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Wang J, Zeng C, Feng Y. Meta-analysis reveals responses of coccolithophores and diatoms to warming. MARINE ENVIRONMENTAL RESEARCH 2024; 193:106275. [PMID: 37992480 DOI: 10.1016/j.marenvres.2023.106275] [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: 07/16/2023] [Revised: 11/02/2023] [Accepted: 11/15/2023] [Indexed: 11/24/2023]
Abstract
A meta-analysis was conducted to explore the effects of warming on the physiological processes of coccolithophores and diatoms by synthesizing a large number of published literatures. A total of 154 studies consisting 301 experiments were synthesized in this study. Under a projected temperature increase of 3-5 °C by IPCC AR6 at the end of this century, our results suggest that the growth and photosynthetic rate of coccolithophores were significantly enhanced by the rising temperature, while the calcification of coccolithophores was only slightly promoted. Warming also had significantly positive effects on the growth but not photosynthesis of diatoms. In comparison, the effect size of warming on the growth rate of coccolithophores was larger than that of diatoms. However, there was no significant effect of warming on either the ratio of particulate inorganic carbon to particulate organic carbon (PIC:POC) of coccolithophores or the ratio of biogenic silica to carbon (BSi:C) of diatoms. Furthermore, the results reveal latitudinal and size-specific patterns of the effect sizes of warming. For diatoms, the effects of warming on growth were more prominent in high latitudes, specifically for the Southern Hemisphere species. In addition, the effect size of warming on the small-sized diatoms was larger than that of the large-sized diatoms. For coccolithophores, the growth of the Southern Hemisphere temperate strains was significantly promoted by warming. Overall, the results based on the meta-analysis indicate that the projected warming of the end of this century will be more favor to the growth of coccolithophores than that of diatoms, thus potentially affect the competitive advantages of coccolithophores over diatoms; while the mid-to high latitude species/strains of both coccolithophores and diatoms will benefit more than their counterparts in the lower latitudes. Therefore, this study offers novel insights into predicting both the inter- and intra-group competitive advantages of diatoms and coccolithophores under the future warming climate change scenario.
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Affiliation(s)
- Jiawei Wang
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, 200030, China; Shanghai Frontiers Science Center of Polar Research, Shanghai, 200030, China
| | - Cong Zeng
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, 200030, China
| | - Yuanyuan Feng
- School of Oceanography, Shanghai Jiao Tong University, Shanghai, 200030, China; Shanghai Frontiers Science Center of Polar Research, Shanghai, 200030, China.
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2
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Son J, Lee H, Lee T, Sohn H, Jae Park S, Na JG, Woo Seo S, Wook Lee J, Young Yoo H, Park C. Novel synthetic pathway for methyl 3-hydroxybutyrate from β-hydroxybutyric acid and methanol by enzymatic esterification. J IND ENG CHEM 2023. [DOI: 10.1016/j.jiec.2023.03.052] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
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3
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Protein Characteristics and Bioactivity of Fish Protein Hydrolysates from Tra Catfish ( Pangasius hypophthalmus) Side Stream Isolates. Foods 2022; 11:foods11244102. [PMID: 36553843 PMCID: PMC9778320 DOI: 10.3390/foods11244102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2022] [Revised: 11/29/2022] [Accepted: 12/13/2022] [Indexed: 12/24/2022] Open
Abstract
Enzymatic hydrolysis is a novel method to recover highly potent bioactive fish protein hydrolysates (FPHs) from fish processing side-streams. The common way of producing FPHs directly from fish side-streams may be inappropriate due to the excess of lipids and pro-oxidants, especially in lipid-rich streams, as obtained from Tra catfish. This study aimed to optimise the hydrolysis conditions for a commercial enzyme (Alcalase® 2.4 L) (enzyme concentrate, temperature, and time) in FPH production from the fish protein isolate obtained from Tra catfish dark muscle (DM-FPI) using the pH-shift method. The degree of hydrolysis (DH), protein recovery (PR), and antioxidant properties, including DPPH radical scavenging activity (DPPH-RSA) and total reducing power capacity (TRPC), were measured to evaluate the effects of the hydrolysis conditions on the FPHs. Optimal hydrolysis was obtained at an enzyme/substrate protein ratio of 3% (v/w) and a hydrolysis temperature of 50 °C for 3 h. The FPHs obtained from different substrates, including DM-FPI, abdominal cut-off (ACO) FPI, and head and backbone blend (HBB) FPI, had similar DHs under these optimum conditions, ranging from 22.5% to 24.0%. However, the FPH obtained from abdominal cut-off isolate (ACO-FPH) showed the highest PR of 81.5 ± 4.3% and the highest antioxidant properties, with a DPPH-RSA of 86.1 ± 1.6% and a TRPC of 6.4 ± 0.4 equivalent mg vitamin C/g protein. The resulting FPHs present a natural source of antioxidants with great potential for food applications, especially the ACO-FPH. In addition, all FPHs had excellent amino acid profiles, indicating strong potential for their use as supplements. Tra catfish protein-rich side-streams can thus be processed into high-value bioactive FPHs using Alcalase for human consumption.
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Nickerson JL, Doucette AA. Maximizing Cumulative Trypsin Activity with Calcium at Elevated Temperature for Enhanced Bottom-Up Proteome Analysis. BIOLOGY 2022; 11:biology11101444. [PMID: 36290348 PMCID: PMC9598648 DOI: 10.3390/biology11101444] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/24/2022] [Revised: 09/26/2022] [Accepted: 09/28/2022] [Indexed: 11/09/2022]
Abstract
Simple Summary Trypsin is frequently employed to cleave proteins ahead of mass spectrometry characterization. Traditionally, enzyme digestion involves overnight incubation of proteins at 37 °C, which is time consuming though still may yield poor digestion efficiency. While raising the temperature should theoretically accelerate the digestion, it also destabilizes the enzyme and promotes trypsin de-activation. We therefore questioned whether elevated temperature is beneficial for improving tryptic digestion. Here, we quantify protein digestion kinetics at elevated temperatures for calcium-stabilized trypsin and enforce the critical importance of calcium ions to preserve the enzyme. We quantitatively demonstrate that 1 h at 47 °C provides a superior digest when compared to conventional (overnight, 37 °C) processing of the proteome. The practical impact of our enhanced digestion protocol is shown through bottom-up mass spectrometry analysis of a complex proteome mixture. Abstract Bottom-up proteomics relies on efficient trypsin digestion ahead of MS analysis. Prior studies have suggested digestion at elevated temperature to accelerate proteolysis, showing an increase in the number of MS-identified peptides. However, improved sequence coverage may be a consequence of partial digestion, as higher temperatures destabilize and degrade the enzyme, causing enhanced activity to be short-lived. Here, we use a spectroscopic (BAEE) assay to quantify calcium-stabilized trypsin activity over the complete time course of a digestion. At 47 °C, the addition of calcium contributes a 25-fold enhancement in trypsin stability. Higher temperatures show a net decrease in cumulative trypsin activity. Through bottom-up MS analysis of a yeast proteome extract, we demonstrate that a 1 h digestion at 47 °C with 10 mM Ca2+ provides a 29% increase in the total number of peptide identifications. Simultaneously, the quantitative proportion of peptides with 1 or more missed cleavage sites was diminished in the 47 °C digestion, supporting enhanced digestion efficiency with the 1 h protocol. Trypsin specificity also improves, as seen by a drop in the quantitative abundance of semi-tryptic peptides. Our enhanced digestion protocol improves throughput for bottom-up sample preparation and validates the approach as a robust, low-cost alternative to maximized protein digestion efficiency.
