Institute of Chemistry

Institute of Chemistry> Excellence>

Centre of Excellence GLYCOBIOS

Co-ordinator:

Vladimír Farkaš

E-mail: chemvfar@savba.sk

Participating Institutions:

Institute of Chemistry SAS

Institute of Molecular Biology SAS

The activity of the Centre of Excellence GLYCOBIOS is focused on the study of enzymes degrading and modifying complex saccharides of microbial, plant and mammalian origin. The research includes isolation and biochemical characterization of glycanases, transglycosylases and glycosyl-transferases, mechanism of their action, cloning of the corresponding genes, their heterologous expression, crystallization of native and expressed proteins, determination of their 3D structure, theoretical calculations of their active centers, design and synthesis of specific inhibitors and their testing. Research methodology comprises biochemistry, proteomics, genomics, theoretical and synthetic organic chemistry, crystallography and structure determination. Obtained knowledge is being exploited in design and synthesis of new drugs, pesticides, food additives, modification of polysaccharides, plant biocontrol and biodegradation of plant materials.

Home organization of the CE GLYCOBIOS is the Institute of Chemistry SAS, Slovak Academy of Sciences (SAS) in Bratislava, Slovakia

Period of existence of the CE GLYCOBIOS is from 01/2005 till 12/2008

The leader of the CE GLYCOBIOS is Assoc. Prof. Vladimír Farkaš, PhD, DSc, Institute of Chemistry, SAS. Current staff of the CE GLYCOBIOS comprises 22 researchers, 9 PhD students and postdocs and 9 technicians. Research in the individual areas is coordinated by:

Assoc. Prof. Vladimír Farkaš, PhD, DSc, Department of glycobiology, Institute of Chemistry, SAS (plant enzymes, molecular biology)
Peter Biely, PhD, DSc, Department of enzymology, Institute of Chemistry, SAS (microbial enzymes, biochemistry)
Igor Tvaroška, PhD, DSc, Department of structure and function of saccharides, Institute of Chemistry, SAS (molecular modelling, organic syntheses)
Jozef Ševčík, PhD, DSc, Department of structural biochemistry, Institute of Molecular Biology SAS (crystallography, protein structure)

Research projects of the CE GLYCOBIOS in 2005 - 2008:

a) projects financed by the Slovak Grant Agency for Science (VEGA) (project number, name, project leader, duration)

2/3079/25, Microbial hemicellulolytic glycosyl hydrolases and esterases
RNDr. Peter Biely, DrSc., 01/2003-12/2005

2/3158/25, Glycanases and their role in growth and modification of plant and fungal cell walls
Doc. Ing. Vladimír Farkaš, DrSc., 01/2003-12/2005

2/3160/25, Polygalacturonases - major enzymes of pectolytic enzyme system produced by yeasts and yeast-like microorganisms
Ing. Eva Stratilová, PhD., 01/2003-12/2005

2/5073/25, Study of capsular galactoxylomannan biosynthesis in the yeast Cryptococcus laurentii
RNDr. Nadežda Kolarova, PhD., 01/2005-12/2007

2/5074/25, Glycosyltransferases of secretory pathway from model organisms: structure-function study of GDP-L-Fuc: Asn GlcNAc alpha 1,3 fucosyltransferase (FucT 3c)
RNDr. Ján Mucha, PhD., 01/2005-12/2007

2/5075/25, Study of structure, dynamics and intermolecular complexes of biologically active saccharides using methods of NMR spectroscopy and theoretical chemistry)
Ing. Miloš Hricovíni, PhD., 01/2005-12/2007

2/6133/06, The role of glycanases in growth and modification of plant and fungal cell walls
Doc. Ing. Vladimír Farkaš, DrSc., 01/2006-12/2008

2/6128/26, Study of honeybee antimicrobial peptides-defensisns as protection factors of honeybees and their colonies against microbial pathogens
RNDr. Jaroslav Klaudiny, PhD., 01/2006-12/2008

2/6130/26, Microbial glycoside hydrolases and esterases attacking plant cell walls
RNDr. Peter Biely, DrSc., 01/2006-12/2008

b) Research projects financed by the Agency for Science and Technology (APVT/APVV) (project number, project leader, duration)

