E-Book, Englisch, 863 Seiten
Zourob Recognition Receptors in Biosensors
1. Auflage 2010
ISBN: 978-1-4419-0919-0
Verlag: Springer-Verlag
Format: PDF
Kopierschutz: Adobe DRM (»Systemvoraussetzungen)
E-Book, Englisch, 863 Seiten
ISBN: 978-1-4419-0919-0
Verlag: Springer-Verlag
Format: PDF
Kopierschutz: Adobe DRM (»Systemvoraussetzungen)
Autoren/Hrsg.
Weitere Infos & Material
1;Preface;5
2;Foreword;7
3;Contents;9
4;Contributors;12
5;Principles of Biomolecular Recognition;17
5.1;Abbreviations;18
5.2;Symbols;18
5.3;1.1 What Is Molecular Recognition?;18
5.4;1.2 General Principles of Interaction Thermodynamics;20
5.5;1.2.1 Free Energy, Enthalpy, and Entropy in Interacting Systems;21
5.6;1.2.2 Interaction Energy in the Association of Two Semi-Rigid Molecules in the Gas Phase;22
5.7;1.3 Interaction Energies in the Gas Phase;24
5.8;1.3.1 First-Order Electrostatic Interactions Involving Permanent Charges and Multipoles;25
5.9;.;34
5.10;1.3.2 Second-Order Induction–Polarization Energy;36
5.11;1.3.3 London Dispersion;38
5.12;1.3.4 Steric Repulsion (Pauli Exclusion) and Modeling of van der Waals Forces;41
5.13;1.3.5 Charge Transfer;43
5.14;1.4 Thermodynamics of Association in the Gas Phase;44
5.15;1.4.1 Thermodynamic Contributions from Nuclear Motions;44
5.16;1.4.2 Conformational Entropy;47
5.17;1.5 Interaction Energies in the Aqueous Environment;48
5.18;1.5.1 Effects of Water on Electrostatics;48
5.19;1.5.2 Effect of Water on Induction and van der Waals Forces;49
5.20;1.5.3 Effect of Water on Thermodynamic Contributions from Nuclear Motions;51
5.21;1.5.4 Hydrophobic Effect;52
5.22;1.5.5 Interactions of Dissolved Ligands with Macromolecules in Solution;53
5.23;1.6 A Synthesis;55
5.24;1.7 Concluding Remarks;57
5.25;References;57
6;Surface Sensitization Techniques and Recognition Receptors Immobilization on Biosensors and Microarrays;60
6.1;Abbreviations;61
6.2;2.1 Introduction;62
6.3;2.2 Adsorption, Chemical Grafting, and Entrapment 2.2.1 From Adsorption to Grafting, a Historical Perspective;63
6.4;2.2.2 Adsorption and Grafting: Physical Chemistry and Thermodynamics;66
6.5;2.2.3 Kinetic Aspects of Adsorption, Desorption, and Grafting;68
6.6;2.2.4 Nonspecific Adsorption as a Source of Background Signal;69
6.7;2.3 Classification of the Main Immobilization Pathways 2.3.1 Specificities of Biomolecules for Chemical Coupling;70
6.8;2.3.2 Strategy of Chemical Grafting;71
6.9;2.3.3 Chemical Grafting of Native Biomolecules and Associated Surface Biofunctionalization;72
6.10;2.3.4 Immobilization of Modified Biomolecules;78
6.11;2.4 Surface Functionalization;91
6.12;2.4.1 2D Immobilization: Grafting of Monolayers;93
6.13;2.4.2 3D Immobilization: Thick Layers, Entrapment Methods;107
6.14;2.4.3 Immobilization onto Colloidal Particles;124
6.15;2.5 Concluding Remarks;133
6.16;References;134
7;Analytical Tools for Biosensor Surface Chemical Characterization;148
7.1;Abbreviations;149
7.2;3.1 Introduction;149
7.3;3.2 Surface Chemical Analysis;149
7.4;3.2.1 Secondary Ion Mass Spectrometry (SIMS);150
7.5;3.2.2 X-Ray Photoelectron Spectroscopy;153
7.6;3.3 Examples;158
7.7;3.4 Cell-Based Biosensor Prototypes;158
7.8;3.4.1 Glyco-Engineering;163
