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Presentations
Final COST853 and ARRAY Meetings
May 22- 24, 2007, Sant Feliu de Guixols,
Spain
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Oral presentations
, Posters, Pictures
Oral presentations
- All Abstracts 
COST853
- what was accomplished?
J. Frey
Agroscope Changins-Waedenswil Research Station ACW,
Laboratory for Molecular Diagnostics, Waedenswil,
Switzerland
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Array
detection of tobamoviruses: proposal for general primers
and specific oligonucleotides
G. Adam and P. Willingmann
BioCenter Klein Flottbek, University Hamburg, Germany
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Microarray for detection
of fruit-tree viruses: the developing and testing.
O. Lenz
Biology centre ASCR, Institute of Plant Molecular
Biology, Ceske Budejovice, Czech Republic
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Virus detection- an array of applications
N. Boonham
CSL, York, United Kingdom
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Potato virus Y - its diagnostics and biological
impact studied by cDNA microarrays
P. Kogovšek1, M. Pompe-Novak1,
Š. Baebler1, H. Krecic-Stres1, A. Rotter1,
L. Gow2, K. Gruden1, N. Boonham3, G.D. Foster2,
M. Ravnikar1
1National Institute of Biology, Ljubljana, Slovenia,
2School of Biological Sciences, University of Bristol,
United Kingdom, 3Central Science Laboratory, York,
United Kingdom
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Made4: a software package for multivariate analysis
of gene expression data
G. Perrière
Laboratoire de Biométrie et Biologie Évolutive,
Université Claude Bernard - Lyon, Villeurbanne,
France
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Identification of sweet cherry incompatibility
alleles by microarray
F. Pasquer1, B. Frey1, T. Sonneveld2,
K. Tobutt2, M. Schuster3 And J. E. Frey1
1: Agroscope Changins-Waedenswil Research Station
ACW, Waedenswil, Switzerland, 2: East Malling Research,
United Kingdom, 3: Institut für Obstzüchtung,
Dresden, Germany
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Fish & Chips: Developing DNA microarrays for
the identification of fishes, invertebrates, and phytoplankton
from European seas
(Oceans
'07 IEEE Aberdeen Conference Proceedings)
D. Blohm & M. Kochzius
Centre for Applied Gene Sensor Technology (CAG),
University of Bremen, Germany
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Cultivation-independent DNA microarray based approach
for monitoring microorganisms in soil
C. Beckmann, G. Vogel, E.Kauffmann*,
G. M. Kresbach*, U. Vögeli
Kantonales Laboratorium Basel-Stadt, Kontrollstelle
für Chemie- und Biosicherheit, Basel, Switzerland;
* Zeptosens, A Division of Bayer (Schweiz) AG, Witterswil,
Switzerland
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Genomic comparison of Clostridium botulinum with
DNA microarrays
M. Lindström1, K. Kiviniemi1,
K. Hinderink1, P. Somervuo1, M. Nevas1, P. Auvinen2
& H. Korkeala1
1Department of Food and Environmental Hygiene, University
of Helsinki, Finland
2 Institute of Biotechnology, University of Helsinki,
Finland
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Microarray "double-hybridization" system
using LNA modified probes and magnetic nanobeads
M. Buncek
GENERI BIOTECH s.r.o., Hradec Králové,
Czech Republic
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High-resolution analysis of prokaryotic genomes
using oligo arrays
C. C. Oste
International Scientific Support, NimbleGen Systems,
Inc.
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Unmasking species specific genes of Agrobacterium
with pangenomic microarrays
X. Nesme
Microbial Ecology, Université Lyon 1, Lyon,
France
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Detection of bacterial plant pathogens based on
a genome-wide microarray approach
M. Aittamaa, L. Mattinen, P. Somervuo,
M. Pirhonen, P. Auvinen1 and J.P.T. Valkonen
Department of Applied Biology and 1Institute of
Biotechnology, University of Helsinki, Finland
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Protein chips in analysis of potato, plant and
insect biomarkers.
