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Adebar N, Keupp J, Emenike VN, Kühlborn J, Vom Dahl L, Möckel R, Smiatek J. Scientific Deep Machine Learning Concepts for the Prediction of Concentration Profiles and Chemical Reaction Kinetics: Consideration of Reaction Conditions. J Phys Chem A 2024; 128:929-944. [PMID: 38271617 DOI: 10.1021/acs.jpca.3c06265] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2024]
Abstract
Emerging concepts from scientific deep machine learning such as physics-informed neural networks (PINNs) enable a data-driven approach for the study of complex kinetic problems. We present an extended framework that combines the advantages of PINNs with the detailed consideration of experimental parameter variations for the simulation and prediction of chemical reaction kinetics. The approach is based on truncated Taylor series expansions for the underlying fundamental equations, whereby the external variations can be interpreted as perturbations of the kinetic parameters. Accordingly, our method allows for an efficient consideration of experimental parameter settings and their influence on the concentration profiles and reaction kinetics. A particular advantage of our approach, in addition to the consideration of univariate and multivariate parameter variations, is the robust model-based exploration of the parameter space to determine optimal reaction conditions in combination with advanced reaction insights. The benefits of this concept are demonstrated for higher-order chemical reactions including catalytic and oscillatory systems in combination with small amounts of training data. All predicted values show a high level of accuracy, demonstrating the broad applicability and flexibility of our approach.
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Affiliation(s)
- Niklas Adebar
- Development NCE, Chemical Development, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Julian Keupp
- Development NCE, Chemical Development, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Victor N Emenike
- HP BioP Launch and Innovation, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Jonas Kühlborn
- Development NCE, Chemical Development, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Lisa Vom Dahl
- Development NCE, Analytical Development, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Robert Möckel
- Development NCE, Chemical Development, Boehringer Ingelheim Pharma GmbH & Co. KG, D-55218 Ingelheim (Rhein), Germany
| | - Jens Smiatek
- Institute for Computational Physics, University of Stuttgart, D-70569 Stuttgart, Germany
- Development NCE, Strategy NCEs, Boehringer Ingelheim Pharma GmbH & Co. KG, D-88397 Biberach (Riss), Germany
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Plass C, Adebar N, Hiessl R, Kleber J, Grimm A, Langsch A, Otter R, Liese A, Gröger H. Structure‐Performance Guided Design of Sustainable Plasticizers from Biorenewable Feedstocks. European J Org Chem 2021. [DOI: 10.1002/ejoc.202101014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Carmen Plass
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Robert Hiessl
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Joscha Kleber
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Axel Grimm
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Angelika Langsch
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Rainer Otter
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Andreas Liese
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
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Plass C, Adebar N, Hiessl R, Kleber J, Grimm A, Langsch A, Otter R, Liese A, Gröger H. Front Cover: Structure‐Performance Guided Design of Sustainable Plasticizers from Biorenewable Feedstocks (Eur. J. Org. Chem. 45/2021). European J Org Chem 2021. [DOI: 10.1002/ejoc.202101402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Carmen Plass
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Robert Hiessl
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Joscha Kleber
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Axel Grimm
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Angelika Langsch
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Rainer Otter
- BASF SE Carl-Bosch-Strasse 38 67056 Ludwigshafen am Rhein Germany
| | - Andreas Liese
- Institute of Technical Biocatalysis Hamburg University of Technology Denickestr. 15 21073 Hamburg Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
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Adebar N, Nastke A, Löwe J, Gröger H. Segmented Flow Processes to Overcome Hurdles of Whole-Cell Biocatalysis in the Presence of Organic Solvents. Angew Chem Int Ed Engl 2021; 60:15863-15869. [PMID: 33713367 PMCID: PMC8362180 DOI: 10.1002/anie.202015887] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2020] [Revised: 03/02/2021] [Indexed: 12/12/2022]
Abstract
In modern process development, it is imperative to consider biocatalysis, and whole‐cell catalysts often represent a favored form of such catalysts. However, the application of whole‐cell catalysis in typical organic batch two‐phase synthesis often struggles due to mass transfer limitations, emulsion formation, tedious work‐up and, thus, low yields. Herein, we demonstrate that utilizing segmented flow tools enables the conduction of whole‐cell biocatalysis efficiently in biphasic media. Exemplified for three different biotransformations, the power of such segmented flow processes is shown. For example, a 3‐fold increase of conversion from 34 % to >99 % and a dramatic simplified work‐up leading to a 1.5‐fold higher yield from 44 % to 65 % compared to the analogous batch process was achieved in such a flow process.
