1
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Zhang Y, Hancock WO. Measuring PETase enzyme kinetics by single-molecule microscopy. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.04.24.590935. [PMID: 38712273 PMCID: PMC11071475 DOI: 10.1101/2024.04.24.590935] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2024]
Abstract
Polyethylene terephthalate (PET) is one of the most widely produced man-made polymers and is a significant contributor to microplastics pollution. The environmental and human health impacts of microplastics pollution have motivated a concerted effort to develop microbe- and enzyme-based strategies to degrade PET and similar plastics. A PETase derived from the bacteria Ideonella sakaiensis was previously shown to enzymatically degrade PET, triggering multidisciplinary efforts to improve the robustness and activity of this and other PETases. However, because these enzymes only erode the surface of the insoluble PET substrate, it is difficult to measure standard kinetic parameters, such as kon, koff and kcat, complicating interpretation of the activity of mutants using traditional enzyme kinetics frameworks. To address this challenge, we developed a single-molecule microscopy assay that quantifies the landing rate and binding duration of quantum dot-labeled PETase enzymes interacting with a surface-immobilized PET film. Wild-type PETase binding durations were well fit by a biexponential with a fast population having a 2.7 s time constant, interpreted as active binding events, and a slow population interpreted as non-specific binding interactions that last tens of seconds. A previously described hyperactive mutant, S238F/W159H had both a faster on-rate and a slower off-rate than wild-type PETase, potentially explaining its enhanced activity. Because this single-molecule approach provides a more detailed mechanistic picture of PETase enzymatic activity than standard bulk assays, it should aid future efforts to engineer more robust and active PETases to combat global microplastics pollution.
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Affiliation(s)
- Yuwei Zhang
- Department of Biomedical Engineering, Pennsylvania State University, University Park, Pennsylvania, USA
| | - William O. Hancock
- Department of Biomedical Engineering, Pennsylvania State University, University Park, Pennsylvania, USA
- Department of Chemistry, Pennsylvania State University, University Park, Pennsylvania, USA
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2
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Aer L, Qin H, Wo P, Feng J, Tang L. Signal peptide independent secretion of bifunctional dual-hydrolase to enhance the bio-depolymerization of polyethylene terephthalate. BIORESOURCE TECHNOLOGY 2024; 391:129884. [PMID: 37852506 DOI: 10.1016/j.biortech.2023.129884] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 10/16/2023] [Accepted: 10/16/2023] [Indexed: 10/20/2023]
Abstract
The use of polyethylene terephthalate (PET) results in a significant amount of plastic waste, which poses a threat to the environment and human health. Dual-enzyme system is promising candidate for PET depolymerization. However, its production in Escherichia coli is challenging, especially for secretory expression. Herein, a novel bifunctional dual-enzyme, TfH-FPE, was constructed through fusion of FAST-PETase and TfH. TfH modifies cell membrane permeability via phospholipid degradation, thus facilitating the secretion of TfH-FPE into the medium. After systematic optimization, purified secreted TfH-FPE reached 104 ± 5.2 mg/L, which is 32.5-fold higher than that of the secreted enzyme using a signal peptide. TfH-FPE exhibits remarkable PET depolymerization capacity compared to FAST-PETase, releasing 6-fold more product than FAST-PETase and 2-fold more product than an equimolar enzyme mixture. Collectively, this study explores a novel secretory approach for efficient production of TfH-FPE and provides a valuable tool to promote PET bio-depolymerization via multi-enzyme cascades.
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Affiliation(s)
- Lizhu Aer
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China
| | - Huiling Qin
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China
| | - Peng Wo
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China
| | - Juan Feng
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China; Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 610054, China
| | - Lixia Tang
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 610054, China; Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 610054, China.
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3
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Torabi H, Javi F, Deisenroth TW, Pho TV, Barbright V, Abbaspourrad A. Mechanism and kinetics of enzymatic degradation of polyester microparticles using a shrinking particle-shrinking core model. LAB ON A CHIP 2023; 23:4456-4465. [PMID: 37740368 DOI: 10.1039/d3lc00581j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/24/2023]
Abstract
Generalized shrinking particle (SPM) and shrinking core (SCM) models were developed to the kinetics of heterogenous enzymatic degradation of polymer microparticles in a continuous microflow system. This enzymatic degradation was performed in a microfluidic device designed to both physically separate and immobilize the microparticles. Then time-resolved measurements were made using image processing of the physical changes of the particles during degradation. The kinetics of enzyme-polymer intermediate formation, enzymatic bond cleavage, and enzyme diffusion through the layer of degraded substrate (SCM only) were mathematically derived to predict the time-resolved degradation of the substrate. The proposed models were tested against the degradation of 15-25 μm particles of polycaprolactone (PCL) and poly (butylene adipate-co-terephthalate) (PBAT) by cutinase enzyme from Humicola insolens. Degradation of PCL microparticles followed the SPM model and its kinetics were found to be zero-order, while the SCM model applied to PBAT microparticles showed first-order kinetics. Further, the degradation of polybutylene succinate (PBS), and poly butylene-sebacate-co-terephthalate (PBSeT) microparticles demonstrated wide applicability of the method. The use of image processing simplifies the required analysis by eliminating the need to remove aliquots or concentrate effluent for additional analytical characterization.
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Affiliation(s)
- Hooman Torabi
- Department of Food Science, College of Agriculture & Life Sciences, Cornell University, Stocking Hall, Ithaca, New York, 14853, USA.
| | - Farhad Javi
- Department of Food Science, College of Agriculture & Life Sciences, Cornell University, Stocking Hall, Ithaca, New York, 14853, USA.
| | - Ted W Deisenroth
- BASF Corporation, 500 White Plains Road, Tarrytown, New York 10591, USA
| | - Toan V Pho
- BASF Corporation, 500 White Plains Road, Tarrytown, New York 10591, USA
| | | | - Alireza Abbaspourrad
- Department of Food Science, College of Agriculture & Life Sciences, Cornell University, Stocking Hall, Ithaca, New York, 14853, USA.
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4
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Yoon Y, Park H, An S, Ahn JH, Kim B, Shin J, Kim YE, Yeon J, Chung JH, Kim D, Cho M. Bacterial degradation kinetics of poly(Ɛ-caprolactone) (PCL) film by Aquabacterium sp. CY2-9 isolated from plastic-contaminated landfill. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 335:117493. [PMID: 36822047 DOI: 10.1016/j.jenvman.2023.117493] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 01/27/2023] [Accepted: 02/09/2023] [Indexed: 06/18/2023]
Abstract
Despite the identification of numerous bioplastic-degrading bacteria, the inconsistent rate of bioplastic degradation under differing cultivation conditions limits the intercomparison of results on biodegradation kinetics. In this study, we isolated a poly (Ɛ-caprolactone) (PCL)-degrading bacterium from a plastic-contaminated landfill and determined the principle-based biodegradation kinetics in a confined model system of varying cultivation conditions. Bacterial degradation of PCL films synthesized by different polymer number average molecular weights (Mn) and concentrations (% w/v) was investigated using both solid and liquid media at various temperatures. As a result, the most active gram-negative bacterial strain at ambient temperature (28 °C), designated CY2-9, was identified as Aquabacterium sp. Based on 16 S rRNA gene analysis. A clear zone around the bacterial colony was apparently exhibited during solid cultivation, and the diameter sizes increased with incubation time. During biodegradation processes in the PCL film, the thermal stability declined (determined by TGA; weight changes at critical temperature), whereas the crystalline proportion increased (determined by DSC; phase transition with temperature increment), implying preferential degradation of the amorphous region in the polymer structure. The surface morphologies (determined by SEM; electron optical system) were gradually hydrolyzed, creating destruction patterns as well as alterations in functional groups on film surfaces (determined by FT-IR; infrared spectrum of absorption or emission). In the kinetic study based on the weight loss of the PCL film (4.5 × 104 Da, 1% w/v), ∼1.5 (>±0.1) × 10-1 day-1 was obtained from linear regression for both solid and liquid media cultivation at 28 °C. The biodegradation efficiencies increased proportionally by a factor of 2.6-7.9, depending on the lower polymer number average molecular weight and lower concentration. Overall, our results are useful for measuring and/or predicting the degradation rates of PCL films by microorganisms in natural environments.
