1
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Xu Z, Hileuskaya K, Kraskouski A, Yang Y, Huang Z, Zhao Z. Inhibition of α-glucosidase activity and intestinal glucose transport to assess the in vivo anti-hyperglycemic potential of dodecyl-acylated phlorizin and polydatin derivatives. Food Funct 2024; 15:4785-4804. [PMID: 38511466 DOI: 10.1039/d3fo05233h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/22/2024]
Abstract
A diet containing natural active compounds that can inhibit the hydrolytic activity of α-glucosidase on carbohydrates and intestinal glucose absorption is an effective means of controlling postprandial hyperglycemia. Phlorizin and polydatin as phenolic glycosides have a high affinity for the catalytic site of α-glucosidase, but exhibited unsatisfactory competitive inhibitory capacity, with an IC50 of 0.97 and >2 mM, respectively. However, dodecyl-acylated derivatives of phlorizin and polydatin exerted α-glucosidase inhibitory capacity, with an IC50 of 55.10 and 70.95 μM, respectively, which were greatly enhanced and much stronger than that of acarbose with an IC50 of 2.46 mM. The SPR assay suggested the high affinity of dodecyl phlorizin and dodecyl polydatin to α-glucosidase with equilibrium dissociation constant (KD) values of 12.0 and 7.9 μM, respectively. Both dodecyl phlorizin and dodecyl polydatin reduced the catalytic ability of α-glucosidase by reversible noncompetitive and uncompetitive mixed inhibition, which bind noncovalently to the allosteric site 2 through hydrogen bonds and hydrophobic interactions, thereby inducing the secondary structure unfolding and intrinsic fluorescence quenching of α-glucosidase. Confocal microscopy detection visually showed significant inhibitory effects on FITC-labeled glucose uptake in intestinal Caco-2 cells by phlorizin, polydatin, dodecyl phlorizin and dodecyl polydatin. In addition, based on the differentiated Caco-2 cell monolayer model, dodecyl phlorizin and dodecyl polydatin suppressed intestinal glucose transport more effectively than phlorizin and polydatin, suggesting that they were promising in vivo hypoglycemic active compounds.
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Affiliation(s)
- Zhengming Xu
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China.
| | - Kseniya Hileuskaya
- Institute of Chemistry of New Materials, National Academy of Sciences of Belarus, Minsk, Belarus
| | - Aliaksandr Kraskouski
- Institute of Chemistry of New Materials, National Academy of Sciences of Belarus, Minsk, Belarus
| | - Yujiao Yang
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China.
| | - Zhe Huang
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China.
| | - Zhengang Zhao
- School of Food Science and Engineering, South China University of Technology, Guangzhou 510640, China.
- Guangdong Province Key Laboratory for Green Processing of Natural Products and Product Safety, South China University of Technology, 381 Wushan Road, Guangzhou 510640, China
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2
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Siziya IN, Jung JH, Seo MJ, Lim MC, Seo DH. Whole-cell bioconversion using non-Leloir transglycosylation reactions: a review. Food Sci Biotechnol 2023; 32:749-768. [PMID: 37041815 PMCID: PMC10082888 DOI: 10.1007/s10068-023-01283-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Revised: 02/06/2023] [Accepted: 02/10/2023] [Indexed: 03/06/2023] Open
Abstract
Microbial biocatalysts are evolving technological tools for glycosylation research in food, feed and pharmaceuticals. Advances in bioengineered Leloir and non-Leloir carbohydrate-active enzymes allow for whole-cell biocatalysts to curtail production costs of purified enzymes while enhancing glucan synthesis through continued enzyme expression. Unlike sugar nucleotide-dependent Leloir glycosyltransferases, non-Leloir enzymes require inexpensive sugar donors and can be designed to match the high value, yield and selectivity of the former. This review addresses the current state of bacterial cell-based production of glucans and glycoconjugates via transglycosylation, and describes how alterations made to microbial hosts to surpass purified enzymes as the preferred mode of catalysis are steadily being acquired through genetic engineering, rational design and process optimization. A comprehensive exploration of relevant literature has been summarized to describe whole-cell biocatalysis in non-Leloir glycosylation reactions with various donors and acceptors, and the characterization, application and latest developments in the optimization of their use.
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Affiliation(s)
- Inonge Noni Siziya
- Department of Food Science and Technology, College of Agriculture and Life Sciences, Jeonbuk National University, Jeonju, 54896 Republic of Korea
- Division of Bioengineering, Incheon National University, Incheon, 22012 Republic of Korea
| | - Jong-Hyun Jung
- Research Division for Biotechnology, Korea Atomic Energy Research Institute, Jeongeup, 56212 Republic of Korea
| | - Myung-Ji Seo
- Division of Bioengineering, Incheon National University, Incheon, 22012 Republic of Korea
| | - Min-Cheol Lim
- Research Group of Consumer Safety, Korea Food Research Institute (KFRI), Jeollabuk-do, 55365 Korea
| | - Dong-Ho Seo
- Department of Food Science and Technology, College of Agriculture and Life Sciences, Jeonbuk National University, Jeonju, 54896 Republic of Korea
- Department of Food Science and Biotechnology, Graduate School of Biotechnology and Institute of Life Science and Resources, Kyung Hee University, Yongin, 17104 Republic of Korea
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3
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Ambrožič R, Mravljak R, Podgornik A. Rapid, Direct, Noninvasive Method to Determine the Amount of Immobilized Protein. Anal Chem 2023; 95:5643-5651. [PMID: 36939216 PMCID: PMC10077329 DOI: 10.1021/acs.analchem.2c05402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/21/2023]
Abstract
Protein immobilization is of utmost importance in many areas, where various proteins are used for selective detection of target compounds. Despite the importance given to determine the amount of immobilized protein, there is no simple method that allows direct, noninvasive detection. In this work, a method based on pH transition, occurring during change of solution ionic strength, was developed. The method utilized the ionic character of the immobilized protein while implementing biologically compatible buffers. Five different proteins, namely, glucose oxidase, horseradish peroxidase, bovine serum albumin, lysozyme, and protein A, were immobilized in different amounts on a porous polymeric matrix, and their pH transition was measured using lactate buffer of various concentrations and pH values. A linear correlation was found between the amount of immobilized protein and the amplitude of the pH transition, allowing the detection down to 2 nmol of immobilized protein. By changing the buffer concentration and pH, the sensitivity of the method could be tailored. Criteria based on the symmetry of the pH transition peak have been developed to determine if a particular measurement is within a linear range. In addition, a mathematical model was developed enabling prediction of pH transition profiles based solely on the protein amino acid sequence, the buffer pKa value(s), and the amount of immobilized protein.Hence, it can be used to design pH transition method experiments to achieve the required sensitivity for a target sample. Since the proposed method is noninvasive, it can be routinely applied during optimization of the immobilization protocol, for quality control, and also as an in-process monitoring tool.
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Affiliation(s)
- Rok Ambrožič
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna Pot 113, 1000 Ljubljana, Slovenia
| | - Rok Mravljak
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna Pot 113, 1000 Ljubljana, Slovenia
| | - Aleš Podgornik
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna Pot 113, 1000 Ljubljana, Slovenia.,COBIK, Mirce 21, 5270 Ajdovščina, Slovenia
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4
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Nano-biocatalytic Systems for Cellulose de-polymerization: A Drive from Design to Applications. Top Catal 2023. [DOI: 10.1007/s11244-023-01785-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/24/2023]
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5
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Solomon O, Alshanski I, Shitrit A, Chen YJ, Friedler A, Yitzchaik S. Using a Single Peptide to Electrochemically Sense Multiple Kinases. Biochemistry 2023; 62:351-357. [PMID: 36239671 DOI: 10.1021/acs.biochem.2c00411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Kinases are responsible for regulating cellular and physiological processes, and abnormal kinase activity is associated with various diseases. Therefore, kinases are being used as biomarkers for disease and developing methods for their sensing is highly important. Usually more than one kinase is involved in phosphorylating a target protein. However, kinase detection methods usually detect the activity of only one specific kinase. Here we describe an electrochemical kinase sensing tool for the selective detection of two kinases using the same target peptide. We demonstrate the sensing of kinases ERK2 and PKCδ. This is based on a single sensing element, a peptide that contains two distinct phosphorylation sites of these two kinases. Reversibility experiments with alkaline phosphatase and reaction with the electrochemically active ferrocene-labeled ATP showed that the mechanism of sensing is by detecting the enzymatic phosphorylation. Our approach can be further utilized to develop devices for the detection of multiple kinases and can be expanded to other types of enzymes involved in disease.
