Biotechnological Applications of Photosynthetic Proteins: Biochips, Biosensors and Biodevices

230 Pages·2006·4.973 MB·English

by  Maria Teresa Giardi Ph.D., Elena V. Piletska Ph.D. (auth.)

BIOTECHNOLOGY
INTELLIGENCE
UNIT
Biotechnological Applications
of Photosynthetic Proteins:
Biochips, Biosensors and Biodevices
Maria Teresa Giardi, Ph.D.
Group on Photosynthetic-Based Biosensors
National Council of Research-IC
Institute of Crystallography, CNR
Monterotondo Scalo, Rome, Italy
ElenaV.Piletska,Ph.D.
Institute of Bioscience and Technology
Cranfield University
Silsoe, Bedfordshire, U.K.
LANDES BIOSCIENCE / EUREKAH.COM SPRINGER SCIENCE+BUSINESS MEDIA
GEORGETOWN, TEXAS NEW YORK, NEW YORK
U.S.A. U.SA
BlOTECHNOLOGICAL APPLICATIONS
OF PHOTOSYNTHETIC PROTEINS:
BiocHiPS, BIOSENSORS AND BIODEVICES
Biotechnology Intelligence Unit
Landes Bioscience / Eurekah.com
Springer Science+Business Media, LLC
ISBN: 0-387-33009-7 Printed on acid-free paper.
Copyright ©2006 Landes Bioscience and Springer Science+Business Media, LLC
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Library of Congress Cataloging-in-Publication Data
Biotechnological applications of photosynthetic proteins : biochips, biosensors, and biodevices / [edited by]
Maria Teresa Giardi, Elena V. Piletska.
p. ; cm. — (Biotechnology inteUigence unit)
Includes bibliographical references and index.
ISBN 0-387-33009-7 (alk paper)
1. Proteins—Biotechnology. 2. Biochips. 3. Biosensors. I. Giardi, Maria Teresa. II. Piletska, Elena V. III.
Series: Biotechnology intelligence unit (Unnumbered)
[DNLM: 1. Photosynthetic Reaction Center Complex Proteins. 2. Biosensing Techniques. 3. Biotechnol
ogy. 4. OHgonucleotide Array Sequence Analysis. 5. Photosystem II Protein Complex. QU 55 B6156 2006]
TP248.65.P76B56 2006
660.6'3-dc22
2006004699
About the Editors.
MARIA TERESA GIARDI is a coor
dinator of multi-disciplinary studies on the
realization of biosensors for the European
Community and the European Space Agency.
She is research leader of a group of young
post docs with a special role in direct partici
pation in several of the results presented in
this book. She has a background in organic
chemistry; her scientific work includes stud
ies on biochemical mechanisms of photosyn
thesis, stress biochemistry and photosynthetic
biosensors. She supports a sustainable tech
nological development.
ELENA V. PILETSKA graduated from
Moscow State University in 1985 and gained
her Ph.D. in biochemistry from A.N. Bach
Institute of Biochemistry (Moscow) working
on genome of chloroplasts (1989). Dr.
Piletska joined the Institute of BioScience and
Technology, Cranfield University, U.K. in
1998. Her current research interests include
molecular recognition using synthetic and
natural receptors, polymer and analytical
chemistry and computational modelling.
This book is dedicated to Gianni, RafFaele,
Ginko, Kyria, Gea, Spina, Ruya and Eliott.
—Maria Teresa Giardi, Ph.D.
CONTENTS
1. Introduction: The Emergence of a New Technology 1
Maria Teresa Giardi
Why and How to Make a Photosynthetic-Based Biosensor 2
Potential and Prospective of the RC-Biotech for Basic Research
and AppUcations... 2
2. A Brief Story of Biosensor Technology 4
Marco Mascini
The Problem of AmpUfication 5
The Biological System 5
Immobilization of the Biological System 5
Important Steps in the Biosensor Research 6
3. Photosystem II: Composition and Structure 11
Aspasia Spyridaki, Emmanuel Psylinakis and Demetrios F. Ghanotakis
The Hydrophobic Core 12
The Hydrophilic Cluster 18
4. Biogenesis and Structural Dynamics of the Photosystem II Complex... 32
Josef Komenday Stanislava Kuvikovd, Lenka Lupinkovd
andjiri Masojidek
Assembly of the Photosystem II Complex 32
PSII Photoinhibition and Repair Cycle 34
Role of Reactive Oxygen Species in PSII Dynamics 37
5. Engineering the Dl Subimit of Photosystem II:
Application to Biosensor Technology 46
Udo Johanningmeier, Ivo Bertalan, Lydia Hilhig, Jana Schulze,
Stefan Wilski, Edda Zeidler and Walter Oettmeier
Structure of the Dl Protein A7
Dl Protein Engineering in an Eukaryotic Alga 48
Herbicide Binding Niche 51
Peptide Insertions 53