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5
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Choisy M, McBride A, Chambers M, Ho Quang C, Nguyen Quang H, Xuan Chau NT, Thi GN, Bonell A, Evans M, Ming D, Ngo-Duc T, Quang Thai P, Dang Giang DH, Dan Thanh HN, Ngoc Nhung H, Lowe R, Maude R, Elyazar I, Surendra H, Ashley EA, Thwaites L, van Doorn HR, Kestelyn E, Dondorp AM, Thwaites G, Vinh Chau NV, Yacoub S. Climate change and health in Southeast Asia - defining research priorities and the role of the Wellcome Trust Africa Asia Programmes. Wellcome Open Res 2022; 6:278. [PMID: 36176331 PMCID: PMC9493397 DOI: 10.12688/wellcomeopenres.17263.3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/30/2022] [Indexed: 11/20/2022] Open
Abstract
This article summarises a recent virtual meeting organised by the Oxford University Clinical Research Unit in Vietnam on the topic of climate change and health, bringing local partners, faculty and external collaborators together from across the Wellcome and Oxford networks. Attendees included invited local and global climate scientists, clinicians, modelers, epidemiologists and community engagement practitioners, with a view to setting priorities, identifying synergies and fostering collaborations to help define the regional climate and health research agenda. In this summary paper, we outline the major themes and topics that were identified and what will be needed to take forward this research for the next decade. We aim to take a broad, collaborative approach to including climate science in our current portfolio where it touches on infectious diseases now, and more broadly in our future research directions. We will focus on strengthening our research portfolio on climate-sensitive diseases, and supplement this with high quality data obtained from internal studies and external collaborations, obtained by multiple methods, ranging from traditional epidemiology to innovative technology and artificial intelligence and community-led research. Through timely agenda setting and involvement of local stakeholders, we aim to help support and shape research into global heating and health in the region.
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Affiliation(s)
- Marc Choisy
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Angela McBride
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Global Health and Infection, Brighton and Sussex Medical School, Brighton, UK
| | - Mary Chambers
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Chanh Ho Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Huy Nguyen Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | | | - Giang Nguyen Thi
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Ana Bonell
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Megan Evans
- Centre for Environmental Health and Sustainability, University of Leicester, Leicester, UK
| | - Damien Ming
- Department of Infectious Disease, Imperial College London, London, UK
| | - Thanh Ngo-Duc
- University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Pham Quang Thai
- National Institute of Hygiene and Epidemiology, Hanoi, Vietnam
- School of Preventative Medicine and Public Health, Hanoi Medical University, Hanoi, Vietnam
| | | | - Ho Ngoc Dan Thanh
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Hoang Ngoc Nhung
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Rachel Lowe
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
- Centre for Mathematical Modelling of Infectious Diseases, London School of Hygiene & Tropical Medicine, London, UK
- Barcelona Supercomputing Center, Barcelona, Spain
| | - Richard Maude
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Iqbal Elyazar
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Henry Surendra
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Elizabeth A. Ashley
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Lao-Oxford-Mahosot Hospital-Wellcome Trust Research Unit, Vientiane, Lao People's Democratic Republic
| | - Louise Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - H. Rogier van Doorn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Evelyne Kestelyn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Arjen M. Dondorp
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Guy Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | | | - Sophie Yacoub
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
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6
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Choisy M, McBride A, Chambers M, Ho Quang C, Nguyen Quang H, Xuan Chau NT, Thi GN, Bonell A, Evans M, Ming D, Ngo-Duc T, Quang Thai P, Dang Giang DH, Dan Thanh HN, Ngoc Nhung H, Lowe R, Maude R, Elyazar I, Surendra H, Ashley EA, Thwaites L, van Doorn HR, Kestelyn E, Dondorp AM, Thwaites G, Vinh Chau NV, Yacoub S. Climate change and health in Southeast Asia - defining research priorities and the role of the Wellcome Trust Africa Asia Programmes. Wellcome Open Res 2022; 6:278. [PMID: 36176331 PMCID: PMC9493397 DOI: 10.12688/wellcomeopenres.17263.2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/22/2022] [Indexed: 05/18/2024] Open
Abstract
This article summarises a recent virtual meeting organised by the Oxford University Clinical Research Unit in Vietnam on the topic of climate change and health, bringing local partners, faculty and external collaborators together from across the Wellcome and Oxford networks. Attendees included invited local and global climate scientists, clinicians, modelers, epidemiologists and community engagement practitioners, with a view to setting priorities, identifying synergies and fostering collaborations to help define the regional climate and health research agenda. In this summary paper, we outline the major themes and topics that were identified and what will be needed to take forward this research for the next decade. We aim to take a broad, collaborative approach to including climate science in our current portfolio where it touches on infectious diseases now, and more broadly in our future research directions. We will focus on strengthening our research portfolio on climate-sensitive diseases, and supplement this with high quality data obtained from internal studies and external collaborations, obtained by multiple methods, ranging from traditional epidemiology to innovative technology and artificial intelligence and community-led research. Through timely agenda setting and involvement of local stakeholders, we aim to help support and shape research into global heating and health in the region.
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Affiliation(s)
- Marc Choisy
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Angela McBride
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Global Health and Infection, Brighton and Sussex Medical School, Brighton, UK
| | - Mary Chambers
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Chanh Ho Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Huy Nguyen Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | | | - Giang Nguyen Thi
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Ana Bonell
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Megan Evans
- Centre for Environmental Health and Sustainability, University of Leicester, Leicester, UK
| | - Damien Ming
- Department of Infectious Disease, Imperial College London, London, UK
| | - Thanh Ngo-Duc
- University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Pham Quang Thai
- National Institute of Hygiene and Epidemiology, Hanoi, Vietnam
- School of Preventative Medicine and Public Health, Hanoi Medical University, Hanoi, Vietnam
| | | | - Ho Ngoc Dan Thanh
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Hoang Ngoc Nhung
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Rachel Lowe
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
- Centre for Mathematical Modelling of Infectious Diseases, London School of Hygiene & Tropical Medicine, London, UK
- Barcelona Supercomputing Center, Barcelona, Spain
| | - Richard Maude
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Iqbal Elyazar
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Henry Surendra
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Elizabeth A. Ashley
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Lao-Oxford-Mahosot Hospital-Wellcome Trust Research Unit, Vientiane, Lao People's Democratic Republic
| | - Louise Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - H. Rogier van Doorn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Evelyne Kestelyn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Arjen M. Dondorp
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Guy Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | | | - Sophie Yacoub
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
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7
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Hao Y, Deng S, Wang R, Xia Q, Zhang K, Wang X, Liu H, Liu Y, Huang M, Xie M. Development of dual-enhancer biocatalyst with photothermal property for the degradation of cephalosporin. JOURNAL OF HAZARDOUS MATERIALS 2022; 429:128294. [PMID: 35065309 DOI: 10.1016/j.jhazmat.2022.128294] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2021] [Revised: 01/05/2022] [Accepted: 01/14/2022] [Indexed: 06/14/2023]
Abstract
The abuse of cephalosporins poses a serious threat to human health and the ecological environment. In this work, cephalosporinase (AmpC enzyme) and Prussian blue (PB) crystals were encapsulated into ZIF-8 metal-organic frameworks (MOFs), and a photothermal AmpC/PB@ZIF-8 MOFs (APZ) nanocatalyst was prepared for the catalytic degradation of cephalosporin. The temperature of the APZ catalytic degradation system can be regulated by irradiation with near infrared light due to the photothermal effect of PB, and then, the activity of the APZ biocatalyst is significantly enhanced. Thereby, the degradation efficiency of cefuroxime can reach to 96%, and the degradation kinetic rate of cefuroxime augmented 4.5-fold comparing with that catalyzed by free enzyme. Moreover, encapsulation of the enzyme and PB can increase the affinity and charge transfer efficiency between APZ and substrate molecules, which can also improve the degradation efficiency of cephalosporins. Catalytic degradation pathways for three generations of cephalosporins were proposed based on their degradation products. The dual-enhancer biocatalyst based on the photothermal effect and immobilization of the PB and enzyme can significantly enhance the activity and stability of the enzyme, and it can also be recycled. Therefore, the biocatalyst has potential applications for the effective degradation of cephalosporins in the environment.
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Affiliation(s)
- Yun Hao
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Suimin Deng
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Ruoxin Wang
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Qianshu Xia
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Kaina Zhang
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Xiangfeng Wang
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Hailing Liu
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Yuan Liu
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Min Huang
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China
| | - Mengxia Xie
- Analytical and Testing Center of Beijing Normal University, Beijing 100875, China.