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Affiliation(s)
- Younggun Yoon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea; Division of Biotechnology, SELS Center, College of Environmental and Bioresource Sciences, Jeonbuk National University, Iksan, Jeonbuk, 54596, South Korea.
| | - Hyojung Park
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Sihyun An
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Jae-Hyung Ahn
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Bongkyu Kim
- Division of Biotechnology, SELS Center, College of Environmental and Bioresource Sciences, Jeonbuk National University, Iksan, Jeonbuk, 54596, South Korea
| | - Jaedon Shin
- Department of Environmental Engineering, Kunsan National University, Gunsan, 54150, Republic of Korea
| | - Ye-Eun Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Jehyeong Yeon
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Joon-Hui Chung
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Dayeon Kim
- Agricultural Microbiology Division, National Institute of Agricultural Sciences, 166 Nongsaengmyeong-ro, Iseo-myeon, Wanju-gun, Jeollabuk-do, 55365, Republic of Korea
| | - Min Cho
- Division of Biotechnology, SELS Center, College of Environmental and Bioresource Sciences, Jeonbuk National University, Iksan, Jeonbuk, 54596, South Korea
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5
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Avilan L, Lichtenstein BR, König G, Zahn M, Allen MD, Oliveira L, Clark M, Bemmer V, Graham R, Austin HP, Dominick G, Johnson CW, Beckham GT, McGeehan JE, Pickford AR. Concentration-Dependent Inhibition of Mesophilic PETases on Poly(ethylene terephthalate) Can Be Eliminated by Enzyme Engineering. CHEMSUSCHEM 2023; 16:e202202277. [PMID: 36811288 DOI: 10.1002/cssc.202202277] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 02/17/2023] [Indexed: 06/18/2023]
Abstract
Enzyme-based depolymerization is a viable approach for recycling of poly(ethylene terephthalate) (PET). PETase from Ideonella sakaiensis (IsPETase) is capable of PET hydrolysis under mild conditions but suffers from concentration-dependent inhibition. In this study, this inhibition is found to be dependent on incubation time, the solution conditions, and PET surface area. Furthermore, this inhibition is evident in other mesophilic PET-degrading enzymes to varying degrees, independent of the level of PET depolymerization activity. The inhibition has no clear structural basis, but moderately thermostable IsPETase variants exhibit reduced inhibition, and the property is completely absent in the highly thermostable HotPETase, previously engineered by directed evolution, which simulations suggest results from reduced flexibility around the active site. This work highlights a limitation in applying natural mesophilic hydrolases for PET hydrolysis and reveals an unexpected positive outcome of engineering these enzymes for enhanced thermostability.
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Affiliation(s)
- Luisana Avilan
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Bruce R Lichtenstein
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Gerhard König
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Michael Zahn
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Mark D Allen
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Liliana Oliveira
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Matilda Clark
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Victoria Bemmer
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Rosie Graham
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Harry P Austin
- Institute of Biochemistry, Department of Biotechnology & Enzyme Catalysis, University of Greifswald, D-17487, Greifswald, Germany
| | - Graham Dominick
- Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory, Golden, CO, 80401, United States
| | - Christopher W Johnson
- Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory, Golden, CO, 80401, United States
| | - Gregg T Beckham
- BOTTLE Consortium, Golden, CO 80401, United States
- Renewable Resources and Enabling Sciences Center, National Renewable Energy Laboratory, Golden, CO, 80401, United States
| | - John E McGeehan
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
| | - Andrew R Pickford
- Centre for Enzyme Innovation, School of Biological Sciences, Institute of Biological and Biomedical Sciences, University of Portsmouth, Portsmouth, PO1 2DY, United Kingdom
- BOTTLE Consortium, Golden, CO 80401, United States
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6
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Determinants for an Efficient Enzymatic Catalysis in Poly(Ethylene Terephthalate) Degradation. Catalysts 2023. [DOI: 10.3390/catal13030591] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/18/2023] Open
Abstract
The enzymatic degradation of the recalcitrant poly(ethylene terephthalate) (PET) has been an important biotechnological goal. The present review focuses on the state of the art in enzymatic degradation of PET, and the challenges ahead. This review covers (i) enzymes acting on PET, (ii) protein improvements through selection or engineering, (iii) strategies to improve biocatalyst–polymer interaction and monomer yields. Finally, this review discusses critical points on PET degradation, and their related experimental aspects, that include the control of physicochemical parameters. The search for, and engineering of, PET hydrolases, have been widely studied to achieve this, and several examples are discussed here. Many enzymes, from various microbial sources, have been studied and engineered, but recently true PET hydrolases (PETases), active at moderate temperatures, were reported. For a circular economy process, terephtalic acid (TPA) production is critical. Some thermophilic cutinases and engineered PETases have been reported to release terephthalic acid in significant amounts. Some bottlenecks in enzyme performance are discussed, including enzyme activity, thermal stability, substrate accessibility, PET microstructures, high crystallinity, molecular mass, mass transfer, and efficient conversion into reusable fragments.
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7
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Pirillo V, Orlando M, Battaglia C, Pollegioni L, Molla G. Efficient polyethylene terephthalate degradation at moderate temperature: a protein engineering study of LC-cutinase highlights the key role of residue 243. FEBS J 2023. [PMID: 36695006 DOI: 10.1111/febs.16736] [Citation(s) in RCA: 13] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Revised: 12/31/2022] [Accepted: 01/23/2023] [Indexed: 01/26/2023]
Abstract
Enzymatic degradation of poly(ethylene terephthalate) (PET) is becoming a reality because of the identification of novel PET-hydrolysing enzymes (PHEs) and the engineering of evolved enzyme variants. Here, improved variants of leaf-branch compost cutinase (LCC), a thermostable enzyme isolated by a metagenomic approach, were generated by a semi-rational protein engineering approach. Starting from a deleted LCC form lacking the secretion signal (ΔLCC), single and double variants possessing a higher activity on PET were isolated. The single-point F243T ΔLCC variant partially (~ 67%) depolymerized amorphous PET film producing ~ 21.9 mm of products after 27 h of reaction at 72 °C. The S101N/F243T ΔLCC double variant reached a further increase in activity on PET. Notably, for both single and double variants the highest conversion yield was obtained at 55 °C. Kinetics studies and molecular dynamics simulations support that a slight decreased affinity for PET is responsible for the superior degradation performance of the S101N/F243T variant and that this stems from a slightly higher flexibility of the active site region close to position 243. Furthermore, our findings question the need for a high reaction temperature for PET degradation, at least for LCC: at ≥ 70 °C, the conversion of amorphous PET into a more crystalline polymer, resistant to enzymatic hydrolysis, is favoured. The evolved S101N/F243T ΔLCC variant is able to depolymerize fully 1.3 g of untreated postconsumer PET waste in ≤ 3 days at 55 °C (using 1.25 mg of enzyme only), this making PET enzymatic degradation by engineering LCC a more ecofriendly and sustainable process.
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Affiliation(s)
- Valentina Pirillo
- "The Protein Factory 2.0", Department of Biotechnology and Life Sciences (DBSV), University of Insubria, Varese, Italy
| | - Marco Orlando
- "The Protein Factory 2.0", Department of Biotechnology and Life Sciences (DBSV), University of Insubria, Varese, Italy
| | - Caren Battaglia
- "The Protein Factory 2.0", Department of Biotechnology and Life Sciences (DBSV), University of Insubria, Varese, Italy
| | - Loredano Pollegioni
- "The Protein Factory 2.0", Department of Biotechnology and Life Sciences (DBSV), University of Insubria, Varese, Italy
| | - Gianluca Molla
- "The Protein Factory 2.0", Department of Biotechnology and Life Sciences (DBSV), University of Insubria, Varese, Italy
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8
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Pfaff L, Gao J, Li Z, Jäckering A, Weber G, Mican J, Chen Y, Dong W, Han X, Feiler CG, Ao YF, Badenhorst CPS, Bednar D, Palm GJ, Lammers M, Damborsky J, Strodel B, Liu W, Bornscheuer UT, Wei R. Multiple Substrate Binding Mode-Guided Engineering of a Thermophilic PET Hydrolase. ACS Catal 2022; 12:9790-9800. [PMID: 35966606 PMCID: PMC9361285 DOI: 10.1021/acscatal.2c02275] [Citation(s) in RCA: 42] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2022] [Revised: 07/06/2022] [Indexed: 12/13/2022]
Abstract
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Thermophilic polyester hydrolases (PES-H) have recently
enabled
biocatalytic recycling of the mass-produced synthetic polyester polyethylene
terephthalate (PET), which has found widespread use in the packaging
and textile industries. The growing demand for efficient PET hydrolases
prompted us to solve high-resolution crystal structures of two metagenome-derived
enzymes (PES-H1 and PES-H2) and notably also in complex with various
PET substrate analogues. Structural analyses and computational modeling
using molecular dynamics simulations provided an understanding of
how product inhibition and multiple substrate binding modes influence
key mechanistic steps of enzymatic PET hydrolysis. Key residues involved
in substrate-binding and those identified previously as mutational
hotspots in homologous enzymes were subjected to mutagenesis. At 72
°C, the L92F/Q94Y variant of PES-H1 exhibited 2.3-fold and 3.4-fold
improved hydrolytic activity against amorphous PET films and pretreated
real-world PET waste, respectively. The R204C/S250C variant of PES-H1
had a 6.4 °C higher melting temperature than the wild-type enzyme
but retained similar hydrolytic activity. Under optimal reaction conditions,
the L92F/Q94Y variant of PES-H1 hydrolyzed low-crystallinity PET materials
2.2-fold more efficiently than LCC ICCG, which was previously the
most active PET hydrolase reported in the literature. This property
makes the L92F/Q94Y variant of PES-H1 a good candidate for future
applications in industrial plastic recycling processes.
