1;Preface;6 1.1;Why Biocommunication of Soil Microorganisms?;6 1.1.1;On the Interorganismic Level (Between Same and Related Organisms);8 1.1.2;On the Intraorganismic Level;9 1.1.3;In Vitro Analyses Lack Context-Dependent Behaviors of Real Life Habitats;11 1.1.4;Biocommunication of Soil Microorganisms;11 1.1.5;Contributions to the biocommunication of soil microorganisms;12 1.2;References;13 2;Contents;14 3;Contributors;18 4;Chapter 1: Introduction: Key Levels of Biocommunication of Bacteria;22 4.1;1.1 Introduction: Communicative Competences of Bacteria;22 4.2;1.2 Semiochemical Vocabulary and Communicative Goals of Bacteria;24 4.3;1.3 Transorganismic Communication of Soil Bacteria;25 4.4;1.4 Interorganismic Communication;26 4.4.1;1.4.1 Interpretation and Coordination;27 4.5;1.5 Intraorganismic Communication;30 4.5.1;1.5.1 Intracellular Communication;32 4.5.2;1.5.2 Bacterial Evolution and the Agents of Natural Genome Editing;33 4.5.3;1.5.3 Lytic vs. Persistent Viral Life Strategies;33 4.5.4;1.5.4 Bacteria as Global Habitat for Viruses;35 4.6;1.6 The Origins of Bacterial Group Identity;37 4.6.1;1.6.1 Obligate Viral Settlers of Bacteria;37 4.6.2;1.6.2 The Role of Persistent Viruses in Gene Word Order of Bacteria;39 4.6.3;1.6.3 Infection-Driven Group Identity and Group Immunity;40 4.7;1.7 Transfer of Viral Competences as Modular Tools;41 4.7.1;1.7.1 Molecular Identity Markers;41 4.7.2;1.7.2 Persistent Phages Determine Bacterial Identity;41 4.7.3;1.7.3 Addiction Modules Function as Counterbalanced Viral Competences;43 4.7.4;1.7.4 The Persistent Viral Lifestyle of Plasmids and the Role of tRNAs;44 4.8;1.8 Swarming Group Behavior and Group Identity;45 4.9;1.9 Genetic Content Operators and Viral Gene Factories;47 4.10;1.10 Conclusion;48 4.11;References;48 5;Part I: Intracellular Biocommunication;56 5.1;Chapter 2: Communication Among Phages, Bacteria, and Soil Environments;57 5.1.1;2.1 Introduction;57 5.1.2;2.2 General Concepts;58 5.1.2.1;2.2.1 Microbe-Containing Environments;58 5.1.2.2;2.2.2 Communication and Microorganisms;61 5.1.2.3;2.2.3 Bacteriophages, Bacteria, and Environments;62 5.1.3;2.3 Pathways of Communication in Soil;64 5.1.3.1;2.3.1 Bacteria-to-Phage Communication;65 5.1.3.1.1;2.3.1.1 Bacterial Impact on Phage Phenotype;65 5.1.3.1.1.1;Destructive Infection: Antagonism, Deception, and Primitive Immunity;65 5.1.3.1.1.2;Reductive Infection: Sleeping with the Enemy;66 5.1.3.1.2;2.3.1.2 Bacterial Impact on Phage Genotype (Evolution);66 5.1.3.1.3;2.3.1.3 Bacterial Impact on Phage Location;67 5.1.3.2;2.3.2 Phage-to-Bacteria Communication;68 5.1.3.2.1;2.3.2.1 The Many Costs of Phage;68 5.1.3.2.2;2.3.2.2 Phage Infection as Symbiosis;68 5.1.3.2.3;2.3.2.3 Phage-Mediated Horizontal Gene Transfer (Transduction);70 5.1.3.2.4;2.3.2.4 Kill the Winner;70 5.1.3.3;2.3.3 Phage-to-Bacteria-to-Environment Communication;73 5.1.3.3.1;2.3.3.1 Lysis-Mediated Phage-Environment Communication;73 5.1.3.3.2;2.3.3.2 Prophage-Mediated Environmental Modification;74 5.1.3.4;2.3.4 Phage-to-Environment Communication;75 5.1.3.5;2.3.5 Environment-to-Phage and/or to-Bacteria Communication;75 5.1.3.6;2.3.6 Environment-to-Phage Communication;77 5.1.3.6.1;2.3.6.1 Predation of Phages;77 5.1.3.6.2;2.3.6.2 Phage Movement;77 5.1.3.6.3;2.3.6.3 Phage Survival;78 5.1.4;2.4 Conclusion;79 5.1.5;References;79 5.2;Chapter 3: Soil Bacteria and Bacteriophages;86 5.2.1;3.1 Soil Bacteria Types, Characteristics, Prevalence, Genetic Diversity, and Source;86 5.2.1.1;3.1.1 Soil (General);86 5.2.1.1.1;3.1.1.1 Soil Bacteria Characteristics, Prevalence, Genetic Diversity, and Source;86 5.2.1.2;3.1.2 Soil Bacteria (Pathogens, Phytopathogens) and Nonpathogenic;94 5.2.1.2.1;3.1.2.1 Human Pathogens;94 5.2.1.2.2;3.1.2.2 Phytopathogens;95 5.2.1.2.3;3.1.2.3 Nonpathogenic Bacteria;96 5.2.1.3;3.1.3 Bacteriophages (Abbr. Phages) (Systematics, Life Cycle, and Genetics);97 5.2.1.3.1;3.1.3.1 Phages Systematic;97 5.2.1.3.2;3.1.3.2 Phages Life Cycles;101 5.2.1.3.3;3.1.3.3 Phages Genetic;103 5.2.1.4;3.1