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8
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Zhang H, Wu Y, Tang P, Zhu H, Gan Z, Zhang HQ, Wu D. Accurate and Real-Time Detection Method for the Exothermic Behavior of Enzymatic Nano-Microregions Using Temperature-Sensitive Amino-AgInS 2 Quantum Dots. SMALL METHODS 2022; 6:e2100811. [PMID: 35041293 DOI: 10.1002/smtd.202100811] [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: 07/14/2021] [Revised: 10/17/2021] [Indexed: 06/14/2023]
Abstract
The thermal behavior of enzymes in nanoscale is of great significance to life phenomena. This nonequilibrium state real-time thermal behavior of enzymes at nanoscale cannot be accurately detected by existing methods. Herein, a novel method is developed for the detection of this thermal behavior. The enzyme-quantum dot (QD) conjugates can be obtained by chemically grafting temperature-sensitive amino-AgInS2 QDs to the enzyme, where the QDs act as nanothermometers with a sensitivity of -2.82% °C-1 . Detecting the photoluminescence intensity changes of the enzyme-QD conjugates, the real-time thermal behavior of enzymes can be obtained. The enzyme-QD conjugates show a temperature difference as high as 6 °C above ambient temperature in nano-microregions with good reproducibility (maximum error of 4%) during catalysis, while solution temperature hardly changed. This method has a temperature resolution of ≈0.5 °C with a detection limit of 0.02 mg mL-1 of enzyme, and spatially ensured that the amino-AgInS2 QDs are quantitatively bound to the enzyme; thus, it can accurately detect the exothermic behavior of the enzyme and can be extended to other organisms' detection. This method has high sensitivity, good stability, and reliability, indicating its great potential application in investigating the thermal behavior of organisms in nanoscale and related life phenomena.
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Affiliation(s)
- Hui Zhang
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Youshen Wu
- School of Chemistry, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Peng Tang
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Hongrui Zhu
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Zhenhai Gan
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Hu-Qin Zhang
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
| | - Daocheng Wu
- Key Laboratory of Biomedical Information Engineering of Education Ministry, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, 710049, P. R. China
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9
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Choisy M, McBride A, Chambers M, Ho Quang C, Nguyen Quang H, Xuan Chau NT, Thi GN, Bonell A, Evans M, Ming D, Ngo-Duc T, Quang Thai P, Dang Giang DH, Dan Thanh HN, Ngoc Nhung H, Lowe R, Maude R, Elyazar I, Surendra H, Ashley EA, Thwaites L, van Doorn HR, Kestelyn E, Dondorp AM, Thwaites G, Vinh Chau NV, Yacoub S. Climate change and health in Southeast Asia - defining research priorities and the role of the Wellcome Trust Africa Asia Programmes. Wellcome Open Res 2021; 6:278. [PMID: 36176331 PMCID: PMC9493397 DOI: 10.12688/wellcomeopenres.17263.1] [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] [Accepted: 10/01/2021] [Indexed: 02/26/2024] Open
Abstract
This article summarises a recent virtual meeting organised by the Oxford University Clinical Research Unit in Vietnam on the topic of climate change and health, bringing local partners, faculty and external collaborators together from across the Wellcome and Oxford networks. Attendees included invited local and global climate scientists, clinicians, modelers, epidemiologists and community engagement practitioners, with a view to setting priorities, identifying synergies and fostering collaborations to help define the regional climate and health research agenda. In this summary paper, we outline the major themes and topics that were identified and what will be needed to take forward this research for the next decade. We aim to take a broad, collaborative approach to including climate science in our current portfolio where it touches on infectious diseases now, and more broadly in our future research directions. We will focus on strengthening our research portfolio on climate-sensitive diseases, and supplement this with high quality data obtained from internal studies and external collaborations, obtained by multiple methods, ranging from traditional epidemiology to innovative technology and artificial intelligence and community-led research. Through timely agenda setting and involvement of local stakeholders, we aim to help support and shape research into global heating and health in the region.
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Affiliation(s)
- Marc Choisy
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Angela McBride
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Global Health and Infection, Brighton and Sussex Medical School, Brighton, UK
| | - Mary Chambers
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Chanh Ho Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Huy Nguyen Quang
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | | | - Giang Nguyen Thi
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Ana Bonell
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
| | - Megan Evans
- Centre for Environmental Health and Sustainability, University of Leicester, Leicester, UK
| | - Damien Ming
- Department of Infectious Disease, Imperial College London, London, UK
| | - Thanh Ngo-Duc
- University of Science and Technology of Hanoi, Vietnam Academy of Science and Technology, Hanoi, Vietnam
| | - Pham Quang Thai
- National Institute of Hygiene and Epidemiology, Hanoi, Vietnam
- School of Preventative Medicine and Public Health, Hanoi Medical University, Hanoi, Vietnam
| | | | - Ho Ngoc Dan Thanh
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Hoang Ngoc Nhung
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
| | - Rachel Lowe
- Centre on Climate Change and Planetary Health, London School of Hygiene & Tropical Medicine, London, UK
- Centre for Mathematical Modelling of Infectious Diseases, London School of Hygiene & Tropical Medicine, London, UK
- Barcelona Supercomputing Center, Barcelona, Spain
| | - Richard Maude
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Iqbal Elyazar
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Henry Surendra
- Eijkman-Oxford Clinical Research Unit, Jakarta, Indonesia
| | - Elizabeth A. Ashley
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Lao-Oxford-Mahosot Hospital-Wellcome Trust Research Unit, Vientiane, Lao People's Democratic Republic
| | - Louise Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - H. Rogier van Doorn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Evelyne Kestelyn
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | - Arjen M. Dondorp
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
- Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand
| | - Guy Thwaites
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
| | | | - Sophie Yacoub
- Oxford University Clinical Research Unit, Ho Chi Minh City and Hanoi, Vietnam
- Centre for Tropical Medicine and Global Health, University of Oxford, Oxford, UK
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10
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Kambiré MS, Gnanwa JM, Boa D, Kouadio EJP, Kouamé LP. Modeling of enzymatic activity of free β-glucosidase from palm weevil, Rhynchophorus palmarum Linn. (Coleoptera: Curculionidae) larvae: Effects of pH and temperature. Biophys Chem 2021; 276:106611. [PMID: 34098161 DOI: 10.1016/j.bpc.2021.106611] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Revised: 05/02/2021] [Accepted: 05/03/2021] [Indexed: 11/20/2022]
Abstract
Palm weevil, Rhynchophorus palmarum L., is an important pest of palm trees (Elaeis guineensis) around the tropical regions. Characterization of their digestive enzymes could be an important stage to develop appropriate pest control strategies. Study of these enzymes could also be of interest in different biotechnological applications. Among digestive enzymes, there is β-glucosidase which hydrolytically catalyzes the β-glycosidic linkage of glycosides. In the present work, the catalytic activity of β-glucosidase in the digestive juice of last larval instar of R. palmarum L. (Rpbgl) has been investigated using p-nitrophenyl-β-D-glucopyranoside (pNPG) as substrate. The "classical" physico-chemical properties for purified Rpbgl have been determined by the help of enzymatic activity modeling. Thus, the values of (325.4 ± 0.2) K, 5.28 ± 0.07 and (37.9 ± 0.6) kJ mol-1 were obtained for optimum temperature, optimum pH and activation energy, respectively. The pK values for enzyme-substrate complex are 4.25 ± 0.07 and 6.20 ± 0.07 for nucleophile and the proton donor, respectively. Enzyme kinetics study was also performed and the values of (127 ± 6) U mg-1 and (0.78 ± 0.08) mM were obtained for Vmax and Km, respectively. Using the Equilibrium model (EM), the thermal inactivation data were analyzed. ΔHeq, Teq, ΔGinact∗ and ΔGcat∗ were found to be (222 ± 4) kJ mol-1, (323.0 ± 0.1) K, (101.9 ± 0.2) kJ mol-1 and (53.37 ± 0.02) kJ mol-1, respectively. These results show that Rpbgl is less stable with a narrow temperature tolerance compared to other β-glucosidases.