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Affiliation(s)
- Ohad Solomon
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Israel Alshanski
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Ariel Shitrit
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Yu-Ju Chen
- Institute of Chemistry, Academia Sinica, No. 128, Section 2, Academia Road, Taipei 115, Taiwan
| | - Assaf Friedler
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Shlomo Yitzchaik
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
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6
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Yin S, Siahaan EA, Niu L, Shibata M, Liu Y, Hagiwara T. Real time monitoring and evaluation of the inhibition effect of fucoxanthin against α-amylase activity by using QCM-A. Front Nutr 2023; 9:1110615. [PMID: 36712503 PMCID: PMC9877462 DOI: 10.3389/fnut.2022.1110615] [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: 11/29/2022] [Accepted: 12/30/2022] [Indexed: 01/13/2023] Open
Abstract
The main symptoms of diabetes are hyperglycemia and insulin resistance. The inhibition of the starch digestion enzymes could effectively regulate starch digestion and glucose absorption, thereby slowing or treating the symptoms of postprandial hyperglycemia. Herein, we used fucoxanthin isolated from Undaria pinnatifida stems, as α-amylase inhibitor, and monitored the interactions of both biomolecules by using quartz crystal microbalance-admittance (QCM-A) instrument. All the processes of α-amylase hydrolysis of starch were also dynamically tracked by using amylose-immobilized QCM technology. In our work, we found that the kinetic parameter (k off, k on, and k cat) values obtained by the QCM-A analysis were relatively consistent compared to the kinetic parameter values obtained by the conventional Michaelis-Menten analysis. For the inhibitory reactions, the results showed that fucoxanthin significantly reduced the activity of α-amylase in a dose-dependent manner. The QCM-A technology shown to be an excellent approach in obtaining comprehensive and accurate kinetic parameters, thereby providing real and accurate data for kinetic studies. It is helpful to clarify the mechanism of action of fucoxanthin on α-amylase, which further proved the potential of fucoxanthin to improve and treat postprandial hyperglycemia.
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Affiliation(s)
- Shipeng Yin
- State Key Laboratory of Food Science and Technology, National Engineering Laboratory for Cereal Fermentation Technology, School of Food Science and Technology, Collaborative Innovation Center of Food Safety and Quality Control in Jiangsu Province, National Engineering Research Center for Functional Food, Jiangnan University, Wuxi, China,Department of Food Science and Technology, Tokyo University of Marine Science and Technology, Tokyo, Japan,*Correspondence: Shipeng Yin,
| | - Evi Amelia Siahaan
- Research Centre for Marine and Land Bioindustry, National Research and Innovation Agency, Bogor, Indonesia
| | - Liqiong Niu
- School of Life Sciences, Guangzhou University, Guangzhou, China
| | - Mario Shibata
- Department of Food Science and Technology, Tokyo University of Marine Science and Technology, Tokyo, Japan
| | - Yuanfa Liu
- State Key Laboratory of Food Science and Technology, National Engineering Laboratory for Cereal Fermentation Technology, School of Food Science and Technology, Collaborative Innovation Center of Food Safety and Quality Control in Jiangsu Province, National Engineering Research Center for Functional Food, Jiangnan University, Wuxi, China
| | - Tomoaki Hagiwara
- Department of Food Science and Technology, Tokyo University of Marine Science and Technology, Tokyo, Japan,Tomoaki Hagiwara,
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7
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Cervantes-Salguero K, Freeley M, Gwyther REA, Jones DD, Chávez JL, Palma M. Single molecule DNA origami nanoarrays with controlled protein orientation. BIOPHYSICS REVIEWS 2022; 3:031401. [PMID: 38505279 PMCID: PMC10903486 DOI: 10.1063/5.0099294] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Accepted: 07/20/2022] [Indexed: 03/21/2024]
Abstract
The nanoscale organization of functional (bio)molecules on solid substrates with nanoscale spatial resolution and single-molecule control-in both position and orientation-is of great interest for the development of next-generation (bio)molecular devices and assays. Herein, we report the fabrication of nanoarrays of individual proteins (and dyes) via the selective organization of DNA origami on nanopatterned surfaces and with controlled protein orientation. Nanoapertures in metal-coated glass substrates were patterned using focused ion beam lithography; 88% of the nanoapertures allowed immobilization of functionalized DNA origami structures. Photobleaching experiments of dye-functionalized DNA nanostructures indicated that 85% of the nanoapertures contain a single origami unit, with only 3% exhibiting double occupancy. Using a reprogrammed genetic code to engineer into a protein new chemistry to allow residue-specific linkage to an addressable ssDNA unit, we assembled orientation-controlled proteins functionalized to DNA origami structures; these were then organized in the arrays and exhibited single molecule traces. This strategy is of general applicability for the investigation of biomolecular events with single-molecule resolution in defined nanoarrays configurations and with orientational control of the (bio)molecule of interest.
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Affiliation(s)
- K. Cervantes-Salguero
- Department of Chemistry, School of Physical and Chemical Sciences, Queen Mary University of London, London, United Kingdom
| | - M. Freeley
- Department of Chemistry, School of Physical and Chemical Sciences, Queen Mary University of London, London, United Kingdom
| | - R. E. A. Gwyther
- Division of Molecular Biosciences, School of Biosciences, Main Building, Cardiff University, Cardiff, Wales, United Kingdom
| | - D. D. Jones
- Division of Molecular Biosciences, School of Biosciences, Main Building, Cardiff University, Cardiff, Wales, United Kingdom
| | - J. L. Chávez
- Air Force Research Laboratory, 711th Human Performance Wing, Wright Patterson Air Force Base, Dayton, Ohio 45433-7901, USA
| | - M. Palma
- Department of Chemistry, School of Physical and Chemical Sciences, Queen Mary University of London, London, United Kingdom
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8
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Solomon O, Sapir H, Mervinetsky E, Chen Y, Friedler A, Yitzchaik S. Kinase Sensing Based on Protein Interactions at the Catalytic Site. Chemistry 2022; 28:e202104227. [DOI: 10.1002/chem.202104227] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2021] [Indexed: 12/12/2022]
Affiliation(s)
- Ohad Solomon
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology The Hebrew University of Jerusalem Safra Campus, Givat Ram Jerusalem 91904 Israel
| | - Hannah Sapir
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology The Hebrew University of Jerusalem Safra Campus, Givat Ram Jerusalem 91904 Israel
| | - Evgeniy Mervinetsky
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology The Hebrew University of Jerusalem Safra Campus, Givat Ram Jerusalem 91904 Israel
| | - Yu‐Ju Chen
- Institute of Chemistry Academia Sinica No. 128, Section2, Academia Road Taipei 115 Taiwan
| | - Assaf Friedler
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology The Hebrew University of Jerusalem Safra Campus, Givat Ram Jerusalem 91904 Israel
| | - Shlomo Yitzchaik
- Institute of Chemistry and the Center for Nanoscience and Nanotechnology The Hebrew University of Jerusalem Safra Campus, Givat Ram Jerusalem 91904 Israel
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9
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Small tools for sweet challenges: advances in microfluidic technologies for glycan synthesis. Anal Bioanal Chem 2022; 414:5139-5163. [PMID: 35199190 DOI: 10.1007/s00216-022-03948-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2021] [Revised: 01/26/2022] [Accepted: 01/31/2022] [Indexed: 11/01/2022]
Abstract
Glycans, including oligosaccharides and glycoconjugates, play an integral role in modulating the biological functions of macromolecules. Many physiological and pathological processes are mediated by interactions between glycans, which has led to the use of glycans as biosensors for pathogen and biomarker detection. Elucidating the relationship between glycan structure and biological function is critical for advancing our understanding of the impact glycans have on human health and disease and for expanding the repertoire of glycans available for bioanalysis, especially for diagnostics. Such efforts have been limited by the difficulty in obtaining sufficient quantities of homogenous glycan samples needed to resolve the exact relationships between glycan structure and their structural or modulatory functions on a given glycoconjugate. Synthetic strategies offer a viable route for overcoming these technical hurdles. In recent years, microfluidics have emerged as powerful tools for realizing high-throughput and reproducible syntheses of homogenous glycans for the potential use in functional studies. This critical review provides readers with an overview of the microfluidic technologies that have been developed for chemical and enzymatic glycan synthesis. The advantages and limitations associated with using microreactor platforms to improve the scalability, productivity, and selectivity of glycosylation reactions will be discussed, as well as suggested future work that can address certain pitfalls.
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10
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Alshanski I, Shitrit A, Sukhran Y, Unverzagt C, Hurevich M, Yitzchaik S. Effect of Interfacial Properties on Impedimetric Biosensing of the Sialylation Process with a Biantennary N-Glycan-Based Monolayer. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:849-855. [PMID: 34989586 DOI: 10.1021/acs.langmuir.1c02995] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Sensing enzymatic sialylation provides new tools for the evaluation of pathological events and pathogen invasion. Enzymatic sialylation is usually monitored via fluorescence or metabolic labeling, which requires relatively large amounts of the glycan substrate with limited availability. Using a label-free biosensor requires smaller quantities of substrates because the interactions induce measurable changes to an interface, which can be translated into a signal. The downside of label-free biosensors is that they are very sensitive to changes at the interface, and the properties of the surface layer can play a major role. Electrochemical impedance spectroscopy was used here to follow the enzymatic sialylation of a biantennary N-glycan acceptor in mixed monolayers. The surfaces contained either neutral, positively or negatively charged, or zwitterionic functional groups. The systems were characterized by contact potential difference, ellipsometry, and contact angle analyses. We found that the characteristics of the mixed monolayer have a profound effect on the biosensing of the enzymatic sialylation. Positively charged layers were found to adsorb the enzyme under the reaction conditions. Negatively charged and zwitterionic surfaces were nonresponsive to enzymatic sialylation. Only the neutral mixed monolayers provided signals that were related directly to enzymatic sialylation. This work demonstrates the importance of appropriate interface properties for monitoring enzymatic sialylation processes.