F. Cimaglia, T. Erban, I. Krizkova-Kudlikova,
A. Santino, A.B. Shevelev, P. Poltronieri
ISPA-CNR, Lecce, Italy
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Electrochemical methods for detection of proteins
and DNA
A. Ramanavicius
Vilnius University, Vilnius, Lithuania
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Transfer technology from COST 853 to the new COST
873
B. Duffy
Agroscope Changins-Waedenswil Research Station ACW,
Laboratory for Molecular Diagnostics, Waedenswil,
Switzerland
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Mining Attribute Profiles - an improved roadMAP
to the discovery of co-regulated gene expression modules
U. Wagner
Functional Genomics Center Zürich, Uni/ETH
Zürich, Switzerland
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Transcript profiling in farm animals, novel tools
and strategies
C. Bendixen
University of Aarhus, Tjele, Denmark
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On the outside of fleshy fruit: a study of gene
expression and metabolic pathways in peel of normal
and mutant tomato
T. Mandel, S. Mintz, A. Adato, I.
Venger, I. Rogachev and A. Aharoni
Department of Plant Sciences, Weizmann Institute
of Science, Rehovot, Israel
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Comparative gene expression analysis between the
chilean native strawberry, Fragaria chiloensis, and
its world-wide cultivated relative, Fragaria x ananassa.
F. Carbone (a), G. Saud (b,c), P.
DS Caligaria (b) and G. Perrotta (a)
a Ente per le Nuove Tecnologie, l'Energia e l'Ambiente
(ENEA), Italy, b Universidad de Talca, Chile, c
Centro de Investigación en Biotecnología
Silvoagrícola (CIBS), Chile
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Utilization of a peach microarray for gene expression
profiling in strawberry.
L. Trainotti, A.Tadiello, G. Casadoro.
Department of Biology, University of Padua, Padova,
Italy.
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Application of microarray technology to examine
the local and systemic plant responses to root-knot
nematode interaction.
S. Sanz-Alférez
Universidad Autónoma de Madrid. Department
of Biology. Madrid - Spain.
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Monitoring plant gene expression after fungal
infection.
F. Förster, A. Felk, F. Maier,
W. Schäfer
University of Hamburg, Biocenter Klein Flottbek,
Hamburg, Germany
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Advanced molecular tools for array based analyses
of genome; new concepts, techniques and applications
of microarray technology
J.D. Hoheisel
Division of Functional Genome Analysis, Deutsches
Krebsforschungszentrum, Heidelberg, Germany
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PADLOCK PROBE TECHNOLOGY, vision of a universal,
multiplex diagnostic system for versatile applications
1C. Schoen, 2M. Szemes, 1R. van
Doorn, 1 M. Dieho, 1O. Mendes, 1M. van den Berg,
3T. Prins, 3J. van Dijk, 1J. Peters, 1J. Bergervoet,
4M. Vasic, 4H Zuilhof, 5M. Slawiak, 5E. Lojkowska,
and 1P. Bonants.
1: Plant Research International, Department of Biointeractions
and Plant Health, Wageningen, The Netherlands, 2:
University of Bristol, Department of Pharmacology,
University Walk, United Kingdom, 3: RIKILT - Institute
of Food Safety, Wageningen, The Netherlands, 4:
Laboratory of Organic Chemistry, Wageningen University,
The Netherlands, 5: University of Gdansk, Department
of Biotechnology, Gdansk, Poland
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Use of padlock probes for detection of pectinolytic
Pectobacterium carotovorum and Dickeya isolates
aM. Slawiak, aE. Lojkowska, cM.
Szemes, bA. Dullemans, bR. van Doorn, bA. Speksnijder,
aM. Waleron, aK. Waleron, bP. Bonants, bC. D. Schoen.
a: University of Gdansk, Department of Biotechnology,
Gdansk, Poland, b: Plant Research International,
Department of Biointeractions and Plant Health,
Wageningen, the Netherlands, c: University of Bristol,
Department of Pharmacology, University Walk, Bristol,
United Kingdom
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Multi-detection of GMOs and plant-specific DNA
in complex matrices.
T. Prins
RIKILT, Wageningen, The Netherlands
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Nanoparticle-Based Bio-Bar Code technology for