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Affiliation(s)
- Lara Pfaff
- Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
| | - Jian Gao
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, 32 West Seventh Avenue, Tianjin Airport Economic Area, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, 32 West Seventh Avenue, Tianjin
Airport Economic Area, Tianjin 300308, China
| | - Zhishuai Li
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, 32 West Seventh Avenue, Tianjin Airport Economic Area, Tianjin 300308, China
- University of Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049 China
| | - Anna Jäckering
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, Wilhelm-Johnen-Straße, 52428 Jülich, Germany
- Institute of Theoretical and Computational Chemistry, Heinrich Heine University, Düsseldorf, Universitätsstr. 1, 40225 Düsseldorf, Germany
| | - Gert Weber
- Helmholtz-Zentrum Berlin für Materialien und Energie, Hahn-Meitner-Platz 1, 14109 Berlin, Germany
| | - Jan Mican
- Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5/C13, 625 00 Brno, Czech Republic
| | - Yinping Chen
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Weiliang Dong
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, China
| | - Xu Han
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, 32 West Seventh Avenue, Tianjin Airport Economic Area, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, 32 West Seventh Avenue, Tianjin
Airport Economic Area, Tianjin 300308, China
| | - Christian G. Feiler
- Helmholtz-Zentrum Berlin für Materialien und Energie, Hahn-Meitner-Platz 1, 14109 Berlin, Germany
| | - Yu-Fei Ao
- Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
- CAS Key Laboratory of Molecular Recognition and Function, Institute of Chemistry, Chinese Academy of Sciences, Zhongguancun North First Street 2, Beijing 100190, China
| | - Christoffel P. S. Badenhorst
- Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
| | - David Bednar
- Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5/C13, 625 00 Brno, Czech Republic
- International Clinical Research Center, St. Anne’s University Hospital, Pekarska 53, 656 91 Brno, Czech Republic
| | - Gottfried J. Palm
- Department Synthetic and Structural Biochemistry, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
| | - Michael Lammers
- Department Synthetic and Structural Biochemistry, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
| | - Jiri Damborsky
- Loschmidt Laboratories, Department of Experimental Biology and RECETOX, Faculty of Science, Masaryk University, Kamenice 5/C13, 625 00 Brno, Czech Republic
- International Clinical Research Center, St. Anne’s University Hospital, Pekarska 53, 656 91 Brno, Czech Republic
| | - Birgit Strodel
- Institute of Biological Information Processing: Structural Biochemistry (IBI-7), Forschungszentrum Jülich, Wilhelm-Johnen-Straße, 52428 Jülich, Germany
- Institute of Theoretical and Computational Chemistry, Heinrich Heine University, Düsseldorf, Universitätsstr. 1, 40225 Düsseldorf, Germany
| | - Weidong Liu
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, 32 West Seventh Avenue, Tianjin Airport Economic Area, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, 32 West Seventh Avenue, Tianjin
Airport Economic Area, Tianjin 300308, China
- University of Chinese Academy of Sciences, 19A Yuquan Road, Beijing 100049 China
| | - Uwe T. Bornscheuer
- Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
| | - Ren Wei
- Department of Biotechnology & Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, 17487 Greifswald, Germany
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9
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Meyer Cifuentes IE, Wu P, Zhao Y, Liu W, Neumann-Schaal M, Pfaff L, Barys J, Li Z, Gao J, Han X, Bornscheuer UT, Wei R, Öztürk B. Molecular and Biochemical Differences of the Tandem and Cold-Adapted PET Hydrolases Ple628 and Ple629, Isolated From a Marine Microbial Consortium. Front Bioeng Biotechnol 2022; 10:930140. [PMID: 35935485 PMCID: PMC9350882 DOI: 10.3389/fbioe.2022.930140] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2022] [Accepted: 05/23/2022] [Indexed: 01/27/2023] Open
Abstract
Polybutylene adipate terephthalate (PBAT) is a biodegradable alternative to polyethylene and can be broadly used in various applications. These polymers can be degraded by hydrolases of terrestrial and aquatic origin. In a previous study, we identified tandem PETase-like hydrolases (Ples) from the marine microbial consortium I1 that were highly expressed when a PBAT blend was supplied as the only carbon source. In this study, the tandem Ples, Ple628 and Ple629, were recombinantly expressed and characterized. Both enzymes are mesophilic and active on a wide range of oligomers. The activities of the Ples differed greatly when model substrates, PBAT-modified polymers or PET nanoparticles were supplied. Ple629 was always more active than Ple628. Crystal structures of Ple628 and Ple629 revealed a structural similarity to other PETases and can be classified as member of the PETases IIa subclass, α/β hydrolase superfamily. Our results show that the predicted functions of Ple628 and Ple629 agree with the bioinformatic predictions, and these enzymes play a significant role in the plastic degradation by the consortium.
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Affiliation(s)
- Ingrid E. Meyer Cifuentes
- Junior Research Group Microbial Biotechnology, Leibniz Institute DSMZ—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Pan Wu
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
- College of Biotechnology, Tianjin University of Science and Technology, Tianjin, China
| | - Yipei Zhao
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
- College of Biotechnology, Tianjin University of Science and Technology, Tianjin, China
| | - Weidong Liu
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
| | - Meina Neumann-Schaal
- Research Group Metabolomics, Leibniz Institute DSMZ—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Lara Pfaff
- Junior Research Group Plastic Biodegradation, Institute of Biochemistry, Department of Biotechnology and Enzyme Catalysis, University of Greifswald, Greifswald, Germany
| | - Justyna Barys
- Junior Research Group Microbial Biotechnology, Leibniz Institute DSMZ—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
| | - Zhishuai Li
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
| | - Jian Gao
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
| | - Xu Han
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
| | - Uwe T. Bornscheuer
- Department of Biotechnology and Enzyme Catalysis, Institute of Biochemistry, University of Greifswald, Greifswald, Germany
| | - Ren Wei
- Junior Research Group Plastic Biodegradation, Institute of Biochemistry, Department of Biotechnology and Enzyme Catalysis, University of Greifswald, Greifswald, Germany
| | - Başak Öztürk
- Junior Research Group Microbial Biotechnology, Leibniz Institute DSMZ—German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
- *Correspondence: Başak Öztürk,
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10
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Sonnendecker C, Oeser J, Richter PK, Hille P, Zhao Z, Fischer C, Lippold H, Blázquez‐Sánchez P, Engelberger F, Ramírez‐Sarmiento CA, Oeser T, Lihanova Y, Frank R, Jahnke H, Billig S, Abel B, Sträter N, Matysik J, Zimmermann W. Low Carbon Footprint Recycling of Post-Consumer PET Plastic with a Metagenomic Polyester Hydrolase. CHEMSUSCHEM 2022; 15:e202101062. [PMID: 34129279 PMCID: PMC9303343 DOI: 10.1002/cssc.202101062] [Citation(s) in RCA: 42] [Impact Index Per Article: 21.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Revised: 06/14/2021] [Indexed: 06/01/2023]
Abstract
Earth is flooded with plastics and the need for sustainable recycling strategies for polymers has become increasingly urgent. Enzyme-based hydrolysis of post-consumer plastic is an emerging strategy for closed-loop recycling of polyethylene terephthalate (PET). The polyester hydrolase PHL7, isolated from a compost metagenome, completely hydrolyzes amorphous PET films, releasing 91 mg of terephthalic acid per hour and mg of enzyme. Vertical scanning interferometry shows degradation rates of the PET film of 6.8 μm h-1 . Structural analysis indicates the importance of leucine at position 210 for the extraordinarily high PET-hydrolyzing activity of PHL7. Within 24 h, 0.6 mgenzyme gPET -1 completely degrades post-consumer thermoform PET packaging in an aqueous buffer at 70 °C without any energy-intensive pretreatments. Terephthalic acid recovered from the enzymatic hydrolysate is then used to synthesize virgin PET, demonstrating the potential of polyester hydrolases as catalysts in sustainable PET recycling processes with a low carbon footprint.
