Enzyme-Based Amperometric Galactose Biosensors: a Review
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Itraq-Based Quantitative Proteomics Analysis Reveals the Mechanism Underlying the Weakening of Carbon Metabolism in Chlorotic Tea Leaves
Article iTRAQ-Based Quantitative Proteomics Analysis Reveals the Mechanism Underlying the Weakening of Carbon Metabolism in Chlorotic Tea Leaves Fang Dong 1,2, Yuanzhi Shi 1,2, Meiya Liu 1,2, Kai Fan 1,2, Qunfeng Zhang 1,2,* and Jianyun Ruan 1,2 1 Tea Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou 310008, China; [email protected] (F.D.); [email protected] (Y.S.); [email protected] (M.L.); [email protected] (K.F.); [email protected] (J.R.) 2 Key Laboratory for Plant Biology and Resource Application of Tea, the Ministry of Agriculture, Hangzhou 310008, China * Correspondence: [email protected]; Tel.: +86-571-8527-0665 Received: 7 November 2018; Accepted: 5 December 2018; Published: 7 December 2018 Abstract: To uncover mechanism of highly weakened carbon metabolism in chlorotic tea (Camellia sinensis) plants, iTRAQ (isobaric tags for relative and absolute quantification)-based proteomic analyses were employed to study the differences in protein expression profiles in chlorophyll-deficient and normal green leaves in the tea plant cultivar “Huangjinya”. A total of 2110 proteins were identified in “Huangjinya”, and 173 proteins showed differential accumulations between the chlorotic and normal green leaves. Of these, 19 proteins were correlated with RNA expression levels, based on integrated analyses of the transcriptome and proteome. Moreover, the results of our analysis of differentially expressed proteins suggested that primary carbon metabolism (i.e., carbohydrate synthesis and transport) was inhibited in chlorotic tea leaves. The differentially expressed genes and proteins combined with photosynthetic phenotypic data indicated that 4-coumarate-CoA ligase (4CL) showed a major effect on repressing flavonoid metabolism, and abnormal developmental chloroplast inhibited the accumulation of chlorophyll and flavonoids because few carbon skeletons were provided as a result of a weakened primary carbon metabolism. -
Engineering the Substrate Specificity of Galactose Oxidase
Engineering the Substrate Specificity of Galactose Oxidase Lucy Ann Chappell BSc. (Hons) Submitted in accordance with the requirements for the degree of Doctor of Philosophy The University of Leeds School of Molecular and Cellular Biology September 2013 The candidate confirms that the work submitted is her own and that appropriate credit has been given where reference has been made to the work of others. This copy has been supplied on the understanding that it is copyright material and that no quotation from the thesis may be published without proper acknowledgement © 2013 The University of Leeds and Lucy Ann Chappell The right of Lucy Ann Chappell to be identified as Author of this work has been asserted by her in accordance with the Copyright, Designs and Patents Act 1988. ii Acknowledgements My greatest thanks go to Prof. Michael McPherson for the support, patience, expertise and time he has given me throughout my PhD. Many thanks to Dr Bruce Turnbull for always finding time to help me with the Chemistry side of the project, particularly the NMR work. Also thanks to Dr Arwen Pearson for her support, especially reading and correcting my final thesis. Completion of the laboratory work would not have been possible without the help of numerous lab members and friends who have taught me so much, helped develop my scientific skills and provided much needed emotional support – thank you for your patience and friendship: Dr Thembi Gaule, Dr Sarah Deacon, Dr Christian Tiede, Dr Saskia Bakker, Ms Briony Yorke and Mrs Janice Robottom. Thank you to three students I supervised during my PhD for their friendship and contributions to the project: Mr Ciaran Doherty, Ms Lito Paraskevopoulou and Ms Upasana Mandal. -