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Affiliation(s)
- Israel Alshanski
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Ariel Shitrit
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Yonatan Sukhran
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Carlo Unverzagt
- Bioorganic Chemistry, University of Bayreuth, Universitätsstraße 30, 95447 Bayreuth, Germany
| | - Mattan Hurevich
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
| | - Shlomo Yitzchaik
- Institute of Chemistry and Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Safra Campus, Givat Ram, Jerusalem 91904, Israel
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11
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Xia N, Sun T, Liu L, Tian L, Sun Z. Heterogeneous sensing of post-translational modification enzymes by integrating the advantage of homogeneous analysis. Talanta 2022; 237:122949. [PMID: 34736675 DOI: 10.1016/j.talanta.2021.122949] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Revised: 10/05/2021] [Accepted: 10/08/2021] [Indexed: 12/17/2022]
Abstract
Heterogeneous analysis has great application prospects in the detection of post-translational modification (PTM) enzymes with the advantages of signal enhancement, less sample demand, and high sensitivity and selectivity. Nevertheless, once the substrate was fixed on a solid interface, the steric hindrance might limit the approaching of catalytic center to the substrate, thus reducing the efficiency of PTM. Herein, we suggested that the avidin-modified interface could be used to develop heterogeneous sensing platforms with biotin-labeled substrates as the probes, in which the enzymatic PTM was performed in solution and the heterogeneous assay was conducted on a solid surface. The sensing strategy integrates the advantages but overcomes the defects of both homogeneous and heterogeneous assays. Protein kinase A (PKA) and histone acetyltransferase (HAT) were determined as the examples by using sequence-specific peptide substrates. The signal changes were monitored by HRP-based colorimetric assay and antibody-amplified surface plasmon resonance (SPR). The methods were used for analysis of cell lysates and evaluation of inhibition efficiency with satisfactory results. The strategy can be used for the detection of a variety of biological enzymes and provide a new idea for the design of various heterogeneous biosensors. Thus, this work should be of great significance to the popularization and practical application of biosensors.
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Affiliation(s)
- Ning Xia
- Henan Province of Key Laboratory of New Optoelectronic Functional Materials, Anyang Normal University, Anyang, Henan, 455000, PR China
| | - Ting Sun
- Henan Province of Key Laboratory of New Optoelectronic Functional Materials, Anyang Normal University, Anyang, Henan, 455000, PR China; School of Chemistry and Materials Science, Guizhou Education University, GaoXin Road 115, Wudang District, Guizhou, 550000, PR China
| | - Lin Liu
- Henan Province of Key Laboratory of New Optoelectronic Functional Materials, Anyang Normal University, Anyang, Henan, 455000, PR China.
| | - Linxu Tian
- Henan Province of Key Laboratory of New Optoelectronic Functional Materials, Anyang Normal University, Anyang, Henan, 455000, PR China
| | - Zhifang Sun
- Henan Province of Key Laboratory of New Optoelectronic Functional Materials, Anyang Normal University, Anyang, Henan, 455000, PR China.
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Hu J, Liu F, Chen Y, Shangguan G, Ju H. Mass Spectrometric Biosensing: A Powerful Approach for Multiplexed Analysis of Clinical Biomolecules. ACS Sens 2021; 6:3517-3535. [PMID: 34529414 DOI: 10.1021/acssensors.1c01394] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Rapid and sensitive detection of clinical biomolecules in a multiplexed fashion is of great importance for accurate diagnosis of diseases. Mass spectrometric (MS) approaches are exceptionally suitable for clinical analysis due to its high throughput, high sensitivity, and reliable qualitative and quantitative capabilities. To break through the bottleneck of MS technique for detecting high-molecular-weight substances with low ionization efficiency, the concept of mass spectrometric biosensing has been put forward by adopting mass spectrometric chips to recognize the targets and mass spectrometry to detect the signals switched by the recognition. In this review, the principle of mass spectrometric sensing, the construction of different mass tags used for biosensing, and the typical combination mode of mass spectrometric imaging (MSI) technique are summarized. Future perspectives including the design of portable matching platforms, exploitation of novel mass tags, development of effective signal amplification strategies, and standardization of MSI methodologies are proposed to promote the advancements and practical applications of mass spectrometric biosensing.
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Affiliation(s)
- Junjie Hu
- College of Forensic Medicine and Laboratory Medicine, Jining Medical University, Jining 272067, China
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Fei Liu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Yunlong Chen
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
| | - Guoqiang Shangguan
- College of Forensic Medicine and Laboratory Medicine, Jining Medical University, Jining 272067, China
| | - Huangxian Ju
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China
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13
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Wang Y, Xue P, Cao M, Yu T, Lane ST, Zhao H. Directed Evolution: Methodologies and Applications. Chem Rev 2021; 121:12384-12444. [PMID: 34297541 DOI: 10.1021/acs.chemrev.1c00260] [Citation(s) in RCA: 184] [Impact Index Per Article: 61.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Directed evolution aims to expedite the natural evolution process of biological molecules and systems in a test tube through iterative rounds of gene diversifications and library screening/selection. It has become one of the most powerful and widespread tools for engineering improved or novel functions in proteins, metabolic pathways, and even whole genomes. This review describes the commonly used gene diversification strategies, screening/selection methods, and recently developed continuous evolution strategies for directed evolution. Moreover, we highlight some representative applications of directed evolution in engineering nucleic acids, proteins, pathways, genetic circuits, viruses, and whole cells. Finally, we discuss the challenges and future perspectives in directed evolution.
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Affiliation(s)
- Yajie Wang
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Pu Xue
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Mingfeng Cao
- DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Tianhao Yu
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Stephan T Lane
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Huimin Zhao
- Department of Chemical and Biomolecular Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,DOE Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States.,Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
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Gamero-Quijano A, Dossot M, Walcarius A, Scanlon MD, Herzog G. Electrogeneration of a Free-Standing Cytochrome c-Silica Matrix at a Soft Electrified Interface. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2021; 37:4033-4041. [PMID: 33761740 PMCID: PMC8562870 DOI: 10.1021/acs.langmuir.1c00409] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 03/16/2021] [Indexed: 06/12/2023]
Abstract
Interactions of a protein with a solid-liquid or a liquid-liquid interface may destabilize its conformation and hence result in a loss of biological activity. We propose here a method for the immobilization of proteins at an electrified liquid-liquid interface. Cytochrome c (Cyt c) is encapsulated in a silica matrix through an electrochemical process at an electrified liquid-liquid interface. Silica condensation is triggered by the interfacial transfer of cationic surfactant, cetyltrimethylammonium, at the lower end of the interfacial potential window. Cyt c is then adsorbed on the previously electrodeposited silica layer, when the interfacial potential, Δowϕ, is at the positive end of the potential window. By cycling of the potential window back and forth, silica electrodeposition and Cyt c adsorption occur sequentially as demonstrated by in situ UV-vis absorbance spectroscopy. After collection from the liquid-liquid interface, the Cyt c-silica matrix is characterized ex situ by UV-vis diffuse reflectance spectroscopy, confocal Raman microscopy, and fluorescence microscopy, showing that the protein maintained its tertiary structure during the encapsulation process. The absence of denaturation is further confirmed in situ by the absence of electrocatalytic activity toward O2 (observed in the case of Cyt c denaturation). This method of protein encapsulation may be used for other proteins (e.g., Fe-S cluster oxidoreductases, copper-containing reductases, pyrroloquinoline quinone-containing enzymes, or flavoproteins) in the development of biphasic bioelectrosynthesis or bioelectrocatalysis applications.
