Practical Atlas for Bacterial Identification

Bacterial Communities by Location and Function Introduction to Layering of Bacterial Communities Factors Significantly Influencing Bacterial Activities and Nutrient Cycles Bacteria: Human Perspectives Common Bacteriologically Initiated Events Historical Overview Challenges of Classifying "Unculturables" Evolutionary Trends toward Bacterial Diversity Two-Dimensional Grid Definition of Bacterial Communities Establishment of Grid Location Points for Bacterial Atlas Summary of Bacterial Community Grid Positioning Atlas Principles Bacteria Are Everywhere Classification of Alpha Groups of Bacterial Consorms Historical Overview Definitions of Alpha-Based Bacterial Consortia Alpha One: Bionucleating Dispersed Consorms [FPL (FMV:FCP) 22-04] Alpha Two: Organic Bioconcreting Consorms [FPL (FMV:FCP) 22-16] Alpha Three: Inorganic Bioconcreting Consorms [FPL (FMV:FCP) 13-21) Alpha Four: Carbon-Reducing Consorms [FPL (FMV:FCP) 06-27] Alpha Five: Carbon-Oxidizing Consorms [FPL (FMV:FCP) 13-07] Alpha Six: Hyperbaric Dispersed Bionucleating Consorms [FPL (FMV:FCP) 01-03] Summary Preliminary Differentiation of Alpha Bacterial Consorms Introduction Alpha One: Bionucleating Dispersed Consorms (FPL 1, 22-04) Alpha Two: Organic Bionucleating Consorms (FPL 2, 22-16) Alpha Three: Inorganic Bionucleating Consorms (FPL 3, 13-21) Alpha Four: Carbon-Reducing Consorms (FPL 4, 06-27) Alpha Five: Carbon-Oxidizing Consorms (FPL 5, 13-07) Alpha Six: Hyperbaric Dispersed Bionucleating Consorms (FPL 6 - 01-03) Environmental Dynamics of Bacterial Consorms Introduction Defining Bacteriologically Dominated Consorms Categorization of Consorms Bacterial Consormial Challenges Introduction Identification of Consorms Determining Probability of Consormial Activity Symptoms of Consormial Intrusions Quantification of Consormial Intrusions into Environment Causes and Effects of Consorm Intrusions in Impacted Environment Consorm Sampling Protocols Detailed Identification of Bacterial Consorms Introduction Defining Bacterial Consorms by Form, Function, and Habitat Biochemical Methods for Identification of Consorms Introduction Determination of Consormial Activity by ATP Analysis RASI Protocol for Determining Potential ATP Activity Identifying Bacterial Consorms Using BART Introduction Development of BART to Determine Bacterial Activity BART Set-Up Red Cap: Iron-Related Bacteria (IRB BART) Black Cap: Sulfate-Reducing Bacteria (SRB BART) Lime Green Cap: Slime-Forming Bacteria (SLYM BART) Dark Blue Cap: Heterotrophic Bacteria (HAB BART) Grey Cap: Denitrifying Bacteria (DN BART) White Cap: Nitrifying Bacteria (N BART) Purple Cap: Acid-Producing Bacteria (APB BART) Yellow Cap: Fluorescent Pseudomonad Bacteria (FLOR BART) Comparison of BART and Other Bacteriological Enumeration Methods Introduction to Grid-Formatted Bacteriological Atlas Focal Point Locations for Bacterial Consorms Differentiation of Grid Atlas into Six Major Consormial Groups Alpha One: Bionucleating Dispersed Consorms Alpha Two: Organic Bionucleating Consorms Alpha Three: Inorganic Bioconcreting Consorms Alpha Four: Carbon Reducing Consorms Alpha Five: Carbon Oxidizing Consorms Alpha Six: Hyperbaric Dispersed Bionucleating Consorms Differentiation of Major Consorms by Grid Positions and BART Reactions Defining Bacterial Consorms in Gridded Atlas Format Introduction Basic fmv: fcP Grid Limitations of Animal Habitats on Gridded Atlas Limitations of Plant Habitats on Gridded Atlas Dominant Prokaryotic Consormial Domains Dominant Microbiological Eukaryotic Domains Bacterial Consorms Associated with Plant Activities Bacterial Consorms Associated with Non-Herbivoral Intestinal Streaming Bacterial Consorms Involved in Spoilage of Foods Mammalian Consormial Non-Enteric Pathogens on Gridded Atlas Bacterial Consorms Associated with Water Quality Issues Bacterial Consorms Involved in Oil, Gas, and Coal Production in Geological Media Bacterial Consormial Interceptors in Upward Migration of Hydrocarbons Bacterial Interception of Groundwater Flows in Porous and Fractured Media Natural Bacteriological Consorms Introduction 1, 22-03 CLD (Clouds) 1, 16-12 ICE (Ice) 3, 18-25 CCR (Concretions) 3, 18-19 OCR (Ochres) 3, 06-24 PTG (Pitting) 3, 03-19 PFR (Perforation) 2, 09-15 MIC (Microbiologically Influenced Corrosion) 3, 10-21 BPL (Black Plug Layers) 3, 10-27 BBR ("Blueberries") 3 - 19-26 RST (Rusticles) 1, 19-06 FOM (Foam) 3, 15-17 TCL (Tubercles) 3, 18-14 LSL (Lateral Slime Layer) 5. 15-10 GHY (Gas Hydrates) Culturing Bacterial Consorms Rehabilitation Monitoring Methodologies Suggestions for Further Reading Appendix A: Alpha Two Traditional Atlas Concept