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Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides.

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Title: Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides.
Authors: Pandi A; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. amir.pandi@mpi-marburg.mpg.de., Adam D; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.; Bundeswehr Institute of Microbiology, Munich, Germany., Zare A; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany., Trinh VT; Department of Chemistry, Philipps-University Marburg, Marburg, Germany., Schaefer SL; Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany., Burt M; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany., Klabunde B; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany., Bobkova E; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany., Kushwaha M; Université Paris-Saclay, INRAe, AgroParisTech, Micalis Institute, Jouy-en-Josas, France., Foroughijabbari Y; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany., Braun P; Bundeswehr Institute of Microbiology, Munich, Germany.; German Center for Infection Research (DZIF), Munich, Germany.; Fraunhofer Institute for Translational Medicine and Pharmacology (ITMP), Immunology, Infection and Pandemic Research, Munich, Germany., Spahn C; Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany., Preußer C; Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany.; Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany., Pogge von Strandmann E; Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany.; Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany., Bode HB; Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.; Molecular Biotechnology, Department of Biosciences, Goethe University Frankfurt, Frankfurt am Main, Germany.; Department of Chemistry, Chemical Biology, Philipps-University Marburg, Marburg, Germany.; Senckenberg Gesellschaft für Naturforschung, Frankfurt, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany., von Buttlar H; Bundeswehr Institute of Microbiology, Munich, Germany.; German Center for Infection Research (DZIF), Munich, Germany., Bertrams W; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany., Jung AL; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.; Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany., Abendroth F; Department of Chemistry, Philipps-University Marburg, Marburg, Germany., Schmeck B; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany.; Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany.; Department of Medicine, Pulmonary and Critical Care Medicine, University Medical Center Marburg, Philipps-University Marburg, Marburg, Germany.; Institute for Lung Health (ILH), Giessen, Germany.; Member of the German Center for Infectious Disease Research (DZIF), Marburg, Germany., Hummer G; Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany.; Institute for Biophysics, Goethe University Frankfurt, Frankfurt am Main, Germany., Vázquez O; Department of Chemistry, Philipps-University Marburg, Marburg, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany., Erb TJ; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. toerb@mpi-marburg.mpg.de.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany. toerb@mpi-marburg.mpg.de.
Source: Nature communications [Nat Commun] 2023 Nov 08; Vol. 14 (1), pp. 7197. Date of Electronic Publication: 2023 Nov 08.
Publication Type: Journal Article; Research Support, Non-U.S. Gov't
Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides.
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  Data: <searchLink fieldCode="AU" term="%22Pandi+A%22">Pandi A</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. amir.pandi@mpi-marburg.mpg.de.<br /><searchLink fieldCode="AU" term="%22Adam+D%22">Adam D</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.; Bundeswehr Institute of Microbiology, Munich, Germany.<br /><searchLink fieldCode="AU" term="%22Zare+A%22">Zare A</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Trinh+VT%22">Trinh VT</searchLink>; Department of Chemistry, Philipps-University Marburg, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Schaefer+SL%22">Schaefer SL</searchLink>; Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany.<br /><searchLink fieldCode="AU" term="%22Burt+M%22">Burt M</searchLink>; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Klabunde+B%22">Klabunde B</searchLink>; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Bobkova+E%22">Bobkova E</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Kushwaha+M%22">Kushwaha M</searchLink>; Université Paris-Saclay, INRAe, AgroParisTech, Micalis Institute, Jouy-en-Josas, France.<br /><searchLink fieldCode="AU" term="%22Foroughijabbari+Y%22">Foroughijabbari Y</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Braun+P%22">Braun P</searchLink>; Bundeswehr Institute of Microbiology, Munich, Germany.; German Center for Infection Research (DZIF), Munich, Germany.; Fraunhofer Institute for Translational Medicine and Pharmacology (ITMP), Immunology, Infection and Pandemic Research, Munich, Germany.<br /><searchLink fieldCode="AU" term="%22Spahn+C%22">Spahn C</searchLink>; Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Preußer+C%22">Preußer C</searchLink>; Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany.; Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Pogge+von+Strandmann+E%22">Pogge von Strandmann E</searchLink>; Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany.; Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Bode+HB%22">Bode HB</searchLink>; Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.; Molecular Biotechnology, Department of Biosciences, Goethe University Frankfurt, Frankfurt am Main, Germany.; Department of Chemistry, Chemical Biology, Philipps-University Marburg, Marburg, Germany.; Senckenberg Gesellschaft für Naturforschung, Frankfurt, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22von+Buttlar+H%22">von Buttlar H</searchLink>; Bundeswehr Institute of Microbiology, Munich, Germany.; German Center for Infection Research (DZIF), Munich, Germany.<br /><searchLink fieldCode="AU" term="%22Bertrams+W%22">Bertrams W</searchLink>; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Jung+AL%22">Jung AL</searchLink>; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.; Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Abendroth+F%22">Abendroth F</searchLink>; Department of Chemistry, Philipps-University Marburg, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Schmeck+B%22">Schmeck B</searchLink>; Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany.; Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany.; Department of Medicine, Pulmonary and Critical Care Medicine, University Medical Center Marburg, Philipps-University Marburg, Marburg, Germany.; Institute for Lung Health (ILH), Giessen, Germany.; Member of the German Center for Infectious Disease Research (DZIF), Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Hummer+G%22">Hummer G</searchLink>; Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany.; Institute for Biophysics, Goethe University Frankfurt, Frankfurt am Main, Germany.<br /><searchLink fieldCode="AU" term="%22Vázquez+O%22">Vázquez O</searchLink>; Department of Chemistry, Philipps-University Marburg, Marburg, Germany.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany.<br /><searchLink fieldCode="AU" term="%22Erb+TJ%22">Erb TJ</searchLink>; Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. toerb@mpi-marburg.mpg.de.; SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany. toerb@mpi-marburg.mpg.de.
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  Data: <searchLink fieldCode="JN" term="%22101528555%22">Nature communications</searchLink> [Nat Commun] 2023 Nov 08; Vol. 14 (1), pp. 7197. <i>Date of Electronic Publication: </i>2023 Nov 08.
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