Phage Nanobiotechnology -- Contents -- Chapter 1 The Phage Nanoparticle Toolkit -- 1.1 Introduction -- 1.2 Virion Structure and Purification -- 1.3 Intrusion -- 1.4 DNA Replication Cycle and Gene Expression -- 1.5 Extrusion of Progeny Virions -- 1.6 Display of Guest Peptides -- 1.7 The Engineer's Toolkit -- Acknowledgements -- References -- Chapter 2 The Roles of Structure, Dynamics and Assembly in the Display of Peptides on Filamentous Bacteriophage -- 2.1 Molecular and Structural Biology of Filamentous Bacteriophage -- 2.2 Packaging of the Genome into Filamentous Bacteriophage -- 2.3 Structural Form of the Major Coat Protein -- 2.4 Membrane-bound Form of Filamentous Bacteriophage Coat Proteins -- 2.5 Assembly -- 2.6 Phage Display -- 2.7 Conclusion -- Acknowledgements -- References -- Chapter 3 Quantitative Analysis of Peptide Libraries -- 3.1 Introduction -- 3.2 Assessing the Quality of a Phage-displayed Library -- 3.2.1 Peptide Sequence Censorship -- 3.2.2 Experimental Measures -- 3.2.3 Conceptual Measures -- 3.2.4 Quantitative Measures -- 3.3 Assessing the Quality of an Affinity Screen Experiment -- 3.3.1 Change in Diversity -- 3.3.2 Change in Information -- 3.4 Identification of Motifs in a Peptide Population -- 3.5 Similarity Matrices -- 3.6 Identification of Binding Sites in Proteins -- 3.7 Identification of Binding Proteins in a Proteome -- 3.8 RELIC -- 3.9 Discussion -- References -- Chapter 4 Phage-mediated Drug Delivery -- 4.1 Introduction -- 4.2 Targeting of Drugs/Drug Carrier Systems -- 4.3 Targeting Ligands -- 4.4 Phage-displayed Libraries as a Source of Peptide Targeting Ligands -- 4.5 Bacteriophage Capsid-mediated Drug Delivery -- 4.6 Drug-bearing Filamentous Phage as Targeted Chemotherapeutics -- 4.7 Phage Fusion Proteins as Targeting Ligands for Nanomedicines -- 4.8 Conclusion -- Acknowledgements -- References.

Chapter 5 Imaging with Bacteriophage-derived Probes -- 5.1 Selection of Bacteriophage as Imaging Probes -- 5.1.1 Imaging Agents -- 5.1.2 Phage Nanoparticles -- 5.1.3 Phage Display for Imaging Probe Discovery -- 5.2 Radiolabled Phage as Imaging Agents -- 5.3 Optical Molecular Imaging with Phage -- 5.4 Conclusion -- References -- Chapter 6 Phage-based Pathogen Biosensors -- 6.1 Introduction -- 6.1.1 Threat of Pathogenic Microorganisms -- 6.1.2 Pathogen Detection Techniques -- 6.2 Current Trends and Existing Methodologies for Pathogen Detection -- 6.2.1 Conventional Pathogen Detection Techniques -- 6.2.2 Polymerase Chain Reaction (PCR) -- 6.2.3 Enzyme-linked Immunosorbent Assay (ELISA) -- 6.2.4 Biosensor Techniques -- 6.2.5 Biomolecular Recognition Element -- 6.3 Whole Filamentous Bacteriophage Particles as a Biorecognition Probe -- 6.3.1 Phage Immobilization on Biosensor Platforms -- 6.3.2 Current Trends in Development of Phage-based Biosensors -- 6.4 Phage-based Magnetoelastic Particle Resonator Biosensors -- 6.4.1 Magnetoelastic (ME) Particle Resonator Sensor Platform -- 6.4.2 Fabrication of the Sensor Platform -- 6.4.3 ME Biosensor Assembly -- 6.4.4 Performance of Phage-based ME Biosensors -- 6.5 Conclusion -- Acknowledgements -- References -- Chapter 7 Phage-mediated Detection of Biological Threats -- 7.1 Introduction -- 7.2 Phage Typing Schemes -- 7.3 Exploiting Phage Specificity for Bacterial Detection -- 7.3.1 Labeled Phage -- 7.3.2 Reporter Phage -- 7.3.3 Phage Amplification -- 7.3.4 Electrochemical-based Sensing Assays -- 7.3.5 Surface Plasmon Resonance-based Sensing Assays -- 7.3.6 The Phage-mediated Adenylate Kinase Assay -- 7.4 Conclusion -- References -- Chapter 8 Genetically Engineered Virulent Phage Banks for the Detection and Control of Bacterial Biosecurity Threats -- 8.1 Introduction -- 8.2 Host Range engineering.