APVT-51-004204, Therapeutics based on an inhibition of glycosyltransferases
Ing. Igor Tvaroška, DrSc., 01/2005-12/2007

APVT-51-034504, Study of structure and properties of biologically active glycosaminoglycans in solution and their complexes with proteins
Ing. Miloš Hricovíni, PhD., 01/2005-12/2007

APVT-51-044902, Prediction of properties and functions of biological macromolecules based on computer modelling
Prof. Ing. Tomáš Bleha, DrSc. (Polymer Institute SAS), 01/2004-12/2006

APVV-51-003805, Microbial esterases cleaving linkages between saccharides and lignin in plant cell walls
RNDr. Peter Biely, DrSc., 03/2006-02/2009

c) Research projects of the State Program of Science and Research (ŠPVV) and State contracts (ŠO)

State program "Exploitation of domestic raw materials and resources"
Project no.: 2004 ŠP 26 028 0C 05
Project: Complex utilization of plant raw materials
Task 5.7.: Biopesticides based on fungi
Coordinátor: Doc. Ing. Stanislav Šilhár, CSc. (VÚP-Biocentrum, Modra)
Project leader: Doc. Ing. Vladimír Farkaš, DrSc.
Duration: 01/07/2004-31/12/2006

d) Projects of the 5th Framework Programme of the EU

Project number: QLRT-2001-02049
Heparanase inhibitors in antiangiogenic and antimetastatic cancer therapy
Acronym: HEPARANASE
Coordinator: Prof. Benito Casu (Italy)
Project leader: Ing. Miloš Hricovíni, PhD.
Duration: 10/2002-10/2005

e) Projects of the 6th Framework Programme of the EU

Project number: 005645 (FP6-2004-HRM-Marie Curie Actions-RTN)
GlycoGold: Exploration of the nature and potential of Glyco-nano-particles
Acronym: GLYCOGOLD
Coordinator: Prof. Johannis P. Kamerling (Netherlands)
Project leader: Ing. Igor Tvaroška, DrSc.
Duration: 03/2005-02/2009

Project number: 504192 (FP6-2002- HRM-Marie Curie Actions-RTN)
Functional genomics for biogenesis of plant cell walls
Acronym: WALLNET
Coordinator: Prof. Henrik Vibe Scheller (Denmark)
Project leader: Doc. Ing. Vladimír Farkaš, DrSc.
Duration: 04/2005-03/2009

Project number: 035866 (FP6-2006-HRM-Marie Curie Actions-RTN)
Contract number: MRTN-CT-2006-035866
(R) Evolutionary Catalysis
Acronym: REVCAT
Project leader: Ing. Igor Tvaroška, DrSc., Institute of Chemistry SAS
Duration: 10/2006-09/2010

f) Multilateral projects within frame of the international scientific programmes COST, INTAS, EUREKA, ESPIRIT, PHARE, NATO, UNESCO, CERN, IAEA, ESF and others)

Project number: NATO LST.CLG.979392
Differentiation, classification and evaluation of biotechnological potential of feruloyl esterases
Coordinator: Prof. Paul Christakopoulos (Greece)
Project leader: RNDr. Peter Biely, DrSc.
Duration: 05/2003-05/2005

New enzymes and selective methods for glycosidase-catalysed synthesis of bioactive glycosides and glycomimetics
Coordinator: Prof. Vladimír Křen, DrSc. (Czech Republic)
Project leader: RNDr. Peter Biely, DrSc.
Duration: 06/2001-10/2006

Project number: COST Action D29 WG No. 0008-03
Production and functionalization of hemicelluloses for sustainable advanced products
Coordinator: Prof. Tiina Maija Tenkanen (Finland)
Project leaders: RNDr. Peter Biely, DrSc. (aplicant No. 11)
Ing. Anna Ebringerová, PhD. (aplicant No. 6)
Duration: 09/2003-09/2007

Project number: COST Action 868
Biotechnical functionalisation of renewable polymeric materials
Coordinator: Prof. Georg M. Guebitz (Austria)
Project leader: RNDr. Peter Biely, DrSc.
Multilateral project (22 countries): AT, BE, CZ, DK, EG, FI, FR, DE, IT, LV, LT, NL, PL, PT, RO, RU, SK, SI, ES, SE, CH, UK
Duration: 05/2006-09/2010

g) Project within frame of inter-governmental agreements about international scientific and technical cooperation