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Affiliation(s)
- Marius Sobamfou Kambiré
- Laboratoire de Thermodynamique et de Physico-Chimie du Milieu, Université Nangui Abrogoua, Abidjan, 02 BP 801 Abidjan 02, Côte d'Ivoire
| | - Jacques Mankambou Gnanwa
- Laboratoire d'Agrovalorisation, Université Jean Lorougnon Guédé, Daloa, BP 150 Daloa, Côte d'Ivoire
| | - David Boa
- Laboratoire de Thermodynamique et de Physico-Chimie du Milieu, Université Nangui Abrogoua, Abidjan, 02 BP 801 Abidjan 02, Côte d'Ivoire.
| | - Eugène Jean P Kouadio
- Laboratoire de Biocatalyse et Bioprocédé, Université Nangui Abrogoua, Abidjan, 02 BP 801 Abidjan 02, Côte d'Ivoire
| | - Lucien Patrice Kouamé
- Laboratoire de Biocatalyse et Bioprocédé, Université Nangui Abrogoua, Abidjan, 02 BP 801 Abidjan 02, Côte d'Ivoire
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11
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Setlhare B, Kumar A, Mokoena MP, Pillay B, Olaniran AO. Phenol hydroxylase from Pseudomonas sp. KZNSA: Purification, characterization and prediction of three-dimensional structure. Int J Biol Macromol 2020; 146:1000-1008. [PMID: 31726146 DOI: 10.1016/j.ijbiomac.2019.09.224] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Revised: 09/13/2019] [Accepted: 09/19/2019] [Indexed: 11/16/2022]
Abstract
A 61.3 kDa Phenol hydroxylase (PheA) was purified and characterized from Pseudomonas sp. KZNSA (PKZNSA). Cell free extract of the isolate grown in mineral salt medium supplemented with 600 ppm phenol showed 21.58 U/mL of PheA activity with a specific activity of 7.67 U/mg of protein. The enzyme was purified to 1.6-fold with a total yield of 33.6%. The purified PheA was optimally active at pH 8 and temperature 30 °C, with ≈95% stability at pH 7.5 and temperature 30 °C after 2 h. The Lineweaver-Burk plot showed the vmax and Km values of 4.04 µM/min and 4.03 µM, respectively, for the substrate phenol. The ES-MS data generated from the tryptic digested fragments of pure protein and PCR amplification of a ≈600 bp gene from genomic DNA of PKZNSA lead to the determination of complete amino acid and nucleotide sequence of PheA. Bioinformatics tools and homology modelling studies indicated that PheA from PKZNSA is likely a probable protein kinase UbiB (2-octaprenylphenol hydroxylase) involving Lys and Asp at positions 153 and 288 for binding and active site, respectively. Characterization and optimization of PheA activity may be useful for a better understanding of 2,4-dichlorophenol degradation by this organism and for potential industrial application of the enzyme.
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Affiliation(s)
- Boitumelo Setlhare
- Discipline of Microbiology, School of Life Sciences, College of Agriculture, Engineering and Science, University of KwaZulu-Natal (Westville Campus), Private Bag X54001, Durban 4000, South Africa
| | - Ajit Kumar
- Discipline of Microbiology, School of Life Sciences, College of Agriculture, Engineering and Science, University of KwaZulu-Natal (Westville Campus), Private Bag X54001, Durban 4000, South Africa
| | - Mduduzi P Mokoena
- Discipline of Microbiology, School of Life Sciences, College of Agriculture, Engineering and Science, University of KwaZulu-Natal (Westville Campus), Private Bag X54001, Durban 4000, South Africa
| | - Bala Pillay
- Discipline of Microbiology, School of Life Sciences, College of Agriculture, Engineering and Science, University of KwaZulu-Natal (Westville Campus), Private Bag X54001, Durban 4000, South Africa
| | - Ademola O Olaniran
- Discipline of Microbiology, School of Life Sciences, College of Agriculture, Engineering and Science, University of KwaZulu-Natal (Westville Campus), Private Bag X54001, Durban 4000, South Africa.
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12
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Martínez-Rodríguez S, Soriano-Maldonado P, Gavira JA. N-succinylamino acid racemases: Enzymatic properties and biotechnological applications. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2020; 1868:140377. [PMID: 31982578 DOI: 10.1016/j.bbapap.2020.140377] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2019] [Revised: 01/17/2020] [Accepted: 01/21/2020] [Indexed: 01/28/2023]
Abstract
The N-succinylamino acid racemase/o-succinylbenzoate synthase (NSAR/OSBS) subfamily from the enolase superfamily contains different enzymes showing promiscuous N-substituted-amino acid racemase (NxAR) activity. These enzymes were originally named as N-acylamino acid racemases because of their industrial application. Nonetheless, they are pivotal in several enzymatic cascades due to their versatility to catalyze a wide substrate spectrum, allowing the production of optically pure d- or l-amino acids from cheap precursors. These compounds are of paramount economic interest, since they are used as food additives, in the pharmaceutical and cosmetics industries and/or as chiral synthons in organic synthesis. Despite its economic importance, the discovery of new N-succinylamino acid racemases has become elusive, since classical sequence-based annotation methods proved ineffective in their identification, due to a high sequence similarity among the members of the enolase superfamily. During the last decade, deeper investigations into different members of the NSAR/OSBS subfamily have shed light on the classification and identification of NSAR enzymes with NxAR activity of biotechnological potential. This review aims to gather the dispersed information on NSAR/OSBS members showing NxAR activity over recent decades, focusing on their biotechnological applications and providing practical advice to identify new enzymes.
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Affiliation(s)
- Sergio Martínez-Rodríguez
- Departamento de Bioquímica y Biología Molecular III e Inmunología, Universidad de Granada, Facultad de Medicina, Granada 18071, Spain; Laboratorio de Estudios Cristalográficos, CSIC, 18100 Granada, Spain.
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13
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O’Mara B, Gao Z, Kuruganti M, Mallett R, Nayar G, Smith L, Meyer JD, Therriault J, Miller C, Cisney J, Fann J. Impact of depth filtration on disulfide bond reduction during downstream processing of monoclonal antibodies from CHO cell cultures. Biotechnol Bioeng 2019; 116:1669-1683. [DOI: 10.1002/bit.26964] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2018] [Revised: 03/05/2019] [Accepted: 03/14/2019] [Indexed: 12/21/2022]
Affiliation(s)
- Brian O’Mara
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Zhong‐Hua Gao
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Manju Kuruganti
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Robert Mallett
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Gautam Nayar
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Laura Smith
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Jeffrey D. Meyer
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Jon Therriault
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - Cameron Miller
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - John Cisney
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
| | - John Fann
- BioProcess DevelopmentBristol‐Myers Squibb Co.Seattle Washington
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14
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Fernandes AC, Petersen B, Møller L, Gernaey KV, Krühne U. Caught in-between: System for in-flow inactivation of enzymes as an intermediary step in "plug-and-play" microfluidic platforms. N Biotechnol 2018; 47:39-49. [PMID: 29684658 DOI: 10.1016/j.nbt.2018.04.002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2017] [Revised: 04/15/2018] [Accepted: 04/16/2018] [Indexed: 01/16/2023]
Abstract
The need for fast and comprehensive characterization of biocatalysts has pushed the development of new screening platforms based on microfluidics, capable of monitoring several parameters simultaneously, with new configurations of liquid handling, sample treatment and sensing. Modular microfluidics allows the integration of these newly developed approaches in a more flexible way towards increasing applicability of the microfluidic chips to different types of biocatalysts and reactions. A highly relevant operation in such a system is biocatalyst inactivation, which can enable the precise control of reaction time by avoiding the continuation of the reaction in another module or connecting tubes. Such control is important when different modules of reactors and/or sensing units are used and changed frequently. Here we describe the development, characterization and application of a module for rapid enzyme inactivation. The thermal inactivation platform developed is compared with a standard benchtop ThermoMixer in terms of inactivation efficiency for glucose oxidase and catalase. A higher activity loss was observed for enzyme inactivation under flow conditions (inactivation achieved at 120 s residence time at 338 K and 20 s residence time at 353 K) which indicated a high heat transfer to the fluid under dynamic conditions. Moreover, partial deactivation of the enzymes was observed for the continuous thermal inactivation module, when activity measurements were performed after 1 and 2 days following inactivation. The thermal inactivation unit presented can be easily integrated into modular microfluidic platforms and can be a useful addition for enzyme characterization and screening.