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Affiliation(s)
| | - Juliane Oeser
- Department of Microbiology and Bioprocess Technology Institute of BiochemistryLeipzig University04103LeipzigGermany
| | - P. Konstantin Richter
- Institute of Bioanalytical Chemistry, Centre for Biotechnology and BiomedicineLeipzig University04103LeipzigGermany
| | - Patrick Hille
- Department of Microbiology and Bioprocess Technology Institute of BiochemistryLeipzig University04103LeipzigGermany
| | - Ziyue Zhao
- Institute of Analytical ChemistryLeipzig University04103LeipzigGermany
| | - Cornelius Fischer
- Helmholtz-Zentrum Dresden-Rossendorf (HZDR)Institut für Ressourcenökologie Abteilung Reaktiver TransportD-04318LeipzigGermany
| | - Holger Lippold
- Helmholtz-Zentrum Dresden-Rossendorf (HZDR)Institut für Ressourcenökologie Abteilung Reaktiver TransportD-04318LeipzigGermany
| | - Paula Blázquez‐Sánchez
- Institute for Biological and Medical Engineering Schools of Engineering, Medicine and Biological SciencesPontificia Universidad Católica de ChileSantiago7820436Chile
- ANID—Millennium Science Initiative ProgramMillennium Institute for Integrative Biology (iBio)Santiago8331150Chile
| | - Felipe Engelberger
- Institute for Biological and Medical Engineering Schools of Engineering, Medicine and Biological SciencesPontificia Universidad Católica de ChileSantiago7820436Chile
- ANID—Millennium Science Initiative ProgramMillennium Institute for Integrative Biology (iBio)Santiago8331150Chile
| | - César A. Ramírez‐Sarmiento
- Institute for Biological and Medical Engineering Schools of Engineering, Medicine and Biological SciencesPontificia Universidad Católica de ChileSantiago7820436Chile
- ANID—Millennium Science Initiative ProgramMillennium Institute for Integrative Biology (iBio)Santiago8331150Chile
| | - Thorsten Oeser
- Department of Microbiology and Bioprocess Technology Institute of BiochemistryLeipzig University04103LeipzigGermany
| | - Yuliia Lihanova
- Institute of Analytical ChemistryLeipzig University04103LeipzigGermany
| | - Ronny Frank
- Centre for Biotechnology and Biomedicine Molecular Biological-Biochemical Processing TechnologyLeipzig University04103LeipzigGermany
| | - Heinz‐Georg Jahnke
- Centre for Biotechnology and Biomedicine Molecular Biological-Biochemical Processing TechnologyLeipzig University04103LeipzigGermany
| | - Susan Billig
- Institute of Analytical ChemistryLeipzig University04103LeipzigGermany
| | - Bernd Abel
- Leibniz Institute of Surface Engineering (IOM)Wilhelm-Ostwald-Institute of Physical and Theoretical Chemistry04103LeipzigGermany
| | - Norbert Sträter
- Institute of Bioanalytical Chemistry, Centre for Biotechnology and BiomedicineLeipzig University04103LeipzigGermany
| | - Jörg Matysik
- Institute of Analytical ChemistryLeipzig University04103LeipzigGermany
| | - Wolfgang Zimmermann
- Institute of Analytical ChemistryLeipzig University04103LeipzigGermany
- Department of Microbiology and Bioprocess Technology Institute of BiochemistryLeipzig University04103LeipzigGermany
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11
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Duvigneau S, Dürr R, Wulkow M, Kienle A. Multiscale modeling of the microbial production of polyhydroxyalkanoates using two carbon sources. Comput Chem Eng 2022. [DOI: 10.1016/j.compchemeng.2022.107740] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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12
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Pirillo V, Orlando M, Tessaro D, Pollegioni L, Molla G. An Efficient Protein Evolution Workflow for the Improvement of Bacterial PET Hydrolyzing Enzymes. Int J Mol Sci 2021; 23:ijms23010264. [PMID: 35008691 PMCID: PMC8745736 DOI: 10.3390/ijms23010264] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 12/23/2021] [Accepted: 12/24/2021] [Indexed: 12/23/2022] Open
Abstract
Enzymatic degradation is a promising green approach to bioremediation and recycling of the polymer poly(ethylene terephthalate) (PET). In the past few years, several PET-hydrolysing enzymes (PHEs) have been discovered, and new variants have been evolved by protein engineering. Here, we report on a straightforward workflow employing semi-rational protein engineering combined to a high-throughput screening of variant libraries for their activity on PET nanoparticles. Using this approach, starting from the double variant W159H/S238F of Ideonella sakaiensis 201-F6 PETase, the W159H/F238A-ΔIsPET variant, possessing a higher hydrolytic activity on PET, was identified. This variant was stabilized by introducing two additional known substitutions (S121E and D186H) generating the TS-ΔIsPET variant. By using 0.1 mg mL−1 of TS-ΔIsPET, ~10.6 mM of degradation products were produced in 2 days from 9 mg mL−1 PET microparticles (~26% depolymerization yield). Indeed, TS-ΔIsPET allowed a massive degradation of PET nanoparticles (>80% depolymerization yield) in 1.5 h using only 20 μg of enzyme mL−1. The rationale underlying the effect on the catalytic parameters due to the F238A substitution was studied by enzymatic investigation and molecular dynamics/docking analysis. The present workflow is a well-suited protocol for the evolution of PHEs to help generate an efficient enzymatic toolbox for polyester degradation.
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Affiliation(s)
- Valentina Pirillo
- “The Protein Factory 2.0”, Dipartimento di Biotecnologie e Scienze della Vita, Università degli Studi dell’Insubria, Via J.H. Dunant 3, 21100 Varese, Italy; (V.P.); (M.O.)
| | - Marco Orlando
- “The Protein Factory 2.0”, Dipartimento di Biotecnologie e Scienze della Vita, Università degli Studi dell’Insubria, Via J.H. Dunant 3, 21100 Varese, Italy; (V.P.); (M.O.)
| | - Davide Tessaro
- Dipartimento di Chimica, Materiali e Ingegneria Chimica “Giulio Natta”, Politecnico di Milano, p.za L. da Vinci 32, 20133 Milano, Italy;
| | - Loredano Pollegioni
- “The Protein Factory 2.0”, Dipartimento di Biotecnologie e Scienze della Vita, Università degli Studi dell’Insubria, Via J.H. Dunant 3, 21100 Varese, Italy; (V.P.); (M.O.)
- Correspondence: (L.P.); (G.M.)
| | - Gianluca Molla
- “The Protein Factory 2.0”, Dipartimento di Biotecnologie e Scienze della Vita, Università degli Studi dell’Insubria, Via J.H. Dunant 3, 21100 Varese, Italy; (V.P.); (M.O.)
- Correspondence: (L.P.); (G.M.)
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13
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Experimental and mathematical modeling approaches for biocatalytic post-consumer poly(ethylene terephthalate) hydrolysis. J Biotechnol 2021; 341:76-85. [PMID: 34534594 DOI: 10.1016/j.jbiotec.2021.09.007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 08/12/2021] [Accepted: 09/12/2021] [Indexed: 11/22/2022]
Abstract
The environmental impact arising from poly(ethylene terephthalate) (PET) waste is notable worldwide. Enzymatic PET hydrolysis can provide chemicals that serve as intermediates for value-added product synthesis and savings in the resources. In the present work, some reaction parameters were evaluated on the hydrolysis of post-consumer PET (PC-PET) using a cutinase from Humicola insolens (HiC). The increase in PC-PET specific area leads to an 8.5-fold increase of the initial enzymatic hydrolysis rate (from 0.2 to 1.7 mmol L-1 h-1), showing that this parameter plays a crucial role in PET hydrolysis reaction. The effect of HiC concentration was investigated, and the enzymatic PC-PET hydrolysis kinetic parameters were estimated based on three different mathematical models describing heterogeneous biocatalysis. The model that best fits the experimental data (R2 = 0.981) indicated 1.68 mgprotein mL-1 as a maximum value of the enzyme concentration to optimize the reaction rate. The HiC thermal stability was evaluated, considering that it is a key parameter for its efficient use in PET degradation. The enzyme half-life was shown to be 110 h at 70 ºC and pH 7.0, which outperforms most of the known enzymes displaying PET hydrolysis activity. The results evidence that HiC is a very promising biocatalyst for efficient PET depolymerization.
