Glycoside Hydrolases Degrade Polymicrobial Bacterial Biofilms In
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Enantioselektive Biotransformationen Zur Synthese Von Molekülen Mit
Untersuchung zur Produktion und gerichteten Immobilisierung einer Alginat Lyase aus Sphingomonas sp. A1 Dissertation zur Erlangung des akademischen Grades doctor rerum naturalium (Dr. rer. nat.) vorgelegt der Naturwissenschaftlichen Fakultät I Biowissenschaften der Martin-Luther-Universität Halle-Wittenberg von Herrn Dipl.-Biol. Christian Beyerodt geboren am 15.12.1982 in Halle an der Saale Halle (Saale) 2015 Gutachter/in: 1. Prof. Dr. Markus Pietzsch 2. Prof. Dr. Reinhard Neubert 3. Prof. Dr. Christoph Syldatk Tag der öffentlichen Verteidigung: 30.03.2016 2 Selbstständigkeitserklärung Hiermit erkläre ich, Christian Beyerodt, dass ich die vorliegende Arbeit - mit Ausnahme der aufgeführten Personen, Unterlagen bzw. Literaturstellen - selbstständig und ohne fremde Hilfe angefertigt habe, _________________ Halle, Datum 3 Danksagung Die vorliegende Dissertation entstand während meiner Tätigkeit als wissenschaftlicher Mitar- beiter in der Arbeitsgruppe „Aufarbeitung biotechnischer Produkte“ des Institutes für Phar- mazie an der Martin-Luther-Universität Halle-Wittenberg. Viele Menschen haben mich wäh- rend dieser Zeit unterstützt und dazu beigetragen, dass ich diese Zeit der Promotion als ei- nen positiven Lebensabschnitt in Erinnerung behalten werde. Diesen Personen möchte ich im Folgenden danken. Zuerst möchte ich mich bei Prof. Dr. Markus Pietzsch für das entgegengebrachte Vertrauen, mir das Thema zu überlassen, bedanken. Auch danke ich für die vielen konstruktiven Dis- kussionen, Kritiken und Hilfestellungen, welche diese Arbeit erst ermöglichten. Weiterhin danke ich der Firma Lanxess, im speziellen Frau Dr. Hermsdorf und Herrn Dr. Schellenberg. Das interdisziplinäre Projekt wurde die Grundlage für meine Forschungen. Ich danke natürlich auch der gesamten Arbeitsgruppe „AG-Pietzsch“ für die schöne Zeit und die zahlreichen Aktivitäten neben der Arbeit. Die Sommerfeste waren immer ein riesen Spaß. -
Analysis of Carbohydrates and Glycoconjugates by Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry: an Update for 2011–2012
ANALYSIS OF CARBOHYDRATES AND GLYCOCONJUGATES BY MATRIX-ASSISTED LASER DESORPTION/IONIZATION MASS SPECTROMETRY: AN UPDATE FOR 2011–2012 David J. Harvey* Department of Biochemistry, Oxford Glycobiology Institute, University of Oxford, Oxford OX1 3QU, UK Received 19 June 2014; accepted 15 January 2015 Published online in Wiley Online Library (wileyonlinelibrary.com). DOI 10.1002/mas.21471 This review is the seventh update of the original article published text. As the review is designed to complement the earlier work, in 1999 on the application of MALDI mass spectrometry to the structural formulae, etc. that were presented earlier are not analysis of carbohydrates and glycoconjugates and brings repeated. However, a citation to the structure in the earlier work coverage of the literature to the end of 2012. General aspects is indicated by its number with a prefix (i.e., 1/x refers to such as theory of the MALDI process, matrices, derivatization, structure x in the first review and 2/x to structure x the second). MALDI imaging, and fragmentation are covered in the first part Books, general reviews, and review-type articles directly of the review and applications to various structural types concerned with, or including, MALDI analysis of carbohydrates constitute the remainder. The main groups of compound are and glycoconjugates to have been published during the review oligo- and poly-saccharides, glycoproteins, glycolipids, glyco- period are listed in Table 1. Reviews relating to more specific sides, and biopharmaceuticals. Much of this material is presented aspects of MALDI analysis are listed in the appropriate sections. in tabular form. Also discussed are medical and industrial applications of the technique, studies of enzyme reactions, and II. -
The Distribution of Carbohydrase Activities in the Small Intestine in Early Weaned Calves
