christopher Swale, Imre Berger, Thomas, Frank, Unit for Virus Host-Cell Interactions [Grenoble] (UVHCI), Université Joseph Fourier - Grenoble 1 (UJF)-European Molecular Biology Laboratory [Grenoble] (EMBL)-Centre National de la Recherche Scientifique (CNRS), European Molecular Biology Laboratory [Grenoble] (EMBL), Unit of Virus Host Cell Interactions (UVHCI), and Université Joseph Fourier - Grenoble 1 (UJF)-Centre National de la Recherche Scientifique (CNRS)
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Models, Molecular ,Protein Folding ,Polyproteins ,Protein Conformation ,[SDV.BBM.BS] Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM] ,Protein subunit ,viruses ,Molecular Sequence Data ,02 engineering and technology ,Crystallography, X-Ray ,Microscopy, Atomic Force ,Article ,03 medical and health sciences ,Synthetic biology ,Viral Proteins ,Protein structure ,Structural Biology ,Animals ,Humans ,Amino Acid Sequence ,Molecular Biology ,Polymerase ,030304 developmental biology ,ComputingMethodologies_COMPUTERGRAPHICS ,0303 health sciences ,biology ,[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM] ,021001 nanoscience & nanotechnology ,Recombinant Proteins ,3. Good health ,[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biomolecules [q-bio.BM] ,Structural biology ,Biochemistry ,Proteome ,Viruses ,biology.protein ,Protein folding ,0210 nano-technology - Abstract
Graphical abstract, Highlights • Structures have been determined for natural and recombinant polyproteins. • Native HIV Gag polyprotein architecture was revealed by cryo-EM of immature capsids. • Recombinant polyprotein technology has resolved sample preparation bottlenecks. • The high-resolution structure of influenza polymerase has been solved. • Single-molecule analysis of polyproteins revealed their folding characteristics., Polyproteins are chains of covalently conjoined smaller proteins that occur in nature as versatile means to organize the proteome of viruses including HIV. During maturation, viral polyproteins are typically cleaved into the constituent proteins with different biological functions by highly specific proteases, and structural analyses at defined stages of this maturation process can provide clues for antiviral intervention strategies. Recombinant polyproteins that use similar mechanisms are emerging as powerful tools for producing hitherto inaccessible protein targets such as the influenza polymerase, for high-resolution structure determination by X-ray crystallography. Conversely, covalent linking of individual protein subunits into single polypeptide chains are exploited to overcome sample preparation bottlenecks. Moreover, synthetic polyproteins provide a promising tool to dissect dynamic folding of polypeptide chains into three-dimensional architectures in single-molecule structure analysis by atomic force microscopy (AFM). The recent use of natural and synthetic polyproteins in structural biology and major achievements are highlighted in this contribution.
- Published
- 2015
19. The production of multiprotein complexes in insect cells using the baculovirus expression system
- Author
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Wassim, Abdulrahman, Laura, Radu, Frederic, Garzoni, Olga, Kolesnikova, Kapil, Gupta, Judit, Osz-Papai, Imre, Berger, and Arnaud, Poterszman
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Insecta ,Multiprotein Complexes ,Genetic Vectors ,Cell Culture Techniques ,Animals ,Cloning, Molecular ,Baculoviridae ,Recombinant Proteins ,Cell Line - Abstract
The production of a homogeneous protein sample in sufficient quantities is an essential prerequisite not only for structural investigations but represents also a rate-limiting step for many functional studies. In the cell, a large fraction of eukaryotic proteins exists as large multicomponent assemblies with many subunits, which act in concert to catalyze specific activities. Many of these complexes cannot be obtained from endogenous source material, so recombinant expression and reconstitution are then required to overcome this bottleneck. This chapter describes current strategies and protocols for the efficient production of multiprotein complexes in large quantities and of high quality, using the baculovirus/insect cell expression system.
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- 2014
20. The Production of Multiprotein Complexes in Insect Cells Using the Baculovirus Expression System
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Olga Kolesnikova, Wassim Abdulrahman, Kapil Gupta, Frederic Garzoni, Imre Berger, Laura Radu, Arnaud Poterszman, and Judit Osz-Papai
- Subjects
Cloning ,Baculoviridae ,Insect cell ,biology ,Cell ,Baculovirus expression ,biology.organism_classification ,Molecular biology ,Cell biology ,law.invention ,medicine.anatomical_structure ,Cell culture ,law ,medicine ,Recombinant DNA ,Functional studies - Abstract
The production of a homogeneous protein sample in sufficient quantities is an essential prerequisite not only for structural investigations but represents also a rate-limiting step for many functional studies. In the cell, a large fraction of eukaryotic proteins exists as large multicomponent assemblies with many subunits, which act in concert to catalyze specific activities. Many of these complexes cannot be obtained from endogenous source material, so recombinant expression and reconstitution are then required to overcome this bottleneck. This chapter describes current strategies and protocols for the efficient production of multiprotein complexes in large quantities and of high quality, using the baculovirus/insect cell expression system.
- Published
- 2014
21. The architecture of human general transcription factor TFIID core complex
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Christoph Bieniossek, Gabor Papai, Christiane Schaffitzel, Frederic Garzoni, Maxime Chaillet, Elisabeth Scheer, Petros Papadopoulos, Laszlo Tora, and Patrick Schultz & Imre Berger
- Published
- 2013
22. The architecture of human general transcription factor TFIID core complex
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Frederic Garzoni, Petros Papadopoulos, Imre Berger, Christoph Bieniossek, Maxime Chaillet, Elisabeth Scheer, Laszlo Tora, Gabor Papai, Patrick Schultz, Christiane Schaffitzel, Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC), and Université de Strasbourg (UNISTRA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)
- Subjects
Models, Molecular ,TATA box ,[SDV]Life Sciences [q-bio] ,genetic processes ,information science ,macromolecular substances ,Biology ,03 medical and health sciences ,0302 clinical medicine ,Humans ,[SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology ,Cells, Cultured ,ComputingMilieux_MISCELLANEOUS ,030304 developmental biology ,Genetics ,0303 health sciences ,Multidisciplinary ,General transcription factor ,fungi ,Cryoelectron Microscopy ,Cell biology ,Protein Structure, Tertiary ,TAF1 ,TAF4 ,TAF2 ,Transcription Factor TFIID ,health occupations ,Transcription factor II D ,030217 neurology & neurosurgery ,Transcription factor II A ,HeLa Cells ,Protein Binding - Abstract
The initiation of gene transcription by RNA polymerase II is regulated by a plethora of proteins in human cells. The first general transcription factor to bind gene promoters is transcription factor IID (TFIID). TFIID triggers pre-initiation complex formation, functions as a coactivator by interacting with transcriptional activators and reads epigenetic marks. TFIID is a megadalton-sized multiprotein complex composed of TATA-box-binding protein (TBP) and 13 TBP-associated factors (TAFs). Despite its crucial role, the detailed architecture and assembly mechanism of TFIID remain elusive. Histone fold domains are prevalent in TAFs, and histone-like tetramer and octamer structures have been proposed in TFIID. A functional core-TFIID subcomplex was revealed in Drosophila nuclei, consisting of a subset of TAFs (TAF4, TAF5, TAF6, TAF9 and TAF12). These core subunits are thought to be present in two copies in holo-TFIID, in contrast to TBP and other TAFs that are present in a single copy, conveying a transition from symmetry to asymmetry in the TFIID assembly pathway. Here we present the structure of human core-TFIID determined by cryo-electron microscopy at 11.6 A resolution. Our structure reveals a two-fold symmetric, interlaced architecture, with pronounced protrusions, that accommodates all conserved structural features of the TAFs including the histone folds. We further demonstrate that binding of one TAF8-TAF10 complex breaks the original symmetry of core-TFIID. We propose that the resulting asymmetric structure serves as a functional scaffold to nucleate holo-TFIID assembly, by accreting one copy each of the remaining TAFs and TBP.
- Published
- 2013
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