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Affiliation(s)
- Ana C Fernandes
- Process and Systems Engineering Center (PROSYS), Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark.
| | - Benjamin Petersen
- Kemiteknik Workshop, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
| | - Lars Møller
- Kemiteknik Workshop, Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
| | - Krist V Gernaey
- Process and Systems Engineering Center (PROSYS), Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
| | - Ulrich Krühne
- Process and Systems Engineering Center (PROSYS), Department of Chemical and Biochemical Engineering, Technical University of Denmark, Building 229, 2800 Kgs. Lyngby, Denmark
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15
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Petroll K, Kopp D, Care A, Bergquist PL, Sunna A. Tools and strategies for constructing cell-free enzyme pathways. Biotechnol Adv 2018; 37:91-108. [PMID: 30521853 DOI: 10.1016/j.biotechadv.2018.11.007] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Revised: 10/22/2018] [Accepted: 11/20/2018] [Indexed: 12/12/2022]
Abstract
Single enzyme systems or engineered microbial hosts have been used for decades but the notion of assembling multiple enzymes into cell-free synthetic pathways is a relatively new development. The extensive possibilities that stem from this synthetic concept makes it a fast growing and potentially high impact field for biomanufacturing fine and platform chemicals, pharmaceuticals and biofuels. However, the translation of individual single enzymatic reactions into cell-free multi-enzyme pathways is not trivial. In reality, the kinetics of an enzyme pathway can be very inadequate and the production of multiple enzymes can impose a great burden on the economics of the process. We examine here strategies for designing synthetic pathways and draw attention to the requirements of substrates, enzymes and cofactor regeneration systems for improving the effectiveness and sustainability of cell-free biocatalysis. In addition, we comment on methods for the immobilisation of members of a multi-enzyme pathway to enhance the viability of the system. Finally, we focus on the recent development of integrative tools such as in silico pathway modelling and high throughput flux analysis with the aim of reinforcing their indispensable role in the future of cell-free biocatalytic pathways for biomanufacturing.
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Affiliation(s)
- Kerstin Petroll
- Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Dominik Kopp
- Department of Molecular Sciences, Macquarie University, Sydney, Australia
| | - Andrew Care
- Department of Molecular Sciences, Macquarie University, Sydney, Australia; Biomolecular Discovery and Design Research Centre, Macquarie University, Sydney, Australia
| | - Peter L Bergquist
- Department of Molecular Sciences, Macquarie University, Sydney, Australia; Department of Molecular Medicine & Pathology, University of Auckland, Auckland, New Zealand
| | - Anwar Sunna
- Department of Molecular Sciences, Macquarie University, Sydney, Australia; Biomolecular Discovery and Design Research Centre, Macquarie University, Sydney, Australia.
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16
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Li M, Guo S, Li X, Wang Q, Zhu L, Yin C, Wang W. Engineering a highly thermostable and stress tolerant superoxide dismutase by N-terminal modification and metal incorporation. BIOTECHNOL BIOPROC E 2018. [DOI: 10.1007/s12257-017-0243-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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17
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Zhao H, Chen Z, Zhao R, Feng L. Exceptional point engineered glass slide for microscopic thermal mapping. Nat Commun 2018; 9:1764. [PMID: 29720584 PMCID: PMC5931976 DOI: 10.1038/s41467-018-04251-3] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2017] [Accepted: 04/17/2018] [Indexed: 11/09/2022] Open
Abstract
Thermal sensing with fine spatial resolution is important to the study of many scientific areas. While modern microscopy systems allow optical detection at high spatial resolution, their intrinsic functions are mainly focused on imaging but limited in detecting other physical parameters, for example, mapping thermal variations. Here, with a coating of an optical exceptional point structure, we demonstrate a low-cost but efficient multifunctional microscope slide, supporting real-time monitoring and mapping of temperature distribution and heat transport in addition to conventional microscopic imaging. The square-root dependency associated with an exceptional point leads to enhanced thermal sensitivity for precise temperature measurement. With a microscale resolution, real-time thermal mapping is conducted, showing dynamic temperature variation in a spatially defined area. Our strategy of integrating low-cost and efficient optical sensing technologies on a conventional glass slide enables simultaneous detection of multiple environmental parameters, producing improved experimental control at the microscale in various scientific disciplines.
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Affiliation(s)
- Han Zhao
- Department of Electrical and Systems Engineering, University of Pennsylvania, Philadelphia, PA, 19104, USA
| | - Zhaowei Chen
- Department of Biomedical Engineering, The State University of New York at Buffalo, Buffalo, NY, 14260, USA
| | - Ruogang Zhao
- Department of Biomedical Engineering, The State University of New York at Buffalo, Buffalo, NY, 14260, USA.
| | - Liang Feng
- Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, PA, 19104, USA.
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18
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Lisi GP, Currier AA, Loria JP. Glutamine Hydrolysis by Imidazole Glycerol Phosphate Synthase Displays Temperature Dependent Allosteric Activation. Front Mol Biosci 2018; 5:4. [PMID: 29468164 PMCID: PMC5808140 DOI: 10.3389/fmolb.2018.00004] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2017] [Accepted: 01/09/2018] [Indexed: 11/13/2022] Open
Abstract
The enzyme imidazole glycerol phosphate synthase (IGPS) is a model for studies of long-range allosteric regulation in enzymes. Binding of the allosteric effector ligand N'-[5'-phosphoribulosyl)formimino]-5-aminoimidazole-4-carboxamide-ribonucleotide (PRFAR) stimulates millisecond (ms) timescale motions in IGPS that enhance its catalytic function. We studied the effect of temperature on these critical conformational motions and the catalytic mechanism of IGPS from the hyperthermophile Thermatoga maritima in an effort to understand temperature-dependent allostery. Enzyme kinetic and NMR dynamics measurements show that apo and PRFAR-activated IGPS respond differently to changes in temperature. Multiple-quantum Carr-Purcell-Meiboom-Gill (CPMG) relaxation dispersion experiments performed at 303, 323, and 343 K (30, 50, and 70°C) reveal that millisecond flexibility is enhanced to a higher degree in apo IGPS than in the PRFAR-bound enzyme as the sample temperature is raised. We find that the flexibility of the apo enzyme is nearly identical to that of its PRFAR activated state at 343 K, whereas conformational motions are considerably different between these two forms of the enzyme at room temperature. Arrhenius analyses of these flexible sites show a varied range of activation energies that loosely correlate to allosteric communities identified by computational methods and reflect local changes in dynamics that may facilitate conformational sampling of the active conformation. In addition, kinetic assays indicate that allosteric activation by PRFAR decreases to 65-fold at 343 K, compared to 4,200-fold at 303 K, which mirrors the decreased effect of PRFAR on ms motions relative to the unactivated enzyme. These studies indicate that at the growth temperature of T. maritima, PFRAR is a weaker allosteric activator than it is at room temperature and illustrate that the allosteric mechanism of IGPS is temperature dependent.
