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Table of Contents

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Cover

Table of Contents

About the Companion Website

Title Page

Preface

Acknowledgments

About the Authors

Introduction The Biological Universe What Is Genetics? Bacterial Genetics Phage Genetics A Brief History of Bacterial Molecular Genetics What Is Ahead

1 The Bacterial Chromosome: DNA Structure, Replication, and Segregation DNA Structure The Mechanism of DNA Replication Replication Errors Impediments to DNA Replication Replication of the Bacterial Chromosome and Cell Division The Bacterial Nucleoid The Bacterial Genome

10  2 Bacterial Gene Expression: Transcription, Translation, Protein Folding, and Localization Overview The Structure and Function of RNA Transcription RNA Degradation The Structure and Function of Proteins Translation Protein Folding and Degradation Protein Localization Protein Secretion and Export Regulation of Gene Expression What You Need To Know

11  3 Bacterial Genetic Analysis: Fundamentals and Current Approaches Definitions Inheritance in Bacteria Mutation Rates Types of Mutations Reversion versus Suppression Genetic Analysis in Bacteria Perspective

12  4 Plasmids What Is a Plasmid? Properties of Plasmids

13  5 Conjugation Overview Mechanism of DNA Transfer during Conjugation in Proteobacteria Chromosome Transfer by Plasmids Diversity in Transfer Systems Integrating Conjugative Elements

14  6 Transformation Natural Transformation Artificially Induced Competence

15  7 Bacteriophages and Transduction Lytic Development Lysogenic Development Genetic Analysis of Phages Phage-Mediated Genetic Transfer Host Defenses Against Phage Infection Phages as Tools

16  8 Transposition, Site-Specific Recombination, and Families of Recombinases Transposition Mechanisms of Transposition General Properties of Transposons Transposon Mutagenesis Site-Specific Recombination Y and S Recombinases Group II Mobile Introns: Elements that Move Using an RNA Intermediate Importance of Transposition and Site-Specific Recombination in Bacterial Adaptation

17  9 Molecular Mechanisms of Homologous Recombination Homologous Recombination and DNA Replication in Bacteria The Molecular Basis for Recombination in E. coli Recombination between Different DNAs in Bacteria Recombineering: Gene Replacements in E. coli with Phage λ Recombination Functions

18  10 DNA Repair and Mutagenesis Evidence for DNA Repair Specific Repair Pathways General Repair Mechanisms DNA Damage Tolerance Mechanisms Summary of Repair Pathways in E. coli Bacteriophage Repair Pathways

19  11 Regulation of Gene Expression: Genes and Operons Transcriptional Regulation in Bacteria Negative Regulation of Transcription Initiation Positive Regulation of Transcription Initiation Regulation by Transcription Attenuation Regulation of mRNA Degradation Regulation of Translation Posttranslational Regulation Why Are There So Many Mechanisms of Gene Regulation?

20  12 Global Regulation: Regulons and Stimulons Carbon Catabolite Regulation Regulation of Nitrogen Assimilation Regulation of Ribosome Components and tRNA Synthesis Ribosomal Protein Gene Regulation Stress Responses in Bacteria Iron Regulation in E. coli Regulation of Virulence Genes in Pathogenic Bacteria Developmental Regulation: Sporulation in B. subtilis

21  13 Genomes and Genomic Analysis The Bacterial Genome DNA Sequencing Barriers to Horizontal Transfer: Genome Gatekeepers and the Molecular Biologist’s Toolkit

22  Glossary

23  End Papers

24  Index

25  End User License Agreement

Snyder and Champness Molecular Genetics of Bacteria

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