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Affiliation(s)
- Alonso Gamero-Quijano
- The
Bernal Institute and Department of Chemical Sciences, School of Natural
Sciences, University of Limerick (UL), Limerick V94 T9PX, Ireland
| | - Manuel Dossot
- Université
de Lorraine, CNRS, LCPME, F-54000 Nancy, France
| | | | - Micheál D. Scanlon
- The
Bernal Institute and Department of Chemical Sciences, School of Natural
Sciences, University of Limerick (UL), Limerick V94 T9PX, Ireland
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15
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Heine V, Kremers T, Menzel N, Schnakenberg U, Elling L. Electrochemical Impedance Spectroscopy Biosensor Enabling Kinetic Monitoring of Fucosyltransferase Activity. ACS Sens 2021; 6:1003-1011. [PMID: 33595293 DOI: 10.1021/acssensors.0c02206] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Monitoring glycosyltransferases on biosensors is of great interest for pathogen and cancer diagnostics. As a proof of concept, we here demonstrate the layer-by-layer immobilization of a multivalent neoglycoprotein (NGP) as a substrate for a bacterial fucosyltransferase (FucT) and the subsequent binding of the fucose-specific Aleuria aurantia lectin (AAL) on an electrochemical impedance spectroscopy (EIS) sensor. We report for the first time the binding kinetics of a glycosyltransferase in real-time. Highly stable EIS measurements are obtained by the modification of counter and reference electrodes with polypyrrole: polystyrene sulfonate (PPy:PSS). In detail, the N-acetyllactosamine (LacNAc)-carrying NGP was covalently immobilized on the gold working electrode and served as a substrate for the FucT-catalyzed reaction. The LacNAc epitopes were converted to Lewisx (Lex) and detected by AAL. AAL binding to the Lex epitope was further confirmed in a lectin displacement and a competitive lectin binding inhibition experiment. We monitored the individual kinetic processes via EIS. The time constant for covalent immobilization of the NGP was 653 s. The FucT kinetics was the slowest process with a time constant of 1121 s. In contrast, a short time constant of 11.8 s was determined for the interaction of AAL with the modified NGPs. When this process was competed by 400 mM fucose, the binding was significantly slowed down, as indicated by a time constant of 978 s. The kinetics for the displacement of bound AAL by free fucose was observed with a time constant of 424 s. We conclude that this novel EIS biosensor and the applied workflow has the potential to detect FucT and other GT activities in general and further monitor protein-glycan interactions, which may be useful for the detection of pathogenic bacteria and cancer cells in future biomedical applications.
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Affiliation(s)
- Viktoria Heine
- Laboratory for Biomaterials, Institute for Biotechnology and Helmholtz-Institute for Biomedical Engineering, RWTH Aachen University, Pauwelsstraße 20, D-52074 Aachen, Germany
| | - Tom Kremers
- Chair of Micro- and Nanosystems and Institute of Materials in Electrical Engineering 1, RWTH Aachen University, Sommerfeldstraße 24, D-52074 Aachen, Germany
| | - Nora Menzel
- Laboratory for Biomaterials, Institute for Biotechnology and Helmholtz-Institute for Biomedical Engineering, RWTH Aachen University, Pauwelsstraße 20, D-52074 Aachen, Germany
- Chair of Micro- and Nanosystems and Institute of Materials in Electrical Engineering 1, RWTH Aachen University, Sommerfeldstraße 24, D-52074 Aachen, Germany
| | - Uwe Schnakenberg
- Chair of Micro- and Nanosystems and Institute of Materials in Electrical Engineering 1, RWTH Aachen University, Sommerfeldstraße 24, D-52074 Aachen, Germany
| | - Lothar Elling
- Laboratory for Biomaterials, Institute for Biotechnology and Helmholtz-Institute for Biomedical Engineering, RWTH Aachen University, Pauwelsstraße 20, D-52074 Aachen, Germany
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16
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Tada K, Kitagawa Y, Kawakami T, Okumura M, Tanaka S. Electron Density-based Estimation of Diradical Character: An Easy Scheme for DFT/Plane-wave Calculations. CHEM LETT 2021. [DOI: 10.1246/cl.200741] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Kohei Tada
- Research Institute of Electrochemical Energy, National Institute of Advanced Industrial Science and Technology (AIST), 1-8-31 Midorigaoka, Ikeda, Osaka 563-8577, Japan
| | - Yasutaka Kitagawa
- Department of Materials Engineering Science, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Takashi Kawakami
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Osaka 560-0043, Japan
- Riken Center for Computational Science, Kobe, Hyogo 650-0047, Japan
| | - Mitsutaka Okumura
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Osaka 560-0043, Japan
- Elements Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyoto 615-8245, Japan
| | - Shingo Tanaka
- Research Institute of Electrochemical Energy, National Institute of Advanced Industrial Science and Technology (AIST), 1-8-31 Midorigaoka, Ikeda, Osaka 563-8577, Japan
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17
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Alshanski I, Sukhran Y, Mervinetsky E, Unverzagt C, Yitzchaik S, Hurevich M. Electrochemical biosensing platform based on complex biantennary N-glycan for detecting enzymatic sialylation processes. Biosens Bioelectron 2021; 172:112762. [DOI: 10.1016/j.bios.2020.112762] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Revised: 09/03/2020] [Accepted: 10/22/2020] [Indexed: 12/21/2022]
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18
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Ma YY, Zhao DG, Zhang R, He X, Li BQ, Zhang XZ, Wang Z, Zhang K. Identification of bioactive compounds that contribute to the α-glucosidase inhibitory activity of rosemary. Food Funct 2020; 11:1692-1701. [PMID: 32037413 DOI: 10.1039/c9fo02448d] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
To investigate the bioactive compounds that contribute to the α-glucosidase inhibitory activity of rosemary, phenolics and triterpene acids were characterized and quantified using quadrupole-Orbitrap mass spectrometry and enzyme assay. Two phenolic diterpenes (carnosol and hydroxy p-quinone carnosic acid) and two triterpene acids (betulinic acid and ursolic acid) were identified as potent α-glucosidase inhibitors. Carnosol, a major diterpene in rosemary, showed significant α-glucosidase inhibitory activity with IC50 value of 12 μg mL-1, and its inhibition mode was competitive. The inhibition mechanism of carnosol on α-glucosidase was further investigated by a combination of surface plasmon resonance (SPR) spectroscopy, fluorescence quenching studies and molecular-modeling techniques. The SPR assay suggested that carnosol had a high affinity to α-glucosidase with equilibrium dissociation constant (KD) value of 72.6 M. Fluorescence quenching studies indicated that the binding between carnosol and α-glucosidase was spontaneous and mainly driven by hydrophobic forces. Molecular docking studies revealed that carnosol bound to the active site of α-glucosidase. Furthermore, the oral administration of carnosol at 30 mg kg-1 significantly reduced the postprandial blood glucose levels of normal mice. This is the first report on the α-glucosidase inhibition and hypoglycemic activity of phenolic diterpenes, and these results could facilitate the utilization of rosemary as a dietary supplement for the treatment of diabetes.
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Affiliation(s)
- Yan-Yan Ma
- School of Biotechnology and Health Sciences, Wuyi University, Jiangmen 529020, China.
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19
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Tada K, Hayashi A, Maruyama T, Koga H, Yamanaka S, Okumura M, Tanaka S. Effect of surface interactions on spin contamination errors of homogeneous spin dimers, chains, and films: model calculations of Au/MgO and Au/BaO systems. Mol Phys 2020. [DOI: 10.1080/00268976.2020.1791989] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Kohei Tada
- Research Institute of Electrochemical Energy, Department of Energy and Environment, National Institute of Advanced Industrial Science and Technology (AIST), Ikeda, Japan
| | - Akihide Hayashi
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Japan
| | - Tomohiro Maruyama
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Japan
| | - Hiroaki Koga
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Japan
- Research Organization for Information Science and Technology (RIST), Tokyo, Japan
- Element Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyoto, Japan
| | - Shusuke Yamanaka
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Japan
| | - Mitsutaka Okumura
- Department of Chemistry, Graduate School of Science, Osaka University, Toyonaka, Japan
- Element Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyoto, Japan
| | - Shingo Tanaka
- Research Institute of Electrochemical Energy, Department of Energy and Environment, National Institute of Advanced Industrial Science and Technology (AIST), Ikeda, Japan
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20
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“Recent advances on support materials for lipase immobilization and applicability as biocatalysts in inhibitors screening methods”-A review. Anal Chim Acta 2020; 1101:9-22. [DOI: 10.1016/j.aca.2019.11.073] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2019] [Revised: 11/29/2019] [Accepted: 11/30/2019] [Indexed: 01/01/2023]
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21
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An immobilization enzyme for screening lipase inhibitors from Tibetan medicines. J Chromatogr A 2020; 1615:460711. [DOI: 10.1016/j.chroma.2019.460711] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2019] [Revised: 11/14/2019] [Accepted: 11/14/2019] [Indexed: 01/08/2023]
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22
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Martinez JER, Thomas B, Flitsch SL. Glycan Array Technology. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2020; 175:435-456. [PMID: 31907566 DOI: 10.1007/10_2019_112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Glycan (or carbohydrate) arrays have become an essential tool in glycomics, providing fast and high-throughput data on protein-carbohydrate interactions with small amounts of carbohydrate ligands. The general concepts of glycan arrays have been adopted from other microarray technologies such as those used for nucleic acid and proteins. However, carbohydrates have presented their own challenges, in particular in terms of access to glycan probes, linker attachment chemistries and analysis, which will be reviewed in this chapter. As more and more glycan probes have become available through chemical and enzymatic synthesis and robust linker chemistries have been developed, the applications of glycan arrays have dramatically increased over the past 10 years, which will be illustrated with recent examples.