Project number: 07 (Slovak-French agreement - program Štefánik)
Structural analyse of polysaccharides inferred from NMR in field oriented media and molecular modeling
Project leader: Ing. Igor Tvaroška, DrSc.
Duration: 01/2004-12/2005

h) Other projets financed from foreign sources

Project number: Mizutani 040013
Development of transition-state analog inhibitors of human glycosyltransferases
Project leader: Ing. Igor Tvaroška, DrSc.
Duration: 01/2004-03/2005

Project number: 436 SLK 113/9/0-1, Deutsche Forschungsgemeinschaft
The role of transglutaminases in the biogenesis of fungal cell walls
Coordintor: Prof. Widmar Tanner, Universität Regensburg, Germany
Project leader: Doc. Ing. Vladimír Farkaš, DrSc.
Duration: 07/04/2003-06/04/2006

Project number: 58-3620-2-F133, USDA
Improved utilization of corn fiber
Project leader: RNDr. Peter Biely, DrSc.
Duration: 09/2002-08/2007

PUBLICATIONS

Publications of the CE GLYCOBIOS in 2005

(employees of the CE are marked with bold)

ABC	Chapters in scientific monographs

ABC1	BIELY, P. - CÔTÉ, G.L. Microbial Hemicellulolytic Carbohydrate Esterases. In HOU, Ching T. Handbook of Industrial Catalysis. Boca Raton, Taylor & Franics Group, 2005. ISBN 0 8247 2423 2. p. 21 1 21 24.

ADC	Publications in journals indexed in Current Contents

ADC1	KOLENOVÁ, K. - VRŠANSKÁ, M. - BIELY, P. Purification and characterization of two minor endo-β-1,4 xylanases of Schizophyllum commune. In Enzyme and Microbial Technology. Vol. 36, no. 7 (2005), p. 903-910. (1,759 - IF2004)
ADC2	PUCHART, V. - BIELY, P. Glycosylation of internal sugar residues of oligosaccharides catalyzed by α-galactosidase from Aspergillus fumigatus. In Biochimica et Biophysica Acta-General Subjects. Vol. 1726, no. 2 (2005), p. 206-216. (3,369 - IF2004)
ADC3	KREMNICKÝ, L. - BIELY, P. Unique mode of acetylation of oligosaccharides in aqueous two-phase system by Trichoderma reesei acetyl esterase. In Journal of Molecular Catalysis B-Enzymatic. Vol. 37, no. 1-6 (2005), p. 72-78. (1,547 - IF2004)
ADC4	FARKAŠ, V. - STRATILOVÁ, E. - AIT MOHAND, F. Sensitive detection of transglycosylating activity of xyloglucan endotransglycosylase/hydrolase (XTH) after isoelectric focusing in polyacrylamide gels. In Plant Physiology and Biochemistry, Vol. 43, (2005), p. 431-435. (IF 1,686).
ADC5	STRATILOVÁ, E. - DZÚROVÁ, M. - BREIEROVÁ, E. - OMELKOVÁ, J. Purification and biochemical characterization of polygalacturonases produced by Aureobasidium pullulans. In Zeitschrift für Naturforschung. Vol. 60c (2005), p. 91-96. (IF 0.715).
ADC6	STRATILOVÁ, E. - DZÚROVÁ, M. - MALOVÍKOVÁ, A. - OMELKOVÁ, J. Oligogalacturonate hydrolase from carrot roots. In Zeitschrift für Naturforschung. Vol. 60c, (2005), p. 899-905. (IF 0.715).
ADC7	RAAB, M. - KOZMON, S. - TVAROŠKA, I. Potential transition-state analogs for glycosyltransferases. Design and DFT calculations of conformational Behavior. In Carbohydr. Res., 340, (2005), p. 1051-1057. (IF 1.451).
ADC8	TVAROŠKA, I. Structural insights into the catalytic mechanism and transition state of glycosyltransferases using ab initio molecular modeling. In Trends in Glycoscience and Glycotechnology, 17, (2005), p.177-190. (1.118 - IF 2004)
ADC9	KÓŇA, J. - ZAHRADNÍK, P. - KOZMON, S. - FABIAN, V.M.F. Role of solvent effects on nucleophilic substitution of 4H-pyran-4-one and its 2,6-dimethyl derivative with hydroxide ion in aqueous solution: Ab initio and density functional theory studies on a supermolecular reaction model. In J. Mol. Struc. THEOCHEM, 728 (1-3), (2005), p.117-122. (1.007 - IF 2004)
ADD1	GAŠPERÍK, J. - HOSTINOVÁ, E. - ŠEVČÍK, J. Acarbose binding at the surface of Saccharomycopsis fibuligera glucoamylase suggests the presence of a raw starch-binding site. In Biologia, Bratislava, Vol. 60/Suppl. 16, (2005), p. 167-170. (IF 0.216).