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Affiliation(s)
- George P Lisi
- Department of Chemistry, Yale University, New Haven, CT, United States
| | - Allen A Currier
- Department of Chemistry, Yale University, New Haven, CT, United States
| | - J Patrick Loria
- Department of Chemistry, Yale University, New Haven, CT, United States.,Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, United States
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19
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Sueyoshi D, Anraku Y, Komatsu T, Urano Y, Kataoka K. Enzyme-Loaded Polyion Complex Vesicles as in Vivo Nanoreactors Working Sustainably under the Blood Circulation: Characterization and Functional Evaluation. Biomacromolecules 2017; 18:1189-1196. [DOI: 10.1021/acs.biomac.6b01870] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Daiki Sueyoshi
- Graduate
School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Innovation
Center of Nanomedicine, Kawasaki Institute of Industrial Promotion, 3-25-14 Tonomachi, Kawasaki-ku, Kawasaki 210-0821, Japan
| | - Yasutaka Anraku
- Graduate
School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Innovation
Center of Nanomedicine, Kawasaki Institute of Industrial Promotion, 3-25-14 Tonomachi, Kawasaki-ku, Kawasaki 210-0821, Japan
| | - Toru Komatsu
- Graduate
School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Yasuteru Urano
- Graduate
School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
- Graduate
School of Medicine, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Kazunori Kataoka
- Graduate
School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Graduate
School of Medicine, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
- Policy
Alternatives Research Institute, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-1709, Japan
- Innovation
Center of Nanomedicine, Kawasaki Institute of Industrial Promotion, 3-25-14 Tonomachi, Kawasaki-ku, Kawasaki 210-0821, Japan
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20
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Xylan-specific carbohydrate-binding module belonging to family 6 enhances the catalytic performance of a GH11 endo-xylanase. N Biotechnol 2016; 33:467-72. [DOI: 10.1016/j.nbt.2016.02.006] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2015] [Revised: 01/18/2016] [Accepted: 02/16/2016] [Indexed: 01/09/2023]
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21
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Li M, Zhu L, Wang W. Improving the thermostability and stress tolerance of an archaeon hyperthermophilic superoxide dismutase by fusion with a unique N-terminal domain. SPRINGERPLUS 2016; 5:241. [PMID: 27026935 PMCID: PMC4771647 DOI: 10.1186/s40064-016-1854-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/27/2015] [Accepted: 02/15/2016] [Indexed: 11/10/2022]
Abstract
The superoxide dismutase from the archaeon Sulfolobus solfataricus (SOD Ss ) is a well-studied hyperthermophilic SOD with crystal structure and possible thermostability factors characterized. Previously, we discovered an N-terminal domain (NTD) in a thermophilic SOD from Geobacillus thermodenitrificans NG80-2 which confers heat resistance on homologous mesophilic SODs. The present study therefore aimed to further improve the thermostability and stress tolerance of SOD Ss via fusion with this NTD. The recombinant protein, rSOD Ss , exhibited improved thermophilicity, higher working temperature, improved thermostability, broader pH stability, and enhanced tolerance to inhibitors and organic media than SOD Ss without any alterations in its oligomerization state. These results suggest that the NTD is an excellent candidate for improving stability of both mesophilic and thermophilic SOD from either bacteria or archaea via simple genetic manipulation. Therefore, this study provides a general, feasible and highly useful strategy for generating extremely thermostable SODs for industrial applications.
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Affiliation(s)
- Mingchang Li
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, TEDA Institute of Biological Sciences and Biotechnology, Nankai University, 23 Hongda Street, TEDA, Tianjin, 300457 People's Republic of China
| | - Lin Zhu
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, TEDA Institute of Biological Sciences and Biotechnology, Nankai University, 23 Hongda Street, TEDA, Tianjin, 300457 People's Republic of China
| | - Wei Wang
- Key Laboratory of Molecular Microbiology and Technology, Ministry of Education, TEDA Institute of Biological Sciences and Biotechnology, Nankai University, 23 Hongda Street, TEDA, Tianjin, 300457 People's Republic of China ; Tianjin Key Laboratory of Microbial Functional Genomics, TEDA, Tianjin, 300457 People's Republic of China
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22
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Olukunle OF, Babajide O, Boboye B. Effects of Temperature and pH on the Activities of Catechol 2,3-dioxygenase Obtained from Crude Oil Contaminated Soil in Ilaje, Ondo State, Nigeria. Open Microbiol J 2015; 9:84-90. [PMID: 26464607 PMCID: PMC4598378 DOI: 10.2174/1874285801509010084] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Revised: 06/13/2015] [Accepted: 06/20/2015] [Indexed: 11/30/2022] Open
Abstract
Enrichment technique was employed for the isolation of the crude oil degrading bacteria. The isolated bacteria were screened for their degradative ability and the best degrading bacteria were selected based on their growth. Specific activities of Catechol-2,3-dioxygenase and effects of temperature and pH and their stabilities on the enzyme relative activities were observed. Bacteria isolated from the soil sample include; Bacillus cereus, B. amyloliquficiens, B. firmus, Acinetobacter calcoaceticus, Pseudomonas sp. P. fluorescens, P.putida, P.aeruginosa, Achromobacter xylosoxidans and Achromobacter sp. Screening of the degradative ability of the bacteria revealed P. aeruginosa, Bacillus cereus, Acinetobacter calcoaceticus and Achromobacter sp. to be the best degraders. The pH and temperature range with time for the enzyme activity were 6.0-8.0 and 30oC-50oC respectively. The enzyme exhibited activity that was slightly more tolerant to alkaline pH. Therefore, engineering of Catechol 2,3-dioxygenase may be employed for application on bioremediation of polluted sites.
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Affiliation(s)
- O F Olukunle
- Department of Microbiology, Federal University of Technology Akure, P.M.B. 704, Akure, Nigeria
| | - O Babajide
- Department of Microbiology, Federal University of Technology Akure, P.M.B. 704, Akure, Nigeria
| | - B Boboye
- Department of Microbiology, Federal University of Technology Akure, P.M.B. 704, Akure, Nigeria
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23
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Zhang H, Chingin K, Zhu L, Chen H. Molecular Characterization of Ongoing Enzymatic Reactions in Raw Garlic Cloves Using Extractive Electrospray Ionization Mass Spectrometry. Anal Chem 2015; 87:2878-83. [DOI: 10.1021/ac504371z] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
- Hua Zhang
- Jiangxi Key Laboratory for
Mass Spectrometry and Instrumentation, East China Institute of Technology, Nanchang 330013 P.R. China
| | - Konstantin Chingin
- Jiangxi Key Laboratory for
Mass Spectrometry and Instrumentation, East China Institute of Technology, Nanchang 330013 P.R. China
| | - Liang Zhu
- Jiangxi Key Laboratory for
Mass Spectrometry and Instrumentation, East China Institute of Technology, Nanchang 330013 P.R. China
| | - Huanwen Chen
- Jiangxi Key Laboratory for
Mass Spectrometry and Instrumentation, East China Institute of Technology, Nanchang 330013 P.R. China
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Soriano-Maldonado P, Andújar-Sánchez M, Clemente-Jiménez JM, Rodríguez-Vico F, Las Heras-Vázquez FJ, Martínez-Rodríguez S. Biochemical and Mutational Characterization of N-Succinyl-Amino Acid Racemase from Geobacillus stearothermophilus CECT49. Mol Biotechnol 2015; 57:454-65. [DOI: 10.1007/s12033-015-9839-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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25
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Abedi Karjiban R, Lim WZ, Basri M, Abdul Rahman MB. Molecular Dynamics of Thermoenzymes at High Temperature and Pressure: A Review. Protein J 2014; 33:369-76. [DOI: 10.1007/s10930-014-9568-8] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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26
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Temperature and the catalytic activity of enzymes: A fresh understanding. FEBS Lett 2013; 587:2738-43. [DOI: 10.1016/j.febslet.2013.06.027] [Citation(s) in RCA: 87] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2013] [Revised: 06/18/2013] [Accepted: 06/19/2013] [Indexed: 11/18/2022]
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27
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Lee CK, Monk CR, Daniel RM. Determination of enzyme thermal parameters for rational enzyme engineering and environmental/evolutionary studies. Methods Mol Biol 2013; 996:219-230. [PMID: 23504427 DOI: 10.1007/978-1-62703-354-1_13] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Of the two independent processes by which enzymes lose activity with increasing temperature, irreversible thermal inactivation and rapid reversible equilibration with an inactive form, the latter is only describable by the Equilibrium Model. Any investigation of the effect of temperature upon enzymes, a mandatory step in rational enzyme engineering and study of enzyme temperature adaptation, thus requires determining the enzymes' thermodynamic parameters as defined by the Equilibrium Model. The necessary data for this procedure can be collected by carrying out multiple isothermal enzyme assays at 3-5°C intervals over a suitable temperature range. If the collected data meet requirements for V max determination (i.e., if the enzyme kinetics are "ideal"), then the enzyme's Equilibrium Model parameters (ΔH eq, T eq, ΔG (‡) cat, and ΔG (‡) inact) can be determined using a freely available iterative model-fitting software package designed for this purpose.Although "ideal" enzyme reactions are required for determination of all four Equilibrium Model parameters, ΔH eq, T eq, and ΔG (‡) cat can be determined from initial (zero-time) rates for most nonideal enzyme reactions, with substrate saturation being the only requirement.