8.3 Production of a Genetically Engineered T4 Phage Bank with Vastly Increased Host Range -- 8.4 Reversible Inhibition of the T4 Lytic Cycle Within the Bacterial Host -- 8.5 Large-scale Recombinations into the Genomes of an Infective Wild-type T4 Population -- 8.6 Construction of a T4 Bank of Host Range Variants -- 8.7 Discussion -- 8.8 Conclusion and Perspectives -- 8.9 Methods -- 8.9.1 High-fidelity PCR -- 8.9.2 Error-prone PCR -- 8.9.3 Selective High-fidelity Amplification of Desired Fragments -- 8.9.4 Reconstruction of Sequence Through PCR -- 8.9.5 DNA Sequencing and Analysis -- 8.9.6 Production and Expression of Non-functional E. coli Rho Genes -- 8.9.7 Construction and Expression of the Heat-inducible Red-Recombinase System -- Acknowledgements -- References -- Chapter 9 Site-directed Chemical Modification of Phage Particles -- 9.1 Introduction -- 9.2 Unique Chemical Properties of Selenocysteine Compared with Cysteine -- 9.3 In vivo Incorporation of Sec by E. coli -- 9.4 Construction of Selenopeptide-displayed Phage Libraries -- 9.5 Applications Using Selenopeptide Phage Display -- 9.5.1 Screening for Sec Insertion in vivo: Investigating the Stringency of E. coli SECIS Requirements Using Phage Display -- 9.5.2 Catalysis-based Selection of Novel Enzyme Activities from Substrate-appended Phage Libraries -- 9.5.3 Mechanical Manipulation of M13 Phage -- 9.6 Conclusion -- References -- Chapter 10 Filamentous Phage-templated Synthesis and Assembly of Inorganic Nanomaterials -- 10.1 Introduction -- 10.2 Virion Structure and Phage Display -- 10.2.1 Biology -- 10.2.2 Chemistry -- 10.2.3 Site-specific Engineering of the Virion Surface -- 10.2.4 Liquid Crystalline Behavior -- 10.3 Exploiting Phage Display to Alter Surface Chemistry by Selection Rather Than Rational Design -- 10.3.1 Random Peptide Libraries -- 10.3.2 Affinity Selection ('Biopanning').

10.4 Synthesis and Assembly of Inorganic Materials on Individual Virions -- 10.5 Synthesis and Assembly of Inorganic Materials on a Self-assembled Phage Scaffold -- 10.6 Applications of Phage-templated Nanomaterials -- 10.7 Summary and Outlook -- Acknowledgements -- References -- Chapter 11 Phage Vaccines and Phage Therapy -- 11.1 Introduction to Phage -- 11.2 Phage Immunogens -- 11.3 Epitope Discovery with Phage Libraries and Phage Vaccines -- 11.4 Autoimmune Disorders -- 11.5 Cancer -- 11.6 Neurological Disorders -- 11.7 Other Diseases -- 11.8 Antibacterial Therapy -- 11.9 Conclusion -- References -- Subject Index.