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| Introduction to environmental microbiology | p. 3 |
| Neighborhoods and community involvement : no microbe is an island | p. 6 |
| Prokaryotic diversity : form, ecophysiology, and habitat | p. 20 |
| Overview : general microbiology | p. 37 |
| Analytical imaging and microscopy techniques | p. 40 |
| Cultivation of bacteria and fungi | p. 69 |
| Cultivation of algae and protozoa | p. 79 |
| Cultivation and assay of animal viruses | p. 93 |
| Cultivation of microbial consortia and communities | p. 101 |
| Lipid analyses for viable microbial biomass, community composition, metabolic status, and in situ metabolism | p. 112 |
| Physiological profiling of microbial communities | p. 126 |
| Molecular approaches for the measurement of density, diversity, and phylogeny | p. 139 |
| Phylogenetic and genomic analysis | p. 157 |
| Bioreporters, biosensors, and microprobes | p. 169 |
| Ecology at long-term research sites : integrating microbes and ecosystems | p. 182 |
| Quality assurance | p. 190 |
| Issues of study design and statistical analysis for environmental microbiology | p. 199 |
| Overview of water microbiology as it relates to public health | p. 219 |
| Waterborne transmission of infectious agents | p. 222 |
| Detection of microorganisms in environmental freshwaters and drinking waters | p. 249 |
| Detection of protozoan parasites in source and finished drinking water | p. 265 |
| Microbial indicators of marine recreational water quality | p. 280 |
| Detection of viruses in environmental waters, sewage, and sewage sludges | p. 290 |
| Detection of bacterial pathogens in wastewater and sludge | p. 300 |
| Detection of pathogenic bacteria, viruses, and parasitic protozoa in shellfish | p. 311 |
| Control of microorganisms in source water and drinking water | p. 325 |
| Assessing the efficiency of wastewater treatment | p. 334 |
| Modeling the fate of microorganisms in water, wastewater, and soil | p. 355 |
| Estimating the risk of infectious disease associated with pathogens in drinking water | p. 365 |
| Toxic photosynthetic microbes | p. 378 |
| An overview of methodologies in aquatic microbial ecology | p. 393 |
| Cultivating microorganisms from dilute aquatic environments : melding traditional methodology with new cultivation techniques and molecular methods | p. 399 |
| Primary productivity and producers | p. 407 |
| Bacterial secondary productivity | p. 421 |
| Community structure : bacteria and archaea | p. 434 |
| Viral community structure | p. 445 |
| Protistan community structure | p. 454 |
| Decomposition and fungal community structure in aquatic environments | p. 469 |
| Bacterial organic carbon cycling in aquatic environments | p. 479 |
| Environmental genomics of C[subscript 1] metabolism | p. 488 |
| Sulfur cycling | p. 497 |
| Nitrogen cycling in aquatic environments | p. 511 |
| The marine phosphorus cycle | p. 523 |
| Microbial metal cycling in aquatic environments | p. 540 |
| Biofilms on living surfaces | p. 563 |
| Extreme high-pressure marine environments | p. 575 |
| Introduction and overview : soil, rhizosphere, and phyllosphere | p. 595 |
| Surface soil microbial sampling methods | p. 597 |
| Application of phylogenetic techniques in studies of soil microbial communities | p. 608 |
| Sampling viruses from soil | p. 618 |
| Isolation, culture, and detection of arbuscular mycorrhizal fungi | p. 627 |
| Isolation, in planta detection, and uses of endophytic bacteria for plant protection | p. 638 |
| Methods of soil microbial community analysis | p. 652 |
| Microarrays : design and use for agricultural and environmental applications | p. 663 |
| PCR : agricultural and environmental applications for soil microbes | p. 676 |
| Quantification of nitrogen transformations | p. 687 |
| Quantifying the metabolic activity of soil- and plant-associated microbes | p. 697 |
| Soil enzymes : linking proteomics and ecological processes | p. 704 |
| Immunofluorescence microscopy and fluorescence in situ hybridization combined with CMEIAS and other image analysis tools for soil- and plant-associated microbial autecology | p. 712 |
| Reporter gene systems useful in evaluating in situ gene expression by soil- and plant-associated bacteria | p. 734 |
| Identifying microorganisms involved in specific in situ functions : experimental design considerations for rRNA gene-based population studies and sequence-selective PCR assays | p. 748 |
| Mobile gene elements in environmental microbial communities | p. 758 |
| Microorganisms associated with soil arthropods | p. 769 |
| Lipid fingerprinting of soil microbial communities | p. 781 |
| Overview of issues in subsurface and landfill microbiology | p. 795 |
| Drilling, coring, and sampling subsurface environments | p. 799 |
| Anaerobic decomposition of refuse in landfills and methane oxidation in landfill covers | p. 818 |
| Biogeochemistry of aquifer systems | p. 843 |
| Determining the terminal electron-accepting reaction in the saturated subsurface | p. 860 |
| Transport of microorganisms in the terrestrial subsurface : in situ and laboratory methods | p. 872 |
| Oil field microbiology | p. 898 |
| Placement of drinking water wells and their protection | p. 912 |
| Introduction to aerobiology | p. 925 |
| Sampling for airborne microorganisms | p. 939 |
| Analysis of bioaerosol samples | p. 952 |
| Fate and transport of microorganisms in air | p. 961 |
| Airborne fungi and mycotoxins | p. 972 |
| Airborne bacteria and endotoxin | p. 989 |
| Legionellae and Legionnaires' disease | p. 1005 |
| Airborne viruses | p. 1016 |
| Aerobiology of agricultural pathogens | p. 1031 |
| Overview : biotransformation and biodegradation | p. 1051 |
| Functional gene arrays for microbial community analysis | p. 1052 |
| Methods for soil metagenomics : extraction and cloning of soil DNA | p. 1063 |
| Using genetic algorithms to optimize functions of microbial ecosystems | p. 1072 |
| Metagenomic methods for the identification of active microorganisms and genes in biodegradation processes | p. 1079 |
| Proteomic analysis of extracellular enzymes produced by wood-degrading fungi | p. 1089 |
| Current progress in the application of mycoremediation to soil cleanup | p. 1097 |
| Fungal solid-state fermentation systems for bioconversion of lignocellulosic biomass : process protocol and applications | p. 1107 |
| Characterization of microeukaryota in natural environments | p. 1112 |
| Methods useful in assessing biological and chemical activity of low-molecular-weight brown rot fungal metabolites | p. 1122 |
| Techniques for studying uncultured and cultured magnetotactic bacteria | p. 1129 |
| Growth of electrode-reducing bacteria | p. 1137 |
| Microbially mediated anaerobic iron(II) oxidation at circumneutral pH | p. 1147 |
| Isolation, enumeration, growth, and preservation of acidophilic prokaryotes | p. 1155 |
| Molecular techniques for the study of toxic metal resistance mechanisms in bacteria | p. 1166 |
| Synchrotron-based techniques for monitoring metal transformations | p. 1183 |
| Techniques for studying microbial transformations of metals and radionuclides | p. 1195 |
| Arsenate-respiring bacteria | p. 1214 |
| Biotransformations of manganese | p. 1223 |
| Microbial Fe(III) reduction : ecological and physiological considerations | p. 1239 |
| Table of Contents provided by Blackwell. All Rights Reserved. |
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