The Distribution of Carbohydrase Activities in the Small Intestine in Early Weaned Calves Toshikazu MIYASHIGEand Shigefusa YAHATA Chugoku National Agricultural Experiment Station, Oda-shi 694-01 (Received December 8, 1980) Abstract 1. The carbohydrase activities of the small intestine of early weaned calves were compared with those of nursing ones at 26 weeks of age. 2. In the early weaned calves, the pH value of content of the caecum was observed to be lower than that of the nursing ones, suggesting that more soluble carbohydrates would have escaped from ruminal fermentation and reached the caecum. 3. The values of maltase and iso maltase activities of the early weaned calves were not different from those of the nursing ones. However, maltase activity of the early weaned calves distributed more constantly with relatively high level all over the small intestine. Lactase activity of the early weaned calves was almost the same as that of the nursing ones. Dextranase and amylase activities were also found in the small intestine of the early weaned calves. Jpn. J. Zootech. Sci., 52 (7): 532-536, 1981 In the previous study1) with nursing calves, it was shown that intestinal maltase activity was very low and did not increase with age. But the pattern of the distri- bution of maltase activity in the small intestine apparently changed with age and higher activity of maltase was found in the lower part of the small intestine at 26 weeks of age. Although the meaning of this change is not known, it is supposed that the change of the pattern would be correlated with the increase of solid food intake. -
Glycoside Hydrolase Dish from Desulfovibrio Vulgaris Degrades The
Glycoside Hydrolase DisH from Desulfovibrio vulgaris Degrades the N-Acetylgalactosamine Component of Diverse Biofilms Lei Zhu1, Venkata G. Poosarla1, Sooyeon Song1, Thammajun L. Wood1, Daniel S. Miller3, Bei Yin3, and Thomas K. Wood1, 2* 1Department of Chemical Engineering and 2Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA, 16802 3Dow Chemical Company, Collegeville, PA, 19426 *To whom correspondence should be addressed: [email protected] Running title: D. vulgaris DisH disperses its biofilm This article has been accepted for publication and undergone full peer review but has not been through the copyediting, typesetting, pagination and proofreading process which may lead to differences between this version and the Version of Record. Please cite this article as an ‘Accepted Article’, doi: 10.1111/1462-2920.14064 This article is protected by copyright. All rights reserved. SIGNIFICANCE The global costs of corrosion are more than $2.5 trillion every year (3.4% of the global gross domestic product), and a large part of corrosion (30%) is microbiologically influenced corrosion (MIC), which affects oil production, drinking water systems, and pipelines. MIC is commonly caused by sulfate- reducing bacteria (SRB) biofilms, and Desulfovibrio vulgaris is the model organism. The biofilm matrix of D. vulgaris consists of proteins and polysaccharides of mannose, fucose, and N-acetylgalactosamine (GalNAc). However, little is known about how to control its biofilm formation. Since bacteria must degrade their biofilm to disperse, in this work, we identified and then studied predicted secreted glycoside hydrolases from D. vulgaris. We show here that DisH (DVU2239, dispersal hexosaminidase), a previously uncharacterized protein, is an N-acetyl-β-D-hexosaminidase that disperses the D. -
Effect of a Multi-Carbohydrase and Phytase Complex on the Ileal And
animals Article Effect of a Multi-Carbohydrase and Phytase Complex on the Ileal and Total Tract Digestibility of Nutrients in Cannulated Growing Pigs 1, 2, 1, 1 1 3 Jia-Cheng Yang y, Li Wang y, Ya-Kuan Huang y, Lei Zhang , Rui Ma , Si Gao , Chang-Min Hu 4, Jlali Maamer 5, Cozannet Pierre 5, Aurélie Preynat 5, Xin Gen Lei 6 and Lv-Hui Sun 1,* 1 Department of Animal Nutrition and Feed Science, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, China; [email protected] (J.-C.Y.); [email protected] (Y.-K.H.); [email protected] (L.Z.); [email protected] (R.M.) 2 Institute of Animal Science, Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China; [email protected] 3 Demonstration Center of Hubei Province for Experimental Animal Science Education, Huazhong Agricultural University, Wuhan 430070, China; [email protected] 4 College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, China; [email protected] 5 Adisseo France S.A.S., Center of Expertise in Research and Nutrition, 03600 Commentry, France; [email protected] (J.M.); [email protected] (C.P.); [email protected] (A.P.) 6 Department of Animal Science, Cornell University, Ithaca, NY 14853, USA; [email protected] * Correspondence: [email protected]; Tel.: +86-130-0712-1983 These authors contributed equally to this work. y Received: 6 July 2020; Accepted: 14 August 2020; Published: 17 August 2020 Simple Summary: It is well accepted that monogastric livestock lack phytase in their gastrointestinal tracts. -