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Affiliation(s)
- Charles K Lee
- Thermophile Research Unit, Department of Biological Sciences, University of Waikato, Hamilton, New Zealand
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29
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Bechtold M, Panke S. Model-based characterization of operational stability of multimeric enzymes with complex deactivation behavior: An in-silico investigation. Chem Eng Sci 2012. [DOI: 10.1016/j.ces.2012.05.030] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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30
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Nellas RB, Glover MM, Hamelberg D, Shen T. High-pressure effect on the dynamics of solvated peptides. J Chem Phys 2012; 136:145103. [DOI: 10.1063/1.3700183] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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31
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Reátegui E, Reynolds E, Kasinkas L, Aggarwal A, Sadowsky MJ, Aksan A, Wackett LP. Silica gel-encapsulated AtzA biocatalyst for atrazine biodegradation. Appl Microbiol Biotechnol 2012; 96:231-40. [DOI: 10.1007/s00253-011-3821-2] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2011] [Revised: 11/29/2011] [Accepted: 12/05/2011] [Indexed: 11/30/2022]
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32
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A new understanding of how temperature affects the catalytic activity of enzymes. Trends Biochem Sci 2010; 35:584-91. [DOI: 10.1016/j.tibs.2010.05.001] [Citation(s) in RCA: 95] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2010] [Revised: 04/27/2010] [Accepted: 05/03/2010] [Indexed: 11/22/2022]
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33
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Abstract
Experimental data show that the effect of temperature on enzymes cannot be adequately explained in terms of a two-state model based on increases in activity and denaturation. The Equilibrium Model provides a quantitative explanation of enzyme thermal behaviour under reaction conditions by introducing an inactive (but not denatured) intermediate in rapid equilibrium with the active form. The temperature midpoint (Teq) of the rapid equilibration between the two forms is related to the growth temperature of the organism, and the enthalpy of the equilibrium (ΔHeq) to its ability to function over various temperature ranges. In the present study, we show that the difference between the active and inactive forms is at the enzyme active site. The results reveal an apparently universal mechanism, independent of enzyme reaction or structure, based at or near the active site, by which enzymes lose activity as temperature rises, as opposed to denaturation which is global. Results show that activity losses below Teq may lead to significant errors in the determination of ΔG*cat made on the basis of the two-state (‘Classical’) model, and the measured kcat will then not be a true indication of an enzyme's catalytic power. Overall, the results provide a molecular rationale for observations that the active site tends to be more flexible than the enzyme as a whole, and that activity losses precede denaturation, and provide a general explanation in molecular terms for the effect of temperature on enzyme activity.
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Rogers TA, Daniel RM, Bommarius AS. Deactivation of TEM-1 β-Lactamase Investigated by Isothermal Batch and Non-Isothermal Continuous Enzyme Membrane Reactor Methods. ChemCatChem 2009; 1:131-137. [PMID: 22039393 PMCID: PMC3203640 DOI: 10.1002/cctc.200900120] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2009] [Indexed: 11/08/2022]
Abstract
The thermal deactivation of TEM-1 β-lactamase was examined using two experimental techniques: a series of isothermal batch assays and a single, continuous, non-isothermal assay in an enzyme membrane reactor (EMR). The isothermal batch-mode technique was coupled with the three-state "Equilibrium Model" of enzyme deactivation, while the results of the EMR experiment were fitted to a four-state "molten globule model". The two methods both led to the conclusions that the thermal deactivation of TEM-1 β-lactamase does not follow the Lumry-Eyring model and that the T(eq) of the enzyme (the point at which active and inactive states are present in equal amounts due to thermodynamic equilibrium) is at least 10 °C from the T(m) (melting temperature), contrary to the idea that the true temperature optimum of a biocatalyst is necessarily close to the melting temperature.
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Affiliation(s)
- Thomas A. Rogers
- School of Chemical and Biomolecular Engineering, Parker H. Petit Institute for Bioengineering and Bioscience, Georgia Institute of Technology, 315 Ferst Drive NW, Atlanta, GA (USA) 30332-0323 (USA), Fax: (+ 1) 404-894-2291
| | - Roy M. Daniel
- Department of Biological Sciences, University of Waikato, Private Bag 3105, Hamilton, 3240 (New Zealand), Fax: (+ 64) 7-8384324
| | - Andreas S. Bommarius
- School of Chemical and Biomolecular Engineering, Parker H. Petit Institute for Bioengineering and Bioscience, Georgia Institute of Technology, 315 Ferst Drive NW, Atlanta, GA (USA) 30332-0323 (USA), Fax: (+ 1) 404-894-2291
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35
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Kim CS, Pierre B, Ostermeier M, Looger LL, Kim JR. Enzyme stabilization by domain insertion into a thermophilic protein. Protein Eng Des Sel 2009; 22:615-23. [DOI: 10.1093/protein/gzp044] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
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36
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Gummadi SN, Kumar S. Effects of Temperature and Salts on Growth of Halotolerant Debaryomyces nepalensis NCYC 3413. ACTA ACUST UNITED AC 2008. [DOI: 10.3923/ajft.2008.354.360] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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37
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Dumon C, Varvak A, Wall MA, Flint JE, Lewis RJ, Lakey JH, Morland C, Luginbühl P, Healey S, Todaro T, DeSantis G, Sun M, Parra-Gessert L, Tan X, Weiner DP, Gilbert HJ. Engineering hyperthermostability into a GH11 xylanase is mediated by subtle changes to protein structure. J Biol Chem 2008; 283:22557-64. [PMID: 18515360 DOI: 10.1074/jbc.m800936200] [Citation(s) in RCA: 99] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Understanding the structural basis for protein thermostability is of considerable biological and biotechnological importance as exemplified by the industrial use of xylanases at elevated temperatures in the paper pulp and animal feed sectors. Here we have used directed protein evolution to generate hyperthermostable variants of a thermophilic GH11 xylanase, EvXyn11. The Gene Site Saturation Mutagenesis (GSSM) methodology employed assesses the influence on thermostability of all possible amino acid substitutions at each position in the primary structure of the target protein. The 15 most thermostable mutants, which generally clustered in the N-terminal region of the enzyme, had melting temperatures (Tm) 1-8 degrees C higher than the parent protein. Screening of a combinatorial library of the single mutants identified a hyperthermostable variant, EvXyn11TS, containing seven mutations. EvXyn11TS had a Tm approximately 25 degrees C higher than the parent enzyme while displaying catalytic properties that were similar to EvXyn11. The crystal structures of EvXyn11 and EvXyn11TS revealed an absence of substantial changes to identifiable intramolecular interactions. The only explicable mutations are T13F, which increases hydrophobic interactions, and S9P that apparently locks the conformation of a surface loop. This report shows that the molecular basis for the increased thermostability is extraordinarily subtle and points to the requirement for new tools to interrogate protein folding at non-ambient temperatures.
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Affiliation(s)
- Claire Dumon
- Institute for Cell and Molecular Biosciences, Newcastle University, The Medical School, Newcastle Upon Tyne NE2 4HH, United Kingdom
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Abstract
Arising from careful measurements of the thermal behaviour of enzymes, a new model, the Equilibrium Model, has been developed to explain more fully the effects of temperature on enzymes. The model describes the effect of temperature on enzyme activity in terms of a rapidly reversible active–inactive (but not denatured) transition, revealing an additional and reversible mechanism for enzyme activity loss in addition to irreversible thermal inactivation at high temperatures. Two new thermal parameters, Teq and ΔHeq, describe the active–inactive transition, and enable a complete description of the effect of temperature on enzyme activity. We describe here the Model and its fit to experimental data, methods for the determination of the Equilibrium Model parameters, and the implications of the Model for the environmental adaptation and evolution of enzymes, and for biotechnology.
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Coquelle N, Fioravanti E, Weik M, Vellieux F, Madern D. Activity, stability and structural studies of lactate dehydrogenases adapted to extreme thermal environments. J Mol Biol 2007; 374:547-62. [PMID: 17936781 DOI: 10.1016/j.jmb.2007.09.049] [Citation(s) in RCA: 87] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2007] [Revised: 09/17/2007] [Accepted: 09/18/2007] [Indexed: 11/19/2022]
Abstract
Lactate dehydrogenase (LDH) catalyzes the conversion of pyruvate to lactate with concomitant oxidation of NADH during the last step in anaerobic glycolysis. In the present study, we present a comparative biochemical and structural analysis of various LDHs adapted to function over a large temperature range. The enzymes were from Champsocephalus gunnari (an Antarctic fish), Deinococcus radiodurans (a mesophilic bacterium) and Thermus thermophilus (a hyperthermophilic bacterium). The thermodynamic activation parameters of these LDHs indicated that temperature adaptation from hot to cold conditions was due to a decrease in the activation enthalpy and an increase in activation entropy. The crystal structures of these LDHs have been solved. Pairwise comparisons at the structural level, between hyperthermophilic versus mesophilic LDHs and mesophilic versus psychrophilic LDHs, have revealed that temperature adaptation is due to a few amino acid substitutions that are localized in critical regions of the enzyme. These substitutions, each having accumulating effects, play a role in either the conformational stability or the local flexibility or in both. Going from hot- to cold-adapted LDHs, the various substitutions have decreased the number of ion pairs, reduced the size of ionic networks, created unfavorable interactions involving charged residues and induced strong local disorder. The analysis of the LDHs adapted to extreme temperatures shed light on how evolutionary processes shift the subtle balance between overall stability and flexibility of an enzyme.