Generated by SRI International Pathway Tools Version 25.0, Authors S
Authors: Pallavi Subhraveti Ron Caspi Quang Ong Peter D Karp An online version of this diagram is available at BioCyc.org. Biosynthetic pathways are positioned in the left of the cytoplasm, degradative pathways on the right, and reactions not assigned to any pathway are in the far right of the cytoplasm. Transporters and membrane proteins are shown on the membrane. Ingrid Keseler Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular function. Gcf_000725805Cyc: Streptomyces xanthophaeus Cellular Overview Connections between pathways are omitted for legibility. -
( 12 ) United States Patent
US010195209B2 (12 ) United States Patent ( 10 ) Patent No. : US 10 , 195 ,209 B2 Gish et al. (45 ) Date of Patent: * Feb . 5 , 2019 (54 ) ANTI- HULRRC15 ANTIBODY DRUG 4 ,634 ,665 A 1 / 1987 Axel 4 ,716 , 111 A 12 / 1987 Osband CONJUGATES AND METHODS FOR THEIR 4 ,737 , 456 A 4 / 1988 Weng USE 4 , 816 ,397 A 3 / 1989 Boss 4 , 816 ,457 A 3 / 1989 Baldwin (71 ) Applicants :AbbVie Inc. , North Chicago , IL (US ) ; 4 , 968 ,615 A 11 / 1990 Koszinowski AbbVie Biotherapeutics Inc. , 5 , 168 , 062 A 12 / 1992 Stinski 5 , 179 ,017 A 1 / 1993 Axel Redwood City , CA (US ) 5 , 225 , 539 A 7 / 1993 Winter 5 , 413 , 923 A 5 / 1995 Kucherlapati ( 72 ) Inventors : Kurt C . Gish , Piedmont, CA (US ) ; 5 ,530 , 101 A 6 /1996 Queen Jonathan A . Hickson , Lake Villa , IL 5 , 545 , 806 A 8 / 1996 Lonberg (US ) ; Susan Elizabeth Morgan - Lappe , 5 , 565 ,332 A 10 / 1996 Hoogenboom Riverwoods, IL (US ) ; James W . 5 , 569 , 825 A 10 / 1996 Lonberg 5 ,585 ,089 A 12 / 1996 Queen Purcell, San Francisco , CA (US ) 5 ,625 , 126 A 4 / 1997 Lonberg 5 ,633 , 425 A 5 / 1997 Lonberg ( 73 ) Assignees: AbbVie Inc. , North Chicago , IL (US ) ; 5 ,658 , 570 A 8 / 1997 Newman AbbVie Biotherapeutics Inc . , 5 ,661 ,016 A 8 / 1997 Lonberg Redwood City , CA (US ) 5 ,681 , 722 A 10 / 1997 Newman 5 ,693 , 761 A 12 / 1997 Queen 5 ,693 , 762 A 12 / 1997 Queen ( * ) Notice : Subject to any disclaimer, the term of this 5 ,693 , 780 A 12 / 1997 Newman patent is extended or adjusted under 35 5 , 807 ,715 A 9 / 1998 Morrison U . -
WO 2012/170711 Al 13 December 2012 (13.12.2012) P O P C T
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2012/170711 Al 13 December 2012 (13.12.2012) P O P C T (51) International Patent Classification: (72) Inventors; and G01N33/5 74 (2006.01) (75) Inventors/Applicants (for US only): PAWLOWSKI, Traci [US/US]; 2014 N Milkweed Loop, Phoenix, AZ (21) International Application Number: 85037 (US). YEATTS, Kimberly [US/US]; 109 E. Pierce PCT/US2012/041387 Street, Tempe, AZ 85281 (US). AKHAVAN, Ray (22) International Filing Date: [US/US]; 5804 Malvern Hill Ct, Haymarket, VA 201 69 7 June 2012 (07.06.2012) (US). (25) Filing Language: English (74) Agent: AKHAVAN, Ramin; Caris Science, Inc., 6655 N. MacArthur Blvd., Irving, TX 75039 (US). (26) Publication Language: English (81) Designated States (unless otherwise indicated, for every (30) Priority Data: kind of national protection available): AE, AG, AL, AM, 61/494,196 7 June 201 1 (07.06.201 1) AO, AT, AU, AZ, BA, BB, BG, BH, BR, BW, BY, BZ, 61/494,355 7 June 201 1 (07.06.201 1) CA, CH, CL, CN, CO, CR, CU, CZ, DE, DK, DM, DO, 61/507,989 14 July 201 1 (14.07.201 1) DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, (71) Applicant (for all designated States except US): CARIS HR, HU, ID, IL, IN, IS, JP, KE, KG, KM, KN, KP, KR, LIFE SCIENCES LUXEMBOURG HOLDINGS, KZ, LA, LC, LK, LR, LS, LT, LU, LY, MA, MD, ME, S.A.R.L [LU/LU]; Rue De Maraichers, L2124 Luxem MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, bourg, Grand-Duche De Luxembourg (LU). -
WO 2012/174282 A2 20 December 2012 (20.12.2012) P O P C T