Publications of the CE GLYCOBIOS in 2006

(employees of the CE are marked with bold)

ABC	Chapters in scientific monographs

ABC1	TVAROŠKA, I. Molecular Modeling of Retaining Glycosyltransferases. In NMR Spectroscopy and Computer Modeling of Carbohydrates (Eds.: J.F.G. Vliegenthart and R.J. Woods), ACS Symposium Series 930, Am. Chem. Soc., Washington, 2006, DC, ISBN 0-8412-3953-3, p.285-301.

ADC	Publications in journals indexed in Current Contents

ADC1	KOLENOVÁ, K. - VRŠANSKÁ, M. - BIELY, P. Mode of action of endo-β-1,4 xylanases of families 10 and 11 on acidic xylooligosaccharides. In Journal of Bioctechnology. Vol. 121, (2006), p. 338-345 (2,323 - IF2004)
ADC2	PUCHART, V. - GARIÉPY, M. C. - DUPONT, C. Identification of catalytically important amino acid residues of Streptomyces lividans acetylxylan esterase A from carbohydrate esterase family 4. In Biochimica et Biophisica acta-Proteins and Proteomics. Vol. 1764, (2006), p. 263-274 (2,113 - IF2004)
ADC3	TAYLOR, E. J. - TURKENBURG, J. P. - GLOSTER, T. M. - VINCENT, F. - BRZOZOWSKI, A. M. - DUPONT, C. - SHARECK, F. - CENTENO, M. S. J. - PRATES, J. A. M. - FERREIRA, L. M. A. - FONTES, C. M. G. A. - PUCHART, V. - BIELY, P. - DAVIES, G. Structure and activity of two metal-ion dependent acetyl xylan esterases involved in plant cell wall degradation reveals a close similarity to peptidoglycan deacetylases, In Journal of Biological Chemistry, 281, (2006), p.10968-10975 (6,4 - IF2004)
ADC4	MASTIHUBOVÁ, M. - SZEMESOVÁ, J. - BIELY, P. The acetylation of p-nitrophenyl α-L-arabinofuranoside - regioselective preparation by action of lipases. In Bioorganic & Medicinal Chemistry. Vol. 14, (2006), p. 1805-1810. (2,018 - IF2004)
ADC5	KLUG-SANTNER, B. G. - SCHNITZHOFER, W. - VRŠANSKÁ, M. - WEBER, J. - AGRAWAL, P. B. - NIERSTRASZ, V. A. - GUEBITZ, G. M. Purification and characterization of a new bioscouring pectate lyase from Bacillus pumilus BK2. In Journal of Biotechnology. 121, (3), (2006), p. 390-401 (2,323 - IF2004)
ADC6	BIELY, P. - PUCHART, V. Recent progress in the assays of xylanolytic enzymes. In Journal of the Science of Food and Agriculture. Vol. 86, (2006), p. 1636-1647 (0,871 - IF2004)
ADC7	ŠPÁNIKOVÁ S. - BIELY P. Glucuronoyl esterase - a novel carbohydrate esterase from Schizophyllum commune. In FEBS Letters Vol. 580, (2006) p. 4597-4601.
ADC8	HRMOVÁ M. - BURTON R.A. - BIELY P. - LAHNSTEIN J. - FINCHER G.B. (1,4)-β-D-Mannan endohydrolases from barley (Hordeum vulgare L.): Catalytic properties, primary structure, molecular model and gene expression patterns. In Biochemistry Journal Vol. 399, (2006), p.77-90.
ADC9	PUCHART V. - VRŠANSKÁ M. - MASTIHUBOVÁ M. - TOPAKAS E. - VAFIADI C. - TENKANEN M. - FAULDS C.B. - CHRISTAKOPOULOS P. - BIELY P. Substrate and positional specificity of feruloyl esterases for monoferuloylated and monoacetylated 4-nitrophenyl glycosides. In Journal of Biotechnolology Vol.127, (2007), p. 235-243.
ADC10	BIELY P. - MASTIHUBOVÁ M. - PUCHART V. The vicinal hydroxyl group is prerequisite for metal activation of Clostridium thermocellum acetylxylan esterase. In Biochimica et Biophysica Acta, (2007), in press.