Exogenous Enzymes As Zootechnical Additives in Animal Feed: a Review
catalysts Review Exogenous Enzymes as Zootechnical Additives in Animal Feed: A Review Brianda Susana Velázquez-De Lucio 1, Edna María Hernández-Domínguez 1, Matilde Villa-García 1, Gerardo Díaz-Godínez 2, Virginia Mandujano-Gonzalez 3, Bethsua Mendoza-Mendoza 4 and Jorge Álvarez-Cervantes 1,* 1 Cuerpo Académico Manejo de Sistemas Agrobiotecnológicos Sustentables, Posgrado Biotecnología, Universidad Politécnica de Pachuca, Zempoala 43830, Hidalgo, Mexico; [email protected] (B.S.V.-D.L.); [email protected] (E.M.H.-D.); [email protected] (M.V.-G.) 2 Centro de Investigación en Ciencias Biológicas, Laboratorio de Biotecnología, Universidad Autónoma de Tlaxcala, Tlaxcala 90000, Tlaxcala, Mexico; [email protected] 3 Ingeniería en Biotecnología, Laboratorio Biotecnología, Universidad Tecnológica de Corregidora, Santiago de Querétaro 76900, Querétaro, Mexico; [email protected] 4 Instituto Tecnológico Superior del Oriente del Estado de Hidalgo, Apan 43900, Hidalgo, Mexico; [email protected] * Correspondence: [email protected]; Tel.: +52-771-5477510 Abstract: Enzymes are widely used in the food industry. Their use as a supplement to the raw Citation: Velázquez-De Lucio, B.S.; material for animal feed is a current research topic. Although there are several studies on the Hernández-Domínguez, E.M.; application of enzyme additives in the animal feed industry, it is necessary to search for new Villa-García, M.; Díaz-Godínez, G.; enzymes, as well as to utilize bioinformatics tools for the design of specific enzymes that work in Mandujano-Gonzalez, V.; certain environmental conditions and substrates. This will allow the improvement of the productive Mendoza-Mendoza, B.; Álvarez-Cervantes, J. -
The Efficacy of Lyticase and Β-Glucosidase Enzymes on Biofilm
Banar et al. BMC Microbiology (2019) 19:291 https://doi.org/10.1186/s12866-019-1662-9 RESEARCH ARTICLE Open Access The efficacy of lyticase and β-glucosidase enzymes on biofilm degradation of Pseudomonas aeruginosa strains with different gene profiles Maryam Banar1, Mohammad Emaneini1, Reza Beigverdi1, Rima Fanaei Pirlar1, Narges Node Farahani1, Willem B. van Leeuwen2 and Fereshteh Jabalameli1* Abstract Background: Pseudomonas aeruginosa is a nosocomial pathogen that causes severe infections in immunocompromised patients. Biofilm plays a significant role in the resistance of this bacterium and complicates the treatment of its infections. In this study, the effect of lyticase and β-glucosidase enzymes on the degradation of biofilms of P. aeruginosa strains isolated from cystic fibrosis and burn wound infections were assessed. Moreover, the decrease of ceftazidime minimum biofilm eliminating concentrations (MBEC) after enzymatic treatment was evaluated. Results: This study demonstrated the effectiveness of both enzymes in degrading the biofilms of P. aeruginosa.In contrast to the lyticase enzyme, β-glucosidase reduced the ceftazidime MBECs significantly (P < 0.05). Both enzymes had no cytotoxic effect on the A-549 human lung carcinoma epithelial cell lines and A-431 human epidermoid carcinoma cell lines. Conclusion: Considering the characteristics of the β-glucosidase enzyme, which includes the notable degradation of P. aeruginosa biofilms and a significant decrease in the ceftazidime MBECs and non-toxicity for eukaryotic cells, this enzyme can be a promising therapeutic candidate for degradation of biofilms in burn wound patients, but further studies are needed. Keywords: Pseudomonas aeruginosa, β-Glucosidase, Lyticase, Biofilm Background patients and associated with chronic infections and antibiotic Pseudomonas aeruginosa is a nosocomial pathogen that resistance [4, 8]. -
Collection of Information on Enzymes a Great Deal of Additional Information on the European Union Is Available on the Internet
