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Winkler M, Breuer HG, Schober L. Aldehyde Reductase Activity of Carboxylic Acid Reductases. Chembiochem 2024; 25:e202400121. [PMID: 38349346 DOI: 10.1002/cbic.202400121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Revised: 02/13/2024] [Indexed: 03/09/2024]
Abstract
Carboxylic acid reductase enzymes (CARs) are well known for the reduction of a wide range of carboxylic acids to the respective aldehydes. One of the essential CAR domains - the reductase domain (R-domain) - was recently shown to catalyze the standalone reduction of carbonyls, including aldehydes, which are typically considered to be the final product of carboxylic acid reduction by CAR. We discovered that the respective full-length CARs were equally able to reduce aldehydes. Herein we aimed to shed light on the impact of this activity on aldehyde production and acid reduction in general. Our data explains previously inexplicable results and a new CAR from Mycolicibacterium wolinskyi is presented.
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Affiliation(s)
- Margit Winkler
- Institute of Molecular Biotechnology, Graz University of Technology, Petersgasse 14, 8010, Graz, Austria
- acib - Austrian Center of Industrial Biotechnology, Krenngasse 37, 8010, Graz, Austria
| | - Hannah G Breuer
- Institute of Molecular Biotechnology, Graz University of Technology, Petersgasse 14, 8010, Graz, Austria
| | - Lukas Schober
- Institute of Molecular Biotechnology, Graz University of Technology, Petersgasse 14, 8010, Graz, Austria
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2
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Firouzeh A, Mizutani A, Groten J, Zirkl M, Shea H. PopTouch: A Submillimeter Thick Dynamically Reconfigured Haptic Interface with Pressable Buttons. Adv Mater 2024; 36:e2307636. [PMID: 37883071 DOI: 10.1002/adma.202307636] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 10/19/2023] [Indexed: 10/27/2023]
Abstract
The interactions with touchscreens rely heavily on vision: The virtual buttons and virtual sliders on a touchscreen provide no mechanical sense of the object they seek to represent. This work presents PopTouch: a 500 µm thick flexible haptic display that creates pressable physical buttons on demand. PopTouch can be mounted directly on touchscreens or any other smooth surface, flat, or curved. The buttons of PopTouch are independently controlled hydraulically amplified electrostatic zipping taxels (tactile pixels) that generate 1.5 mm of out of plane displacement. When pressed by the user, the buttons provide intuitive mechanical feedback thanks to a snap-through characteristic in their force-displacement profile. The snap-through threshold can be as high as 4 N, and is tuned by design and actuation parameters. This work presents two versions of PopTouch: a transparent PopTouch for integration on Touchscreens with built-in touch sensing, such as smartphones and a sensorized PopTouch, with embedded thin-film piezoelectric sensors on each taxel, for integration on substrates without built-in touch sensing, such as a steering wheel. PopTouch adds static and vibrating button-like haptics to any device thanks to its thin profile, flexibility, low power consumption (6 mW per button), rapid refresh rate (2 Hz), and freely configured array format.
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Affiliation(s)
- Amir Firouzeh
- Soft Transducers Laboratory (LMTS), Institute of Mechanical Engineering (IGM), Ecole Polytechnique Fédérale de Lausanne (EPFL), Neuchatel, CH-2000, Switzerland
| | - Ayana Mizutani
- Soft Transducers Laboratory (LMTS), Institute of Mechanical Engineering (IGM), Ecole Polytechnique Fédérale de Lausanne (EPFL), Neuchatel, CH-2000, Switzerland
| | - Jonas Groten
- Joanneum Research Forschungsgesellschaft mbH, Franz-Pichler-Straße 30, Weiz, A-8160, Austria
| | - Martin Zirkl
- Joanneum Research Forschungsgesellschaft mbH, Franz-Pichler-Straße 30, Weiz, A-8160, Austria
| | - Herbert Shea
- Soft Transducers Laboratory (LMTS), Institute of Mechanical Engineering (IGM), Ecole Polytechnique Fédérale de Lausanne (EPFL), Neuchatel, CH-2000, Switzerland
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3
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Mattanovich D, Altvater M, Ata Ö, Bachleitner S. Fermenting the future - on the benefits of a bioart collaboration. FEMS Yeast Res 2024; 24:foae004. [PMID: 38317642 PMCID: PMC10852986 DOI: 10.1093/femsyr/foae004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2023] [Revised: 01/11/2024] [Accepted: 02/01/2024] [Indexed: 02/07/2024] Open
Abstract
In this article we explore the intersection of science and art through a collaboration between us scientists and the bioartists Anna Dimitriu and Alex May, focusing on the interface of yeast biotechnology and art. The collaboration, originally initiated in 2018, resulted in three major artworks: CULTURE, depicting the evolution of yeast and human societies; FERMENTING FUTURES, illustrating a synthetic autotrophic yeast and its link to lactic acid production; and WOOD SPIRIT-AMBER ACID, inspired by the VIVALDI project targeting CO2 reduction to methanol. We emphasize the reciprocal nature of the collaboration, detailing the scientific insights gained and the impact of artistic perspectives on us as researchers. We also highlight the historical connection between art and science, particularly in the Renaissance periods, and underscore the educational value of integrating art into science not only to support public engagement and science dissemination, but also to widen our own perceptions in our research.