(12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2012/174282 A2 20 December 2012 (20.12.2012) P O P C T (51) International Patent Classification: David [US/US]; 13539 N . 95th Way, Scottsdale, AZ C12Q 1/68 (2006.01) 85260 (US). (21) International Application Number: (74) Agent: AKHAVAN, Ramin; Caris Science, Inc., 6655 N . PCT/US20 12/0425 19 Macarthur Blvd., Irving, TX 75039 (US). (22) International Filing Date: (81) Designated States (unless otherwise indicated, for every 14 June 2012 (14.06.2012) kind of national protection available): AE, AG, AL, AM, AO, AT, AU, AZ, BA, BB, BG, BH, BR, BW, BY, BZ, English (25) Filing Language: CA, CH, CL, CN, CO, CR, CU, CZ, DE, DK, DM, DO, Publication Language: English DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IS, JP, KE, KG, KM, KN, KP, KR, (30) Priority Data: KZ, LA, LC, LK, LR, LS, LT, LU, LY, MA, MD, ME, 61/497,895 16 June 201 1 (16.06.201 1) US MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, 61/499,138 20 June 201 1 (20.06.201 1) US OM, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SC, SD, 61/501,680 27 June 201 1 (27.06.201 1) u s SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, TR, 61/506,019 8 July 201 1(08.07.201 1) u s TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. -
ENZYME BASED METHODS for LACTATE DETERMINATION Andriana Surleva1, Anna Marinova1, Vladislava Ivanova2, Robert Gradinaru3, Stela Georgieva1
Andriana Surleva,Journal Annaof Chemical Marinova, Technology Vladislava and Ivanova, Metallurgy, Robert 52, Gradinaru,3, 2017, 513-525 Stela Georgieva ENZYME BASED METHODS FOR LACTATE DETERMINATION Andriana Surleva1, Anna Marinova1, Vladislava Ivanova2, Robert Gradinaru3, Stela Georgieva1 1 Analytical Chemistry Department Received 07 November 2016 University of Chemical Technology and Metallurgy Accepted 22 January 2017 8 Kl. Ohridski, 1756 Sofia, Bulgaria E-mail: [email protected] 2Physics Department University of Chemical Technology and Metallurgy 8 Kl. Ohridski, 1756 Sofia, Bulgaria 3 Biochemistry group, Faculty of Chemistry “Alexandru Ioan Cuza” University of Iasi Iasi, Romania ABSTRACT Development of biosensors for lactate determination has gained an increased research interest because of their wide application in clinical analysis and control of fermentation processes in food industry. Lactate biosensors with enzyme modified modules are a perspective alternative to the conventional methods in clinical analysis for their fast response, applicability to continuous mode of analysis, low cost and easy automation. Food and beverage indus- try can also benefit of the advantages of lactate biosensors for monitoring of fermentation processes or control of foods labeled as “low lactate content”. The quantification of low lactate levels demands for sensitive and reliable analytical methods for lactate quantification in complex matrices. This review discusses the enzymatic methods for lactate determination. Recent advances in lactate biosensors -
Regulated T Cell Pre-Mrna Splicing As Genetic Marker of T Cell Suppression
Regulated T cell pre-mRNA splicing as genetic marker of T cell suppression by Boitumelo Mofolo Thesis presented for the degree of Master of Science (Bioinformatics) Institute of Infectious Disease and Molecular Medicine University of Cape Town (UCT) Supervisor: Assoc. Prof. Nicola Mulder August 2012 University of Cape Town The copyright of this thesis vests in the author. No quotation from it or information derived from it is to be published without full acknowledgementTown of the source. The thesis is to be used for private study or non- commercial research purposes only. Cape Published by the University ofof Cape Town (UCT) in terms of the non-exclusive license granted to UCT by the author. University Declaration I, Boitumelo Mofolo, declare that all the work in this thesis, excluding that has been cited and referenced, is my own. Signature Signature Removed Boitumelo Mofolo University of Cape Town Copyright©2012 University of Cape Town All rights reserved 1 ABSTRACT T CELL NORMAL T CELL SUPPRESSION p110 p110 MV p85 PI3K AKT p85 PI3K