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Affiliation(s)
| | - Baptiste Thomas
- School of Chemistry and MIB, The University of Manchester, Manchester, UK
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23
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Fallows TW, McGrath AJ, Silva J, McAdams SG, Marchesi A, Tuna F, Flitsch SL, Tilley RD, Webb SJ. High-throughput chemical and chemoenzymatic approaches to saccharide-coated magnetic nanoparticles for MRI. NANOSCALE ADVANCES 2019; 1:3597-3606. [PMID: 36133529 PMCID: PMC9417132 DOI: 10.1039/c9na00376b] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/14/2019] [Accepted: 07/29/2019] [Indexed: 05/28/2023]
Abstract
There is a need for biofunctionalised magnetic nanoparticles for many biomedical applications, including MRI contrast agents that have a range of surface properties and functional groups. A library of eleven adducts, each formed by condensing a reducing sugar with a catechol hydrazide, for nanoparticle functionalisation has been created using a high-throughput chemical synthesis methodology. The enzymatic transformation of an N-acetylglucosamine (GlcNAc) adduct into an N-acetyllactosamine adduct by β-1,4-galactosyltransferase illustrates how chemoenzymatic methods could provide adducts bearing complex and expensive glycans. Superparamagnetic iron oxide nanoparticles (8 nm diameter, characterised by TEM, DLS and SQUID) were coated with these adducts and the magnetic resonance imaging (MRI) properties of GlcNAc-labelled nanoparticles were determined. This straightforward approach can produce a range of MRI contrast agents with a variety of biofunctionalised surfaces.
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Affiliation(s)
- Thomas W Fallows
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Manchester Institute of Biotechnology, University of Manchester 131 Princess St Manchester M1 7DN UK
| | - Andrew J McGrath
- School of Chemistry, University of New South Wales Australia
- Australian Centre for NanoMedicine, University of New South Wales Australia
| | - Joana Silva
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Manchester Institute of Biotechnology, University of Manchester 131 Princess St Manchester M1 7DN UK
| | - Simon G McAdams
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- School of Materials, University of Manchester Oxford Road Manchester UK
| | - Andrea Marchesi
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Manchester Institute of Biotechnology, University of Manchester 131 Princess St Manchester M1 7DN UK
| | - Floriana Tuna
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Photon Science Institute, University of Manchester Oxford Road Manchester M13 9PL UK
| | - Sabine L Flitsch
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Manchester Institute of Biotechnology, University of Manchester 131 Princess St Manchester M1 7DN UK
| | - Richard D Tilley
- School of Chemistry, University of New South Wales Australia
- Australian Centre for NanoMedicine, University of New South Wales Australia
- Electron Microscope Unit, Mark Wainwright Analytical Centre, University of New South Wales Australia
| | - Simon J Webb
- School of Chemistry, University of Manchester Oxford Road Manchester M13 9PL UK +44 (0)161 306 4524
- Manchester Institute of Biotechnology, University of Manchester 131 Princess St Manchester M1 7DN UK
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24
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Gray CJ, Migas LG, Barran PE, Pagel K, Seeberger PH, Eyers CE, Boons GJ, Pohl NLB, Compagnon I, Widmalm G, Flitsch SL. Advancing Solutions to the Carbohydrate Sequencing Challenge. J Am Chem Soc 2019; 141:14463-14479. [PMID: 31403778 DOI: 10.1021/jacs.9b06406] [Citation(s) in RCA: 90] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Carbohydrates possess a variety of distinct features with stereochemistry playing a particularly important role in distinguishing their structure and function. Monosaccharide building blocks are defined by a high density of chiral centers. Additionally, the anomericity and regiochemistry of the glycosidic linkages carry important biological information. Any carbohydrate-sequencing method needs to be precise in determining all aspects of this stereodiversity. Recently, several advances have been made in developing fast and precise analytical techniques that have the potential to address the stereochemical complexity of carbohydrates. This perspective seeks to provide an overview of some of these emerging techniques, focusing on those that are based on NMR and MS-hybridized technologies including ion mobility spectrometry and IR spectroscopy.
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Affiliation(s)
- Christopher J Gray
- School of Chemistry & Manchester Institute of Biotechnology , The University of Manchester , 131 Princess Street , Manchester M1 7DN , U.K
| | - Lukasz G Migas
- School of Chemistry & Manchester Institute of Biotechnology , The University of Manchester , 131 Princess Street , Manchester M1 7DN , U.K
| | - Perdita E Barran
- School of Chemistry & Manchester Institute of Biotechnology , The University of Manchester , 131 Princess Street , Manchester M1 7DN , U.K
| | - Kevin Pagel
- Institute for Chemistry and Biochemistry , Freie Universität Berlin , Takustraße 3 , 14195 Berlin , Germany
| | - Peter H Seeberger
- Biomolecular Systems Department , Max Planck Institute for Colloids and Interfaces , Am Muehlenberg 1 , 14476 Potsdam , Germany
| | - Claire E Eyers
- Department of Biochemistry, Institute of Integrative Biology , University of Liverpool , Crown Street , Liverpool L69 7ZB , U.K
| | - Geert-Jan Boons
- Complex Carbohydrate Research Center , University of Georgia , Athens , Georgia 30602 , United States
| | - Nicola L B Pohl
- Department of Chemistry , Indiana University , Bloomington , Indiana 47405 , United States
| | - Isabelle Compagnon
- Institut Lumière Matière, UMR5306 Université Lyon 1-CNRS , Université de Lyon , 69622 Villeurbanne Cedex , France.,Institut Universitaire de France IUF , 103 Blvd St Michel , 75005 Paris , France
| | - Göran Widmalm
- Department of Organic Chemistry, Arrhenius Laboratory , Stockholm University , S-106 91 Stockholm , Sweden
| | - Sabine L Flitsch
- School of Chemistry & Manchester Institute of Biotechnology , The University of Manchester , 131 Princess Street , Manchester M1 7DN , U.K
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25
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Sousa AML, Li TD, Varghese S, Halling PJ, Aaron Lau KH. Highly Active Protein Surfaces Enabled by Plant-Based Polyphenol Coatings. ACS APPLIED MATERIALS & INTERFACES 2018; 10:39353-39362. [PMID: 30299089 DOI: 10.1021/acsami.8b13793] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Proteins represent complex biomolecules capable of wide-ranging but also highly specific functionalities. Their immobilization on material supports can enable broad applications from sensing and industrial biocatalysis to biomedical interfaces and materials. We demonstrate the advantages of using aqueous-processed cross-linked polyphenol coatings for immobilizing proteins, including IgG, avidin, and various single and multidomain enzymes on diverse materials, to enable active biofunctional structures (e.g., ca. 2.2, 1.7, 1.1, and 4.8 mg·m-2 active phosphatase on nanoporous cellulose and alumina, steel mesh, and polyester fabric, respectively). Enzyme assays, X-ray photoelectron spectroscopy, silver staining, supplemented with contact angle, solid-state 13C NMR, HPLC, and ESI-MS measurements were used to characterize the polyphenols, coatings, and protein layers. We show that the functionalization process may be advantageously optimized directly for protein activity rather than the traditional focus on the thickness of the coating layer. Higher activities (by more than an order of magnitude in some cases) and wider process pH and material compatibility are demonstrated with polyphenol coatings than other approaches such as polydopamine. Coatings formed from different plant polyphenol extracts, even at lowered purity (and cost), were also found to be highly functional. Chemically, our results indicate that polyphenol coatings differ from polydopamine mainly because of the elimination of amine groups, and that polyphenol layers with intermediate levels of reactivity may better lead to high immobilized protein activity. Overall, an improved understanding of simple-to-use polyphenol coatings has been obtained, which enabled a significant development in active protein surfaces that may be applied across diverse materials and nanostructured supports.