ultra sensitive (plant) pathogen detection
O. Mendes, M. Dieho, M. Vasic*,
R. van Doorn, A. van Amerongen**, H. Zuilhof*, P.
Bonants, C. Schoen#
Plant Research International (PRI) B.V., Wageningen,
The Netherlands, *) Laboratory of Organic Chemistry,
Wageningen University, Wageningen, The Netherlands,
**) Agrotechnology & Food Innovations B.V.,
Wageningen, The Netherlands
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Quantitative multiplex detection of plant pathogens
using PRI-lock probes and universal, ultra-high-throughput
real-time PCR on OpenArraysTM
M. Szemes, R. van Doorn, P. Bonants*,
C.D. Schoen
Plant Research International B.V., The Netherlands
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Multiplex bead based detection of plant pathogens
using the universal xMap technology
J.H.W. Bergervoet1, J. Peters1,
J.M. van der Wolf1, R. van der Vlugt1, J.Jacobson2
1: Plant Research International, Wageningen, the
Netherlands, 2: Luminex Corporation, Austin, United
States of America
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The Latest Developments in Microarray Technology
J. Clough
Oxford Gene Technology, Yarnton Oxford, United Kingdom
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Development and validation of a microbial diagnostic
microarray for detection and identification of waterborne
pathogens and indicator organisms
T. Kostic
Austrian Research Centers GmbH - ARC, Environmental
Molecular Analytics, Seibersdorf, Austria
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16S microarray for monitoring of plant-associated
bacteria
Y. Moenne Loccoz
UMR CNRS 5557 Ecologie Microbienne, Université
Lyon 1, Villeurbanne, France
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Performance of microarrays for diagnostics of
viral mixed infections.
M. Sip
University of South Bohemia, Ceske Budejovice, Czech
Republic
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Poster session
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Investigations of the genetic background of the
Börner (Vitis sp.) Phylloxera resistance by means
of Microarray Technology
L. Blank
Geisenheim Research Center, Section of Botany, Geisenheim,
Germany
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Microarray analysis of
Saccharomyces cerevisiae wine strains during slow fermentation
M. Budroni 1, G. Zara 1, S. Zara
1, I. Mannazzu 1and H.J.J van Vuuren2
1: Dipartimento di Scienze Ambientali Agrarie e
Bioteconolgie Agroalimentari, University of Sassari,
Sassari, Italy; 2: Wine Research Centre, The University
of British Columbia, Vancouver, Canada
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Transcriptomic analysis
of grape response after infection by Eutypa lata
C. Camps, P. Coutos-Thévenot
and S. Delrot
Institut des Sciences de la Vigne et du Vin, UMR-INRA
1287, Ecophysiologie et Génomique Fonctionnelle
de la Vigne, Villenave d'Ornon, France, UMR-CNRS
6161, Laboratoire Physiologie, Biochimie et Biologie
Moléculaire Végétales, Bâtiment
Botanique, Poitiers, France
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Microarray analysis of
pig muscle in divergent populations for cholesterol
and lipid metabolism parameters
1 A. Cánovas, 1 R. Quintanilla,
1 L. Varona, 2 I. Díaz., 1 J. Casellas, 1
R.N. Pena
1: Genètica i Millora Animal. IRTA-Lleida.
Spain, 2: Tecnologia dels Aliments. IRTA-Monells.
Spain
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Development of a DNA array
with multiple levels of phylogenetic specificity to
discriminate the cucumber pathogens Fusarium oxysporum
f. sp. cucumerinum and f. sp. radicis-cucumerinum.
B. Lievens a*, L. Claes a, D.J.
Vakalounakis b, A.C.R.C. Vanachter a, and B.P.H.J.
Thomma c
a: Scientia Terrae Research Institute, Sint-Katelijne-Waver,
Belgium; b: National Agricultural Research Foundation
(N.A.G.RE.F.), Plant Protection Institute, Heraklion,
Crete, Greece; c: Laboratory of Phytopathology,
Wageningen University, Wageningen, The Netherlands
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Construction and validation
of a new flexible Grape microarray platform
D. Glissant, A. Ferrarini, M. Pezzotti
and M. Delledonne
Università degli Studi di Verona, Dipartimento
Scientifico e Tecnologico. Strada le Grazie, Verona.