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Affiliation(s)
- Diethard Mattanovich
- Institute of Microbiology and Microbial Biotechnology, Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna (BOKU), 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (acib GmbH), 1190 Vienna, Austria
| | - Martin Altvater
- Institute of Microbiology and Microbial Biotechnology, Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna (BOKU), 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (acib GmbH), 1190 Vienna, Austria
| | - Özge Ata
- Institute of Microbiology and Microbial Biotechnology, Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna (BOKU), 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (acib GmbH), 1190 Vienna, Austria
| | - Simone Bachleitner
- Institute of Microbiology and Microbial Biotechnology, Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna (BOKU), 1190 Vienna, Austria
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4
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Baumschabl M, Mitic BM, Troyer C, Hann S, Ata Ö, Mattanovich D. A native phosphoglycolate salvage pathway of the synthetic autotrophic yeast Komagataella phaffii. Microlife 2023; 5:uqad046. [PMID: 38234447 PMCID: PMC10791038 DOI: 10.1093/femsml/uqad046] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/27/2023] [Revised: 11/10/2023] [Accepted: 12/09/2023] [Indexed: 01/19/2024]
Abstract
Synthetic autotrophs can serve as chassis strains for bioproduction from CO2 as a feedstock to take measures against the climate crisis. Integration of the Calvin-Benson-Bassham (CBB) cycle into the methylotrophic yeast Komagataella phaffii (Pichia pastoris) enabled it to use CO2 as the sole carbon source. The key enzyme in this cycle is ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCO) catalyzing the carboxylation step. However, this enzyme is error prone to perform an oxygenation reaction leading to the production of toxic 2-phosphoglycolate. Native autotrophs have evolved different recycling pathways for 2-phosphoglycolate. However, for synthetic autotrophs, no information is available for the existence of such pathways. Deletion of CYB2 in the autotrophic K. phaffii strain led to the accumulation of glycolate, an intermediate in phosphoglycolate salvage pathways, suggesting that such a pathway is enabled by native K. phaffii enzymes. 13C tracer analysis with labeled glycolate indicated that the yeast pathway recycling phosphoglycolate is similar to the plant salvage pathway. This orthogonal yeast pathway may serve as a sensor for RuBisCO oxygenation, and as an engineering target to boost autotrophic growth rates in K. phaffii.
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Affiliation(s)
- Michael Baumschabl
- Austrian Centre of Industrial Biotechnology, Vienna 1190, Austria
- Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, University of Natural Resources and Life Sciences, Vienna 1190, Austria
| | - Bernd M Mitic
- Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, University of Natural Resources and Life Sciences, Vienna 1190, Austria
- University of Natural Resources and Life Sciences, Vienna, Department of Chemistry, Institute of Analytical Chemistry, Vienna 1190, Austria
| | - Christina Troyer
- University of Natural Resources and Life Sciences, Vienna, Department of Chemistry, Institute of Analytical Chemistry, Vienna 1190, Austria
| | - Stephan Hann
- Austrian Centre of Industrial Biotechnology, Vienna 1190, Austria
- University of Natural Resources and Life Sciences, Vienna, Department of Chemistry, Institute of Analytical Chemistry, Vienna 1190, Austria
| | - Özge Ata
- Austrian Centre of Industrial Biotechnology, Vienna 1190, Austria
- Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, University of Natural Resources and Life Sciences, Vienna 1190, Austria
| | - Diethard Mattanovich
- Austrian Centre of Industrial Biotechnology, Vienna 1190, Austria
- Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, University of Natural Resources and Life Sciences, Vienna 1190, Austria
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5
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Flores-Villegas M, Rebnegger C, Kowarz V, Prielhofer R, Mattanovich D, Gasser B. Systematic sequence engineering enhances the induction strength of the glucose-regulated GTH1 promoter of Komagataella phaffii. Nucleic Acids Res 2023; 51:11358-11374. [PMID: 37791854 PMCID: PMC10639056 DOI: 10.1093/nar/gkad752] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 08/16/2023] [Accepted: 09/07/2023] [Indexed: 10/05/2023] Open
Abstract
The promoter of the high-affinity glucose transporter Gth1 (PGTH1) is tightly repressed on glucose and glycerol surplus, and strongly induced in glucose-limitation, thus enabling regulated methanol-free production processes in the yeast production host Komagataella phaffii. To further improve this promoter, an intertwined approach of nucleotide diversification through random and rational engineering was pursued. Random mutagenesis and fluorescence activated cell sorting of PGTH1 yielded five variants with enhanced induction strength. Reverse engineering of individual point mutations found in the improved variants identified two single point mutations with synergistic action. Sequential deletions revealed the key promoter segments for induction and repression properties, respectively. Combination of the single point mutations and the amplification of key promoter segments led to a library of novel promoter variants with up to 3-fold higher activity. Unexpectedly, the effect of gaining or losing a certain transcription factor binding site (TFBS) was highly dependent on its context within the promoter. Finally, the applicability of the novel promoter variants for biotechnological production was proven for the secretion of different recombinant model proteins in fed batch cultivation, where they clearly outperformed their ancestors. In addition to advancing the toolbox for recombinant protein production and metabolic engineering of K. phaffii, we discovered single nucleotide positions and correspondingly affected TFBS that distinguish between glycerol- and glucose-mediated repression of the native promoter.