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Affiliation(s)
- Ana M L Sousa
- WestCHEM/Department of Pure & Applied Chemistry , University of Strathclyde , 295 Cathedral Street , Glasgow G1 1XL , U.K
| | - Tai-De Li
- Advanced Science Research Center (ASRC) of Graduate Center and Department of Physics in City College of New York , CUNY , New York , New York 10031 , United States
| | - Sabu Varghese
- Department of Chemistry , Lancaster University , Lancaster LA1 4YB , U.K
| | - Peter J Halling
- WestCHEM/Department of Pure & Applied Chemistry , University of Strathclyde , 295 Cathedral Street , Glasgow G1 1XL , U.K
| | - King Hang Aaron Lau
- WestCHEM/Department of Pure & Applied Chemistry , University of Strathclyde , 295 Cathedral Street , Glasgow G1 1XL , U.K
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26
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Serna S, Ercibengoa M, Marimón JM, Reichardt NC. Measuring Bacterial Glycosyl Hydrolase Activity with a Soluble Capture Probe by Mass Spectrometry. Anal Chem 2018; 90:12536-12543. [DOI: 10.1021/acs.analchem.8b02434] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Affiliation(s)
- Sonia Serna
- Glycotechnology Laboratory, CIC biomaGUNE, Paseo Miramón 182, San Sebastian 20014, Spain
| | - María Ercibengoa
- Hospital Universitario Donostia-Instituto de Investigación Sanitaria Biodonostia, Begiristain Doktorea Pasealekua 109, San Sebastián 20014, Spain
- Biomedical Research Center Network for Respiratory Diseases (CIBERES), ISCIII, Madrid 28029, Spain
| | - Jose María Marimón
- Hospital Universitario Donostia-Instituto de Investigación Sanitaria Biodonostia, Begiristain Doktorea Pasealekua 109, San Sebastián 20014, Spain
- Biomedical Research Center Network for Respiratory Diseases (CIBERES), ISCIII, Madrid 28029, Spain
| | - Niels-Christian Reichardt
- Glycotechnology Laboratory, CIC biomaGUNE, Paseo Miramón 182, San Sebastian 20014, Spain
- CIBER-BBN, Paseo Miramón 182, San Sebastian 20014, Spain
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27
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Wen L, Edmunds G, Gibbons C, Zhang J, Gadi MR, Zhu H, Fang J, Liu X, Kong Y, Wang PG. Toward Automated Enzymatic Synthesis of Oligosaccharides. Chem Rev 2018; 118:8151-8187. [DOI: 10.1021/acs.chemrev.8b00066] [Citation(s) in RCA: 112] [Impact Index Per Article: 18.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Liuqing Wen
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Garrett Edmunds
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Christopher Gibbons
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Jiabin Zhang
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Madhusudhan Reddy Gadi
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Hailiang Zhu
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
| | - Junqiang Fang
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China
| | - Xianwei Liu
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China
| | - Yun Kong
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China
| | - Peng George Wang
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30303, United States
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China
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Harvey DJ. Analysis of carbohydrates and glycoconjugates by matrix-assisted laser desorption/ionization mass spectrometry: An update for 2013-2014. MASS SPECTROMETRY REVIEWS 2018; 37:353-491. [PMID: 29687922 DOI: 10.1002/mas.21530] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2016] [Accepted: 11/29/2016] [Indexed: 06/08/2023]
Abstract
This review is the eighth update of the original article published in 1999 on the application of Matrix-assisted laser desorption/ionization mass spectrometry (MALDI) mass spectrometry to the analysis of carbohydrates and glycoconjugates and brings coverage of the literature to the end of 2014. Topics covered in the first part of the review include general aspects such as theory of the MALDI process, matrices, derivatization, MALDI imaging, fragmentation, and arrays. The second part of the review is devoted to applications to various structural types such as oligo- and poly- saccharides, glycoproteins, glycolipids, glycosides, and biopharmaceuticals. Much of this material is presented in tabular form. The third part of the review covers medical and industrial applications of the technique, studies of enzyme reactions, and applications to chemical synthesis. © 2018 Wiley Periodicals, Inc. Mass Spec Rev 37:353-491, 2018.
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Affiliation(s)
- David J Harvey
- Target Discovery Institute, Nuffield Department of Medicine, University of Oxford, Roosevelt Drive, Oxford, OX3 7FZ, United Kingdom
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29
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Cao X, Li W, Fan Y, Dong H. Effective Enzyme Coimmobilization and Synergistic Catalysis on Hierarchically Porous Inorganic/Organic Hybrid Microbeads Fabricated Via Droplet-Based Microfluidics. MACROMOL CHEM PHYS 2018. [DOI: 10.1002/macp.201800106] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Xiaodong Cao
- Department of Biomedical Engineering; School of Materials Science and Engineering; South China University of Technology; Guangzhou 510006 China
- National Engineering Research Center for Tissue Restoration and Reconstruction (NERC-TRR); Guangzhou 510006 China
- Guangdong Province Key Laboratory of Biomedical Engineering; South China University of Technology; Guangzhou 510641 China
| | - Wenxiu Li
- Department of Biomedical Engineering; School of Materials Science and Engineering; South China University of Technology; Guangzhou 510006 China
- National Engineering Research Center for Tissue Restoration and Reconstruction (NERC-TRR); Guangzhou 510006 China
| | - Yimei Fan
- Department of Biomedical Engineering; School of Materials Science and Engineering; South China University of Technology; Guangzhou 510006 China
- National Engineering Research Center for Tissue Restoration and Reconstruction (NERC-TRR); Guangzhou 510006 China
| | - Hua Dong
- Department of Biomedical Engineering; School of Materials Science and Engineering; South China University of Technology; Guangzhou 510006 China
- National Engineering Research Center for Tissue Restoration and Reconstruction (NERC-TRR); Guangzhou 510006 China
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Agarose Hydrogel Beads: An Effective Approach to Improve the Catalytic Activity, Stability and Reusability of Fungal Amyloglucosidase of GH15 Family. Catal Letters 2018. [DOI: 10.1007/s10562-018-2460-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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31
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Chattaway C, Belbekhouche S, Du Prez FE, Glinel K, Demoustier-Champagne S. Bifunctionalized Redox-Responsive Layers Prepared from a Thiolactone Copolymer. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:5234-5244. [PMID: 29672069 DOI: 10.1021/acs.langmuir.8b00525] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The development of multifunctional surfaces is of general interest for the fabrication of biomedical, catalytic, microfluidic or biosensing devices. Herein, we report on the preparation of copolymer layers immobilized on gold surface and showing both free thiol and amino groups. These layers are produced by aminolysis of a thiolactone-based copolymer in the presence of a diamine, according to a one-step procedure. The free thiol and amino groups present in the modified copolymer layers can be successfully functionalized with respectively thiolated and carboxylic derivatives, in order to produce bifunctionalized surfaces. In addition, we show that the grafted thiolated derivative can be released by cleavage of the disulfide bond under mild reducing conditions. On the other hand, a side cross-linking reaction occurring during the grafting process and resulting in the formation of copolymer aggregates on the metal surface is evidenced. The methodology developed for the preparation of these bifunctionalized redox-responsive layers should be advantageously used to produce bioactive surfaces with drug loading/release properties.
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Affiliation(s)
- Claire Chattaway
- Institute of Condensed Matter and Nanosciences (Bio and Soft Matter) , Université catholique de Louvain , Croix du Sud 1 , Box L7.04.02, B-1348 Louvain-la-Neuve , Belgium
| | - Sabrina Belbekhouche
- Institute of Condensed Matter and Nanosciences (Bio and Soft Matter) , Université catholique de Louvain , Croix du Sud 1 , Box L7.04.02, B-1348 Louvain-la-Neuve , Belgium
| | - Filip E Du Prez
- Polymer Chemistry Research Group, Centre of Macromolecular Chemistry (CMaC), Department of Organic and Macromolecular Chemistry , Ghent University , Krijgslaan 281 S4 , B-9000 Ghent , Belgium
| | - Karine Glinel
- Institute of Condensed Matter and Nanosciences (Bio and Soft Matter) , Université catholique de Louvain , Croix du Sud 1 , Box L7.04.02, B-1348 Louvain-la-Neuve , Belgium
| | - Sophie Demoustier-Champagne
- Institute of Condensed Matter and Nanosciences (Bio and Soft Matter) , Université catholique de Louvain , Croix du Sud 1 , Box L7.04.02, B-1348 Louvain-la-Neuve , Belgium
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Zhu H, Wu Z, Gadi MR, Wang S, Guo Y, Edmunds G, Guan W, Fang J. Cation exchange assisted binding-elution strategy for enzymatic synthesis of human milk oligosaccharides (HMOs). Bioorg Med Chem Lett 2017; 27:4285-4287. [PMID: 28844388 DOI: 10.1016/j.bmcl.2017.08.041] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2017] [Revised: 08/16/2017] [Accepted: 08/18/2017] [Indexed: 11/27/2022]
Abstract
A cation exchange assisted binding-elution (BE) strategy for enzymatic synthesis of human milk oligosaccharides (HMOs) was developed. An amino linker was used to provide the cation ion under acidic condition which can be readily bound to cation exchange resin and then eluted off by saturated ammonium bicarbonate. Ammonium bicarbonate in the collections was easily removed by vacuum evaporation. This strategy circumvented the incompatible issue between glycosyltransferases and solid support or large polymers, and no purification was needed for intermediate products. With current approach, polyLacNAc backbones of HMOs and fucosylated HMOs were synthesized smoothly.
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Affiliation(s)
- Hailiang Zhu
- National Glycoengineering Research Center, Shandong Provincial Key Laboratory of Glycochemistry and Glycobiology, Shandong University, Jinan, Shandong 250100, China; Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Zhigang Wu
- Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Madhusudhan Reddy Gadi
- Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Shuaishuai Wang
- Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Yuxi Guo
- Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Garrett Edmunds
- Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA
| | - Wanyi Guan
- College of Life Science, Hebei Normal University, Shijiazhuang, Hebei 050024, China; Department of Chemistry and Center of Diagnostics & Therapeutics, Georgia State University, Atlanta, GA 30303, USA.
| | - Junqiang Fang
- National Glycoengineering Research Center, Shandong Provincial Key Laboratory of Glycochemistry and Glycobiology, Shandong University, Jinan, Shandong 250100, China.