6. Chloroplast Genomics of Land Plants and Algae 57
Margaritas. OdintsovaandNadezhdaP. Yurina
Chloroplast Genome of Land Plants 57
Chloroplast Genome of Algae 65
7. Comparison of the Immobilization Techniques for Photosystem II 73
Regis Rouillon, Sergey A. Piletsky, Elena V. Piletskay Pierre Euzet
and Robert Carpentier
Main Methods of Immobilization 7A
Various Immobilized Photosynthetic Materials 75
Measure of PSII Activity after Immobilization 7G
Photosystem II Activity after Immobilization 78
Storage and Operational Stabilities after Immobilization 79
Physical or Chemical Immobilization Comparative Study 81
8. Comparison of Photosynthetic Organisms at Various Evolutionary
Stages for Protein Biochips 84
Maria Teresa Giardiy Dania Esposito and Giuseppe Torzillo
Reaction Centers and Photosynthetic Proteins 85
Technological Applications 87
Biochips of Reaction Centers 88
Photodevices 89
Applications of Bacteriorhodopsin 91
9. Signal Transduction Techniques for Photosynthetic Proteins 94
Pinalysa Cosma, Francesco Longohardi and Angela Agostiano
Cyclic Voltammetric Experiment 95
Chronoamperometric Experiment 97
Overview of Recent Applications 103
10. Biotechnological and Computational Approaches
for the Development of Biosensors 108
Giulio Testone, Donato Giannino, Domenico Mariotti, Prashant Katiyar,
Mayank Garg, Emanuela Pace and Maria Teresa Giardi
Synthesis of Biomediators in Bacterial Hosts 109
Bioinformatics to Develop Protein Based Biosensors Ill
11. The Problem of Herbicide Water Monitoring in Europe 116
Licia Guzzella andPiorenzo Pozzoni
Pesticide and Herbicide Use in Europe 117
Contamination of European Freshwater by Herbicides 120
Pesticide Contamination of Water Resources
in the United Kingdom 123
Pesticide Contamination of Water Resources in Denmark 124
Pesticide Contamination of Water Resources in Italy 126
12. Application of Chloroplast Dl Protein in Biosensors
for Monitoring Photosystem Il-Inhibiting Herbicides 130
Elena V. Piletska, Sergey A. Piletsky and Regis Rouillon
Dl Protein Properties 131
Dl Protein Isolation and Purification 132
Assays 132
Optical Methods 136
Electrochemical Methods 142
13. Photosystem II-Based Biosensors for the Detection
of Photosynthetic Herbicides 147
Maria Teresa Giardi and Emanuela Pace
Herbicides 148
Biosensors 149
14. Mimicking the Plastoquinone-Binding Pocket of Photosystem II
Using Molecularly Imprinted Polymers 155
Florent Breton, Elena V. Piletska, Khalku Kariniy Riff,s Rouillon
and Sergey A. Piletsky
Natural Receptors for Photosynthesis-Inhibiting Herbicides 157
Synthetic Receptors 159
MIPs Specific for Photosynthesis-Inhibiting Herbicides 160
15. Photosystem II Biosensors for Heavy Metals Monitoring 166
Regis Rouillony Sergey A. Piletskyy Florent Breton, Elena V. Piletska
and Robert Carpentier
Effects of the Heavy Metals on Photosystem II 167
Examples of Biosensors Used to Detect the Heavy Metals 168
Effects of Different Parameters on the Sensitivity of Immobilized
PSII Sub-Membrane Fractions towards Heavy Metals 170
Analysis of the Toxicity of Environmental Samples with PSII
Sub-Membrane Fractions Immobilized in PVA-S^^Q 171
16. Development of Biosensors for the Detection
of Hydrogen Peroxide 175
Louisa Giannoudiy Elena V. Piletska and Sergey A. Piletsky
Sensors for Hydrogen Peroxide 178
17. Biodevices for Space Research 192
Dania Esposito, Cecilia Faraloni, Floriana Fasolo, Andrea Margonelli,
Giuseppe Torzillo, Alba Zanini and Maria Teresa Giardi
Experimental Methods 194
Results 197
18. Successes in the Development and Application
of Innovative Techniques 209
Eleftherios Touloupakis, Giovanni Basile, Emanuela Pace,
Maria Teresa Giardi andFlavia di Costa
History 209
Biosensor 210
Advantages 210
Applications 211
Technical Challenges in Biosensor Tech 211
Market Potential 212
Commercial Requirements for Biosensors 212
Future Challenges 213
Index 215
EDITORS
Maria Teresa Giardi
Group on Photosynthetic-Based Biosensors
National Council of Research-IC
Institute of Crystallography, CNR
Monterotondo Scalo, Rome, Italy
Chapters 7, 8, 10, 13, 17, 18
Elena V. Piletska
Institute of Bioscience and Technology
Cranfield University
Silsoe, Bedfordshire, U.K.