7.9;3.4.2 Immunosensors;173
7.10;3.5 Concluding Remarks;182
7.11;References;182
8;Enzyme for Biosensing Applications;188
8.1;Abbreviations;189
8.2;4.1 Introduction;190
8.3;4.2 Biocatalysis and Enzyme Specificity;190
8.4;4.2.1 Classification of Enzymes;191
8.5;4.3 Enzyme Immobilization;194
8.6;4.3.1 Confinement Within a Semipermeable Membrane;194
8.7;4.3.2 Adsorption;194
8.8;4.3.3 Affinity Interactions;195
8.9;4.3.4 Entrapment;196
8.10;4.3.5 Cross-linking;196
8.11;4.3.6 Covalent Binding;197
8.12;4.4 Enzyme-Based Biosensors: Different Transduction Modes 4.4.1 Electrochemical Detection;198
8.13;4.4.2 Gravimetric Detection: Quartz Crystal Microbalance ( QCM), Surface Acoustic Wave ( SAW) Devices, Microcantilevers;208
8.14;4.4.3 Calorimetric Detection;209
8.15;4.4.4 Optical Detection;210
8.16;4.5 Concluding Remarks;219
8.17;References;220
9;Antibodies in Biosensing;232
9.1;Abbreviations;233
9.2;5.1 Introduction;233
9.3;5.2 Antibodies: An Overview 5.2.1 Immunoglobulin Expression In Vivo;234
9.4;5.2.2 Antibody Formats;234
9.5;5.2.3 Anti-Antibodies System;237
9.6;5.3 Antibodies as Biosensors: Various Technologies;237
9.7;5.3.1 Techniques Utilizing Immunoprecipitation;238
9.8;5.3.2 Radioimmunoassays;241
9.9;5.3.3 Enzymatic Immunoassays;241
9.10;5.3.4 Immunocytochemical and Immunohistochemical Assays;244
9.11;5.3.5 Flow Cytometry;245
9.12;5.3.6 Bead-Based Assays;247
9.13;5.3.7 Additional Techniques;251
9.14;5.4 Multiplexing Methodologies;252
9.15;5.4.1 ChIP-on-Chip Assays;252
9.16;5.4.2 Antibody Microarrays;252
9.17;5.4.3 Multiplexing IHC/ICC;254
9.18;5.4.4 Multispot ELISAs;255
9.19;5.5 Concluding Remarks;256
9.20;References;256
10;Peptides as Molecular Receptors;260
10.1;Abbreviations;260
10.2;6.1 Introduction;261
10.3;6.2 Peptides as Receptor Molecules;262
10.4;6.3 Combinatorial Chemistry;264
10.5;6.4 Dynamic Combinatorial Library;266
10.6;6.5 Phage Display Technology;269
10.7;6.6 Rational Design Approach Using Computational Methods;269
10.8;6.6.1 Molecular Mechanics;270
10.9;6.6.2 Building Blocks;272
10.10;6.6.3 Leapfrog;272
10.11;6.7 Molecular Imprinting;274
10.12;6.8 Application in Sensors;275
10.13;6.9 Future Perspective;278
10.14;6.10 Concluding Remarks;279
10.15;References;279
11;Carbohydrates as Recognition Receptors in Biosensing Applications;286
11.1;Abbreviations;286
11.2;7.1 Introduction;288
11.3;7.2 General Aspects of Glycochemistry 7.2.1 Introduction;290
11.4;7.2.2 Structural Aspects and Chemistry of Carbohydrates;290
11.5;7.2.3 Glycosylation Methods;295
11.6;7.2.4 Chemo-enzymatic Glycosylation Methods;297
11.7;7.2.5 Glycoconjugates;298
11.8;7.2.6 Examples of Naturally Occurring Carbohydrates;300
11.9;7.3 Biological Role;306
11.10;7.3.1 The Glycocalix and Extracellular Matrix Polysaccharides;306
11.11;7.3.2 Carbohydrates in Host–Pathogen Interactions and Metastasis;309
11.12;7.4 Carbohydrate-Based Biosensors;311
11.13;7.4.1 Obtaining Saccharide Probes;311
11.14;7.4.2 Surface Physicochemistry: Non-specific Adsorption and Immobilisation;312
11.15;+;318
11.16;+;318
11.17;+ +;318
11.18;+;318
11.19;+ +;318
11.20;+;318
11.21;+;318
11.22;+;318
11.23;+;318
11.24;7.4.3 Transduction;325
11.25;7.5 Biosensors: Applications 7.5.1 Antibody/ Antigen;336