ADC11	PUCHART V. - BIELY P. A simple enzymatic synthesis of 4-nitrophenyl β-1,4-D-xylobioside, a chromogenic substrate for assay and differentiation of endoxylanases. In Journal of Biotechnolology, In press.
ADC12	SCHNITZHOFER W. - WEBER W. H.-J. - VRŠANSKÁ M. - BIELY P. - CAVACO-PAULO A. - GUEBITZ G.M. Purification and mechanistic characterisation of two polygalacturonases from Sclerotium rolfsii. In Enzyme and Microbial Technology, (2007) in press
ADC13	VRŠANSKÁ M. - KOLENOVÁ K. - PUCHART V. - BIELY P. Mode of action of glycoside hydrolase family 5 glucuronoxylan xylanohydrolase from Erwinia chrysanthemi. (2007) Submitted.
ADC14	KOVÁČIK, V. - BEKEŠOVÁ, S.- TVAROŠKA, I. Positive Electrospray Ion Trap Multistage Mass Spectrometric Fragmentation of Synthetic Analogs of Saccharide Part of Lipopolysaccharides of Vibrio cholerae O:1. In Journal of the American Society for Mass Spectrometry. Vol. 17, (2006), p. 749-756 (3.625-IF2005)
ADC15	KOZMON, S. - TVAROŠKA, I. DFT Study on 3-Substituted Tetrahydropyran-2-yl Radicals. In Collection of Czechoslovak Chemical Communications. Vol. 71, (2006), p. 1453-1469 (0.949 -IF2005)
ADC16	KOZMON, S. - TVAROŠKA, I. Catalytic Mechanism of Glycosyltransferases: Hybrid Quantum Mechanical/Molecular Mechanical Study of the Inverting N-Acetylglucosaminyltransferase I. In Journal of the American Chemical Society. Vol. 128, (2006), p. 16921-16927 (7.419 - IF2005)
ADC17	KÓŇA, J. - BRINCK, T. Molecular dynamics simulations and quantum chemical calculations on the mechanism of oxidation of OxyR transcription factor by hydrogen peroxide. In Organic & Biomolecular Chemistry. Vol. 4, (2006), p. 3468-3478 (2.547 - IF2005)
ADC18	AIT MOHAND, F. - FARKAŠ, V. Screening for hetero-transglycosylating activities in extracts from nasturtium (Tropaeolum majus). In Carbohydr. Res. Vol. 341 (2006), p. 577-581. (1.669 - IF2005).
ADC19	JAKUBÍKOVÁ, L. - FARKAŠ, V. - KOLAROVA, N. - NEMČOVIČ, M. Conidiation of Trichoderma atroviride isolate during submerged cultivation in a laboratory stirred-tank fermentor. In Folia Microbiol., Vol. 51 (2006), p. 209-213. (0.918 - IF2005).
ADC20	MACEKOVÁ, D. - FARKAŠ, V. - KISHIDA,E. - TAKEO, K. Ecto-glycanases and metabolic stability of the capsule in Cryptococcus neoformans. In J. Basic Microbiol. Vol. 46 (2006), p. 470-479. (1.000 - IF2005).
ADC21	MAZÁŇ, M. - MAZÁŇOVÁ, K. - FARKAŠ, V. Bunková stena húb - výzva pre výskum nových antimykotík. (Fungal cell wall - a challenge for research of new antimycotics). In Chem. Listy, Vol. 100 (2006), p. 433-439. (0.445 - IF2005).
ADC22	STRATILOVÁ, E. - DZÚROVÁ, M. - MALOVÍKOVÁ, A. - OMELKOVÁ, Oligogalacturonate hydrolase from carrot roots. In Zeitschrift fur Naturforschung, Vol. 60c (2006), p. 899-905. (0,602 - IF2005)
ADC23	STRATILOVÁ, E. - DZÚROVÁ, M. - BREIEROVÁ, E. - OMELKOVÁ, J. Production and biochemical characterization of polygalacturonases produced by Aureobasidium pullulans from forest soil. In Annals of Microbiology, Vol. 56 (2006), p. 35-40 (0,532 - IF2005)
ADC24	ŠEVČÍK J. - HOSTINOVÁ E. - SOLOVICOVÁ A. - GAŠPERÍK J. - DAUTER Z., WILSON K.S. Structure of the complex of a yeast glucoamylase with acarbose reveals the presence of a raw starch binding site on the catalytic domain. In FEBS Journal, Vol. 273 (2006), p. 2161-2171 (3.164 - IF2005)