European Commission Collection of information on enzymes A great deal of additional information on the European Union is available on the Internet. It can be accessed through the Europa server (http://europa.eu.int). Luxembourg: Office for Official Publications of the European Communities, 2002 ISBN 92-894-4218-2 © European Communities, 2002 Reproduction is authorised provided the source is acknowledged. Final Report „Collection of Information on Enzymes“ Contract No B4-3040/2000/278245/MAR/E2 in co-operation between the Federal Environment Agency Austria Spittelauer Lände 5, A-1090 Vienna, http://www.ubavie.gv.at and the Inter-University Research Center for Technology, Work and Culture (IFF/IFZ) Schlögelgasse 2, A-8010 Graz, http://www.ifz.tu-graz.ac.at PROJECT TEAM (VIENNA / GRAZ) Werner Aberer c Maria Hahn a Manfred Klade b Uli Seebacher b Armin Spök (Co-ordinator Graz) b Karoline Wallner a Helmut Witzani (Co-ordinator Vienna) a a Austrian Federal Environmental Agency (UBA), Vienna b Inter-University Research Center for Technology, Work, and Culture - IFF/IFZ, Graz c University of Graz, Department of Dermatology, Division of Environmental Dermatology, Graz Executive Summary 5 EXECUTIVE SUMMARY Technical Aspects of Enzymes (Chapter 3) Application of enzymes (Section 3.2) Enzymes are applied in various areas of application, the most important ones are technical use, manufacturing of food and feedstuff, cosmetics, medicinal products and as tools for re- search and development. Enzymatic processes - usually carried out under mild conditions - are often replacing steps in traditional chemical processes which were carried out under harsh industrial environments (temperature, pressures, pH, chemicals). Technical enzymes are applied in detergents, for pulp and paper applications, in textile manufacturing, leather industry, for fuel production and for the production of pharmaceuticals and chiral substances in the chemical industry. -
Biofilms As Promoters of Bacterial Antibiotic Resistance and Tolerance
antibiotics Review Biofilms as Promoters of Bacterial Antibiotic Resistance and Tolerance Cristina Uruén 1,† , Gema Chopo-Escuin 1,†, Jan Tommassen 2 , Raúl C. Mainar-Jaime 1 and Jesús Arenas 1,* 1 Unit of Microbiology and Immunology, Faculty of Veterinary, University of Zaragoza, Miguel Servet, 177, 50017 Zaragoza, Spain; [email protected] (C.U.); [email protected] (G.C.-E.); [email protected] (R.C.M.-J.) 2 Department of Molecular Microbiology, Institute of Biomembranes, Utrecht University, 3584 CH Utrecht, The Netherlands; [email protected] * Correspondence: [email protected] † These authors contributed equally to this work. Abstract: Multidrug resistant bacteria are a global threat for human and animal health. However, they are only part of the problem of antibiotic failure. Another bacterial strategy that contributes to their capacity to withstand antimicrobials is the formation of biofilms. Biofilms are associations of microorganisms embedded a self-produced extracellular matrix. They create particular environments that confer bacterial tolerance and resistance to antibiotics by different mechanisms that depend upon factors such as biofilm composition, architecture, the stage of biofilm development, and growth condi- tions. The biofilm structure hinders the penetration of antibiotics and may prevent the accumulation of bactericidal concentrations throughout the entire biofilm. In addition, gradients of dispersion of nutrients and oxygen within the biofilm generate different metabolic states of individual cells and favor the development of antibiotic tolerance and bacterial persistence. Furthermore, antimicrobial resistance may develop within biofilms through a variety of mechanisms. The expression of efflux pumps may be induced in various parts of the biofilm and the mutation frequency is induced, while the presence of extracellular DNA and the close contact between cells favor horizontal gene transfer. -
Biochemical Characterization of Digestive Carbohydrases in the Rose Sawfly, Arge Rosae Linnaeus (Hymenoptera: Argidae)
J. Crop Prot. 2013, 2 (3): 305-318 ______________________________________________________ Biochemical characterization of digestive carbohydrases in the rose sawfly, Arge rosae Linnaeus (Hymenoptera: Argidae) Moloud Gholamzadeh Chitgar1, Seyed Mohammad Ahsaei2, Mohammad Ghadamyari1*, Mahbobe Sharifi1, Vahid Hosseini Naveh2 and Hadi Sheikhnejad1 1. Department of Plant Protection, Faculty of Agricultural Science, University of Guilan, Rasht, Iran. 2. Department of Plant protection, Faculty of Agricultural Sciences & Engineering, College of Agriculture and Natural Resources, University of Tehran, Karaj, Iran. Abstract: The rose sawfly, Arge rosae Linnaeus, is one of the most destructive pests of rose bushes in the north of Iran. Nowadays, many attempts have been made to reduce pesticide application by looking for new methods of pest control. A non chemical method for controlling insect pests including A. rosae can be achieved by using genetically engineered plants expressing carbohydrase