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Affiliation(s)
- Mirelle Flores-Villegas
- CD-Laboratory for Growth-decoupled Protein Production in Yeast at Department of Biotechnology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
| | - Corinna Rebnegger
- CD-Laboratory for Growth-decoupled Protein Production in Yeast at Department of Biotechnology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
- ACIB GmbH, Muthgasse 11, 1190 Vienna, Austria
| | - Viktoria Kowarz
- CD-Laboratory for Growth-decoupled Protein Production in Yeast at Department of Biotechnology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
| | - Roland Prielhofer
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
| | - Diethard Mattanovich
- CD-Laboratory for Growth-decoupled Protein Production in Yeast at Department of Biotechnology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
- ACIB GmbH, Muthgasse 11, 1190 Vienna, Austria
| | - Brigitte Gasser
- CD-Laboratory for Growth-decoupled Protein Production in Yeast at Department of Biotechnology, University of Natural Resources and Life Sciences (BOKU), Vienna, Austria
- University of Natural Resources and Life Sciences Vienna (BOKU), Department of Biotechnology, Institute of Microbiology and Microbial Biotechnology, Muthgasse 18, 1190 Vienna, Austria
- ACIB GmbH, Muthgasse 11, 1190 Vienna, Austria
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6
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Jung J, Liu H, Borg AJE, Nidetzky B. Solvent Engineering for Nonpolar Substrate Glycosylation Catalyzed by the UDP-Glucose-Dependent Glycosyltransferase UGT71E5: Intensification of the Synthesis of 15-Hydroxy Cinmethylin β-d-Glucoside. J Agric Food Chem 2023; 71:13419-13429. [PMID: 37655961 PMCID: PMC10510383 DOI: 10.1021/acs.jafc.3c04027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2023] [Revised: 08/15/2023] [Accepted: 08/21/2023] [Indexed: 09/02/2023]
Abstract
Sugar nucleotide-dependent glycosyltransferases are powerful catalysts of the glycosylation of natural products and xenobiotics. The low solubility of the aglycone substrate often limits the synthetic efficiency of the transformation catalyzed. Here, we explored different approaches of solvent engineering for reaction intensification of β-glycosylation of 15HCM (a C15-hydroxylated, plant detoxification metabolite of the herbicide cinmethylin) catalyzed by safflower UGT71E5 using UDP-glucose as the donor substrate. Use of a cosolvent (DMSO, ethanol, and acetonitrile; ≤50 vol %) or a water-immiscible solvent (n-dodecane, n-heptane, n-hexane, and 1-hexene) was ineffective due to enzyme activity and stability, both impaired ≥10-fold compared to a pure aqueous solvent. Complexation in 2-hydroxypropyl-β-cyclodextrin enabled dissolution of 50 mM 15HCM while retaining the UGT71E5 activity (∼0.32 U/mg) and stability. Using UDP-glucose recycling, 15HCM was converted completely, and 15HCM β-d-glucoside was isolated in 90% yield (∼150 mg). Collectively, this study highlights the requirement for a mild, enzyme-compatible strategy for aglycone solubility enhancement in glycosyltransferase catalysis applied to glycoside synthesis.
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Affiliation(s)
- Jihye Jung
- Institute
of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, A-8010 Graz, Austria
| | - Hui Liu
- Institute
of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, A-8010 Graz, Austria
| | - Annika J. E. Borg
- Institute
of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, A-8010 Graz, Austria
- Austrian
Centre of Industrial Biotechnology, A-8010 Graz, Austria
| | - Bernd Nidetzky
- Institute
of Biotechnology and Biochemical Engineering, Graz University of Technology, NAWI Graz, A-8010 Graz, Austria
- Austrian
Centre of Industrial Biotechnology, A-8010 Graz, Austria
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7
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Palma A, Rettenbacher LA, Moilanen A, Saaranen M, Pacheco-Martinez C, Gasser B, Ruddock L. Biochemical analysis of Komagataella phaffii oxidative folding proposes novel regulatory mechanisms of disulfide bond formation in yeast. Sci Rep 2023; 13:14298. [PMID: 37652992 PMCID: PMC10471769 DOI: 10.1038/s41598-023-41375-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 08/25/2023] [Indexed: 09/02/2023] Open
Abstract
Oxidative protein folding in the endoplasmic reticulum (ER) is driven mainly by protein disulfide isomerase PDI and oxidoreductin Ero1. Their activity is tightly regulated and interconnected with the unfolded protein response (UPR). The mechanisms of disulfide bond formation have mainly been studied in human or in the yeast Saccharomyces cerevisiae. Here we analyze the kinetics of disulfide bond formation in the non-conventional yeast Komagataella phaffii, a common host for the production of recombinant secretory proteins. Surprisingly, we found significant differences with both the human and S. cerevisiae systems. Specifically, we report an inactive disulfide linked complex formed by K. phaffii Ero1 and Pdi1, similarly to the human orthologs, but not described in yeast before. Furthermore, we show how the interaction between K. phaffii Pdi1 and Ero1 is unaffected by the introduction of unfolded substrate into the system. This is drastically opposed to the previously observed behavior of the human pathway, suggesting a different regulation of the UPR and/or possibly different interaction mechanics between K. phaffii Pdi1 and Ero1.