11.26;7.5.2 Enzyme/Carbohydrates;337
11.27;7.5.3 Carbohydrates/Lectins;338
11.28;7.5.4 Whole Cells;339
11.29;7.6 Concluding Remarks;340
11.30;References;341
12;Nucleic Acid Diagnostic Biosensors;353
12.1;Abbreviations;353
12.2;8.1 Introduction;354
12.3;8.1.1 Development of Nucleic Acid Diagnostics;355
12.4;8.1.2 Properties of a Diagnostic Target;355
12.5;8.1.3 DNA and RNA targets;356
12.6;8.1.4 Nucleic Acid Diagnostics Methods;356
12.7;8.1.5 Polymerase Chain Reaction;357
12.8;8.2 Biosensors;358
12.9;8.2.1 Biosensor Assay formats;358
12.10;8.2.2 Biological Recognition Elements and Immobilisation Methods;359
12.11;8.3 Biosensor Formats for Nucleic Acid Diagnostics 8.3.1 Optical Based Systems;361
12.12;8.3.2 Surface Plasmon Resonance;361
12.13;8.3.3 Piezoelectric Biosensors;363
12.14;8.3.4 Electrochemical Biosensors;364
12.15;8.3.5 Other Detection Formats;365
12.16;8.3.6 Signal Amplification;365
12.17;8.4 Microarrays;366
12.18;8.5 Use of Nucleic Acid Biosensors for Rapid Pathogen Detection;368
12.19;8.6 Future Developments;369
12.20;8.6.1 Micro and Nano Scale Biosensors;370
12.21;8.7 Concluding Remarks;370
12.22;References;371
13;Tissue-Based Biosensors;374
13.1;Abbreviations;375
13.2;9.1 Introduction;375
13.3;9.2 Tissue-Based Biosensors in Experimental Animals;376
13.4;9.3 Incorporating Biosensor Molecules Into Tissues;377
13.5;9.4 Biophotonics-Based Biosensors and Biosensors Based on Other Physical Outputs;378
13.6;9.5 Measuring Light Output from Bioluminescence-Based Biosensor Tissues in Living Animals;380
13.7;9.6 Tissue-Based Biosensors Based on Bioluminescence Resonance Energy Transfer ( BRET);382
13.8;9.7 Examples of Tissue-Based Biosensors That Use BRET 9.7.1 Example 1: Vasopressin;383
13.9;9.7.2 Example 2: Rapamycin;385
13.10;9.8 Potential Uses of Tissue-Based Biosensors in Human Medicine;385
13.11;9.9 Concluding Remarks;388
13.12;References;388
14;Biosensing with Plants: Plant Receptors for Sensing Environmental Pollution;391
14.1;Abbreviations;391
14.2;10.1 Introduction;392
14.3;10.2 Biomonitoring;395
14.4;10.2.1 What Is Ligand–Receptor Interaction?;397
14.5;Ligand;397
14.6;Ligand Receptor Protein;397
14.7;10.2.2 The Role of Hormones in Plant Development and Stress Signaling;398
14.8;10.2.3 Receptor-Like Kinases;406
14.9;10.2.4 Cell Wall Associated Kinase and WAK-Like Kinase;409
14.10;10.2.5 Leucine-Rich Repeats: LRR-RLK Subfamily;410
14.11;10.3 Possible Implications of Ligand–Receptor Interaction Studies on Future Phytosensing Research;412
14.12;10.4 Concluding Remarks;413
14.13;Mega Plant Biotech Industry;414
14.14;References;415
15;Bacteriophage-Based Biosensors;422
15.1;Abbreviations;423
15.2;11.1 Introduction;424
15.3;11.2 Detection by Phage Amplification;427
15.4;11.3 Detection of Released Intracellular Components During Phage Lysis;428
15.5;11.3.1 Measurement of Adenosine Triphosphate Release;428
15.6;11.3.2 Measurement of Enzymes and Other Cytoplasmic Markers;429
15.7;11.3.3 Measurement of Phage Progeny;430
15.8;11.4 Direct Detection Through Cell Wall Recognition 11.4.1 Phage Immobilization;433
15.9;11.4.2 Affinity Detection;436
15.10;11.4.3 Fluorescently Labeled Phages;443
