Research on nitrification and related processes

著者

• Klotz, Martin G.
• Stein, Lisa Y.

書誌事項

Research on nitrification and related processes

edited by Martin G. Klotz

（Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan, v. 486, 496）

Academic Press, 2011

• pt. A
• pt. B

注記

Pt. B edited by Martin G. Klotz and Lisa Y. Stein

Includes bibliographical references and indexes

内容説明・目次

巻冊次

pt. A ISBN 9780123812940

内容説明

State-of-the-art update 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.

目次

Part I. Modeling Modelling the role of nitrification in open 1 ocean productivity and the nitrogen cycle Andrew Yool Continuous cultivation and thermodynamic aspects of niche definition in the Nitrogen cycle Stefanie Muller and Marc Strous Part II. Cultivation and cell physiology Isolation, cultivation, and characterization of ammonia-oxidizing bacteria and archaea adapted to low ammonium concentrations Annette Bollmann, Elizabeth French and Hendrikus J. Laanbroek Cultivation, Detection and Ecophysiology of Anaerobic Ammonium-Oxidizing Bacteria Boran Kartal, Wim Geerts and Mike S. M. Jetten Cultivation, growth physiology and chemotaxonomy of nitrite-oxidizing bacteria Eva Spieck and Andre Lipski Surveying N2O-Producing Pathways in Bacteria Lisa Y. Stein Part III. Molecular Microbial Ecology And Processes Measurements Stable isotope probing with 18O-water to investigate growth and mortality of ammonia oxidizing bacteria and archaea in soil Karen Adair and Egbert Schwartz Measuring Nitrification, Denitrification, and Related Biomarkers in Terrestrial Geothermal Ecosystems Jeremy A. Dodsworth, Bruce Hungate, Jose R. de la Torre, Hongchen Jiang, and Brian P. Hedlund Determining the distribution of marine and coastal ammonia-oxidizing archaea and bacteria using a quantitative approach Annika C. Mosier and Christopher A. Francis 15N-labeling experiments to dissect the contributions of heterotrophic denitrification and anammox to nitrogen removal in the OMZ waters of the ocean Moritz Holtappels, Gaute Lavik, Marlene M. Jensen and Marcel M.M. Kuypers Assessment of nitrogen and oxygen isotopic fractionation during nitrification and its expression in the marine environment Karen L. Casciotti, Carolyn Buchwald, Alyson E. Santoro, and Caitlin Frame Identification of Diazotrophic Microorganisms in Marine Sediment Via Fluorescence in situ Hybridization Coupled to Nanoscale Secondary Ion Mass Spectrometry (FISH-NanoSIMS) Anne E. Dekas and Victoria J. Orphan Measurement and Distribution of Nitrification Rates in the Oceans B. B. Ward Construction of STOX Oxygen Sensors and Their Application for Determination of O2 Concentrations in Oxygen Minimum Zones Niels Peter Revsbech, Bo Thamdrup, Tage Dalsgaard and Donald Eugene Canfield Regulation and measurement of nitrification in terrestrial systems Jeanette M. Norton and John M. Stark Protocol for the measurement of nitrous oxide fluxes from biological wastewater treatment plants Kartik Chandran Part IV. Genetics, Biochemistry and Biogeochemistry Genetic Transformation of Ammonia-Oxidizing Bacteria Luis A. Sayavedra-Soto and Lisa Y. Stein Dissecting Iron Uptake and Homeostasis in Nitrosomonas europaea Luis A. Sayavedra-Soto, Neeraja Vajrala, and Daniel J. Arp Production of recombinant multiheme cytochromes c in Wolinella succinogenes Melanie Kern and Joerg Simon Techniques for Investigating Hydroxylamine Disproportionation by Hydroxylamine Oxidoreductases A. Andrew Pacheco, Jennifer McGarry, Joshua Kostera and Angel Corona Liquid chromatography - mass spectrometry based proteomics of Nitrosomonas Hans J.C.T. Wessels, Jolein Gloerich, Erwin van der Biezen, Mike S. M. Jetten and Boran Kartal The Geochemical Record of the Ancient Nitrogen Cycle, Nitrogen Isotopes and Metal Co-factors L.V. Godfrey1 and J.B. Glass

巻冊次

pt. B ISBN 9780123864895

内容説明

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. Research on Nitrification and Related Processes, Part B 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.

目次

Part 1: Process Measurements in Natural Systems1. Strategies to determine diversity, growth and activity of ammonia oxidising archaea in soil2. Profiles as bio-indicators in polluted coastal marine environments and non-polluted ocean water and sediments3. Molecular and Stable Isotope Methods to Detect and Measure Anaerobic Ammonium Oxidation (anammox) in Aquatic Ecosystems4. Nitrogen Mineralization and Assimilation at Millimeter Scales5. Measurement of carbon dioxide, methane, nitrous oxide and water potential in soil ecosystems6. Source determination of nitrous oxide based on nitrogen and oxygen isotope tracing: dealing with oxygen exchangePart 2: Process Measurements in Biofilm Communities7. Structure, function, and eco-physiological interactions among community members in complex multispecies biofilms8. In Situ Techniques and Digital Image Analysis Methods for Quantifying Spatial Localization Patterns of Nitrifiers and Other Microorganisms in Biofilm and Flocs9. Investigating Nitrosomonas europaea stress biomarkers in batch, continuous culture and biofilm reactors10. Nitrification of Raw or Used Water Using Expanded Bed Biofilm Reactor Technology11. Ammonia Oxidizing Bacteria In WastewaterPart 3: Genomics, Metagenomics and Transcriptomics12. Genomics for key players in the N cycle: From Guinea pigs to the next frontier13. Preparation of high-molecular-weight DNA and metagenomic libraries from soils and hot springs14. Characterizing bacterial gene expression in nitrogen cycle metabolism with RT-qPCR15. The utility of functional gene arrays for assessing community composition, relative abundance and distribution of ammonia-oxidizing bacteria and archaeaPart 4: Biochemistry & Proteomics16. Structure and Function of Formate-Dependent Cytochrome c Nitrite Reductase, NrfA17. Structure and function of Multicopper Oxidase Enzymes of Ammonia-Oxidizing Bacteria18. Assessing variability in gel-based proteomic analysis of Nitrosomonas europaea19. Nitrogen Metabolism and Kinetics of Marine Archaea and other oligotrophs

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詳細情報

• NII書誌ID(NCID): BB04472942
• ISBN:
  • 9780123812940
  • 9780123864895
• 出版国コード: ne
• タイトル言語コード: eng
• 本文言語コード: eng
• 出版地: Amsterdam ; Tokyo
• ページ数/冊数: 2 v.
• 大きさ: 24 cm
• 親書誌ID:
  • BA00197543