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Affiliation(s)
- Arianna Palma
- Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna, Austria
- Austrian Centre of Industrial Biotechnology, Vienna, Austria
| | - Lukas A Rettenbacher
- School of Biosciences, University of Kent, Canterbury, UK
- Faculty of Biochemistry and Molecular Medicine, University of Oulu, Oulu, Finland
| | - Antti Moilanen
- Faculty of Biochemistry and Molecular Medicine, University of Oulu, Oulu, Finland
| | - Mirva Saaranen
- Faculty of Biochemistry and Molecular Medicine, University of Oulu, Oulu, Finland
| | | | - Brigitte Gasser
- Department of Biotechnology, University of Natural Resources and Life Sciences, Vienna, Austria.
- Austrian Centre of Industrial Biotechnology, Vienna, Austria.
| | - Lloyd Ruddock
- Faculty of Biochemistry and Molecular Medicine, University of Oulu, Oulu, Finland.
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Siracusa C, Quartinello F, Soccio M, Manfroni M, Lotti N, Dorigato A, Guebitz GM, Pellis A. On the Selective Enzymatic Recycling of Poly(pentamethylene 2,5-furanoate)/Poly(lactic acid) Blends and Multiblock Copolymers. ACS Sustain Chem Eng 2023; 11:9751-9760. [PMID: 37425282 PMCID: PMC10324456 DOI: 10.1021/acssuschemeng.3c01796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 06/07/2023] [Indexed: 07/11/2023]
Abstract
Among novel renewable furanoate-based polyesters, poly(pentamethylene 2,5-furandicarboxylate) (PPeF) shows outstanding gas barrier properties and high flexibility. PPeF blending/copolymerization with another well-known bio-based polymer, poly(lactic acid) (PLA), leads to considerably better mechanical and gas barrier properties of the latter, making it suitable for flexible food packaging applications. In this work, enzymatic depolymerization of PLA/PPeF blends with different compositions (1, 3, 5, 20, 30, and 50 wt % PPeF) and a PLA-PPeF block copolymer (50 wt % PPeF) by cutinase 1 from Thermobifida cellulositilytica (Thc_Cut1) was investigated as a possible recycling strategy. Based on quantification of weight loss and high-performance liquid chromatography (HPLC) analysis of released molecules, faster hydrolysis was seen for PLA/PPeF blends with increasing PPeF content when compared to neat PLA, while the block copolymer (P(LA50PeF50)) was significantly less susceptible to hydrolysis. Surface morphology analysis (via scanning electron microscopy), Fourier transform infrared spectroscopy, and NMR analysis confirmed preferential hydrolysis of the PPeF component. Through crystallization, 2,5-furandicarboxylic acid was selectively recovered from the depolymerized films and used for the resynthesis of the PPeF homopolymer, demonstrating the potential of enzymes for novel recycling concepts. The possibility of selective recovery of 2,5-furandicarboxylic acid from the completely depolymerized films with a 75% yield could bring further evidence of the high value of these materials, both in the form of blends and copolymers, for a sustainable whole packaging life cycle, where PPeF is potentially enzymatically recycled and PLA is mechanically recycled.