PHOSPHORYLATION NO PHOSHORYLATION HIV cytoplasm HCMV LCK-011 PRMT5-006 SHIP145 SIP110 RV LCK-010 VCL-204 ATM-016 PRMT5-018 ATM-002 CALD1-008 LCK-006 MXI1-001 VCL-202 NRP1-201 MXI1-007 CALD1-004 nucleus Background: Measles is a highly contagious disease that mainly affects children and according to the World Health Organisation (WHO), was responsible for over 164000 deaths in 2008, despite the availability of a safe and cost-effective vaccine [56]. The Measles virus (MV) inactivates T- cells, rendering them dysfunctional, and results in virally induced immunosuppression which shares certain features with thatUniversity induced by HIV. -
Development Perspective of Bioelectrocatalysis-Based Biosensors
sensors Review Development Perspective of Bioelectrocatalysis-Based Biosensors , Taiki Adachi, Yuki Kitazumi, Osamu Shirai and Kenji Kano * y Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University, Sakyo, Kyoto 606-8502, Japan; [email protected] (T.A.); [email protected] (Y.K.); [email protected] (O.S.) * Correspondence: [email protected] Present address: Center for Advanced Science and Innovation, Kyoto University, Gokasho, Uji, y Kyoto 611-0011, Japan. Received: 19 July 2020; Accepted: 25 August 2020; Published: 26 August 2020 Abstract: Bioelectrocatalysis provides the intrinsic catalytic functions of redox enzymes to nonspecific electrode reactions and is the most important and basic concept for electrochemical biosensors. This review starts by describing fundamental characteristics of bioelectrocatalytic reactions in mediated and direct electron transfer types from a theoretical viewpoint and summarizes amperometric biosensors based on multi-enzymatic cascades and for multianalyte detection. The review also introduces prospective aspects of two new concepts of biosensors: mass-transfer-controlled (pseudo)steady-state amperometry at microelectrodes with enhanced enzymatic activity without calibration curves and potentiometric coulometry at enzyme/mediator-immobilized biosensors for absolute determination. Keywords: current–potential curve; multi-enzymatic cascades; multianalyte detection; mass-transfer-controlled amperometric response; potentiometric coulometry 1. Introduction Electron transfer reactions such as photosynthesis, respiration and metabolisms play an important role in all living things. A huge variety of redox enzymes catalyze the oxidation and reduction of couples of two inherent substrates. Usually, the electrons are transferred between the two substrates through a cofactor(s) that is covalently or non-covalently bound to the redox enzymes. -
Glucose Oxidase (G2133)
Glucose Oxidase, Type VII from Aspergillus niger Catalog Number G2133 Storage Temperature –20 C CAS RN 9001-37-0 Substrates: Glucose oxidase is relatively specific for 7,8 EC 1.1.3.4 -D-glucose (KM of 33–110 mM) It also oxidizes Synonyms: Gox; -D-Glucose:oxygen D-aldohexoses, monodeoxy-D-glucoses, and methyl- 1-oxidoreductase D-glucoses at varying rates. The following substrates are listed in decreasing order of oxidation rate: Product Description D-glucose, 2-deoxy-D-glucose, 4-O-methyl-D-glucose, Glucose oxidase catalyzes the oxidation of -D-glucose 6-deoxy-D-glucose, 4-deoxy-D-glucose, 3-deoxy- to form D-glucono-1,5-lactone and hydrogen peroxide. D-glucose, 3-O-methyl-D-glucose -D-glucose + O2 → D-glucono-1,5-lactone + H2O2 One publication has examined kinetics data and structural data to postulate on the chemical mechanism 9 Glucose oxidase can be utilized for the enzymatic of action of glucose oxidase from A. niger. The role of determination of D-glucose in solution. As glucose FAD in the oxidation of glucose, as catalyzed by glucose oxidase from A. niger, has been investigated oxidase oxidizes -D-glucose to D-gluconolactate and 10 hydrogen peroxide, horseradish peroxidase is often using electrospray ionization mass spectrometry. The crystal structure of a partially deglycosylated form of used as the coupling enzyme in glucose 11 determinations. Although glucose oxidase is specific glucose oxidase from A. niger has been reported. for -D-glucose, solutions of D-glucose can be quantified, as -D-glucose will mutorotate to This product is supplied as a lyophilized powder containing phosphate buffer salts and sodium chloride. -