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14
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Pirillo V, Pollegioni L, Molla G. Analytical methods for the investigation of enzyme-catalyzed degradation of polyethylene terephthalate. FEBS J 2021; 288:4730-4745. [PMID: 33792200 PMCID: PMC8453989 DOI: 10.1111/febs.15850] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Revised: 03/03/2021] [Accepted: 03/29/2021] [Indexed: 01/11/2023]
Abstract
The polyester PET (poly(ethylene terephthalate)) plastic is chemically inert and remarkably persistent, posing relevant and global pollution concerns due to its accumulation in ecosystems across the globe. In past years, research focused on identifying bacteria active on PET and on the specific enzymes responsible for its degradation. Here, the enzymatic degradation of PET can be considered as an 'erosion process' that takes place on the surface of an insoluble material and results in an unusual, substrate-limited kinetic condition. In this review, we report on the most suitable models to evaluate the kinetics of PET-hydrolyzing enzymes, which takes into consideration the amount of enzyme adsorbed on the substrate, the enzyme-accessible ester bonds, and the product inhibition effects. Careful kinetic analysis is especially relevant to compare enzymes from different sources and evolved variants generated by protein engineering studies as well. Furthermore, the analytical methods most suitable to screen natural bacteria and recombinant variant libraries generated by protein engineering have been also reported. These methods rely on different detection systems and are performed both on model compounds and on different PET samples (e.g., nanoparticles, microparticles, and waste products). All this meaningful information represents an optimal starting point and boosts the process of identifying systems able to biologically recycle PET waste products.
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Affiliation(s)
- Valentina Pirillo
- The Protein Factory 2.0’Dipartimento di Biotecnologie e Scienze della VitaUniversità degli Studi dell'InsubriaVareseItaly
| | - Loredano Pollegioni
- The Protein Factory 2.0’Dipartimento di Biotecnologie e Scienze della VitaUniversità degli Studi dell'InsubriaVareseItaly
| | - Gianluca Molla
- The Protein Factory 2.0’Dipartimento di Biotecnologie e Scienze della VitaUniversità degli Studi dell'InsubriaVareseItaly
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15
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Vogel K, Wei R, Pfaff L, Breite D, Al-Fathi H, Ortmann C, Estrela-Lopis I, Venus T, Schulze A, Harms H, Bornscheuer UT, Maskow T. Enzymatic degradation of polyethylene terephthalate nanoplastics analyzed in real time by isothermal titration calorimetry. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 773:145111. [PMID: 33940717 DOI: 10.1016/j.scitotenv.2021.145111] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Revised: 01/06/2021] [Accepted: 01/06/2021] [Indexed: 06/12/2023]
Abstract
Plastics are globally used for a variety of benefits. As a consequence of poor recycling or reuse, improperly disposed plastic waste accumulates in terrestrial and aquatic ecosystems to a considerable extent. Large plastic waste items become fragmented to small particles through mechanical and (photo)chemical processes. Particles with sizes ranging from millimeter (microplastics, <5 mm) to nanometer (nanoplastics, NP, <100 nm) are apparently persistent and have adverse effects on ecosystems and human health. Current research therefore focuses on whether and to what extent microorganisms or enzymes can degrade these NP. In this study, we addressed the question of what information isothermal titration calorimetry, which tracks the heat of reaction of the chain scission of a polyester, can provide about the kinetics and completeness of the degradation process. The majority of the heat represents the cleavage energy of the ester bonds in polymer backbones providing real-time kinetic information. Calorimetry operates even in complex matrices. Using the example of the cutinase-catalyzed degradation of polyethylene terephthalate (PET) nanoparticles, we found that calorimetry (isothermal titration calorimetry-ITC) in combination with thermokinetic models is excellently suited for an in-depth analysis of the degradation processes of NP. For instance, we can separately quantify i) the enthalpy of surface adsorption ∆AdsH = 129 ± 2 kJ mol-1, ii) the enthalpy of the cleavage of the ester bonds ∆EBH = -58 ± 1.9 kJ mol-1 and the apparent equilibrium constant of the enzyme substrate complex K = 0.046 ± 0.015 g L-1. It could be determined that the heat production of PET NP degradation depends to 95% on the reaction heat and only to 5% on the adsorption heat. The fact that the percentage of cleaved ester bonds (η = 12.9 ± 2.4%) is quantifiable with the new method is of particular practical importance. The new method promises a quantification of enzymatic and microbial adsorption to NP and their degradation in mimicked real-world aquatic conditions.
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Affiliation(s)
- Kristina Vogel
- Department of Environmental Microbiology, Helmholtz-Centre for Environmental Research - UFZ, Permoserstraße 15, D-04318 Leipzig, Germany; Institute for Drug Discovery, Leipzig University Medical School, Leipzig University, Bruederstr, 34, D-04103 Leipzig, Germany
| | - Ren Wei
- Department of Biotechnology and Enzyme Catalysis, Institute for Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, D-17487 Greifswald, Germany.
| | - Lara Pfaff
- Department of Biotechnology and Enzyme Catalysis, Institute for Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, D-17487 Greifswald, Germany
| | - Daniel Breite
- Leibniz Institute of Surface Engineering (IOM), Permoserstraße 15, D-04318 Leipzig, Germany
| | - Hassan Al-Fathi
- Department of Environmental Microbiology, Helmholtz-Centre for Environmental Research - UFZ, Permoserstraße 15, D-04318 Leipzig, Germany
| | | | - Irina Estrela-Lopis
- Institute for Medical Physics and Biophysics, Medical Faculty, Leipzig University, Härtelstr, 16-18, D-04107 Leipzig, Germany
| | - Tom Venus
- Institute for Medical Physics and Biophysics, Medical Faculty, Leipzig University, Härtelstr, 16-18, D-04107 Leipzig, Germany
| | - Agnes Schulze
- Leibniz Institute of Surface Engineering (IOM), Permoserstraße 15, D-04318 Leipzig, Germany
| | - Hauke Harms
- Department of Environmental Microbiology, Helmholtz-Centre for Environmental Research - UFZ, Permoserstraße 15, D-04318 Leipzig, Germany
| | - Uwe T Bornscheuer
- Department of Biotechnology and Enzyme Catalysis, Institute for Biochemistry, University of Greifswald, Felix-Hausdorff-Str. 4, D-17487 Greifswald, Germany
| | - Thomas Maskow
- Department of Environmental Microbiology, Helmholtz-Centre for Environmental Research - UFZ, Permoserstraße 15, D-04318 Leipzig, Germany.
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16
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Bååth JA, Borch K, Jensen K, Brask J, Westh P. Comparative Biochemistry of Four Polyester (PET) Hydrolases*. Chembiochem 2021; 22:1627-1637. [PMID: 33351214 DOI: 10.1002/cbic.202000793] [Citation(s) in RCA: 46] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Revised: 12/22/2020] [Indexed: 11/08/2022]
Abstract
The potential of bioprocessing in a circular plastic economy has strongly stimulated research into the enzymatic degradation of different synthetic polymers. Particular interest has been devoted to the commonly used polyester, poly(ethylene terephthalate) (PET), and a number of PET hydrolases have been described. However, a kinetic framework for comparisons of PET hydrolases (or other plastic-degrading enzymes) acting on the insoluble substrate has not been established. Herein, we propose such a framework, which we have tested against kinetic measurements for four PET hydrolases. The analysis provided values of kcat and KM , as well as an apparent specificity constant in the conventional units of M-1 s-1 . These parameters, together with experimental values for the number of enzyme attack sites on the PET surface, enabled comparative analyses. A variant of the PET hydrolase from Ideonella sakaiensis was the most efficient enzyme at ambient conditions; it relied on a high kcat rather than a low KM . Moreover, both soluble and insoluble PET fragments were consistently hydrolyzed much faster than intact PET. This suggests that interactions between polymer strands slow down PET degradation, whereas the chemical steps of catalysis and the low accessibility associated with solid substrate were less important for the overall rate. Finally, the investigated enzymes showed a remarkable substrate affinity, and reached half the saturation rate on PET when the concentration of attack sites in the suspension was only about 50 nM. We propose that this is linked to nonspecific adsorption, which promotes the nearness of enzyme and attack sites.