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Affiliation(s)
- Chiara Siracusa
- acib
GmbH, Konrad-Lorenz-Strasse 20, 3430 Tulln, Donau, Austria
| | - Felice Quartinello
- acib
GmbH, Konrad-Lorenz-Strasse 20, 3430 Tulln, Donau, Austria
- Institute
of Environmental Biotechnology, University
of Natural Resources and Life Sciences Vienna Konrad-Lorenz-Strasse
20, 3430 Tulln, Donau, Austria
| | - Michelina Soccio
- Department
of Civil, Chemical, Environmental and Materials Engineering (DICAM), University of Bologna, Bologna 40138, Italy
- Interdepartmental
Center for Industrial Research on Advanced Applications in Mechanical
Engineering and Materials Technology, CIRI-MAM, University of Bologna, Bologna 40138, Italy
| | - Mattia Manfroni
- Department
of Civil, Chemical, Environmental and Materials Engineering (DICAM), University of Bologna, Bologna 40138, Italy
| | - Nadia Lotti
- Department
of Civil, Chemical, Environmental and Materials Engineering (DICAM), University of Bologna, Bologna 40138, Italy
- Interdepartmental
Center for Industrial Research on Advanced Applications in Mechanical
Engineering and Materials Technology, CIRI-MAM, University of Bologna, Bologna 40138, Italy
- Interdepartmental
Center for Agro-Food Research, CIRI-AGRO, University of Bologna, Bologna 40126, Italy
| | - Andrea Dorigato
- Department
of Industrial Engineering and INSTM Research Unit, University of Trento, Trento 38123, Italy
| | - Georg M. Guebitz
- acib
GmbH, Konrad-Lorenz-Strasse 20, 3430 Tulln, Donau, Austria
- Institute
of Environmental Biotechnology, University
of Natural Resources and Life Sciences Vienna Konrad-Lorenz-Strasse
20, 3430 Tulln, Donau, Austria
| | - Alessandro Pellis
- acib
GmbH, Konrad-Lorenz-Strasse 20, 3430 Tulln, Donau, Austria
- Institute
of Environmental Biotechnology, University
of Natural Resources and Life Sciences Vienna Konrad-Lorenz-Strasse
20, 3430 Tulln, Donau, Austria
- Department
of Chemistry and Industrial Chemistry, Università
degli Studi di Genova, Via Dodecaneso 31, 16146 Genova, Italy
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Gande N, Hochmayr C, Staudt A, Bernar B, Stock K, Kiechl SJ, Geiger R, Griesmacher A, Scholl-Bürgi S, Knoflach M, Pechlaner R, Kiechl-Kohlendorfer U. Plasma homocysteine levels and associated factors in community-dwelling adolescents: the EVA-TYROL study. Front Cardiovasc Med 2023; 10:1140990. [PMID: 37424916 PMCID: PMC10327549 DOI: 10.3389/fcvm.2023.1140990] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Accepted: 06/01/2023] [Indexed: 07/11/2023] Open
Abstract
Background Homocysteine (Hcy) has been associated with an adverse cardiovascular risk profile in adolescents. Assessment of the association between plasma Hcy levels and clinical/laboratory factors might improve our understanding of the pathogenesis of cardiovascular disease. Methods Hcy was measured in 1,900 14- to 19-year-old participants of prospective population-based EVA-TYROL Study (44.3% males, mean age 16.4 years) between 2015 and 2018. Factors associated with Hcy were assessed by physical examination, standardized interviews, and fasting blood analysis. Results Mean plasma Hcy was 11.3 ± 4.5 µmol/L. Distribution of Hcy was characterized by extreme right skew. Males exhibited higher Hcy and sex differences increased with increasing age. Univariate associations with Hcy emerged for age, sex, body mass index, high-density lipoprotein cholesterol, and for factors pertaining to blood pressure, glucose metabolism, renal function, and diet quality, whereas the most important multivariate predictors of Hcy were sex and creatinine. Discussion Clinical and laboratory factors associated with Hcy in adolescents were manifold, with sex and high creatinine identified as strongest independent determinants. These results may aid when interpreting future studies investigating the vascular risk of homocysteine.
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Affiliation(s)
- Nina Gande
- Department of Pediatrics II (Neonatology), Medical University of Innsbruck, Innsbruck, Austria
| | - Christoph Hochmayr
- Department of Pediatrics II (Neonatology), Medical University of Innsbruck, Innsbruck, Austria
| | - Anna Staudt
- Department of Pediatrics II (Neonatology), Medical University of Innsbruck, Innsbruck, Austria
| | - Benoît Bernar
- Department of Pediatrics I, Medical University of Innsbruck, Innsbruck, Austria
| | - Katharina Stock
- Department of Pediatrics III (Cardiology), Medical University of Innsbruck, Innsbruck, Austria
| | - Sophia J. Kiechl
- Department of Neurology, Medical University of Innsbruck, Innsbruck, Austria
| | - Ralf Geiger
- Department of Pediatrics III (Cardiology), Medical University of Innsbruck, Innsbruck, Austria
- Department of Pediatrics, Bruneck Hospital, Bruneck, Italy
| | - Andrea Griesmacher
- Central Institute of Clinical Chemistry and Laboratory Medicine Medical University of Innsbruck, Innsbruck, Austria
| | - Sabine Scholl-Bürgi
- Department of Pediatrics I, Medical University of Innsbruck, Innsbruck, Austria
| | - Michael Knoflach
- Department of Neurology, Medical University of Innsbruck, Innsbruck, Austria
| | - Raimund Pechlaner
- Department of Neurology, Medical University of Innsbruck, Innsbruck, Austria
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10
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Wicaksono WA, Morauf C, Müller H, Abdelfattah A, Donat C, Berg G. The mature phyllosphere microbiome of grapevine is associated with resistance against Plasmopara viticola. Front Microbiol 2023; 14:1149307. [PMID: 37113228 PMCID: PMC10127535 DOI: 10.3389/fmicb.2023.1149307] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2023] [Accepted: 03/15/2023] [Indexed: 04/29/2023] Open
Abstract
Phyllosphere microbiota represents a substantial but hardly explored reservoir for disease resistance mechanisms. The goal of our study was to understand the link between grapevine cultivars susceptibility to Plasmopara viticola, one of the most devastating leaf pathogens in viticulture, and the phyllosphere microbiota. Therefore, we analyzed a 16S rRNA gene library for the dominant phyllosphere bacterial phyla Alphaproteobacteria of seven Vitis genotypes at different developmental stages, i.e., flowering and harvesting, via amplicon sequencing. Young leaves had significantly higher Alphaproteobacterial richness and diversity without significant host-specificity. In contrast, the microbial communities of mature leaves were structurally distinct in accordance with P. viticola resistance levels. This statistically significant link between mature bacterial phyllosphere communities and resistant phenotypes was corroborated by beta diversity metrics and network analysis. Beyond direct host-driven effects via the provision of microhabitats, we found evidence that plants recruit for specific bacterial taxa that were likely playing a fundamental role in mediating microbe-microbe interactions and structuring clusters within mature communities. Our results on grape-microbiota interaction provide insights for targeted biocontrol and breeding strategies.