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Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615, Bielefeld, Germany
| | - Alina Nastke
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615, Bielefeld, Germany
| | - Jana Löwe
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615, Bielefeld, Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615, Bielefeld, Germany
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Adebar N, Nastke A, Löwe J, Gröger H. Segmentierte Flow‐Prozesse zur Überwindung von Limitierungen der Ganzzell‐Biokatalyse in Gegenwart von organischen Lösungsmitteln. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202015887] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Niklas Adebar
- Lehrstuhl für Industrielle Organische Chemie und Biotechnologie Fakultät der Chemie Universität Bielefeld Universitätsstr. 25 33615 Bielefeld Deutschland
| | - Alina Nastke
- Lehrstuhl für Industrielle Organische Chemie und Biotechnologie Fakultät der Chemie Universität Bielefeld Universitätsstr. 25 33615 Bielefeld Deutschland
| | - Jana Löwe
- Lehrstuhl für Industrielle Organische Chemie und Biotechnologie Fakultät der Chemie Universität Bielefeld Universitätsstr. 25 33615 Bielefeld Deutschland
| | - Harald Gröger
- Lehrstuhl für Industrielle Organische Chemie und Biotechnologie Fakultät der Chemie Universität Bielefeld Universitätsstr. 25 33615 Bielefeld Deutschland
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Abstract
By combining continuous flow processing and biocatalysis, efficient, stable and cost-effective processes can be realised. In this review, an overview about different concepts for continuous flow processes based on the use of whole-cells as catalysts is given.
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Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology
- Faculty of Chemistry
- Bielefeld University
- 33615 Bielefeld
- Germany
| | - Alina Nastke
- Chair of Industrial Organic Chemistry and Biotechnology
- Faculty of Chemistry
- Bielefeld University
- 33615 Bielefeld
- Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology
- Faculty of Chemistry
- Bielefeld University
- 33615 Bielefeld
- Germany
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Adebar N, Gröger H. Front Cover: Heterogeneous Catalysts “on the Move”: Flow Chemistry with Fluid Immobilised (Bio)Catalysts (Eur. J. Org. Chem. 38/2020). European J Org Chem 2020. [DOI: 10.1002/ejoc.202001281] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
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Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
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Higashio K, Katsuragi S, Kundu D, Adebar N, Plass C, Kühn F, Gröger H, Akai S. Continuous‐Flow Dynamic Kinetic Resolution of Racemic Alcohols by Lipase–Oxovanadium Cocatalysis. European J Org Chem 2020. [DOI: 10.1002/ejoc.202000186] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Koichi Higashio
- Graduate School of Pharmaceutical Sciences Osaka University 1‐6, Yamadaoka, Suita 565‐0871 Osaka Japan
| | - Satoko Katsuragi
- Graduate School of Pharmaceutical Sciences Osaka University 1‐6, Yamadaoka, Suita 565‐0871 Osaka Japan
| | - Dhiman Kundu
- Graduate School of Pharmaceutical Sciences Osaka University 1‐6, Yamadaoka, Suita 565‐0871 Osaka Japan
| | - Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Carmen Plass
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Franziska Kühn
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstraße 25 33615 Bielefeld Germany
| | - Shuji Akai
- Graduate School of Pharmaceutical Sciences Osaka University 1‐6, Yamadaoka, Suita 565‐0871 Osaka Japan
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Adebar N, Gröger H. Flow Process for Ketone Reduction Using a Superabsorber-Immobilized Alcohol Dehydrogenase from Lactobacillus brevis in a Packed-Bed Reactor. Bioengineering (Basel) 2019; 6:bioengineering6040099. [PMID: 31653007 PMCID: PMC6956264 DOI: 10.3390/bioengineering6040099] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2019] [Revised: 10/14/2019] [Accepted: 10/15/2019] [Indexed: 02/05/2023] Open
Abstract
Flow processes and enzyme immobilization have gained much attention over the past few years in the field of biocatalytic process design. Downstream processes and enzyme stability can be immensely simplified and improved. In this work, we report the utilization of polymer network-entrapped enzymes and their applicability in flow processes. We focused on the superabsorber-based immobilization of an alcohol dehydrogenase (ADH) from Lactobacillus brevis and its application for a reduction of acetophenone. The applicability of this immobilization technique for a biotransformation running in a packed bed reactor was then demonstrated. Towards this end, the immobilized system was intensively studied, first in a batch mode, leading to >90% conversion within 24 h under optimized conditions. A subsequent transfer of this method into a flow process was conducted, resulting in very high initial conversions of up to 67% in such a continuously running process.