Publications of the CE GLYCOBIOS in 2007

(employees of the CE are marked with bold)

ADC	Publications in journals indexed in Current Contents


ADC1	FLODROVÁ, D.- DZÚROVÁ, M. - LIŠKOVÁ, D. - AIT MOHAND, F. - MISLOVIČOVÁ, D.- MALOVÍKOVÁ, A. - VOBURKA, Z. - OMELKOVÁ, J. - STRATILOVÁ, E. Pectate Hydrolases of Parsley (Petroselinum crispum) Roots. In Z. Naturforsch. Vol. 62c (2007), p. 382-388.
ADC2	MILLER, J. G. - FARKAŠ, V. - SHARPLES, S. C. - FRY, S. C. O-Oligosaccharidyl-1-amino-1-deoxyalditols as intermediates for fluorescent labelling of oligosccharides. In Carbohydr. Res. Vol. 342 (2007), p. 44-54.
ADC3	MAZÁŇ, M. - FARKAŠ, V. Transglutaminase-like activity participates in cell wall biogenesis in Saccharomyces cerevisiae. In Biologia, Vol. 62 (2007), p.128-131.
ADC4	HRMOVA, M. - FARKAŠ, V. - LAHNSTEIN, J. - FINCHER, G. B. A barley xyloglucan xyloglucosyl transferase covalently links xyloglucan, cellulosic substrates and (1,3;1,4)-β-D-glucans. In J. Biol. Chem. Vol. 282, (2007), p. 12951-12962.
ADC5	PŘIBYLOVÁ, L. - FARKAŠ, V. - SLANINOVÁ, I. - DE MONTIGNY, J. - SYCHROVÁ, H. Differences in osmotolerant and cell-wall properties of two Zygosaccharomyces rouxii strains. In Folia Microbiol. Vol. 52 (2007), p. 241-245.
ADC6	LI X.-L. - ŠPÁNIKOVÁ S. - DEVRIES R.P. - BIELY P. Identification of genes encoding microbial glucuronoyl esterases. In FEBS Lett., Vol. 581 (2007), p. 4029-4035.
ADC7	ŠPÁNIKOVÁ S. - POLÁKOVÁ M. - JONIAK D. - HIRSCH J. - BIELY P. Synthetic esters recognized by glucuronoyl esterase from Schizophyllum commune. In Arch. Microbiol., Vol.188 (2007), p. 185-189.
ADC8	VRŠANSKÁ M. - KOLENOVÁ K. - PUCHART V. - BIELY P. Mode of action of glycoside hydrolase family 5 glucuronoxylan xylanohydrolase from Erwinia chrysanthemi. In FEBS Journal, Vol.274 (2007), p. 1666-1677.
ADC9	BIELY P. - MASTIHUBOVÁ M. - PUCHART V. The vicinal hydroxyl group is prerequisite for metal activation of Clostridium thermocellum acetylxylan esterase. In Biochim. Biophys. Acta, Vol. 1770 (2007), p. 565-570.
ADC10	PUCHART V. - VRŠANSKÁ M. - MASTIHUBOVÁ M. - TOPAKAS E. - VAFIADI C. - TENKANEN M. - FAULDS C.B. - CHRISTAKOPOULOS P. - BIELY P. Substrate and positional specificity of feruloyl esterases for monoferuloylated and monoacetylated 4-nitrophenyl glycosides. In J. Biotechnol.,Vol. 127 (2007), p. 235-24.
ADC11	PUCHART V. - BIELY P. A simple enzymatic synthesis of 4-nitrophenyl β-1,4-D-xylobioside, a chromogenic substrate for assay and differentiation of endoxylanases. In J. Biotechnol.,Vol. 128 (2007) p. 276-286.
ADC12	SCHNITZHOFER W. - WEBER W. H.-J. - VRŠANSKÁ M. - BIELY P. - CAVACO-PAULO A. - GUEBITZ G.M. Purification and mechanistic characterisation of two polygalacturonases from Sclerotium rolfsii. In Enzyme Microb. Technol.,Vol. 40 (2007), p. 1739-1747.