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Hollas MA, Webb SJ, Flitsch SL, Fielding AJ. A Bifunctional Spin Label for Ligand Recognition on Surfaces. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201703929] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Michael A. Hollas
- Department of Chemistry; Photon Science Institute; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Simon J. Webb
- Department of Chemistry; Manchester Institute of Biotechnology; University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Sabine L. Flitsch
- Department of Chemistry; Manchester Institute of Biotechnology; University of Manchester; 131 Princess Street Manchester M1 7DN UK
| | - Alistair J. Fielding
- Department of Chemistry; Photon Science Institute; University of Manchester; Oxford Road Manchester M13 9PL UK
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Hollas MA, Webb SJ, Flitsch SL, Fielding AJ. A Bifunctional Spin Label for Ligand Recognition on Surfaces. Angew Chem Int Ed Engl 2017; 56:9449-9453. [PMID: 28570782 PMCID: PMC5577508 DOI: 10.1002/anie.201703929] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2017] [Revised: 05/22/2017] [Indexed: 01/21/2023]
Abstract
In situ monitoring of biomolecular recognition, especially at surfaces, still presents a significant technical challenge. Electron paramagnetic resonance (EPR) of biomolecules spin-labeled with nitroxides can offer uniquely sensitive and selective insights into these processes, but new spin-labeling strategies are needed. The synthesis and study of a bromoacrylaldehyde spin label (BASL), which features two attachment points with orthogonal reactivity is reported. The first examples of mannose and biotin ligands coupled to aqueous carboxy-functionalized gold nanoparticles through a spin label are presented. EPR spectra were obtained for the spin-labeled ligands both free in solution and attached to nanoparticles. The labels were recognized by the mannose-binding lectin, Con A, and the biotin-binding protein avidin-peroxidase. Binding gave quantifiable changes in the EPR spectra from which binding profiles could be obtained that reflect the strength of binding in each case.
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Affiliation(s)
- Michael A Hollas
- Department of Chemistry, Photon Science Institute, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
| | - Simon J Webb
- Department of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Sabine L Flitsch
- Department of Chemistry, Manchester Institute of Biotechnology, University of Manchester, 131 Princess Street, Manchester, M1 7DN, UK
| | - Alistair J Fielding
- Department of Chemistry, Photon Science Institute, University of Manchester, Oxford Road, Manchester, M13 9PL, UK
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35
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Heparin depolymerization by immobilized heparinase: A review. Int J Biol Macromol 2017; 99:721-730. [DOI: 10.1016/j.ijbiomac.2017.03.036] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2016] [Revised: 02/19/2017] [Accepted: 03/06/2017] [Indexed: 12/14/2022]
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Shen M, Rusling J, Dixit CK. Site-selective orientated immobilization of antibodies and conjugates for immunodiagnostics development. Methods 2017; 116:95-111. [PMID: 27876681 PMCID: PMC5374010 DOI: 10.1016/j.ymeth.2016.11.010] [Citation(s) in RCA: 114] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2016] [Revised: 11/16/2016] [Accepted: 11/17/2016] [Indexed: 01/11/2023] Open
Abstract
Immobilized antibody systems are the key to develop efficient diagnostics and separations tools. In the last decade, developments in the field of biomolecular engineering and crosslinker chemistry have greatly influenced the development of this field. With all these new approaches at our disposal, several new immobilization methods have been created to address the main challenges associated with immobilized antibodies. Few of these challenges that we have discussed in this review are mainly associated to the site-specific immobilization, appropriate orientation, and activity retention. We have discussed the effect of antibody immobilization approaches on the parameters on the performance of an immunoassay.
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Affiliation(s)
- Min Shen
- Department of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060
| | - James Rusling
- Department of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060
- Institute of Materials Science, University of Connecticut, Storrs, Connecticut 06269-3136
- Department of Cell Biology, University of Connecticut Health Center, Farmington, Connecticut 060
- School of Chemistry, National University of Ireland at Galway, Galway, Ireland
| | - Chandra K Dixit
- Department of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060
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van Munster JM, Thomas B, Riese M, Davis AL, Gray CJ, Archer DB, Flitsch SL. Application of carbohydrate arrays coupled with mass spectrometry to detect activity of plant-polysaccharide degradative enzymes from the fungus Aspergillus niger. Sci Rep 2017; 7:43117. [PMID: 28220903 PMCID: PMC5318901 DOI: 10.1038/srep43117] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2016] [Accepted: 01/19/2017] [Indexed: 01/25/2023] Open
Abstract
Renewables-based biotechnology depends on enzymes to degrade plant lignocellulose to simple sugars that are converted to fuels or high-value products. Identification and characterization of such lignocellulose degradative enzymes could be fast-tracked by availability of an enzyme activity measurement method that is fast, label-free, uses minimal resources and allows direct identification of generated products. We developed such a method by applying carbohydrate arrays coupled with MALDI-ToF mass spectrometry to identify reaction products of carbohydrate active enzymes (CAZymes) of the filamentous fungus Aspergillus niger. We describe the production and characterization of plant polysaccharide-derived oligosaccharides and their attachment to hydrophobic self-assembling monolayers on a gold target. We verify effectiveness of this array for detecting exo- and endo-acting glycoside hydrolase activity using commercial enzymes, and demonstrate how this platform is suitable for detection of enzyme activity in relevant biological samples, the culture filtrate of A. niger grown on wheat straw. In conclusion, this versatile method is broadly applicable in screening and characterisation of activity of CAZymes, such as fungal enzymes for plant lignocellulose degradation with relevance to biotechnological applications as biofuel production, the food and animal feed industry.
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Affiliation(s)
- Jolanda M van Munster
- Fungal Biology and Genetics, School of Life Sciences, University of Nottingham, University Park, Nottingham NG7 2RD, UK
| | - Baptiste Thomas
- Chemical Biology, Manchester Institute for Biotechnology, University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - Michel Riese
- Chemical Biology, Manchester Institute for Biotechnology, University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - Adrienne L Davis
- School of Chemistry, University of Nottingham, University Park, Nottingham NG7 2RD, UK
| | - Christopher J Gray
- Chemical Biology, Manchester Institute for Biotechnology, University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
| | - David B Archer
- Fungal Biology and Genetics, School of Life Sciences, University of Nottingham, University Park, Nottingham NG7 2RD, UK
| | - Sabine L Flitsch
- Chemical Biology, Manchester Institute for Biotechnology, University of Manchester, 131 Princess Street, Manchester M1 7DN, United Kingdom
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38
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Yang H, Cheng Q. Chemoselective ligation reaction of N-acetylglucosamine (NAG) with hydrazide functional probes to determine galactosyltransferase activity by MALDI mass spectrometry. Analyst 2017; 142:2654-2662. [DOI: 10.1039/c7an00428a] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
A perfluorocarbon-modified gold surface is used to immobilize PF-β-NAG and allows quantification of β-GT enzymatic activity with MALDI-TOF/MS.
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Affiliation(s)
- Hyojik Yang
- Department of Chemistry
- University of California
- Riverside
- USA
| | - Quan Cheng
- Department of Chemistry
- University of California
- Riverside
- USA
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39
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An overview of holocellulose-degrading enzyme immobilization for use in bioethanol production. ACTA ACUST UNITED AC 2016. [DOI: 10.1016/j.molcatb.2016.08.006] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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40
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Ferreira AV, Perelshtein I, Perkas N, Gedanken A, Cunha J, Cavaco-Paulo A. Detection of human neutrophil elastase (HNE) on wound dressings as marker of inflammation. Appl Microbiol Biotechnol 2016; 101:1443-1454. [PMID: 27744556 DOI: 10.1007/s00253-016-7889-6] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2016] [Revised: 09/12/2016] [Accepted: 09/23/2016] [Indexed: 02/05/2023]
Abstract
Chronic wound fluids have elevated concentration of human neutrophil elastase (HNE) which can be used as inflammation/infection marker. Our goal is to develop functional materials for fast diagnosis of wound inflammation/infection by using HNE as a specific marker. For that, fluorogenic peptides with a HNE-specific cleavage sequence were incorporated into traditional textile dressings, to allow real-time detection of the wound status. Two different fluorogenic approaches were studied in terms of intensity of the signal generated upon HNE addition: a fluorophore 7-amino-4-trifluormethylcoumarin (AFC) conjugated to a HNE-specific peptide and two fluorophore/quencher pairs (FAM/Dabcyl and EDANS/Dabcyl) coupled to a similar peptide as a Förster resonance energy transfer (FRET) strategy. Also, two immobilization methods were tested: sonochemistry immobilization onto a cotton bandage and glutaraldehyde (GTA)-assisted chemical crosslinking onto a polyamide dressing. The immobilized fluorogenic AFC peptide showed an intense fluorescence emission in the presence of HNE. HNE also induced an enhanced fluorescent signal with the EDANS/Dabcyl FRET peptide which showed to be a more sensitive and effective strategy than the AFC peptide. However, its chemical immobilization onto the polyamide dressing greatly decreased its detection, mainly due to the more difficult access of the enzyme to the cleavage sequence of the immobilized peptide. After optimization of the in situ immobilization, it will be possible to use these fluorescence-functionalized dressings for an effective and specific monitoring of chronic wounds by simply using a portable ultraviolet (UV) light source. We envision that the development of this point-of-care medical device for wound control will have a great impact on patient's life quality and reduction of costs on health care system.