15.11;11.5 Indirect Detection 11.5.1 Detection Based on Inhibition of Metabolism and Growth;444
15.12;11.6 Detection by Reporter Phages;444
15.13;11.6.1 Bioluminescent Reporter Phages (lux and luc);445
15.14;11.6.2 Fluorescent Reporter Phages ( gfp);448
15.15;11.6.3 Colorimetric Reporter Phages ( lacZ);449
15.16;11.6.4 Ice Nucleation Reporter Phages ( inaW);449
15.17;11.7 Other Detection Methods Using Phages 11.7.1 Phage- Conjugated Quantum Dots;450
15.18;11.8 Conclusions and Future Remarks;450
15.19;References;451
16;Antibody Engineering for Biosensor Applications;457
16.1;Abbreviations;458
16.2;12.1 Antibodies – Nature’s Own Biosensor;458
16.3;12.2 Antibody Structure and Function;459
16.4;12.2.1 Immunoglobulin Gamma and the Ig Fold;459
16.5;12.2.2 Conventional and Recombinant Antibodies;463
16.6;12.2.3 The Nature of Antibody Binding;467
16.7;12.2.4 General Thermodynamic Stabilities of Antibody Scaffolds;473
16.8;12.3 Antibody Technologies 12.3.1 Conventional Antibodies;475
16.9;12.3.2 Recombinant Antibodies;479
16.10;12.3.3 Alternative Protein Scaffolds;487
16.11;12.3.4 Limitations of Protein Recognition Elements;488
16.12;12.4 Opportunities in Biosensor Development;489
16.13;12.4.1 Assay Economics;489
16.14;12.4.2 Speed of Analysis;491
16.15;12.4.3 Multiplexity of Analysis;492
16.16;12.5 The Biosensor Interface;494
16.17;12.5.1 Surface Adsorption of Antibodies – An Interface Case Study;495
16.18;12.5.2 The Necessity of Holistic Interface Development;498
16.19;12.6 Bespoke Antibody Engineering for Biosensors;500
16.20;12.6.1 Stability;500
16.21;12.6.2 Specificity;505
16.22;12.6.3 Sensitivity;507
16.23;12.6.4 Immobilization;511
16.24;12.6.5 Other Engineering Strategies for Biosensors;519
16.25;12.7 Concluding Remarks;520
16.26;References;521
17;Genetically Engineered Proteins as Recognition Receptors;536
17.1;Abbreviations;537
17.2;13.1 Introduction;537
17.3;13.1.1 Fluorescence in Biological Sensing;538
17.4;13.1.2 Determination of Apparent Dissociation Constant ( Kd) Using Fluorescence;539
17.5;13.2 Naturally Selected Biosensors 13.2.1 Fluorescent- Labeled Proteins as Biosensors;540
17.6;13.2.2 Genetically Modified Single Cys Biosensors;541
17.7;13.2.3 Glucose Binding Protein Biosensors;545
17.8;13.2.4 Design of GFP Fusion Biosensors;550
17.9;13.3 Designed Evolution 13.3.1 In Silico Evolution: Biosensors by Design;551
17.10;13.3.2 Computational Design Using ROSETTA;552
17.11;13.3.3 Computational Design Using DEZYMER;553
17.12;13.4 In Vivo Evolution: Receptor Proteins by Combinatorial Screening;553
17.13;13.4.1 Trp Cage Motif;554
17.14;13.4.2 g-B-Crystallin;555
17.15;13.4.3 Min-23 (a Knottin);555
17.16;13.4.4 Scorpion Toxins and Defensins;556
17.17;13.4.5 Lipocalins;557
17.18;13.4.6 Staphylococcal Protein A Domain;557
17.19;13.4.7 Ankyrin Repeat Proteins;558
17.20;13.4.8 Green Fluorescent Protein;558
17.21;13.5 Concluding Remarks;560
17.22;References;560
18;Biosensing Systems Based on Genetically Engineered Whole Cells;569
18.1;Abbreviations;570
18.2;14.1 Introduction;570
18.3;14.2 Whole-Cell-Based Sensing Systems;571
18.4;14.3 Luminescent Reporter Genes;571
18.5;14.4 Advantages and Disadvantages of Whole-Cell-Based Sensing Systems;575