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Affiliation(s)
- Jenny Arnling Bååth
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads, 2800 Kgs., Lyngby, Denmark
| | - Kim Borch
- Novozymes A/S, Biologiens Vej 2, 2800 Kgs., Lyngby, Denmark
| | - Kenneth Jensen
- Novozymes A/S, Biologiens Vej 2, 2800 Kgs., Lyngby, Denmark
| | - Jesper Brask
- Novozymes A/S, Biologiens Vej 2, 2800 Kgs., Lyngby, Denmark
| | - Peter Westh
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads, 2800 Kgs., Lyngby, Denmark
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17
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Ojha N, Das N. Fabrication and characterization of biodegradable PHBV/SiO 2 nanocomposite for thermo-mechanical and antibacterial applications in food packaging. IET Nanobiotechnol 2020; 14:785-795. [PMID: 33399109 DOI: 10.1049/iet-nbt.2020.0066] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
In the present study, biogenic silica nanoparticles (bSNPs) were synthesized from groundnut shells, and thoroughly characterized to understand its phase, and microstructure properties. The biopolymer was synthesized from yeast Wickerhamomyces anomalus and identified as Poly (3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) by GC-MS and NMR analysis. The bSNPs were reinforced to fabricate PHBV/SiO2 nanocomposites via solution casting technique. The fabricated PHBV/SiO2 nanocomposites revealed intercalated hybrid interaction between the bSNPs and PHBV matrix through XRD analysis. PHBV/SiO2 nanocomposites showed significant improvement in physical, chemical, thermo-mechanical and biodegradation properties as compared to the bare PHBV. The cell viability study revealed excellent biocompatibility against L929 mouse fibroblast cells. The antibacterial activity of PHBV/SiO2 nanocomposites was found to be progressively improved upon increasing bSNPs concentration against E. coli and S. aureus.
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Affiliation(s)
- Nupur Ojha
- Bioremediation Laboratory, Department of Biomedical Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore-632014, Tamil Nadu, India
| | - Nilanjana Das
- Bioremediation Laboratory, Department of Biomedical Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore-632014, Tamil Nadu, India.
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18
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Polyák P, Dohovits E, Nagy GN, Vértessy BG, Vörös G, Pukánszky B. Enzymatic degradation of poly-[(R)-3-hydroxybutyrate]: Mechanism, kinetics, consequences. Int J Biol Macromol 2018; 112:156-162. [DOI: 10.1016/j.ijbiomac.2018.01.104] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2017] [Revised: 01/10/2018] [Accepted: 01/15/2018] [Indexed: 01/08/2023]
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19
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Shirke AN, White C, Englaender JA, Zwarycz A, Butterfoss GL, Linhardt RJ, Gross RA. Stabilizing Leaf and Branch Compost Cutinase (LCC) with Glycosylation: Mechanism and Effect on PET Hydrolysis. Biochemistry 2018; 57:1190-1200. [PMID: 29328676 DOI: 10.1021/acs.biochem.7b01189] [Citation(s) in RCA: 93] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Cutinases are polyester hydrolases that show a remarkable capability to hydrolyze polyethylene terephthalate (PET) to its monomeric units. This revelation has stimulated research aimed at developing sustainable and green cutinase-catalyzed PET recycling methods. Leaf and branch compost cutinase (LCC) is particularly suited toward these ends given its relatively high PET hydrolysis activity and thermostability. Any practical enzymatic PET recycling application will require that the protein have kinetic stability at or above the PET glass transition temperature (Tg, i.e., 70 °C). This paper elucidates the thermodynamics and kinetics of LCC conformational and colloidal stability. Aggregation emerged as a major contributor that reduces LCC kinetic stability. In its native state, LCC is prone to aggregation owing to electrostatic interactions. Further, with increasing temperature, perturbation of LCC's tertiary structure and corresponding exposure of hydrophobic domains leads to rapid aggregation. Glycosylation was employed in an attempt to impede LCC aggregation. Owing to the presence of three putative N-glycosylation sites, expression of native LCC in Pichia pastoris resulted in the production of glycosylated LCC (LCC-G). LCC-G showed improved stability to native state aggregation while increasing the temperature for thermal induced aggregation by 10 °C. Furthermore, stabilization against thermal aggregation resulted in improved catalytic PET hydrolysis both at its optimum temperature and concentration.
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Affiliation(s)
- Abhijit N Shirke
- Department of Chemistry and Chemiscal Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
| | - Christine White
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
| | - Jacob A Englaender
- Department of Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
| | - Allison Zwarycz
- Department of Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
| | - Glenn L Butterfoss
- Center for Genomics and Systems Biology, New York University Abu Dhabi , Abu Dhabi, UAE
| | - Robert J Linhardt
- Department of Chemistry and Chemiscal Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Department of Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
| | - Richard A Gross
- Department of Chemistry and Chemiscal Biology, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.,Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute , Troy, New York 12180, United States
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20
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Heidarzadeh N, Rafizadeh M, Taromi FA, Puiggalí J, Del Valle LJ, Franco L. Preparation of random poly(butylene alkylate-co-terephthalate)s with different methylene group contents: crystallization and degradation kinetics. JOURNAL OF POLYMER RESEARCH 2017. [DOI: 10.1007/s10965-017-1318-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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21
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Laycock B, Nikolić M, Colwell JM, Gauthier E, Halley P, Bottle S, George G. Lifetime prediction of biodegradable polymers. Prog Polym Sci 2017. [DOI: 10.1016/j.progpolymsci.2017.02.004] [Citation(s) in RCA: 301] [Impact Index Per Article: 43.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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22
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Polyák P, Rácz P, Rózsa P, Nagy GN, Vértessy BG, Pukánszky B. The novel technique of vapor pressure analysis to monitor the enzymatic degradation of PHB by HPLC chromatography. Anal Biochem 2017; 521:20-27. [DOI: 10.1016/j.ab.2017.01.004] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2016] [Revised: 01/03/2017] [Accepted: 01/05/2017] [Indexed: 11/16/2022]
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23
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Wei R, Oeser T, Schmidt J, Meier R, Barth M, Then J, Zimmermann W. Engineered bacterial polyester hydrolases efficiently degrade polyethylene terephthalate due to relieved product inhibition. Biotechnol Bioeng 2016; 113:1658-65. [DOI: 10.1002/bit.25941] [Citation(s) in RCA: 119] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2015] [Revised: 01/11/2016] [Accepted: 01/19/2016] [Indexed: 11/11/2022]
Affiliation(s)
- Ren Wei
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
| | - Thorsten Oeser
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
| | - Juliane Schmidt
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
| | - René Meier
- Department of Biochemistry and Bioorganic Chemistry; Institute of Biochemistry; Leipzig University; Leipzig Germany
| | - Markus Barth
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
| | - Johannes Then
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
| | - Wolfgang Zimmermann
- Department of Microbiology and Bioprocess Technology; Institute of Biochemistry; Leipzig University; Johannisallee 21-23 04103 Leipzig Germany
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24
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Influence of surface charge, binding site residues and glycosylation on Thielavia terrestris cutinase biochemical characteristics. Appl Microbiol Biotechnol 2016; 100:4435-46. [PMID: 26758295 DOI: 10.1007/s00253-015-7254-1] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2015] [Revised: 09/13/2015] [Accepted: 12/12/2015] [Indexed: 02/06/2023]
Abstract
Cutinases are esterases of industrial importance for applications in recycling and surface modification of polyesters. The cutinase from Thielavia terrestris (TtC) is distinct in terms of its ability to retain its stability and activity in acidic pH. Stability and activity in acidic pHs are desirable for esterases as the pH of the reaction tends to go down with the generation of acid. The pH stability and activity are governed by the charged state of the residues involved in catalysis or in substrate binding. In this study, we performed the detailed structural and biochemical characterization of TtC coupled with surface charge analysis to understand its acidic tolerance. The stability of TtC in acidic pH was rationalized by evaluating the contribution of charge interactions to the Gibbs free energy of unfolding at varying pHs. The activity of TtC was found to be limited by substrate binding affinity, which is a function of the surface charge. Additionally, the presence of glycosylation affects the biochemical characteristics of TtC owing to steric interactions with residues involved in substrate binding.
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25
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Michalak M, Kwiecień M, Kawalec M, Kurcok P. Oxidative degradation of poly(3-hydroxybutyrate). A new method of synthesis for the malic acid copolymers. RSC Adv 2016. [DOI: 10.1039/c5ra27041c] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Herein was presented by the first time the green way to obtain poly(3-hydroxybutyrate-co-3-malic acid) from natural origin poly(3-hydroxybutyrate).