Publications of the CE GLYCOBIOS in 2008

(employees of the CE are marked with bold)

ADC	Papers in scientific journals indexed in Current Contents


ADC1	BIELY, P. - LEATHERS, T.D. - CZISZÁROVÁ, M. - VRŠANSKÁ, M. - COTTA, M.A. Endo-β-1,4-xylanase inhibitors in leaves and roots of germinated maize. In Journal of Cereal Science. 47: 27-32 (2008).
ADC2	LI, X.-L. - SKORY, C.D. - COTTA, M.A. - PUCHART, V. - BIELY, P. Novel family of carbohydrate esterases, based on identification of the Hypocrea jecorina acetyl esterase gene. In Applied and Environmental Microbiology. 74: 7482-7489 (2008).
ADC3	KYLLI, P. - NOUSIAINEN, P. - BIELY, P. - SIPILÄ, J. - TENKANEN, M. - HEINONEN, M. Antioxidant potential of hydroxycinnamic acid glycoside esters. Journal of Agricultural and Food Chemistry. 56: 4797-4805 (2008).
ADC4	PUCHART, V. - BIELY, P. Simultaneous production of endo-β-1,4-xylanase and branched xylooligosaccharides by Thermomyces lanuginosus. In Journal of Biotechnology. 137: 34-43 (2008).
ADC5	VRŠANSKÁ, M. - NERINCKX, W. - CLAEYSSENS, M. - BIELY, P. An alternative approach for the synthesis of fluorogenic substrates of endo-β-(1->4)-xylanases and some applications. In Carbohydrate Research. 343: 541-548 (2008).
ADC6	WOOD, S.J. - LI, X.-L. - COTTA, M.A. - BIELY, P. - DUKE, N.E. - SCHIFFER, M. - POKKULURI, P.R. Crystallization and preliminary X-ray diffraction analysis of the glucuronoyl esterase catalytic domain from Hypocrea jecorina. In Acta Crystallographica Section F. F64: 255-257 (2008).
ADC7	FAIK, A. - SHIPP, M. - NADELLA, R. - GAO, H. - FARKAŠ, V. - SIGRIST, H.: Glyco-array technology for efficient monitoring of plant cell wall glycosyltransferase activities. In Glycoconj. J. 25: 49-58 (2008).
ADC8	KOSÍK, O. - FARKAŠ, V.: One-pot synthesis of xyloglucan oligosaccharides fluorescently labeled with sulforhodmine. In Anal. Biochem. 375: 232-236 (2008).
ADC9	NEMČOVIČ, M. - JAKUBÍKOVÁ, L. - VIDEN, I. - FARKAŠ, V.: Induction of conidiation by endogenous volatile compounds in Trichoderma spp. In FEMS Microbiol. Lett. 284: 231-236 (2008).
ADC10	MARKUS, S. E. - VERHERTBRUGGEN, Y. - HERVÉ, C. - ORDAZ-ORTIZ, J. J. - FARKAŠ, V. - PEDERSEN, H. - WILLATS, W. G. T. - KNOX, P.: Pectic homogalacturonan masks abundant sets of xyloglucan epitopes in plant cell walls. In BMC Plant Biol. 8: 60, doi: 10.1186/1471-2229-8-60, (2008).
ADC11	HRMOVA, M. - FARKAŠ, V. - HARVEY, A. J. - LAHNSTEIN, J. - WISCHMANN, B. - KAEWTHAI, N. - EZCURRA, I. - TEERI, T. - FINCHER, G. B.: Xyloglucan xyloglucosyl transferases from barley (Hordeum vulgare L.): Substrate specificity, catalytic mechanism, molecular structure and characterization of the acceptor substrate binding site. In FEBS J. 276: 437-456 (2009).