18.6;14.5 Bacterial Whole-Cell Sensing Systems;576
18.7;14.5.1 General Toxicants;578
18.8;14.5.2 Stress Factors;579
18.9;14.5.3 Specific Analytes or Groups of Analytes;582
18.10;14.6 Eukaryotic Whole-Cell Sensing Systems;585
18.11;14.6.1 Yeast Cells;587
18.12;14.6.2 Mammalian Cells;587
18.13;14.7 Integration of Genetically Engineered Whole-Cell Sensing Elements in Biosensors;588
18.14;14.8 Concluding Remarks;592
18.15;References;593
19;Photosynthetic Proteins Created by Computational and Biotechnological Approaches in Biosensing Applications;603
19.1;Abbreviations;604
19.2;15.1 The Emergence of Technology Based on Photosynthetic Proteins;604
19.3;15.2 Key Issues in Designing Photosystems-Based Biosensors;606
19.4;15.3 General Remarks on the Reaction Centers of Photosystems;610
19.5;15.4 Immobilization Procedures for Biomediator Stabilization;613
19.6;15.5 Transduction Systems;616
19.7;15.6 Electrochemical Detection of Pollutants;617
19.8;15.7 Optical Transducers for the Detection of Herbicides;622
19.9;15.8 Enhancing Biomediator Properties by Bioengineering and Bioinformatics;625
19.10;15.9 Innovative Applications of Photosystem- Based Technologies;628
19.11;15.10 Why make Photosystems-Based Biosensors for Environmental Monitoring?;631
19.12;15.11 Concluding Remarks;632
19.13;References;632
20;Oligonucleotides as Recognition and Catalytic Elements;635
20.1;Abbreviations;636
20.2;16.1 Introduction;637
20.3;16.2 DNA Hybridization;637
20.4;16.2.1 Melting Temperature;639
20.5;16.2.2 Melting Temperature Prediction;639
20.6;16.2.3 Effect of Mismatched Bases on Melting Temperature;643
20.7;16.2.4 Hybridization Interference Through Self-Annealing;644
20.8;16.2.5 Hybridization to Probes Immobilized on a Solid Matrix;645
20.9;16.3 Application of Oligonucleotides as Recognition Elements for Nucleotide Analysis;646
20.10;16.3.1 Original Hybridization-Based Assays;646
20.11;16.3.2 Oligonucleotides as Recognition Elements in Polymerase Chain Reaction ( PCR);647
20.12;16.3.3 Whole Genome Amplification (WGA) Technologies;649
20.13;16.3.4 Microarray Applications;650
20.14;16.4 Oligonucleotides as Genetic Regulatory Elements;654
20.15;16.4.1 Antisense Oligonucleotides;654
20.16;16.4.2 RNA Interference (RNAi);656
20.17;16.4.3 Ribozymes;662
20.18;16.5 Oligonucleotides as Ligands-Aptamer Binding;664
20.19;16.5.1 Aptamer Structure and Design;664
20.20;16.5.2 Aptamer Selection;667
20.21;16.5.3 Non-SELEX Selection of Aptamers;668
20.22;16.5.4 Aptamer Applications;669
20.23;16.6 Concluding Remarks;669
20.24;References;670
21;Aptamers: Versatile Tools for Reagentless Aptasensing;679
21.1;Abbreviations;679
21.2;17.1 Introduction;680
21.3;17.2 Some General Notes on Aptamer Technology 17.2.1 Aptamer Selection: SELEX and Automated SELEX;681
21.4;17.2.2 Aptamer Stability: Spiegelmers and Chemically Modified Aptamers;685
21.5;17.2.3 The Molecular Basis of the AptamerÒTarget Interaction. Implications in Assay Development;688
21.6;17.2.4 Advantages and Drawbacks Versus Other Biorecognition Molecules;692
21.7;17.3 Aptamers as Bio-recognition Elements in Biosensor Development;694
21.8;17.3.1 Mass-Sensitive and Resonant Aptasensors: Specificity Online;695