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Affiliation(s)
- Wisnu Adi Wicaksono
- Institute of Environmental Biotechnology, Graz University of Technology, Graz, Austria
- *Correspondence: Wisnu Adi Wicaksono,
| | | | - Henry Müller
- Institute of Environmental Biotechnology, Graz University of Technology, Graz, Austria
- Leibniz Institute for Agricultural Engineering and Bioeconomy (ATB), Potsdam, Germany
| | - Ahmed Abdelfattah
- Institute of Environmental Biotechnology, Graz University of Technology, Graz, Austria
- Leibniz Institute for Agricultural Engineering and Bioeconomy (ATB), Potsdam, Germany
| | | | - Gabriele Berg
- Institute of Environmental Biotechnology, Graz University of Technology, Graz, Austria
- Leibniz Institute for Agricultural Engineering and Bioeconomy (ATB), Potsdam, Germany
- Institute for Biochemistry and Biology, University of Potsdam, Potsdam, Germany
- Austrian Centre of Industrial Biotechnology (ACIB GmbH), Graz, Austria
- Gabriele Berg,
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11
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Jung J, Schachtschabel D, Speitling M, Nidetzky B. Controllable Iterative β-Glucosylation from UDP-Glucose by Bacillus cereus Glycosyltransferase GT1: Application for the Synthesis of Disaccharide-Modified Xenobiotics. J Agric Food Chem 2021; 69:14630-14642. [PMID: 34817995 PMCID: PMC8662728 DOI: 10.1021/acs.jafc.1c05788] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 11/08/2021] [Accepted: 11/12/2021] [Indexed: 06/13/2023]
Abstract
Glycosylation in natural product metabolism and xenobiotic detoxification often leads to disaccharide-modified metabolites. The chemical synthesis of such glycosides typically separates the glycosylation steps in space and time. The option to perform the two-step glycosylation in one pot, and catalyzed by a single permissive enzyme, is interesting for a facile access to disaccharide-modified products. Here, we reveal the glycosyltransferase GT1 from Bacillus cereus (BcGT1; gene identifier: KT821092) for iterative O-β-glucosylation from uridine 5'-diphosphate (UDP)-glucose to form a β-linked disaccharide of different metabolites, including a C15 hydroxylated detoxification intermediate of the agricultural herbicide cinmethylin (15HCM). We identify thermodynamic and kinetic requirements for the selective formation of the disaccharide compared to the monosaccharide-modified 15HCM. As shown by NMR and high-resolution MS, β-cellobiosyl and β-gentiobiosyl groups are attached to the aglycone's O15 in a 2:1 ratio. Glucosylation reactions on methylumbelliferone and 4-nitrophenol involve reversible glycosyl transfer from and to UDP as well as UDP-glucose hydrolysis, both catalyzed by BcGT1. Collectively, this study delineates the iterative β-d-glucosylation of aglycones by BcGT1 and demonstrates applicability for the programmable one-pot synthesis of disaccharide-modified 15HCM.