Chapters 7, 12, 14-16
CONTRIBUTORS
Angela Agostiano Robert Carpentier
Dipartimento di Chimica Croupe de Recherche en finergie
Universita di Bari et Information Biomoldculaires
and Universite du Quebec a Trois-Rivi^res,
CNR-IPCF sez Trois-Rivi^res, Quebec, Canada
Bari, Italy Chapters 7, 15
Chapter 9
Pinalysa Cosma
Giovanni Basile Dipartimento di Chimica
Biosensor Sri Universita di Bari
Palombara Sabina, Italy and
Chapter 18 CNR-IPCF sez
Bari, Italy
Ivo Bertalan Chapter 9
Institut fiir Pflanzenphysiologie
Martin-Luther Universitat Flaviadi Costa
Halle-Wittenberg Institute of Crystallography, CNR
Halle, Germany National Council of Research-IC
Chapter 5 Monterotondo Scalo, Rome, Italy
Chapter 18
Florent Breton
Universite de Perpignan Dania Esposito
Centre de Phytopharmacie Institute of Crystallography, CNR
Perpignan, France Monterotondo Scalo, Rome, Italy
Chapters 14, 15 Chapters 8, 17
Pierre Euzet Lydia Hilbig
Universite de Perpignan Institut fiir Pflanzenphysiologie
Centre de Phytopharmacie Martin-Luther Universitat
Perpignan, France Halle-Wittenberg
Chapter 7 Halle, Germany
Chapter 5
Cecilia Faraloni
Istituto per io Studio degli Ecosistemi, Udo Johanningmeier '
CNR Institut fur Pflanzenphysiologie
Sezione di Firenze Martin-Luther Universitat
Florence, Italy Halle-Wittenberg
Chapter 17 Halle, Germany
Chapter 5
Floriana Fasolo
Istituto Nazionale Fisica Nucleate Khalku (Kal) Karim
Turin, Italy Institute of Bioscience and Technology
Chapter 17 Cranfield University
Silsoe, Bedforshire, U.K.
Mayank Garg Chapter 14
Institute of Crystallography, CNR
Monterotondo Scalo, Rome, Italy Prashant Katiyar
Chapter 10 Institute of Crystallography, CNR
Monterotondo Scalo, Rome, Italy
Demetrios F. Ghanotakis Chapter 10
Department of Chemistry
University of Crete Josef Komenda
Heraklion, Greece Institute of Microbiology
Chapter 3 Academy of Sciences
Trebon, Czech Republic
Donato Giannino and
Institute of Biology and Agricultural Institute of Physical Biology
Biotechnology, CNR University of South Bohemia
Monterotondo Scalo, Rome, Italy Nov^ Hrady, Czech Republic
Chapter 10 Chapter 4
Louisa Giannoudi Stanisiava Kuvikovd
Institute of Bioscience and Technology Institute of Microbiology
Cranfield University Academy of Sciences
Silsoe, Bedfordshire, U.K. Trebon, Czech Republic
Chapter 16 and
Institute of Physical Biology
Licia Guzzella University of South Bohemia
IRSA, CNR Nov^ Hrady, Czech Republic
Brugherio, Milan, Italy Chapter 4
Chapter 11
Francesco Longobardi Margarita S. Odintsova
Dipartimento di Chimica A.N. Bach Institute of Biochemistry
Universita di Bari Russian Academy of Sciences
and Moscow, Russia
CNR-IPCF sez Chapter 6
Bari, Italy
Chapter 9 Walter Oettmeier
Biochemie der Pflanzen
Lenka Lupfnkova Ruhr-Universitat Bochum
Institute of Microbiology Bochum, Germany
Academy of Sciences Chapter 5
Trebon, Czech Republic
and Emanuela Pace
Institute of Physical Biology Institute of Crystallography, CNR
University of South Bohemia National Council of Research-IC
Nove Hrady, Czech Republic Monterotondo Scalo, Rome, Italy
Chapter 4 Chapters 10, 13, 18
Andrea Margonelli Sergey A. Piletsky
Institute of Crystallography, CNR Institute of Bioscience and Technology
Cranfield University
Monterotondo Scalo, Rome, Italy
Silsoe, Bedfordshire, U.K.
Chapter 17
Chapters Z 12, 14-16
Domenico Mariotti
Fiorenzo Pozzoni
Institute of Biology and Agricultural
IRSA, CNR
Biotechnology, CNR
Brugherio, Milan, Italy
Monterotondo Scalo, Rome, Italy
Chapter 11
Chapter 10
Emmanuel Psylinakis
Marco Mascini
Department of Human Nutrition
Biosensors Laboratory
and Dietetics
Department of Chemistry
School of Food Technology
University of Florence
and Dietetics
Florence, Italy
Technological Educational Institute
Chapter 2
of Crete
Crete, Greece
Jiri Miasojfdek
Chapter 3
Institute of Microbiology
Academy of Sciences
R^gis Rouillon
Trebon, Czech Republic
University de Perpignan
and
Centre de Phytopharmacie
Institute of Physical Biology
Perpignan, France
University of South Bohemia
Chapters 7, 12, 14, 15
Nov^ Hrady, Czech Republic
Chapter 4