21.9;17.3.2 Optical Aptasensors;697
21.10;17.3.3 Electrochemical Aptasensors;703
21.11;17.3.4 Aptamer Molecular Beacons: Aptabeacons;709
21.12;17.4 Concluding Remarks;714
21.13;References;715
22;Phage Display Technology in Biosensor Development;727
22.1;Abbreviations;728
22.2;18.1 Introduction;728
22.3;18.2 In Vitro Selections: Peptide Phage Display 18.2.1 Introduction to In Vitro Selections;731
22.4;18.2.2 Peptide Phage Display;732
22.5;18.2.3 Phage Display Targeting Biotin-Binding Proteins;734
22.6;18.2.4 Peptide Phage Display in the Detection of Toxins;736
22.7;18.2.5 Landscape Phage and the Detection of Salmonella typhimurium;737
22.8;18.3 Antibody Phage Display 18.3.1 Introduction to Antibody Phage Display;739
22.9;18.3.2 Early Examples of Antibody Phage Display;740
22.10;18.3.3 Phage Selected Antibodies in the Detection of Toxins;741
22.11;18.3.4 Lab on a Chip Applications;742
22.12;18.4 Protein Phage Display 18.4.1 Introduction to Protein Phage Display;742
22.13;18.4.2 Protein-protein Interactions in Phage Display;743
22.14;18.4.3 Protein-DNA Interactions in Phage Display: Zinc Finger Domains;746
22.15;18.5 Concluding remarks;747
22.16;References;748
23;Molecularly Imprinted Polymer Receptors for Sensors and Arrays;754
23.1;Abbreviations;755
23.2;19.1 Introduction;755
23.3;19.2 Molecular Imprinting 19.2.1 Chronology;757
23.4;19.2.2 Approaches;759
23.5;19.3 Ligating Monomers 19.3.1 Inorganic;760
23.6;19.3.2 Organic Monomers;760
23.7;19.4 Polymer Morphology 19.4.1 Bulk Polymers;761
23.8;19.4.2 Polymer Films;763
23.9;19.4.3 Surface Imprinting;763
23.10;19.4.4 Soluble MIPs;764
23.11;19.5 Sensor Transduction 19.5.1 Mass Sensors;764
23.12;19.5.2 Electrochemical Sensors;767
23.13;19.5.3 Optical Sensors;768
23.14;19.6 Sensor Examples 19.6.1 Mass Sensors;769
23.15;19.6.2 Electrochemical Sensors;770
23.16;19.6.3 Optical Sensors;772
23.17;19.7 Concluding Remarks;776
23.18;References;776
24;Biomimetic Synthetic Receptors as Molecular Recognition Elements;779
24.1;Abbreviations;779
24.2;20.1 Introduction;780
24.3;20.2 How to Achieve High Selectivity, Affinity, and Sensitivity;781
24.4;20.3 Examples of Different Analytes;785
24.5;20.3.1 Inorganic Cations;786
24.6;20.3.2 Anion Complexes;788
24.7;20.3.3 Complexation of Aminoacids and Peptides;792
24.8;20.3.4 Complexation of Nucleotides and Nucleosides;795
24.9;20.3.5 Carbohydrate Detection;801
24.10;20.3.6 Complexation of Terpenes and Steroids;807
24.11;20.4 Concluding Remarks;809
24.12;References;810
25;Kinetics of Chemo/Biosensors;820
25.1;Abbreviations;820
25.2;21.1 Background;821
25.3;21.2 Introduction;821
25.4;21.3 Adsorption Models;823
25.5;21.4 Theory;825
25.6;21.4.1 Single-Fractal Analysis;826
25.7;21.4.2 Dual-Fractal Analysis;827
25.8;21.5 Illustrations;827
25.9;21.5.1 Illustration 1;828
25.10;21.5.2 Illustration 2;833
25.11;21.6 Illustration 3;837
25.12;21.7 Estimating Kinetic Parameters and Explanation of Fractal Analysis Calculations 21.7.1 Estimating Kinetic Parameters;840
25.13;21.7.2 Explanation of Fractal Analysis Calculations;841
25.14;21.7.3 Example;842
25.15;21.7.4 Physical Interpretation of Kinetic Parameters;843
25.16;References;844
26;Index;846




