The global nitrogen cycle is the one most impacted by mankind. The past decade has changed our view on many aspects of the microbial biogeochemical cycles, including the global nitrogen cycle, which is mainly due to tremendous advances in methods, techniques and approaches. Many novel processes and the molecular inventory and organisms that facilitate them have been discovered only within the last 5 to 10 years, and the process is in progress. This volume provides state-of-the-art updates on methods and protocols dealing with the detection, isolation and characterization of macromolecules and their hosting organisms that facilitate nitrification and related processes in the nitrogen cycle as well as the challenges of doing so in very diverse environments.

Key Features

Provides state-of-the-art update on methods and protocols
Deals with the detection, isolation and characterization of macromolecules and their hosting organisms 
deals with the challenges of very diverse environments.


modelers, molecular ecologists, biogeochemists, ecophysiologists, geneticists and biochemists

Table of Contents


Strategies to Determine Diversity, Growth, and Activity of Ammonia-Oxidizing Archaea in Soil

1. Introduction

2. Common Methods

3. Community Composition and Diversity

4. Determining Growth and Abundance

5. Activity

6. Conclusions

Responses of Aerobic and Anaerobic Ammonia/Ammonium-Oxidizing Microorganisms to Anthropogenic Pollution in Coastal Marine Environments

1. Introduction

2. Selection of Sampling Sites and Physicochemical Characterization

3. Molecular Ecological Characterization

4. Community Structure Analyses

5. Relationship Between the Community Structure and Physicochemical Parameters

6. Relationships Between the Community Change and the Environments

7. Conclusions


Molecular and Stable Isotope Methods to Detect and Measure Anaerobic Ammonium Oxidation (Anammox) in Aquatic Ecosystems

1. Introduction

2. Molecular Methods to Detect and Quantify Anammox Bacteria in Environmental Samples

3. Stable Isotope Methods to Measure Anammox Rates in Environmental Samples


Nitrogen Mineralization and Assimilation at Millimeter Scales

1. Introduction

2. Microbial Habitats in Soil

3. Methodological Approaches

4. Conclusions

Measurement of Carbon Dioxide, Methane, Nitrous oxide, and Water Potential in Soil Ecosystems

1. Introduction

2. Soil Gas Probes

3. Flux Estimates to the Atmosphere Using Recirculating Chambers

4. Data Analysis

5. Soil Profile Analysis

6. FTIR Calibration

7. Correlations Between Profile Concentrations and Surface Flux in Field Measurements

8. Correlations Between FTIR and Traditional Water Activity Measures

9. Common Issues During FTIR Measurement

10. Conclusions


No. of pages:
© 2011
Academic Press
Print ISBN:
Electronic ISBN: