12 results on '"Ferdia Bates"'
Search Results
2. MIRATE: MIps RATional dEsign Science Gateway.
- Author
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Mirko Busato, Rosario Distefano, Ferdia Bates, Kal Karim, Alessandra Maria Bossi, José Manuel López Vilariño, Sergey Piletsky, Nicola Bombieri, and Alejandro Giorgetti
- Published
- 2018
- Full Text
- View/download PDF
3. BNT162b vaccines protect rhesus macaques from SARS-CoV-2
- Author
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Bernadette Jesionek, Charles Tan, Christoph Kröner, Jennifer Obregon, Stephanie Hein, Kathleen M. Brasky, Andreas Kuhn, Leyla Fischer, Guy Singh, Diana Schneider, Kathrin U. Jansen, Jane Fontenot, Seungil Han, Michal Gazi, Corinna Rosenbaum, Ingrid L. Scully, Pei Yong Shi, Parag Sahasrabudhe, Stefanie A. Krumm, Hanna Junginger, Camila R. Fontes-Garfias, Julia Schlereth, Bonny Gaby Lui, Mathias Vormehr, Andre P. Heinen, Alptekin Güler, Stephanie Fesser, Sarah C. Dany, Ellene H. Mashalidis, Danka Pavliakova, Shambhunath Choudhary, Mohan S. Maddur, Petra Adams-Quack, Yvonne Feuchter, Matthew C. Griffor, Ferdia Bates, Ramón de la Caridad Güimil Garcia, Tara Ciolino, Özlem Türeci, Stefan Schille, Kena A. Swanson, Kerstin C. Walzer, Alexander Muik, Jakob Loschko, Ayuko Ota-Setlik, Nicole L. Nedoma, Lena M. Kranz, Tompkins Kristin Rachael, Thorsten Klamp, Ugur Sahin, Ann Kathrin Wallisch, Warren Kalina, Olga Gonzalez, Fulvia Vascotto, Philip R. Dormitzer, Ye Che, Kendra J. Alfson, Ricardo Carrion, Thomas Ziegenhals, Shannan Hall-Ursone, Rani S. Sellers, Thomas Hiller, Isis Kanevsky, Matthew R. Gutman, Michael W. Pride, Stephanie Erbar, Bianca Sänger, Deepak Kaushal, Journey Cole, David Eisel, Andreas A.H. Su, Joshua A. Lees, Annette B. Vogel, and Arianne Plaschke
- Subjects
Male ,Models, Molecular ,0301 basic medicine ,Aging ,Internationality ,T-Lymphocytes ,Respiratory System ,Antibodies, Viral ,Mice ,0302 clinical medicine ,Antigens, Viral ,chemistry.chemical_classification ,Clinical Trials as Topic ,Mice, Inbred BALB C ,Vaccines, Synthetic ,Multidisciplinary ,Vaccination ,medicine.anatomical_structure ,030220 oncology & carcinogenesis ,Spike Glycoprotein, Coronavirus ,RNA, Viral ,Female ,Antibody ,COVID-19 Vaccines ,T cell ,Biology ,Cell Line ,03 medical and health sciences ,Antigen ,medicine ,Animals ,Humans ,BNT162 Vaccine ,COVID-19 Serotherapy ,SARS-CoV-2 ,Immunization, Passive ,COVID-19 ,RNA ,Antibodies, Neutralizing ,Macaca mulatta ,Virology ,Disease Models, Animal ,030104 developmental biology ,Solubility ,Immunization ,chemistry ,biology.protein ,Protein Multimerization ,Glycoprotein ,CD8 - Abstract
A safe and effective vaccine against COVID-19 is urgently needed in quantities that are sufficient to immunize large populations. Here we report the preclinical development of two vaccine candidates (BNT162b1 and BNT162b2) that contain nucleoside-modified messenger RNA that encodes immunogens derived from the spike glycoprotein (S) of SARS-CoV-2, formulated in lipid nanoparticles. BNT162b1 encodes a soluble, secreted trimerized receptor-binding domain (known as the RBD–foldon). BNT162b2 encodes the full-length transmembrane S glycoprotein, locked in its prefusion conformation by the substitution of two residues with proline (S(K986P/V987P); hereafter, S(P2) (also known as P2 S)). The flexibly tethered RBDs of the RBD–foldon bind to human ACE2 with high avidity. Approximately 20% of the S(P2) trimers are in the two-RBD ‘down’, one-RBD ‘up’ state. In mice, one intramuscular dose of either candidate vaccine elicits a dose-dependent antibody response with high virus-entry inhibition titres and strong T-helper-1 CD4+ and IFNγ+CD8+ T cell responses. Prime–boost vaccination of rhesus macaques (Macaca mulatta) with the BNT162b candidates elicits SARS-CoV-2-neutralizing geometric mean titres that are 8.2–18.2× that of a panel of SARS-CoV-2-convalescent human sera. The vaccine candidates protect macaques against challenge with SARS-CoV-2; in particular, BNT162b2 protects the lower respiratory tract against the presence of viral RNA and shows no evidence of disease enhancement. Both candidates are being evaluated in phase I trials in Germany and the USA1–3, and BNT162b2 is being evaluated in an ongoing global phase II/III trial (NCT04380701 and NCT04368728). BNT162b1 and BNT162b2 are two candidate mRNA vaccines against COVID-19 that elicit high virus-entry inhibition titres in mice, elicit high virus-neutralizing titres in rhesus macaques and protect macaques from SARS-CoV-2 challenge.
- Published
- 2021
- Full Text
- View/download PDF
4. Voltammetric sensor for theophylline using sol-gel immobilized molecularly imprinted polymer particles
- Author
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Manel del Valle and Ferdia Bates
- Subjects
Detection limit ,Sol-gel ,Chromatography ,Materials science ,010401 analytical chemistry ,Composite number ,Molecularly imprinted polymer ,02 engineering and technology ,Molecularly imprinted polymers (MIP) ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,Analytical Chemistry ,Electrochemical gas sensor ,Chemical engineering ,Theophylline ,Electrode ,Voltammetry ,Graphite ,Differential pulse voltammetry ,0210 nano-technology - Abstract
El títol del pre-print va ser: Development of a voltammetric sensor for theophylline with sol-gel immobilised molecularly imprinted polymer particles Application of Molecularly Imprinted Polymers (MIPs) to sensor substrates holds great promise within the field of electrochemical sensing due to their low price, tailored selectivity and facile synthesis protocols. Though MIPs can be synthesised directly onto the surface of sensors via layer or film deposition, this can be difficult due to the high number of interdependent steps involved in their synthesis. For this reason, synthesis of MIP particles is more frequently employed by synthetic and non-specialist laboratories alike. There is, however a lack of immobilisation protocols for these particles. Herein, there is presented a sol-gel based immobilisation method for MIP particles for the development of an electrochemical sensor. The macroporous precipitation-polymerised particles were imprinted with Theophylline, combined with graphite in the sol-gel and deposited on an electrode surface. The sensor was tested using differential pulse voltammetry. A limit of detection of 1µM and a relative standard deviation of 6.85% was observed for the primary analyte. The electrode was regenerated via a thermal washing process with a signal loss of 29.3% following the initial regeneration and 2.35% per subsequent regeneration.
- Published
- 2021
5. BNT162b vaccines are immunogenic and protect non-human primates against SARS-CoV-2
- Author
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Oezlem Tuereci, Arianne Plaschke, Tompkins Kristin Rachael, Andre P. Heinen, Joshua A. Lees, Stefan Schille, Kena A. Swanson, Deepak Kaushal, Kathrin U. Jansen, Corinna Rosenbaum, Danka Pavliakova, Ugur Sahin, Shannan Hall-Ursone, Rani S. Sellers, Journey Cole, Parag Sahasrabudhe, Stefanie A. Krumm, Ferdia Bates, Stephanie Erbar, Isis Kanevsky, Bianca Saenger, Michal Gazi, Annette B. Vogel, Kathleen M. Brasky, Matthew R. Gutman, Hanna Junginger, Sarah C. Dany, Nicole L. Nedoma, Lena M. Kranz, Camila R. Fontes-Garfias, Julia Schlereth, Shambhunath Choudhary, Andreas A.H. Su, Ramon de la Caridad Gueimil Garcia, Seungil Han, Thorsten Klamp, Ayuko Ota-Setlik, Bonny Gaby Lui, Michael W. Pride, Fulvia Vascotto, Ann-Kathrin Wallisch, Ingrid L. Scully, Stephanie Hein, David Eisel, Charles Tan, Pei Yong Shi, Mathias Vormehr, Philip R. Dormitzer, Olga Gonzalez, Kendra J. Alfson, Thomas Hiller, Bernadette Jesionek, Thomas Ziegenhals, Stephanie Fesser, Jennifer Obregon, Petra Adams-Quack, Matthew C. Griffor, Alptekin Gueler, Yvonne Feuchter, Alexander Muik, Jakob Loschko, Jane Fontenot, Christoph Kroener, Ricardo Carrion, Leyla Fischer, Warren Kalina, Andreas N. Kuhn, Ye Che, Guy Singh, Diana Schneider, Mohan S. Maddur, Kerstin C. Walzer, Tara Ciolino, and Ellene H. Mashalidis
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Vaccination ,chemistry.chemical_classification ,Messenger RNA ,Coronavirus disease 2019 (COVID-19) ,chemistry ,High avidity ,Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) ,Biology ,Glycoprotein ,Virology ,CD8 ,Transmembrane protein - Abstract
A safe and effective vaccine against COVID-19 is urgently needed in quantities sufficient to immunise large populations. We report the preclinical development of two BNT162b vaccine candidates, which contain lipid-nanoparticle (LNP) formulated nucleoside-modified mRNA encoding SARS-CoV-2 spike glycoprotein-derived immunogens. BNT162b1 encodes a soluble, secreted, trimerised receptor-binding domain (RBD-foldon). BNT162b2 encodes the full-length transmembrane spike glycoprotein, locked in its prefusion conformation (P2 S). The flexibly tethered RBDs of the RBD-foldon bind ACE2 with high avidity. Approximately 20% of the P 2S trimers are in the two-RBD ‘down,’ one-RBD ‘up’ state. In mice, one intramuscular dose of either candidate elicits a dose-dependent antibody response with high virus-entry inhibition titres and strong TH1 CD4+ and IFNγ+ CD8+ T-cell responses. Prime/boost vaccination of rhesus macaques with BNT162b candidates elicits SARS-CoV-2 neutralising geometric mean titres 8.2 to 18.2 times that of a SARS-CoV-2 convalescent human serum panel. The vaccine candidates protect macaques from SARS-CoV-2 challenge, with BNT162b2 protecting the lower respiratory tract from the presence of viral RNA and with no evidence of disease enhancement. Both candidates are being evaluated in phase 1 trials in Germany and the United States. BNT162b2 is being evaluated in an ongoing global, pivotal Phase 2/3 trial (NCT04380701, NCT04368728).
- Published
- 2020
- Full Text
- View/download PDF
6. A prefusion SARS-CoV-2 spike RNA vaccine is highly immunogenic and prevents lung infection in non-human primates
- Author
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Tompkins Kristin Rachael, Kathleen M. Brasky, Kathrin U. Jansen, Ugur Sahin, Camila R. Fontes-Garfias, Hanna Junginger, Lena M. Kranz, Michal Gazi, Kerstin C. Walzer, Joshua A. Lees, Ricardo Carrion, Kendra J. Alfson, Sarah C. Dany, Julia Schlereth, Seungil Han, Parag Sahasrabudhe, Stefanie A. Krumm, Thomas Ziegenhals, Bernadette Jesionek, Bonny Gaby Lui, Stephanie Fesser, Warren Kalina, Corinna Rosenbaum, Oezlem Tuereci, Arianne Plaschke, Petra Adams-Quack, Jennifer Obregon, Guy Singh, Ye Che, Kena A. Swanson, Ingrid L. Scully, Matthew C. Griffor, Diana Schneider, Alptekin Gueler, Pei Yong Shi, Andreas N. Kuhn, Stephanie Hein, Mohan S. Maddur, Mathias Vormehr, Andre P. Heinen, Ellene H. Mashalidis, Annette B. Vogel, Shannan Hall-Ursone, Tara Ciolino, Charles Tan, Isis Kanevsky, Ann-Kathrin Wallisch, Yvonne Feuchter, Thorsten Klamp, David Eisel, Alexander Muik, Jakob Loschko, Christoph Kroener, Bianca Saenger, Philip R. Dormitzer, Danka Pavliakova, Ferdia Bates, Deepak Kaushal, Journey Cole, Michael W. Pride, and Stephanie Erbar
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Vaccination ,chemistry.chemical_classification ,Messenger RNA ,Titer ,chemistry ,Immunogenicity ,RNA ,Biology ,Glycoprotein ,Virology ,Neutralization ,CD8 - Abstract
To contain the coronavirus disease 2019 (COVID-19) pandemic, a safe and effective vaccine against the new severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) is urgently needed in quantities sufficient to immunise large populations. In this study, we report the design, preclinical development, immunogenicity and anti-viral protective effect in rhesus macaques of the BNT162b2 vaccine candidate. BNT162b2 contains an LNP-formulated nucleoside-modified mRNA that encodes the spike glycoprotein captured in its prefusion conformation. After expression of the BNT162b2 coding sequence in cells, approximately 20% of the spike molecules are in the one-RBD ‘up’, two-RBD ‘down’ state. Immunisation of mice with a single dose of BNT162b2 induced dose level-dependent increases in pseudovirus neutralisation titers. Prime-boost vaccination of rhesus macaques elicited authentic SARS-CoV-2 neutralising geometric mean titers 10.2 to 18.0 times that of a SARS-CoV-2 convalescent human serum panel. BNT162b2 generated strong TH1 type CD4+ and IFNγ+ CD8+ T-cell responses in mice and rhesus macaques. The BNT162b2 vaccine candidate fully protected the lungs of immunised rhesus macaques from infectious SARS-CoV-2 challenge. BNT162b2 is currently being evaluated in a global, pivotal Phase 2/3 trial (NCT04368728).
- Published
- 2020
- Full Text
- View/download PDF
7. Virtual Screening of Receptor Sites for Molecularly Imprinted Polymers
- Author
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J.M. López-Vilariño, Kal Karim, Ferdia Bates, Sergey A. Piletsky, and María Concepción Cela-Pérez
- Subjects
Novel technique ,Polymers and Plastics ,Polymers ,Receptor specificity ,Bioengineering ,Nanotechnology ,02 engineering and technology ,Ligands ,010402 general chemistry ,01 natural sciences ,Molecular Imprinting ,Biomaterials ,User-Computer Interface ,Theophylline ,Materials Chemistry ,Receptor ,Acrylamide ,Virtual screening ,Chemistry ,Molecularly imprinted polymer ,Hydrogen Bonding ,021001 nanoscience & nanotechnology ,Combinatorial chemistry ,0104 chemical sciences ,Molecular Docking Simulation ,Laboratory screening ,0210 nano-technology ,Biotechnology - Abstract
Molecularly Imprinted Polymers (MIPs) are highly advantageous in the field of analytical chemistry. However, interference from secondary molecules can also impede capture of a target by a MIP receptor. This greatly complicates the design process and often requires extensive laboratory screening which is time consuming, costly, and creates substantial waste products. Herein, is presented a new technique for screening of "virtually imprinted receptors" for rebinding of the molecular template as well as secondary structures, correlating the virtual predictions with experimentally acquired data in three case studies. This novel technique is particularly applicable to the evaluation and prediction of MIP receptor specificity and efficiency in complex aqueous systems.
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- 2016
- Full Text
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8. MIRATE: MIps RATional dEsign Science Gateway
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Kal Karim, Rosario Distefano, Alejandro Giorgetti, Sergey A. Piletsky, José Manuel López Vilariño, Alessandra Bossi, Ferdia Bates, Nicola Bombieri, and Mirko Busato
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0301 basic medicine ,Polymers ,Computer science ,02 engineering and technology ,Molecular Dynamics Simulation ,Login ,Molecular Imprinting ,03 medical and health sciences ,Hepcidins ,Humans ,Virtual screening ,Troponin I ,Rational design ,Receptors, Artificial ,General Medicine ,Science gateway ,021001 nanoscience & nanotechnology ,Functional monomer ,030104 developmental biology ,Computer architecture ,Synthetic Receptors ,docking ,molecularly imprinted polymers ,science gateway ,0210 nano-technology ,TP248.13-248.65 ,Research Article ,Biotechnology - Abstract
Molecularly imprinted polymers (MIPs) are high affinity robust synthetic receptors, which can be optimally synthesized and manufactured more economically than their biological equivalents (i.e. antibody). In MIPs production, rational design based on molecular modeling is a commonly employed technique. This mostly aids in (i) virtual screening of functional monomers (FMs), (ii) optimization of monomer-template ratio, and (iii) selectivity analysis. We present MIRATE, an integrated science gateway for the intelligent design of MIPs. By combining and adapting multiple state-of-the-art bioinformatics tools into automated and innovative pipelines, MIRATE guides the user through the entire process of MIPs’ design. The platform allows the user to fully customize each stage involved in the MIPs’ design, with the main goal to support the synthesis in the wet-laboratory. Availability: MIRATE is freely accessible with no login requirement at http://mirate.di.univr.it/. All major browsers are supported.
- Published
- 2018
9. Novel voltammetric electronic tongue approach using polyelectrolyte modifiers to detect charged species
- Author
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M. del Valle, Ferdia Bates, Andreu González-Calabuig, Inmaculada Campos, and Anna Herrera-Chacon
- Subjects
chemistry.chemical_compound ,Materials science ,chemistry ,Electronic tongue ,Electrode ,Analytical chemistry ,Cationic polymerization ,PolyDADMAC ,Polystyrene ,Ascorbic acid ,Ternary operation ,Polyelectrolyte - Abstract
A voltammetric electronic tongue has been devised through modification of electrode surface via a highly robust conducting graphite ink incorporating selected polyelectrolytes. These can be neutral (polystyrene or acrylamide), cationic (polyDADMAC) or anionic (EGMP), providing in this way differentiated electroactivity towards analytes having redox signal but with different net charge. In this manner, a voltammetric electronic tongue of this nature has been setup and used for the resolution of mixtures of acetaminophen, ascorbic acid and uric acid, species with different charge at the studied pHs (2.3, 4.8, 7.5 and 10.3). Final quantification of ternary mixtures of these compounds was achieved using the windowed sliced integral method to reduce the data dimensions followed by an artificial neural network model, achieving correlations r > 0.969 for the external test subset (n=10 samples).
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- 2017
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10. Computational approximations of molecularly imprinted polymers with sulphur based monomers for biological purposes
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J.M. López-Vilariño, I. Rodríguez-González, M. Paredes-Ramos, and Ferdia Bates
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chemistry.chemical_classification ,Materials science ,Molecularly imprinted polymer ,02 engineering and technology ,Polymer ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,Combinatorial chemistry ,0104 chemical sciences ,chemistry.chemical_compound ,Adsorption ,Monomer ,chemistry ,Polymerization ,Mechanics of Materials ,Docking (molecular) ,Selective adsorption ,Materials Chemistry ,Molecule ,General Materials Science ,0210 nano-technology - Abstract
Molecularly imprinted polymers (MIPs) are uniquely suited materials for specific recognition of molecules of interest. Adding the desired molecule to the pre – polymerization mixture, is possible to achieve a polymer with cavities able to specifically adsorb this certain molecule. Nevertheless, the multicomponent conformation of MIPs makes their design optimization a tedious search for the best combinations of template, functional monomer, crosslinker and porogen, but the significant work load implied in experimental screening of these components in the laboratory can be greatly reduced by implementing new computational techniques which can narrow the search space to just a few optimum combinations which can then be more manageably screened and confirmed empirically in a classical laboratory setting. In this sense, computational techniques play a key role in the development of artificial receptors with novel components, hitherto undocumented in the literature, by allowing for in silico analysis of target – receptor docking scenarios. In this work, new sulphur based monomers with probed antitumor and antioxidant capacity were developed for biological applications through the employment of computational approximations, confirmed by traditional experimental procedures. The obtained MIP was seen to display a selective adsorption of catechin, which had been used as the template molecule due to the antioxidant capacity of polyphenol molecules.
- Published
- 2019
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11. Water-compatible imprinted pills for sensitive determination of cannabinoids in urine and oral fluid
- Author
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J.M. López-Vilariño, Elena Lendoiro, Ana de Castro, Cristian Jiménez-Morigosa, Angelines Cruz, Ferdia Bates, M. Concepción Cela-Pérez, Manuel López-Rivadulla, and M. Victoria González-Rodríguez
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Formic acid ,Polymers ,Ethylene glycol dimethacrylate ,02 engineering and technology ,Urine ,01 natural sciences ,Biochemistry ,Chemistry Techniques, Analytical ,Analytical Chemistry ,chemistry.chemical_compound ,Liquid chromatography–mass spectrometry ,Tandem Mass Spectrometry ,Humans ,Solid phase extraction ,Dronabinol ,Saliva ,Chromatography ,Elution ,Cannabinoids ,010401 analytical chemistry ,Organic Chemistry ,Extraction (chemistry) ,Solid Phase Extraction ,Molecularly imprinted polymer ,Water ,General Medicine ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,Body Fluids ,chemistry ,Cannabinol ,Solvents ,Methacrylates ,0210 nano-technology ,Chromatography, Liquid - Abstract
A novel molecularly imprinted solid phase extraction (MISPE) methodology followed by liquid chromatography tandem mass spectrometry (LC-MS/MS) has been developed using cylindrical shaped molecularly imprinted pills for detection of Δ(9)-tetrahydrocannabinol (THC), 11-nor-Δ(9)-tetrahydrocannabinol carboxylic acid (THC-COOH), cannabinol (CBN) and cannabidiol (CBD) in urine and oral fluid (OF). The composition of the molecular imprinted polymer (MIP) was optimized based on the screening results of a non-imprinted polymer library (NIP-library). Thus, acrylamide as functional monomer and ethylene glycol dimethacrylate as cross-linker were selected for the preparation of the MIP, using catechin as a mimic template. MISPE pills were incubated with 0.5 mL urine or OF sample for adsorption of analytes. For desorption, the pills were transferred to a vial with 2 mL of methanol:acetic acid (4:1) and sonicated for 15 min. The elution solvent was evaporated and reconstituted in methanol:formic acid (0.1%) 50:50 to inject in LC-MS/MS. The developed method was linear over the range from 1 to 500 ng mL(-1) in urine and from 0.75 to 500 ng mL(-1) in OF for all four analytes. Intra- and inter-day imprecision were
- Published
- 2015
12. Computational design of molecularly imprinted polymer for direct detection of melamine in milk
- Author
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Elena V. Piletska, Mirko Busato, Antonio Guerreiro, Manuel del Valle, Michael J. Whitcombe, Kal Karim, Ferdia Bates, Sergey A. Piletsky, and Alejandro Giorgetti
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General Chemical Engineering ,Filtration and Separation ,02 engineering and technology ,Molecular dynamics ,01 natural sciences ,High-performance liquid chromatography ,chemistry.chemical_compound ,Itaconic acid ,Melamine ,Molecularly imprinted polymer ,chemistry.chemical_classification ,Chromatography ,Process Chemistry and Technology ,010401 analytical chemistry ,General Chemistry ,Polymer ,021001 nanoscience & nanotechnology ,Divinylbenzene ,rational design of molecular imprinted polymers ,0104 chemical sciences ,Milk ,Monomer ,chemistry ,Molecular modelling ,0210 nano-technology ,Stoichiometry - Abstract
Altres ajuts: ICREA Academia A novel protocol for use of molecularly imprinted polymer (MIP) in analysis of melamine is presented. Design of polymer for melamine has been achieved using a combination of computational techniques and laboratory trials, the former greatly reducing the duration of the latter. The compatibility and concerted effect of monomers and solvents were also investigated and discussed. Two novel open-source tools were presented which are the online polymer calculator from mipdatabase.com and the application of the Gromacs modelling suite to determine the ideal stoichiometric ratio between template and functional monomer. The MIP binding was characterised for several structural analogues at 1-100 μM concentrations. The use of divinylbenzene (DVB) as cross-linking polymer and itaconic acid as functional monomer allowed synthesis of MIP with imprint factor (IF) of 2.25 for melamine. This polymer was used in high-performance liquid chromatography (HPLC) for the rapid detection of melamine in spiked milk samples with an experimental run taking 7-8 min. This approach demonstrated the power of virtual tools in accelerated design of MIPs for practical applications.
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