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Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615 Bielefeld, Germany.
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology, Faculty of Chemistry, Bielefeld University, Universitätsstr. 25, 33615 Bielefeld, Germany.
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Hinzmann A, Adebar N, Betke T, Leppin M, Gröger H. Biotransformations in Pure Organic Medium: Organic Solvent‐Labile Enzymes in the Batch and Flow Synthesis of Nitriles. European J Org Chem 2019. [DOI: 10.1002/ejoc.201901168] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Alessa Hinzmann
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstrasse 25 33615 Bielefeld Germany
| | - Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstrasse 25 33615 Bielefeld Germany
| | - Tobias Betke
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstrasse 25 33615 Bielefeld Germany
| | - Monja Leppin
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstrasse 25 33615 Bielefeld Germany
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of Chemistry Bielefeld University Universitätsstrasse 25 33615 Bielefeld Germany
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Adebar N, Choi JE, Schober L, Miyake R, Iura T, Kawabata H, Gröger H. Overcoming Work‐Up Limitations of Biphasic Biocatalytic Reaction Mixtures Through Liquid‐Liquid Segmented Flow Processes. ChemCatChem 2019. [DOI: 10.1002/cctc.201901107] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Niklas Adebar
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of ChemistryBielefeld University Universitätsstr. 25 33615 Bielefeld Germany
| | - Ji Eun Choi
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of ChemistryBielefeld University Universitätsstr. 25 33615 Bielefeld Germany
| | - Lukas Schober
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of ChemistryBielefeld University Universitätsstr. 25 33615 Bielefeld Germany
| | - Ryoma Miyake
- Science & Innovation CenterMitsubishi Chemical Corporation 1000 Kamoshida-cho, Aoba-ku Yokohama 227-8502 Japan
| | - Takanobu Iura
- Science & Innovation CenterMitsubishi Chemical Corporation 1000 Kamoshida-cho, Aoba-ku Yokohama 227-8502 Japan
- API Corporation 13-4 Uchikanda 1-chome Chiyoda-ku Tokyo 101-0047 Japan
| | - Hiroshi Kawabata
- Science & Innovation CenterMitsubishi Chemical Corporation 1000 Kamoshida-cho, Aoba-ku Yokohama 227-8502 Japan
- API Corporation 13-4 Uchikanda 1-chome Chiyoda-ku Tokyo 101-0047 Japan
| | - Harald Gröger
- Chair of Industrial Organic Chemistry and Biotechnology Faculty of ChemistryBielefeld University Universitätsstr. 25 33615 Bielefeld Germany
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Schober L, Ratnam S, Yamashita Y, Adebar N, Pieper M, Berkessel A, Hessel V, Gröger H. An Asymmetric Organocatalytic Aldol Reaction of a Hydrophobic Aldehyde in Aqueous Medium Running in Flow Mode. SYNTHESIS-STUTTGART 2019. [DOI: 10.1055/s-0037-1610404] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
Reaction conditions have been identified to conduct a one-pot asymmetric organocatalytic aldol reaction with a hydrophobic substrate in aqueous medium via a process running in flow mode. By employing a mixture of water and 2-propanol, a hydrophobic aldehyde and 3.6 mol% of an organocatalyst, this microreactor process affords the desired aldol adduct with a conversion of 74% and an enantioselectivity of 89% after a reaction time of 60 minutes.
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Affiliation(s)
- Lukas Schober
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
| | - Shahilan Ratnam
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
| | - Yasunobu Yamashita
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
| | - Niklas Adebar
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
| | - Matthias Pieper
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
| | | | - Volker Hessel
- Micro Flow Chemistry & Process Technology, Department of Chemical Engineering and Chemistry, Eindhoven University of Technology
| | - Harald Gröger
- Chair of Organic Chemistry I, Faculty of Chemistry, Bielefeld University
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