· Cultivation & Physiological Ecology
· Imaging of Cells & Microscale Architecture
· Nucleic Acids-based Molecular Ecology
Environmental Microbiology covers cultivation of diverse microbes, physiological ecology and nucleic acid techniques in environmental microbiology. Both applied methods (such as cultivation and preparation) and theoretical modeling (such as bioenergetic calculation programs and imaging) are discussed. A significant number of chapters on methods in activity measurement are included.
Environmental Microbiology is volume 397 in the critically acclaimed laboratory standard for more than forty years, Methods in Enzymology. Methods in Enzymology is now available online at ScienceDirect — full-text online of volumes 1 onwards.
Biochemists, biophysicists, cell biologists, molecular biologists, geneticists, developmental biologists
Environmental Microbiology, 1st Edition
1. Anoxic media design, preparation, and considerations; 2. Enrichment and isolation of anaerobic hydrocarbon degraders; 3. Anammox organisms: enrichment, cultivation, and environmental analysis; 4. Enrichment and isolation of metal and humic acid reducing microbes; 5. Enrichment, cultivation, and detection of reductively dechlorinating bacteria; 6. Enrichment and isolation of iron-oxidizing bacteria at neutral pH; 7. High throughput cultivation of microorganisms using microcapsules
II. Physiological Ecology
8. Chemotaxis and behavioral physiology of not-yet-cultivated microbes; 9. Analysis of microbial communities with electrochemical microsensors and microscale biosensors; 10. Optical microsensors for analysis of microbial communities; 11. In situ measurements of metabolite fluxes: microinjection of radiotracers into insect guts and other small compartments; 12. Assaying for the hydroxypropionate pathway of carbon fixation; 13. Analysis of trace hydrogen metabolism ; 14. Advances in microscopy: microautoradiography of single cells; 15. Atomic Force Microscopy of Bacterial Communities
III. Nucleic Acid Techniques
16. Nucleic acid recovery from complex environmental samples; 17. The application of rarefaction techniques to molecular inventories of microbial diversity; 18. Culture-independent microbial community analysis with terminal restriction fragment length polymorphism; 19. Quantitative community analysis – capillary electrophoresis techniques; 20. In situ functional gene analysis: RING-FISH; 21. Simultaneous fluorescence in situ hybridization of mRNA and rRNA for the detection of gene expression in environmental microbes; 22. Community-level analysis of phototrophy: psbA gene diversity; 23. Quantitative analysis of nifH genes and transcripts from aquatic environments; 24. Community level analysis: genetic and biogeochemical approaches to investigate community composition and function in aerobic ammonia oxidation; 25. Community-level analysis: key genes of aerobic methane oxidation; 26. Methyl-coenzyme reductase genes – unique functional markers for methanogenic and anaerobic methane-oxidizing Archaea; 27. Community-level analysis: genes encoding methanopterin dependent activities; 28. Community-level analysis: key genes of CO2-reductive acetogenesis; 29. Functional marker genes for identification of sulphate-reducing prokaryotes