Italy
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A diagnostic microarray for honeybee viruses
Rachel Glover, Neil Boonham
CSL, York, United Kingdom
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Monitoring the microbial
population dynamics during thick juice storage in the
sugar industry
A. Justé a,b,c*, M. S. Krause
b,c, B. Lievens b, M. Klingeberg d, C. Michiels
a, T. L. Marsh e, and K. A. Willems b,c
a Laboratory of Food Microbiology, Katholieke Universiteit
Leuven, Leuven, Belgium, b Scientia Terrae Research
Institute, Sint-Katelijne-Waver, Belgium, c De Nayer
Institute, Department of Microbial Process Ecology,
Sint-Katelijne-waver, Belgium, d Südzucker
AG, Mannheim/Ochsenfurt , ZAFES, Department of biotechnology,
Obrigheim/Pfalz, Germany, e Department of Microbiology
and Center for Microbial Ecology, Michigan State
university
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Microarray-based studies
on gene content of Escherichia coli O157
O. Leppäranta1, P. Somervuo2,
S. Nykäsenoja1, L. Rantala1, P. Auvinen2, and
V. Myllys1
1 Finnish Food Safety Authority Evira, Helsinki,
Finland 2 Institute of Biotechnology, University
of Helsinki, Finland
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Expression analysis at
different reproductive stages in a F2 crossbred.
M. Martínez*, R. Pena*, J.
Casellas*, A. Tomàs§, A. Fernández†,
L. Varona*, J.L. Noguera*
*Genètica i Millora Animal. IRTA. Lleida,
Spain, §Departament de Ciència Animal
i dels Aliments. Facultat de Veterinària,
UAB. Bellaterra, Spain , †Departamento de Mejora
Genética Animal SGIT-INIA. Madrid, Spain
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Towards nanoelectrode-based
DNA chips: A nanosensors prototype to detect single
hybridization events
E. Primiceri, G Maruccio, V Arima,
P Marzo, A Della Torre, T Pellegrino, R Cingolani,
F Calabi, R Rinaldi
National Nanotechnology Laboratory of CNR-INFM,
Unità di Ricerca IIT, Lecce, Italy
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Microarray based analysis
of the PecS regulon of Erwinia chrysanthemi
C. Oger1, F. Hommais2, W. Nasser2,
S. Reverchon2
1 Pole Rhone-Alpes de BioInformatique, 2 UM5240
CNRS-Univ. Lyon1-INSA " Microbiologie, Pathogenie
et Adaptation " Domaine Scientifique de la
Doua Villeurbanne, France
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DNA arrays applied to microorganisms
detection.
Poltronieri P., D'Urso O.F., Cappello
M.S, Morea M.
ISPA-CNR, Lecce, Italy
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Transcriptional patterns
from tomato infected with Meloidogyne javanica as compared
with control roots by microarrays
M. Portillo1, A. Yuste1, G. García2,
R. Solano2, C. Fenoll1 and C. Escobar1.
1 Facultad de Ciencias del Medio Ambiente, Universidad
de Castilla-La Mancha, Campus de la Real Fábrica
de Armas, Toledo, Spain, 2 Centro Nacional de Biotecnología-CSIC.
Campus Cantoblanco, Madrid, Spain.
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Comparison of oligonucleotide
arrays and SPR-biacore sensors for fungal detection:
tests of Aspergillus carbonarius
Quarta A, Mita G, D'Urso OF, Zezza
F, Pascale, M, Logrieco A., Visconti A. Poltronieri
P.
ISPA-CNR, Lecce, Italy
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Microarray detection of
viroids
J. Tomlinson, Rick Mumford, Ruth
Lopez, Neil Boonham
CSL, York, United Kingdom
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Polypyrrole nanoparticles as possible
components for array technology
A. Ramanavicienne
Institute of Immunology of Vilnius University, Vilnius,
Lithuania
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Infection levels of Fusarium
in Lithuanian organic cereals investigated by plating,
microscopy and microarray analysis.
S. Suproniene1, A. Fejer Justesen2,
M. Nicolaisen2 and A.Mankeviciene1
1 Lithuanian Institute of Agriculture, Akademija,
K?dainiu distr., Lithuania
2University of Aarhus, Institute of Integrated Pest
Management, Slagelse, Denmark
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PADLOCK PROBE TECHNOLOGY, Vision of a universal,
multiplex diagnostic system for versatile applications
C. Schoen, M. Szemes, R. van Doorn,
A. Speksnijder, A. Dullemans, E. Nijhuis and P.
Bonants.
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Quantitative multiplex detection of pathogens
using PRI-lock
probes and ultra-high-throughput Q-PCR on OpenArraysTM
C. Schoen, R. van Doorn, M. Szemes,
R. van Hoof, J. Sallas and P. Bonants.
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Construction of an oligonucleotide
microarray for detection and identification of the potato
wart fungus Synchytrium endobioticum and viral pathogen
sequences in potato
S. Winter
DSMZ Plant Virus Department, Braunschweig, Germany
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