All Enzymes in BRENDA™ the Comprehensive Enzyme Information System
All enzymes in BRENDA™ The Comprehensive Enzyme Information System http://www.brenda-enzymes.org/index.php4?page=information/all_enzymes.php4 1.1.1.1 alcohol dehydrogenase 1.1.1.B1 D-arabitol-phosphate dehydrogenase 1.1.1.2 alcohol dehydrogenase (NADP+) 1.1.1.B3 (S)-specific secondary alcohol dehydrogenase 1.1.1.3 homoserine dehydrogenase 1.1.1.B4 (R)-specific secondary alcohol dehydrogenase 1.1.1.4 (R,R)-butanediol dehydrogenase 1.1.1.5 acetoin dehydrogenase 1.1.1.B5 NADP-retinol dehydrogenase 1.1.1.6 glycerol dehydrogenase 1.1.1.7 propanediol-phosphate dehydrogenase 1.1.1.8 glycerol-3-phosphate dehydrogenase (NAD+) 1.1.1.9 D-xylulose reductase 1.1.1.10 L-xylulose reductase 1.1.1.11 D-arabinitol 4-dehydrogenase 1.1.1.12 L-arabinitol 4-dehydrogenase 1.1.1.13 L-arabinitol 2-dehydrogenase 1.1.1.14 L-iditol 2-dehydrogenase 1.1.1.15 D-iditol 2-dehydrogenase 1.1.1.16 galactitol 2-dehydrogenase 1.1.1.17 mannitol-1-phosphate 5-dehydrogenase 1.1.1.18 inositol 2-dehydrogenase 1.1.1.19 glucuronate reductase 1.1.1.20 glucuronolactone reductase 1.1.1.21 aldehyde reductase 1.1.1.22 UDP-glucose 6-dehydrogenase 1.1.1.23 histidinol dehydrogenase 1.1.1.24 quinate dehydrogenase 1.1.1.25 shikimate dehydrogenase 1.1.1.26 glyoxylate reductase 1.1.1.27 L-lactate dehydrogenase 1.1.1.28 D-lactate dehydrogenase 1.1.1.29 glycerate dehydrogenase 1.1.1.30 3-hydroxybutyrate dehydrogenase 1.1.1.31 3-hydroxyisobutyrate dehydrogenase 1.1.1.32 mevaldate reductase 1.1.1.33 mevaldate reductase (NADPH) 1.1.1.34 hydroxymethylglutaryl-CoA reductase (NADPH) 1.1.1.35 3-hydroxyacyl-CoA -
Detection of Carbohydrate-Active Enzymes and Genes in a Spent Engine Oil-Perturbed Agricultural Soil Lateef Babatunde Salam
Salam Bulletin of the National Research Centre (2018) 42:10 Bulletin of the National https://doi.org/10.1186/s42269-018-0013-6 Research Centre RESEARCH Open Access Detection of carbohydrate-active enzymes and genes in a spent engine oil-perturbed agricultural soil Lateef Babatunde Salam Abstract Background: The purpose of this study is to decipher the diverse carbohydrate metabolism pathways in a spent engine oil-perturbed agricultural soil, enunciate the carbohydrate-active enzymes and genes involved in the process, taxonomically classify the annotated enzymes and genes, and highlight the importance of the study for ecological and biotechnological processes. Results: Functional analysis of the metagenome of spent engine oil (SEO)-contaminated agricultural soil (AB1) using the Kyoto Encyclopedia of Genes and Genomes (KEGG) GhostKOALA, Cluster of Orthologous Groups (COG) of proteins, the Carbohydrate-Active Enzymes (CAZy) database, and the NCBI’s conserved domain database (CDD) revealed extensive metabolism of carbohydrates via diverse carbohydrate-active enzymes and genes. Enzymes and genes annotated for glycolysis/gluconeogenesis pathway, citric acid (TCA) cycle, pentose phosphate pathway, and pyruvate metabolism, among others, were detected, and these were not detected in the original agricultural soil (1S). Analysis of carbohydrate-active enzymes, using the CAZy database, showed 45 CAZy families with preponderance of glycoside hydrolases (GHs, 46.7%), glycosyltransferases (GTs, 24.4%), and carbohydrate-binding modules (CBMs, 15.5%). Taxonomic classification of the annotated enzymes and genes for carbohydrate metabolism using the GhostKOALA and CAZy databases revealed the predominance of the phylum Proteobacteria with the representative genera Pseudomonas (18%), Sphingobium (13.5%), and Sphingomonas (4.5%), respectively.