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Affiliation(s)
- Nicolas Coquelle
- Laboratoire de Biophysique Moléculaire, Institut de Biologie Structurale J.-P. Ebel, CEA CNRS UJF, UMR 5075, 41 rue Jules Horowitz, 38027 Grenoble Cedex 01, France
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40
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Daniel RM, Danson MJ, Eisenthal R, Lee CK, Peterson ME. The effect of temperature on enzyme activity: new insights and their implications. Extremophiles 2007; 12:51-9. [PMID: 17849082 DOI: 10.1007/s00792-007-0089-7] [Citation(s) in RCA: 69] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2007] [Accepted: 04/19/2007] [Indexed: 11/24/2022]
Abstract
The two established thermal properties of enzymes are their activation energy and their thermal stability. Arising from careful measurements of the thermal behaviour of enzymes, a new model, the Equilibrium Model, has been developed to explain more fully the effects of temperature on enzymes. The model describes the effect of temperature on enzyme activity in terms of a rapidly reversible active-inactive transition, in addition to an irreversible thermal inactivation. Two new thermal parameters, Teq and Delta Heq, describe the active-inactive transition, and enable a complete description of the effect of temperature on enzyme activity. We review here the Model itself, methods for the determination of Teq and Delta Heq, and the implications of the Model for the environmental adaptation and evolution of enzymes, and for biotechnology.
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Affiliation(s)
- Roy M Daniel
- Department of Biological Sciences, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand.
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41
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Lee CK, Daniel RM, Shepherd C, Saul D, Cary SC, Danson MJ, Eisenthal R, Peterson ME. Eurythermalism and the temperature dependence of enzyme activity. FASEB J 2007; 21:1934-41. [PMID: 17341686 DOI: 10.1096/fj.06-7265com] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
The "Equilibrium Model" has provided new tools for describing and investigating enzyme thermal adaptation. It has been shown that the effect of temperature on enzyme activity is not only governed by deltaG(double dagger)(cat) and deltaG(double dagger)(inact) but also by two new intrinsic parameters, deltaH(eq) and T(eq), which describe the enthalpy and midpoint, respectively, of a reversible equilibrium between active and inactive (but not denatured) forms of enzyme. Twenty-one enzymes from organisms with a wide range of growth temperatures were characterized using the Equilibrium Model. Statistical analysis indicates that T(eq) is a better predictor of growth temperature than enzyme stability (deltaG(double dagger)(inact)). As expected from the Equilibrium Model, deltaH(eq) correlates with catalytic temperature tolerance of enzymes and thus can be declared the first intrinsic and quantitative measure of enzyme eurythermalism. Other findings shed light on the evolution of psychrophilic and thermophilic enzymes. The findings suggest that the description of the Equilibrium Model of the effect of temperature on enzyme activity applies to all enzymes regardless of their temperature origins and that its associated parameters, deltaH(eq) and T(eq), are intrinsic and necessary parameters for characterizing the thermal properties of enzymes and their temperature adaptation and evolution.
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Affiliation(s)
- Charles K Lee
- Department of Biological Sciences, University of Waikato, Private Bag 3105, Hamilton 3240, New Zealand
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Peterson M, Daniel R, Danson M, Eisenthal R. The dependence of enzyme activity on temperature: determination and validation of parameters. Biochem J 2007; 402:331-7. [PMID: 17092210 PMCID: PMC1798444 DOI: 10.1042/bj20061143] [Citation(s) in RCA: 133] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Traditionally, the dependence of enzyme activity on temperature has been described by a model consisting of two processes: the catalytic reaction defined by DeltaG(Dagger)(cat), and irreversible inactivation defined by DeltaG(Dagger)(inact). However, such a model does not account for the observed temperature-dependent behaviour of enzymes, and a new model has been developed and validated. This model (the Equilibrium Model) describes a new mechanism by which enzymes lose activity at high temperatures, by including an inactive form of the enzyme (E(inact)) that is in reversible equilibrium with the active form (E(act)); it is the inactive form that undergoes irreversible thermal inactivation to the thermally denatured state. This equilibrium is described by an equilibrium constant whose temperature-dependence is characterized in terms of the enthalpy of the equilibrium, DeltaH(eq), and a new thermal parameter, T(eq), which is the temperature at which the concentrations of E(act) and E(inact) are equal; T(eq) may therefore be regarded as the thermal equivalent of K(m). Characterization of an enzyme with respect to its temperature-dependent behaviour must therefore include a determination of these intrinsic properties. The Equilibrium Model has major implications for enzymology, biotechnology and understanding the evolution of enzymes. The present study presents a new direct data-fitting method based on fitting progress curves directly to the Equilibrium Model, and assesses the robustness of this procedure and the effect of assay data on the accurate determination of T(eq) and its associated parameters. It also describes simpler experimental methods for their determination than have been previously available, including those required for the application of the Equilibrium Model to non-ideal enzyme reactions.
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Affiliation(s)
- Michelle E. Peterson
- *Department of Biological Sciences, University of Waikato, Private Bag 3105, Hamilton, 3240, New Zealand
| | - Roy M. Daniel
- *Department of Biological Sciences, University of Waikato, Private Bag 3105, Hamilton, 3240, New Zealand
- To whom correspondence should be addressed (email )
| | - Michael J. Danson
- †Centre for Extremophile Research, Department of Biology and Biochemistry, University of Bath, Bath BA2 7AY, U.K
| | - Robert Eisenthal
- ‡Department of Biology and Biochemistry, University of Bath, Bath BA2 7AY, U.K
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Mansfeld J, Ulbrich-Hofmann R. The stability of engineered thermostable neutral proteases from Bacillus stearothermophilus in organic solvents and detergents. Biotechnol Bioeng 2006; 97:672-9. [PMID: 17163509 DOI: 10.1002/bit.21292] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Engineered extremely thermostable variants of the thermolysin-like protease from Bacillus stearothermophilus possessing an introduced disulfide bond G8C/N60C (double mutant, DM) and six additional amino acid substitutions in the exposed loop region 56-69 (Boilysin, BLN) have been probed with respect to stability toward water-miscible organic solvents and detergents. The solvent concentrations where 50% of enzyme activity were irreversibly lost (C(50)) decreased in the order methanol > 2-propanol > dimethylsulfoxide > dioxane > acetonitrile > dimethylformamide > acetone. The C(50) values were remarkably higher for the thermostable variants than for the wild-type enzymes. Therefore, the stabilization of this loop region also protects the molecule from irreversible inactivation by solvents, and inactivation seems to follow principally the same mechanism as thermal inactivation. However, in contrast to thermal inactivation where the corresponding T(50) values of DM and BLN differed by 10 K, the differences of the C(50) values of DM and BLN were not significant. Detergents had great effects on proteolytic activities which were dependent on the individual detergent and its concentration, but mostly without significant differences between the enzyme variants. These effects were inactivating (SDS, sulfobetaine) or strongly activating (CTAB, CHAPS). Triton X-100 and Tween 20 were activating or inactivating at low and high concentrations, respectively. In all detergents, stabilities of the enzymes were strongly decreased. However, the more thermostable variants were affected by the detergents to the same extent as the wild-type enzymes suggesting that the mechanism of detergent inactivation is different from that of thermal inactivation.
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Affiliation(s)
- Johanna Mansfeld
- Department of Biochemistry/Biotechnology, Martin-Luther University, Kurt-Mothes-Strasse 3, D-06120 Halle, Germany.
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