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Affiliation(s)
- Michał Michalak
- Centre of Polymer and Carbon Materials
- Polish Academy of Sciences
- 41-819 Zabrze
- Poland
| | - Michał Kwiecień
- Centre of Polymer and Carbon Materials
- Polish Academy of Sciences
- 41-819 Zabrze
- Poland
| | - Michał Kawalec
- Centre of Polymer and Carbon Materials
- Polish Academy of Sciences
- 41-819 Zabrze
- Poland
| | - Piotr Kurcok
- Centre of Polymer and Carbon Materials
- Polish Academy of Sciences
- 41-819 Zabrze
- Poland
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26
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A comprehensive review on biodegradable polymers and their blends used in controlled-release fertilizer processes. REV CHEM ENG 2015. [DOI: 10.1515/revce-2014-0021] [Citation(s) in RCA: 84] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
AbstractBiodegradable polymer-coated controlled-release fertilizers (PC-CRFs) are essential means to reduce cost, improve marketability, conserve land fertility, achieve high crop yields and combat climate challenges. It is known that about 15–30% of any fertilizer packed in a PC-CRF does not get released due to the concentration gradient difference across the polymer coatings. To release the trapped fertilizer(s), it is desired that polymer-based coatings should biodegrade after the fertilizer is completely released into the soil. This review has aimed to provide a comprehensive account for various biodegradable polymers/blends derived either from natural or synthetic sources which are cited in the literature for PC-CRFs. In addition, this review covers the discussion on their classification criteria, trends in the processes of fertilizer coatings, methodological issues for their biodegradation assessment, coating attributes that affect the biodegradability and an outlook into their biodegradation kinetic models that involve enzymes and microbial processes. It also concludes that experimental as well as modeling data are insufficient to assess the biodegradation contribution of the overall nutrient release in PC-CRFs.
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27
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Panayotidou E, Baklavaridis A, Zuburtikudis I, Achilias DS. Nanocomposites of poly(3-hydroxybutyrate)/organomodified montmorillonite: Effect of the nanofiller on the polymer's biodegradation. J Appl Polym Sci 2014. [DOI: 10.1002/app.41656] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Elpiniki Panayotidou
- Department of Mechanical and Industrial Design Engineering; TEI of Western Macedonia; 50100 Kozani Greece
- Department of Chemistry; Aristotle University of Thessaloniki; 54124 Thessaloniki Greece
| | - Apostolos Baklavaridis
- Department of Mechanical and Industrial Design Engineering; TEI of Western Macedonia; 50100 Kozani Greece
| | - Ioannis Zuburtikudis
- Department of Mechanical and Industrial Design Engineering; TEI of Western Macedonia; 50100 Kozani Greece
- Department of Chemical and Petroleum Engineering; United Arab Emirates University; Al Ain UAE
| | - Dimitris S. Achilias
- Department of Chemistry; Aristotle University of Thessaloniki; 54124 Thessaloniki Greece
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28
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Wei R, Oeser T, Zimmermann W. Synthetic polyester-hydrolyzing enzymes from thermophilic actinomycetes. ADVANCES IN APPLIED MICROBIOLOGY 2014; 89:267-305. [PMID: 25131405 DOI: 10.1016/b978-0-12-800259-9.00007-x] [Citation(s) in RCA: 65] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Thermophilic actinomycetes produce enzymes capable of hydrolyzing synthetic polyesters such as polyethylene terephthalate (PET). In addition to carboxylesterases, which have hydrolytic activity predominantly against PET oligomers, esterases related to cutinases also hydrolyze synthetic polymers. The production of these enzymes by actinomycetes as well as their recombinant expression in heterologous hosts is described and their catalytic activity against polyester substrates is compared. Assays to analyze the enzymatic hydrolysis of synthetic polyesters are evaluated, and a kinetic model describing the enzymatic heterogeneous hydrolysis process is discussed. Structure-function and structure-stability relationships of actinomycete polyester hydrolases are compared based on molecular dynamics simulations and recently solved protein structures. In addition, recent progress in enhancing their activity and thermal stability by random or site-directed mutagenesis is presented.
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Affiliation(s)
- Ren Wei
- Department of Microbiology and Bioprocess Technology, Institute of Biochemistry, University of Leipzig, Leipzig, Germany
| | - Thorsten Oeser
- Department of Microbiology and Bioprocess Technology, Institute of Biochemistry, University of Leipzig, Leipzig, Germany
| | - Wolfgang Zimmermann
- Department of Microbiology and Bioprocess Technology, Institute of Biochemistry, University of Leipzig, Leipzig, Germany.
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29
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Wei R, Oeser T, Barth M, Weigl N, Lübs A, Schulz-Siegmund M, Hacker MC, Zimmermann W. Turbidimetric analysis of the enzymatic hydrolysis of polyethylene terephthalate nanoparticles. ACTA ACUST UNITED AC 2014. [DOI: 10.1016/j.molcatb.2013.08.010] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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30
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Beltrami LVR, Bandeira JAV, Scienza LC, Zattera AJ. Biodegradable composites: Morphological, chemical, thermal, and mechanical properties of composites of poly(hydroxybutyrate-co-hydroxyvalerate) with curaua fibers after exposure to simulated soil. J Appl Polym Sci 2014. [DOI: 10.1002/app.40712] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Lílian V. R. Beltrami
- Postgraduate Program in Engineering Processes and Technologies (PGEPROTEC); Center of Exact Sciences and Technology (CCET), Caxias do Sul University (UCS); Caxias do Sul RS Brazil
| | - João A. V. Bandeira
- Laboratory of Polymers (LPOL); Center for Exact Sciences and Technology (CCET), Caxias do Sul University (UCS); Caxias do Sul RS Brazil
| | - Lisete C. Scienza
- Laboratory of Corrosion and Surface Protection (LCOR-P); Center for Exact Sciences and Technology (CCET), Caxias do Sul University (UCS); Caxias do Sul RS Brazil
| | - Ademir J. Zattera
- Laboratory of Polymers (LPOL); Center for Exact Sciences and Technology (CCET), Caxias do Sul University (UCS); Caxias do Sul RS Brazil
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31
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Tan LT, Hiraishi T, Sudesh K, Maeda M. Effects of mutation at position 285 of Ralstonia pickettii T1 poly[(R)-3-hydroxybutyrate] depolymerase on its activities. Appl Microbiol Biotechnol 2014; 98:7061-8. [PMID: 24676749 DOI: 10.1007/s00253-014-5660-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2014] [Revised: 02/28/2014] [Accepted: 03/02/2014] [Indexed: 11/26/2022]
Abstract
Asn at position 285 (N285) in the catalytic domain of poly[(R)-3-hydroxybutyrate] (PHB) depolymerase from Ralstonia pickettii T1 most likely participates in the cleavage of ester bonds as revealed by our previous evolutionary engineering study using the error-prone polymerase chain reaction (PCR) method. To exhaustively examine the effects of mutations at that position, we conducted site-directed saturation mutagenesis at that position and the resultant mutant enzymes (N285X) were evaluated in p-nitrophenyl ester (pNPCn) hydrolysis and PHB degradation. Kinetic studies demonstrated that the PHB-degrading activities of N285X were reciprocally related to their pNPCn-hydrolyzing activities, with the exception of N285A and N285G, and that His residue could functionally substitute for Asn285 on PHB degradation.