inhibitors. Therefore, in present study we characterized biochemical properties of digestive carbohydrases in the gut of A. rosae for achieving a new method for control of this pest. The specific activity of α-amylase in the digestive system of last larval instars of A. rosae was obtained as 9.46 ± 0.06 μmol min-1 mg-1 protein. Also, the optimal pH and temperature for α-amylase were found to be at pH 8 and 50 °C. As calculated from Lineweaver-Burk plots, the Km and Vmax values for α-amylase were 0.82 mg/ml and 7.32 µmol min-1 mg-1 protein, respectively, when starch was used as substrate. The effects of ions on amylolytic activity showed that Mg2+ and Na+ significantly increased amylase activity, whereas SDS and EDTA decreased the enzyme activity. -
ROLE of in VIVO-INDUCED GENES ILVI and HFQ in the SURVIVAL and VIRULENCE of ACTINOBACILLUS PLEUROPNEUMONIAE By
ROLE OF IN VIVO-INDUCED GENES ILVI AND HFQ IN THE SURVIVAL AND VIRULENCE OF ACTINOBACILLUS PLEUROPNEUMONIAE By Sargurunathan Subashchandrabose A DISSERTATION Submitted to Michigan State University in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY Comparative Medicine and Integrative Biology 2011 ABSTRACT ROLE OF IN VIVO-INDUCED GENES ILVI AND HFQ IN THE SURVIVAL AND VIRULENCE OF ACTINOBACILLUS PLEUROPNEUMONIAE By Sargurunathan Subashchandrabose Actinobacillus pleuropneumoniae is the etiological agent of porcine pleuropneumonia, a contagious and often fatal disease of pigs. Infection with this bacterium leads to the development of a fulminant pleuropneumonia resulting in severe damage to the lungs. A. pleuropneumoniae genes that are up-regulated during the infection of pig lungs were previously identified in our laboratory and designated as in vivo-induced genes. The role of two such in vivo-induced genes, ilvI and hfq, in the pathobiology of A. pleuropneumoniae is the subject of this dissertation. The gene ilvI encodes an enzyme involved in the biosynthesis of branched-chain amino acids (BCAAs). The leucine-responsive regulatory protein (Lrp) is a transcriptional regulator of the ilvIH operon. BCAA biosynthetic genes are associated with virulence in pathogens infecting the respiratory tract and blood stream. Also, twenty five percent of the A. pleuropneumoniae in vivo-induced genes were up-regulated under BCAA limitation, suggesting that these BCAAs may be found at limiting concentrations in certain sites of the mammalian body such as the respiratory tract. The concentration of amino acids in the porcine pulmonary epithelial lining fluid was determined and BCAAs were found at limiting concentration in the respiratory tract. -
Enzyme Dynamics of Biofilm-Breaking Dispersin B
Enzyme Dynamics of Biofilm-Breaking Dispersin B Kim, Edward (School: Kalaheo High School) Biofilm-based infections pose two major problems: extreme resistance to antibiotics and many other conventional antimicrobial agents and extreme capacity for evading the host defenses. Dispersin B is a glycoside hydrolase that hydrolyzes the linear polymers in poly-β-1,6-N-acetylglucosamine, considered the main component of the biofilm. Thus, understanding the enzyme dynamics of biofilm-breaking Dispersin B and the nature of the substrate transition state would be important to develop effective antibiotic strategies. To obtain thermodynamic activation parameters, assays of Dispersin B and a biofilm from Staphylococcus aureus were conducted. Dispersin B successfully disturbed biofilm formation due to its cleaving abilities. Additionally, various concentrations of glucose were added to bacteria media, and addition of glucose was found to improve the biofilm formation. Using the optimal concentration of 8 mg/L glucose, independent temperature-controlled assays were performed with varying degrees of substrate concentration to determine the rate constant, which was input in the Arrhenius and Eyring equations. From the resulting thermodynamic values, the Gibbs free energy of activation was determined to be 62.9 kJ/mol at 37 degrees Celsius. Molecular dynamics simulations were performed to predict the transition state structure. After chemically drawn and optimized using the program Avogadro, the substrate analog (4-Nitrophenyl N-acetyl-β-D-glucosaminide) and the potential transition state structure were docked in the active site of Dispersin B. After 1ns molecular dynamics simulations, the potential transition state was observed. This computational method could yield better models of transition-state inhibitors for drug design.