Biogeochemistry

  1. Biological Foundations
    1. Microbial Ecology and Metabolism
      1. Microbial Diversity
        1. Bacteria
          1. Archaea
            1. Fungi
              1. Protists
              2. Metabolic Diversity
                1. Energy Sources
                  1. Phototrophy
                    1. Chemotrophy
                    2. Carbon Sources
                      1. Autotrophy
                        1. Heterotrophy
                        2. Electron Acceptors
                          1. Aerobic Respiration
                            1. Anaerobic Respiration
                              1. Fermentation
                            2. Microbial Habitats
                              1. Soil Microorganisms
                                1. Aquatic Microorganisms
                                  1. Extreme Environment Microorganisms
                                2. Primary Production
                                  1. Photosynthesis
                                    1. Light Reactions
                                      1. Calvin Cycle
                                        1. C3, C4, and CAM Pathways
                                        2. Chemosynthesis
                                          1. Chemolithotrophic Processes
                                            1. Hydrothermal Vent Communities
                                            2. Factors Limiting Primary Production
                                              1. Light Limitation
                                                1. Nutrient Limitation
                                                  1. Temperature Limitation
                                                    1. Water Limitation
                                                  2. Decomposition and Mineralization
                                                    1. Organic Matter Decomposition
                                                      1. Litter Quality Effects
                                                        1. Environmental Controls
                                                          1. Decomposer Communities
                                                          2. Mineralization Processes
                                                            1. Nitrogen Mineralization
                                                              1. Phosphorus Mineralization
                                                                1. Sulfur Mineralization
                                                                2. Humus Formation
                                                                  1. Humification Processes
                                                                    1. Humic Substance Properties
                                                                  2. Bioaccumulation and Biomagnification
                                                                    1. Uptake Mechanisms
                                                                      1. Passive Uptake
                                                                        1. Active Uptake
                                                                          1. Bioconcentration
                                                                          2. Trophic Transfer
                                                                            1. Food Web Dynamics
                                                                              1. Biomagnification Factors
                                                                              2. Detoxification Mechanisms
                                                                                1. Metabolic Transformation
                                                                                  1. Sequestration

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                                                                              3. Geological Foundations

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                                                                              5. The Global Carbon Cycle