ADC12	CABIB, E. - FARKAŠ, V. - KOSÍK, O. - BLANCO, N. - ARROYO, J. - McPHIE, P.: Assembly of the yeast cell wall: Crh1p and Crh2p act as transglycosylases in vivo and in vitro. In J. Biol. Chem. 283: 29859-29872 (2008).
ADC13	FARKAŠ, V. - TAKEO, K. - MACEKOVÁ, D. - OHKUSU, M. - YOSHIDA, S. - SIPICZKI, M.: Secondary cell wall formation in Cryptococcus neoformans as a rescue mechanism against acid-induced autolysis. In FEMS Yeast Res. 9: 311-320 (2009).
ADC14	STRATILOVÁ, E. - DZÚROVÁ M. - BREIEROVÁ, E. - MALOVÍKOVÁ, A. - OMELKOVÁ, J.: The life style of Aureobasidium pullulans and the multiple forms of its polygalacturonase. In Biologia, 61: 257-262 (2008).
ADC15	GARAJOVÁ, S. - FLODROVÁ, D. - AIT-MOHAND, F. - FARKAŠ, V. - STRATILOVÁ, E.: Characterization of two partially purified xyloglucan endotransglycosylases from parsley (Petroselinum crispum) roots. In Biologia 63 : 313-319 (2008).
ADC16	KOSÍK, O. - FARKAŠ, V.: Effect of the label on the affinity of xyloglucan endotransglycosylase (XET) towards oligosaccharide acceptors in vitro (submitted).
ADC17	KOSÍK, O. - AUBURN, R. - RUSSEL, S. - HRMOVÁ, M. - FARKAŠ, V.: Polysaccharide glycochip for screening of transglycosylase activities in plant extracts. (submitted).
ADC18	SIHELNIKOVA, L. - KOZMON, S. - TVAROSKA, I.: DFT and docking study of potential transition state analogue inhibitors of glycosyltransferases. In Coll. Czechoslov. Chem. Commun. 73: 591 - 607 (2008).
ADC19	SIHELNIKOVA, L. - TVAROSKA, I.: Elucidation of the Au-S bond in a passivated gold cluster through density functional theory calculations'. In J. Phys. Condens. Matter 20: a. 64214 (2008).
ADC20	SPIWOK, V. - KRALOVA, B. - TVAROSKA, I.: Continuous metadynamics in essential coordinates as a tool for free energy modelling of conformational changes. In J. Molec. Modelling 14: 995 - 1002 (2008).
ADC21	SPIWOK, V. - TVAROŠKA, I.: The Confromational free energy surface of α-N-acetylneuraminic acid: an interplay between hydrogen bondong and solvation. In J. Phys.Chem. B (submitted).
ADC22	HIRSCH, J. - KOÓŠ, M. - TVAROŠKA, I.: Synthesis of saccharide precursors for preparation of the potential inhibitors of glycosyltranferases. In Chem. Papers. (submitted).

PA	Patent Applications


1	ŠPÁNIKOVÁ, S. - DE VRIES, R. P. - BIELY, P.: Glucuronoylesterase from Schizophyllum commune, method of its preparation and use for degradation of biological materials. Slovak patent application no. PP 95-2005.
2	FARKAŠ, V. - NEMČOVIČ, M. - JAKUBÍKOVÁ, L.- ŠUBÍKOVÁ, V. - DRÍMAL, J. - JANITOR, A. - KUNCA, A. - LEONTOVIČ, R.: Strains of the micromycete Trichoderma and preparation for plant protection containing the said. Slovak patent application no.PP 5108-2008.
3	KOSÍK, O. - FARKAŠ, V.: High-throughput method for determining the activity of transglycoylases. Slovak patent application no. PP .