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Affiliation(s)
- Jihye Jung
- Austrian
Centre of Industrial Biotechnology, A-8010 Graz, Austria
- Institute
of Biotechnology and Biochemical Engineering, NAWI Graz, TU Graz, A-8010 Graz, Austria
| | | | | | - Bernd Nidetzky
- Austrian
Centre of Industrial Biotechnology, A-8010 Graz, Austria
- Institute
of Biotechnology and Biochemical Engineering, NAWI Graz, TU Graz, A-8010 Graz, Austria
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12
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Eisenhut P, Mebrahtu A, Moradi Barzadd M, Thalén N, Klanert G, Weinguny M, Sandegren A, Su C, Hatton D, Borth N, Rockberg J. Systematic use of synthetic 5'-UTR RNA structures to tune protein translation improves yield and quality of complex proteins in mammalian cell factories. Nucleic Acids Res 2020; 48:e119. [PMID: 33051690 PMCID: PMC7672427 DOI: 10.1093/nar/gkaa847] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2020] [Revised: 08/28/2020] [Accepted: 09/22/2020] [Indexed: 12/30/2022] Open
Abstract
Predictably regulating protein expression levels to improve recombinant protein production has become an important tool, but is still rarely applied to engineer mammalian cells. We therefore sought to set-up an easy-to-implement toolbox to facilitate fast and reliable regulation of protein expression in mammalian cells by introducing defined RNA hairpins, termed 'regulation elements (RgE)', in the 5'-untranslated region (UTR) to impact translation efficiency. RgEs varying in thermodynamic stability, GC-content and position were added to the 5'-UTR of a fluorescent reporter gene. Predictable translation dosage over two orders of magnitude in mammalian cell lines of hamster and human origin was confirmed by flow cytometry. Tuning heavy chain expression of an IgG with the RgEs to various levels eventually resulted in up to 3.5-fold increased titers and fewer IgG aggregates and fragments in CHO cells. Co-expression of a therapeutic Arylsulfatase-A with RgE-tuned levels of the required helper factor SUMF1 demonstrated that the maximum specific sulfatase activity was already attained at lower SUMF1 expression levels, while specific production rates steadily decreased with increasing helper expression. In summary, we show that defined 5'-UTR RNA-structures represent a valid tool to systematically tune protein expression levels in mammalian cells and eventually help to optimize recombinant protein expression.
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Affiliation(s)
- Peter Eisenhut
- ACIB Austrian Centre of Industrial Biotechnology, Krenngasse 37, 8010 Graz, Austria
- BOKU University of Natural Resources and Life Sciences, Department of Biotechnology, Vienna 1190, Austria
| | - Aman Mebrahtu
- KTH Royal Institute of Technology, Department of Protein Science, 10691 Stockholm, Sweden
| | - Mona Moradi Barzadd
- KTH Royal Institute of Technology, Department of Protein Science, 10691 Stockholm, Sweden
| | - Niklas Thalén
- KTH Royal Institute of Technology, Department of Protein Science, 10691 Stockholm, Sweden
| | - Gerald Klanert
- ACIB Austrian Centre of Industrial Biotechnology, Krenngasse 37, 8010 Graz, Austria
| | - Marcus Weinguny
- ACIB Austrian Centre of Industrial Biotechnology, Krenngasse 37, 8010 Graz, Austria
- BOKU University of Natural Resources and Life Sciences, Department of Biotechnology, Vienna 1190, Austria
| | - Anna Sandegren
- Affibody Medical AB, Scheeles väg 2, SE-171 65 Solna, Sweden
| | - Chao Su
- SOBI AB, Tomtebodavägen 23A, Stockholm, Sweden
| | - Diane Hatton
- AstraZeneca, Biopharmaceutical Development, Milstein Building, Granta Park, Cambridge CB21 6GH, UK
| | - Nicole Borth
- ACIB Austrian Centre of Industrial Biotechnology, Krenngasse 37, 8010 Graz, Austria
- BOKU University of Natural Resources and Life Sciences, Department of Biotechnology, Vienna 1190, Austria
| | - Johan Rockberg
- KTH Royal Institute of Technology, Department of Protein Science, 10691 Stockholm, Sweden
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13
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Biundo A, Subagia R, Maurer M, Ribitsch D, Syrén PO, Guebitz GM. Switched reaction specificity in polyesterases towards amide bond hydrolysis by enzyme engineering. RSC Adv 2019; 9:36217-36226. [PMID: 35540575 PMCID: PMC9074940 DOI: 10.1039/c9ra07519d] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Accepted: 10/28/2019] [Indexed: 01/03/2023] Open
Abstract
The recalcitrance of plastics like nylon and other polyamides contributes to environmental problems (e.g. microplastics in oceans) and restricts possibilities for recycling. The fact that hitherto discovered amidases (EC 3.5.1. and 3.5.2.) only show no, or low, activity on polyamides currently obstructs biotechnological-assisted depolymerization of man-made materials. In this work, we capitalized on enzyme engineering to enhance the promiscuous amidase activity of polyesterases. Through enzyme design we created a reallocated water network adapted for hydrogen bond formation to synthetic amide backbones for enhanced transition state stabilization in the polyester-hydrolyzing biocatalysts Humicola insolens cutinase and Thermobifida cellulosilytica cutinase 1. This novel concept enabled increased catalytic efficiency towards amide-containing soluble substrates. The afforded enhanced hydrolysis of the amide bond-containing insoluble substrate 3PA 6,6 by designed variants was aligned with improved transition state stabilization identified by molecular dynamics (MD) simulations. Furthermore, the presence of a favorable water-molecule network that interacted with synthetic amides in the variants resulted in a reduced activity on polyethylene terephthalate (PET). Our data demonstrate the potential of using enzyme engineering to improve the amidase activity for polyesterases to act on synthetic amide-containing polymers.