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Affiliation(s)
- Liu-Tzea Tan
- Bioengineering Laboratory, RIKEN, 2-1 Hirosawa, Wako-shi, Saitama, 351-0198, Japan
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32
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Tan LT, Hiraishi T, Sudesh K, Maeda M. Directed evolution of poly[(R)-3-hydroxybutyrate] depolymerase using cell surface display system: functional importance of asparagine at position 285. Appl Microbiol Biotechnol 2012; 97:4859-71. [DOI: 10.1007/s00253-012-4366-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2012] [Revised: 08/10/2012] [Accepted: 08/12/2012] [Indexed: 12/01/2022]
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33
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Y443F mutation in the substrate-binding domain of extracellular PHB depolymerase enhances its PHB adsorption and disruption abilities. Polym Degrad Stab 2010. [DOI: 10.1016/j.polymdegradstab.2010.01.022] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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34
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Jacquel N, Tajima K, Nakamura N, Kawachi H, Pan P, Inoue Y. Nucleation mechanism of polyhydroxybutyrate and poly(hydroxybutyrate-co-hydroxyhexanoate) crystallized by orotic acid as a nucleating agent. J Appl Polym Sci 2010. [DOI: 10.1002/app.30873] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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35
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Zimmermann W, Billig S. Enzymes for the Biofunctionalization of Poly(Ethylene Terephthalate). ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2010; 125:97-120. [DOI: 10.1007/10_2010_87] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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36
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Hiraishi T, Komiya N, Matsumoto N, Abe H, Fujita M, Maeda M. Degradation and Adsorption Characteristics of PHB Depolymerase As Revealed by Kinetics of Mutant Enzymes with Amino Acid Substitution in Substrate-Binding Domain. Biomacromolecules 2009; 11:113-9. [DOI: 10.1021/bm900967a] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tomohiro Hiraishi
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
| | - Naoya Komiya
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
| | - Nobuhiko Matsumoto
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
| | - Hideki Abe
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
| | - Masahiro Fujita
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
| | - Mizuo Maeda
- Bioengineering Laboratory, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan, Department of Advanced Materials Science, School of Frontier Sciences, The University of Tokyo, 5-1-5 Kashiwanoha, Kashiwa-shi, Chiba 277-8568, Japan, Department of Innovative and Engineered Materials, Tokyo Institute of Technology, Nagatsuta 4259, Midori-ku, Yokohama, Kanagawa 226-8501, Japan, and Chemical Analysis Team, RIKEN Advanced Science Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198,
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37
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Jacquel N, Tajima K, Nakamura N, Miyagawa T, Pan P, Inoue Y. Effect of orotic acid as a nucleating agent on the crystallization of bacterial poly(3-hydroxybutyrate-co-3-hydroxyhexanoate) copolymers. J Appl Polym Sci 2009. [DOI: 10.1002/app.30587] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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38
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Ronkvist ÅM, Lu W, Feder D, Gross RA. Cutinase-Catalyzed Deacetylation of Poly(vinyl acetate). Macromolecules 2009. [DOI: 10.1021/ma900530j] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Åsa M. Ronkvist
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biololgical Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - Wenhua Lu
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biololgical Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - David Feder
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biololgical Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - Richard A. Gross
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biololgical Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
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39
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Ronkvist ÅM, Xie W, Lu W, Gross RA. Cutinase-Catalyzed Hydrolysis of Poly(ethylene terephthalate). Macromolecules 2009. [DOI: 10.1021/ma9005318] [Citation(s) in RCA: 341] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Åsa M. Ronkvist
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biological Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - Wenchun Xie
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biological Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - Wenhua Lu
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biological Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
| | - Richard A. Gross
- NSF I/URC for Biocatalysis and Bioprocessing of Macromolecules, Department of Chemical and Biological Sciences, Polytechnic University, Six Metrotech Center, Brooklyn, New York 11201
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40
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Lee CW, Kimura Y, Chung JD. Mechanism of enzymatic degradation of poly(butylene succinate). Macromol Res 2008. [DOI: 10.1007/bf03218575] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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41
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Kai J, Parra DF, Brito HF. Polymer matrix sensitizing effect on photoluminescence properties of Eu3+-β-diketonate complex doped into poly-β-hydroxybutyrate (PHB) in film form. ACTA ACUST UNITED AC 2008. [DOI: 10.1039/b808080a] [Citation(s) in RCA: 82] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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42
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Maiti P, Batt CA, Giannelis EP. New biodegradable polyhydroxybutyrate/layered silicate nanocomposites. Biomacromolecules 2007; 8:3393-400. [PMID: 17958439 DOI: 10.1021/bm700500t] [Citation(s) in RCA: 168] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Poly(hydroxybutyrate) (PHB)/layered silicate nanocomposites were prepared via melt extrusion. The nanostructure, as observed from wide-angle X-ray diffraction and transmission electron microscopy, indicates intercalated hybrids. The extent of intercalation depends on the amount of silicate and the nature of organic modifier present in the layered silicate. The nanohybrids show significant improvement in thermal and mechanical properties of the matrix as compared to the neat polymer. The silicate particles act as a strong nucleating agent for the crystallization of PHB. The biodegradability of pure PHB and its nanocomposites was studied at two different temperatures under controlled conditions in compost media. The rate of biodegradation of PHB is enhanced dramatically in the nanohybrids. The change in biodegradation is rationalized in terms of the crystallization behavior of the nanohybrids as compared to that of the neat polymer.
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Affiliation(s)
- Pralay Maiti
- Department of Material Science and Engineering, and Department of Food Science, Cornell University, Ithaca, NY 14853, USA
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43
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Bikiaris DN, Papageorgiou GZ, Achilias DS, Pavlidou E, Stergiou A. Miscibility and enzymatic degradation studies of poly(ε-caprolactone)/poly(propylene succinate) blends. Eur Polym J 2007. [DOI: 10.1016/j.eurpolymj.2007.03.051] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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44
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Hiraishi T, Hirahara Y, Doi Y, Maeda M, Taguchi S. Effects of mutations in the substrate-binding domain of poly[(R)-3-hydroxybutyrate] (PHB) depolymerase from Ralstonia pickettii T1 on PHB degradation. Appl Environ Microbiol 2006; 72:7331-8. [PMID: 16963553 PMCID: PMC1636158 DOI: 10.1128/aem.01187-06] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Poly[(R)-3-hydroxybutyrate] (PHB) depolymerase from Ralstonia pickettii T1 (PhaZ(RpiT1)) adsorbs to denatured PHB (dPHB) via its substrate-binding domain (SBD) to enhance dPHB degradation. To evaluate the amino acid residues participating in dPHB adsorption, PhaZ(RpiT1) was subjected to a high-throughput screening system consisting of PCR-mediated random mutagenesis targeted to the SBD gene and a plate assay to estimate the effects of mutations in the SBD on dPHB degradation by PhaZ(RpiT1). Genetic analysis of the isolated mutants with lowered activity showed that Ser, Tyr, Val, Ala, and Leu residues in the SBD were replaced by other residues at high frequency. Some of the mutant enzymes, which contained the residues replaced at high frequency, were applied to assays of dPHB degradation and adsorption, revealing that those residues are essential for full activity of both dPHB degradation and adsorption. These results suggested that PhaZ(RpiT1) adsorbs on the surface of dPHB not only via hydrogen bonds between hydroxyl groups of Ser in the enzyme and carbonyl groups in the PHB polymer but also via hydrophobic interaction between hydrophobic residues in the enzyme and methyl groups in the PHB polymer. The L441H enzyme, which displayed lower dPHB degradation and adsorption abilities, was purified and applied to a dPHB degradation assay to compare it with the wild-type enzyme. The kinetic analysis of the dPHB degradation suggested that lowering the affinity of the SBD towards dPHB causes a decrease in the dPHB degradation rate without the loss of its hydrolytic activity for the polymer chain.
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Affiliation(s)
- Tomohiro Hiraishi
- Bioengineering Laboratory, RIKEN Institute, 2-1 Hirosawa, Wako-shi, Saitama 351-0198, Japan.
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45
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Cui Y, Barford J, Renneberg R. Determination of Poly(3‐Hydroxybutyrate) using a Combination of Enzymatic Spectrophotometry and Alkaline Hydrolysis. ANAL LETT 2006. [DOI: 10.1080/00032710600822882] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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46
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Adamus G. Aliphatic Polyesters for Advanced Technologies – Structural Characterization of Biopolyesters with the Aid of Mass Spectrometry. ACTA ACUST UNITED AC 2006. [DOI: 10.1002/masy.200690113] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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47
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Pötter M, Steinbüchel A. Poly(3-hydroxybutyrate) granule-associated proteins: impacts on poly(3-hydroxybutyrate) synthesis and degradation. Biomacromolecules 2005; 6:552-60. [PMID: 15762612 DOI: 10.1021/bm049401n] [Citation(s) in RCA: 151] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Polyhydroxyalkanoates (PHAs) represent a group of biopolymers that are synthesized by many bacteria as storage compounds and deposited as insoluble cytoplasmic inclusions. Because they have many putative technical and medical applications, PHAs may play an important role in human life in the future. Therefore, for academic interest the bacterial PHA metabolism has been studied in much detail. In the past decade much new and unexpected information about the metabolism of PHA in bacteria became available. Aspects of the biogenesis of PHA granules in bacteria become more and more important in the literature. Several enzymes, proteins, and mechanisms of regulation are involved in PHA biosynthesis and PHA granule biogenesis. The intention of this review is to give an overview about our current knowledge of the structure of the PHA granule surface and the PHA granule-associated proteins involved in biogenesis and degradation. The focus is on the PHA synthases, the intracellular PHA depolymerases, the phasins, and the transcriptional regulator PhaR, which are the main actors in biosynthesis and intracellular degradation of PHAs and formation of PHA granules. In addition, putative applications of PHA granules and PHA granule-associated proteins in nanotechnology are discussed.
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Affiliation(s)
- Markus Pötter
- Institut für Molekulare Mikrobiologie und Biotechnologie, Westfälische Wilhelms-Universität Münster, Corrensstrasse 3, 48149 Münster, Germany
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Kinetics and mechanism of the monomeric products from abiotic hydrolysis of poly[(R)-3-hydroxybutyrate] under acidic and alkaline conditions. Polym Degrad Stab 2005. [DOI: 10.1016/j.polymdegradstab.2004.12.026] [Citation(s) in RCA: 95] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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50
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Chen C, Cheung MK, Yu PHF. Crystallization kinetics and melting behaviour of microbial poly(3-hydroxybutyrate-co-3-hydroxyhexanoate). POLYM INT 2005. [DOI: 10.1002/pi.1809] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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