 |
Bacteriophages : methods and protocols. v. 2, Molecular and applied aspects / edited by Martha R. J. Clokie and Andrew M. Kropinski. — New York : Humana Press, c2009. – (58.17/M592/v.502) |
Contents
Contents
Preface
Contributors
Introduction
SECTION I: BACTERIOPHAGE GENOMICS
1 Preparation of Bacteriophage Lysates and Pure DNA
2 Approaches to the Compositional Analysis of DNA
3 Determination of Bacteriophage Genome Size by Pulsed-Field Gel Electrophoresis
4 Preparation of a Phage DNA Fragment Library for Whole Genome Shotgun Sequencing
5 PCR and Partial Sequencing of Bacteriophage Genomes
6 In Silico Identification of Genes in Bacteriophage DNA
7 Determining DNA Packaging Strategy by Analysis of the Termini of the Chromosomes in Tailed-Bacteriophage Virions
8 In silico Characterization of DNA Motifs with Particular Reference to Promoters and Terminators
9 Molecular Phylogenetics: Testing Evolutionary Hypotheses
SECTION II: BACTERIOPHAGE TRANSCRIPTOMICS AND PROTEOMICS
10 Preparation of RNA from Bacteria Infected with Bacteriophages: A Case Study from the Marine Unicellular Synechococcus sp. WH7803 Infected by Phage S-PM2
11 Quantification of Host and Phage mRNA Expression During Infection Using Real-Time PCR
12 Oligonucleotide Microarrays for Bacteriophage Expression Studies
13 Purification of Bacteriophages and SDS-PAGE Analysis of Phage Structural Proteins from Ghost Particles
14 Phage Proteomics: Applications of Mass Spectrometry
SECTION III" COMMUNITY BACTERIOPHAGE APPROACHES
15 Isolation Independent Methods of Characterizing Phage Communities 1: Strain Typing Using Fingerprinting Methods
16 Isolation Independent Methods of Characterizing Phage Communities 2: Characterizing a Metagenome
SECTION IV: APPLIED ASPECTS OF BACTERIOPHAGE BIOLOGY
17 Phage Typing
18 A Genetic Screen to Identify Bacteriophage Lysins
19 General M13 Phage Display: M13 Phage Display in Identification and Characterization of Protein-Protein Interactions
20 Isolation of Monoclonal Antibody Fragments from Phage Display Libraries
21 Internet Resources of Interest to Bacteriophage Workers
Index 371