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Affiliation(s)
- Ana V Ferreira
- Centre of Biological Engineering (CEB), University of Minho, 4710-057, Braga, Portugal
| | - Ilana Perelshtein
- Department of Chemistry, Bar-Ilan Institute of Nanotechnology and Advanced Materials, Bar-Ilan University, IL-52900, Ramat-Gan, Israel
| | - Nina Perkas
- Department of Chemistry, Bar-Ilan Institute of Nanotechnology and Advanced Materials, Bar-Ilan University, IL-52900, Ramat-Gan, Israel
| | - Aharon Gedanken
- Department of Chemistry, Bar-Ilan Institute of Nanotechnology and Advanced Materials, Bar-Ilan University, IL-52900, Ramat-Gan, Israel
| | - Joana Cunha
- Centre of Biological Engineering (CEB), University of Minho, 4710-057, Braga, Portugal
| | - Artur Cavaco-Paulo
- Centre of Biological Engineering (CEB), University of Minho, 4710-057, Braga, Portugal.
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41
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Gawas SD, Jadhav SV, Rathod VK. Solvent Free Lipase Catalysed Synthesis of Ethyl Laurate: Optimization and Kinetic Studies. Appl Biochem Biotechnol 2016; 180:1428-1445. [DOI: 10.1007/s12010-016-2177-6] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2016] [Accepted: 06/22/2016] [Indexed: 10/21/2022]
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42
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Abstract
Current directions and emerging possibilities under investigation for the integration of synthetic and semi-synthetic multivalent architectures with biology are discussed. Attention is focussed around multivalent interactions, their fundamental role in biology, and current and potential approaches in emulating them in terms of structure and functionality using synthetic architectures.
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Affiliation(s)
- Eugene Mahon
- Conway Institute for Biomolecular and Biomedical Science, Belfield, Dublin 4, Ireland.
| | - Mihail Barboiu
- Adaptative Supramolecular Nanosystems Group, Institut Européen des Membranes, ENSCM/UMII/UMR-CNRS 5635, Pl. Eugène Bataillon, CC 047, 34095 Montpellier, Cedex 5, France.
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43
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Identification of transglutaminase 2 kinase substrates using a novel on-chip activity assay. Biosens Bioelectron 2016; 82:40-8. [PMID: 27040940 DOI: 10.1016/j.bios.2016.03.064] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2015] [Revised: 03/21/2016] [Accepted: 03/23/2016] [Indexed: 01/13/2023]
Abstract
Transglutaminase 2 (TG2) is an enzyme that plays a critical role in a wide variety of cellular processes through its multifunctional activities. TG2 kinase has emerged as an important regulator of apoptosis, as well as of chromatin structure and function. However, systematic investigation of TG2 kinase substrates is limited due to a lack of a suitable TG2 kinase activity assays. Thus, we developed a novel on-chip TG2 kinase activity assay for quantitative determination of TG2 kinase activity and for screening TG2 kinase substrate proteins in a high-throughput manner. Quantitative TG2 kinase activity was determined by selective detection of substrate protein phosphorylation on the surface of well-type amine arrays. The limit of detection (LOD) of this assay was 4.34μg/ml. We successfully applied this new activity assay to the kinetic analysis of 27 TG2-related proteins for TG2 kinase activity in a high-throughput manner and determined Michaelis-Menten constants (Km) of these proteins. We used the Km values and cellular locations of the TG2-related proteins to construct a substrate affinity map for TG2 kinase. Therefore, this on-chip TG2 kinase activity assay has a strong potential for the systematic investigation of substrate proteins and will be helpful for studying new physiological functions.
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44
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Two Variants of a High-Throughput Fluorescent Microplate Assay of Polysaccharide Endotransglycosylases. Appl Biochem Biotechnol 2016; 178:1652-65. [DOI: 10.1007/s12010-015-1973-8] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2015] [Accepted: 12/28/2015] [Indexed: 10/22/2022]
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45
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46
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O'Neill EC, Field RA. Underpinning Starch Biology with in vitro Studies on Carbohydrate-Active Enzymes and Biosynthetic Glycomaterials. Front Bioeng Biotechnol 2015; 3:136. [PMID: 26442250 PMCID: PMC4561517 DOI: 10.3389/fbioe.2015.00136] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2015] [Accepted: 08/24/2015] [Indexed: 12/21/2022] Open
Abstract
Starch makes up more than half of the calories in the human diet and is also a valuable bulk commodity that is used across the food, brewing and distilling, medicines and renewable materials sectors. Despite its importance, our understanding of how plants make starch, and what controls the deposition of this insoluble, polymeric, liquid crystalline material, remains rather limited. Advances are hampered by the challenges inherent in analyzing enzymes that operate across the solid-liquid interface. Glyconanotechnology, in the form of glucan-coated sensor chips and metal nanoparticles, present novel opportunities to address this problem. Herein, we review recent developments aimed at the bottom-up generation and self-assembly of starch-like materials, in order to better understand which enzymes are required for starch granule biogenesis and metabolism.
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Affiliation(s)
- Ellis C O'Neill
- Department of Plant Sciences, University of Oxford , Oxford , UK
| | - Robert A Field
- Department of Biological Chemistry, John Innes Centre, Norwich Research Park , Norwich , UK
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47
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Hushegyi A, Bertok T, Damborsky P, Katrlik J, Tkac J. An ultrasensitive impedimetric glycan biosensor with controlled glycan density for detection of lectins and influenza hemagglutinins. Chem Commun (Camb) 2015; 51:7474-7. [PMID: 25828081 PMCID: PMC4883646 DOI: 10.1039/c5cc00922g] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
An impedimetric glycan biosensor with optimised glycan density was applied for the detection of lectins and influenza hemagglutinins down to attomolar concentrations (aM).
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Affiliation(s)
- A Hushegyi
- Department of Glycobiotechnology, Institute of Chemistry, Slovak Academy of Sciences, Dubravska cesta 9, 845 38 Bratislava, Slovakia.
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48
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Wang G, He Z, Shi G, Wang H, Zhang Q, Li Y. Controllable construction of Titanium dioxide-Zirconium dioxide@Zinc hydroxyfluoride networks in micro-capillaries for bio-analysis. J Colloid Interface Sci 2015; 446:290-7. [DOI: 10.1016/j.jcis.2015.01.048] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2015] [Revised: 01/15/2015] [Accepted: 01/20/2015] [Indexed: 11/27/2022]
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49
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Abstract
An appreciable part of enzymes operating in vivo is associated with lipid membranes. The function of such enzymes can be influenced by the presence of domains containing proteins and/or composed of different lipids. The corresponding experimental model-system studies can be performed under well controlled conditions, e.g., on a planar supported lipid bilayer or surface-immobilized vesicles. To clarify what may happen in such systems, we propose general kinetic equations describing the enzyme-catalyzed substrate conversion occurring via the Michaelis-Menten (MM) mechanism on a membrane with domains which do not directly participate in reaction. For two generic situations when a relatively slow reaction takes place primarily in or outside domains, we take substrate saturation and lateral substrate-substrate interactions at domains into account and scrutinize the dependence of the reaction rate on the average substrate coverage. With increasing coverage, depending on the details, the reaction rate reaches saturation via an inflection point or monotonously as in the conventional MM case. In addition, we show analytically the types of reaction kinetics occurring primarily at domain boundaries. In the physically interesting situation when the domain growth is fast on the reaction time scale, the latter kinetics are far from conventional. The opposite situation when the reaction is fast and controlled by diffusion has been studied by using the Monte Carlo technique. The corresponding results indicate that the dependence of the reaction kinetics on the domain size may be weak.
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Affiliation(s)
- Vladimir P Zhdanov
- Division of Biological Physics, Department of Applied Physics, Chalmers University of Technology, SE-41296 Göteborg, Sweden. Boreskov Institute of Catalysis, Russian Academy of Sciences, Novosibirsk 630090, Russia
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50
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Fang Y, Chen S, Wang W, Shan X, Tao N. Real-Time Monitoring of Phosphorylation Kinetics with Self-Assembled Nano-oscillators. Angew Chem Int Ed Engl 2015; 54:2538-42. [DOI: 10.1002/anie.201411040] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2014] [Indexed: 01/30/2023]
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