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Affiliation(s)
- Antonino Biundo
- Austrian Centre of Industrial Biotechnology (ACIB) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
| | - Raditya Subagia
- Institute of Environmental Biotechnology, University of Natural Resources and Life Sciences (BOKU) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
| | - Michael Maurer
- Department of Bioengineering, University of Applied Sciences Mauerbachstrasse 43 1140 Vienna Austria
| | - Doris Ribitsch
- Austrian Centre of Industrial Biotechnology (ACIB) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
- Institute of Environmental Biotechnology, University of Natural Resources and Life Sciences (BOKU) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
| | - Per-Olof Syrén
- Science for Life Laboratory, Department of Fibre and Polymer Technology and Department of Protein Science, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology Tomtebodavägen 23, Box 1031 17165 Solna Sweden
| | - Georg M Guebitz
- Austrian Centre of Industrial Biotechnology (ACIB) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
- Institute of Environmental Biotechnology, University of Natural Resources and Life Sciences (BOKU) Konrad Lorenz Strasse 20 3430 Tulln an der Donau Austria
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14
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Rueda F, Gasser B, Sánchez-Chardi A, Roldán M, Villegas S, Puxbaum V, Ferrer-Miralles N, Unzueta U, Vázquez E, Garcia-Fruitós E, Mattanovich D, Villaverde A. Functional inclusion bodies produced in the yeast Pichia pastoris. Microb Cell Fact 2016; 15:166. [PMID: 27716225 PMCID: PMC5045588 DOI: 10.1186/s12934-016-0565-9] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Accepted: 09/21/2016] [Indexed: 02/07/2023] Open
Abstract
BACKGROUND Bacterial inclusion bodies (IBs) are non-toxic protein aggregates commonly produced in recombinant bacteria. They are formed by a mixture of highly stable amyloid-like fibrils and releasable protein species with a significant extent of secondary structure, and are often functional. As nano structured materials, they are gaining biomedical interest because of the combination of submicron size, mechanical stability and biological activity, together with their ability to interact with mammalian cell membranes for subsequent cell penetration in absence of toxicity. Since essentially any protein species can be obtained as IBs, these entities, as well as related protein clusters (e.g., aggresomes), are being explored in biocatalysis and in biomedicine as mechanically stable sources of functional protein. One of the major bottlenecks for uses of IBs in biological interfaces is their potential contamination with endotoxins from producing bacteria. RESULTS To overcome this hurdle, we have explored here the controlled production of functional IBs in the yeast Pichia pastoris (Komagataella spp.), an endotoxin-free host system for recombinant protein production, and determined the main physicochemical and biological traits of these materials. Quantitative and qualitative approaches clearly indicate the formation of IBs inside yeast, similar in morphology, size and biological activity to those produced in E. coli, that once purified, interact with mammalian cell membranes and penetrate cultured mammalian cells in absence of toxicity. CONCLUSIONS Structurally and functionally similar from those produced in E. coli, the controlled production of IBs in P. pastoris demonstrates that yeasts can be used as convenient platforms for the biological fabrication of self-organizing protein materials in absence of potential endotoxin contamination and with additional advantages regarding, among others, post-translational modifications often required for protein functionality.
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Affiliation(s)
- Fabián Rueda
- Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- CIBER de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Brigitte Gasser
- Department of Biotechnology, University of Natural Resources and Life Sciences Vienna (BOKU), Muthgasse 18, 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (ACIB), Muthgasse 11, 1190 Vienna, Austria
| | - Alejandro Sánchez-Chardi
- Servei de Microscòpia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Mònica Roldán
- Servei de Microscòpia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Sandra Villegas
- Departament de Bioquímica i Biologia Molecular, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Verena Puxbaum
- Department of Biotechnology, University of Natural Resources and Life Sciences Vienna (BOKU), Muthgasse 18, 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (ACIB), Muthgasse 11, 1190 Vienna, Austria
| | - Neus Ferrer-Miralles
- Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- CIBER de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Ugutz Unzueta
- Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- CIBER de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Oncogenesis and Antitumor Drug Group, Biomedical Research Institute Sant Pau (IIB-Sant Pau), Hospital de la Santa Creu i Sant Pau, C/Sant Antoni Maria Claret, 167, 08025 Barcelona, Spain
| | - Esther Vázquez
- Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- CIBER de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Bellaterra, 08193 Cerdanyola del Vallès, Spain
| | - Elena Garcia-Fruitós
- Department of Ruminant Production, Institut de Recerca i Tecnologia Agroalimentàries (IRTA), 08140 Caldes de Montbui, Spain
| | - Diethard Mattanovich
- Department of Biotechnology, University of Natural Resources and Life Sciences Vienna (BOKU), Muthgasse 18, 1190 Vienna, Austria
- Austrian Centre of Industrial Biotechnology (ACIB), Muthgasse 11, 1190 Vienna, Austria
| | - Antonio Villaverde
- Institut de Biotecnologia i de Biomedicina, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- Departament de Genètica i de Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, 08193 Cerdanyola del Vallès, Spain
- CIBER de Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), Bellaterra, 08193 Cerdanyola del Vallès, Spain
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