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Correction to: Marrying Single Molecules to Single Cells: Protocols for the Study of the Bacterial Proto-ring Components Essential for Division
In a previous version of the chapter, on page 104, line 1, ‘I-buffer’ should have been described as containing sucrose and not glucose. This has been...
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Enrichment and Isolation of Chloroxyanion-Respiring Hydrocarbon Oxidizers
Converging lines of research point to chloroxyanion-respiring hydrocarbon oxidizers as an important group of microorganisms that merit expanded...
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Applications I: Degradation – Pollution Mitigation and Waste Treatment Introduction
Bioremediation of petroleum hydrocarbons can be a cost-effective part of site remediation programs for soil, ground water, shorelines, and, in some...
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Bioaugmentation
The ability of microorganisms to transform pollutants is well documented. However, in many cases microbial communities with the desired capabilities...
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Microbial Biomass and Community Composition Analysis Using Phospholipid Fatty Acids
Phospholipid fatty acid (PLFA) analysis is a method that has been used for over 35 years and can be useful to the microbial ecologist by...
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Strategies to Map the Microbiome of Freshwater Lakes: Sampling and Context
Freshwater lakes are indispensible resources for humankind and as such also exposed to significant pressure from anthropogenic activities and...
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Bioreactor Design to Emulate Deep-Sea Hydrocarbon Releases Including Formation of Gas Hydrates
The environmental and economic ramifications of the Deepwater Horizon (DWH) incident have motivated research on hydrocarbon releases in deep-sea...
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Introduction to Systems and Synthetic Biology in Hydrocarbon Microbiology: Applications
Contemporary Microbial Biotechnology is experiencing a rapid transition between being a mostly trial-and-error endeavour towards becoming a...
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Preparing the Hydrocarbon/Crude Oil
Crude oils are complex mixtures, and a fraction of them can evaporate quite rapidly when oil is spilled into the biosphere. A fraction can also...
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Protocols for Radiotracer Estimation of Methane Oxidation Rates at In Situ Methane Concentrations in Marine Sediments
The microbial consumption of methane acts as a biofilter in deep marine environments, significantly limiting the flux of methane from ocean to...
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High Pressure Cultivation of Hydrocarbonoclastic Aerobic Bacteria
Hydrocarbon-degrading microorganisms capable to use hydrocarbons as a sole source of carbon and energy are widely distributed in marine environments...
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Constructing and Analyzing Metabolic Flux Models of Microbial Communities
Here we provide a broad overview of current research in modeling the growth and behavior of microbial communities, while focusing primarily on...
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Protocol for Performing Protein Stable Isotope Probing (Protein-SIP) Experiments
Protein-based stable isotope probing (protein-SIP) was developed to link microbial-specific metabolic function to phylogenetic information. The...
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Oil Droplet Generation and Incubation for Biodegradation Studies of Dispersed Oil
Biodegradation of oil in the marine water column is mainly associated with oil dispersions. The operational use of chemical dispersants may therefore...
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Introduction to Petroleum, Hydrocarbon, and Lipid Analysis
In nature, petroleum, hydrocarbons, and lipids typically occur as complex mixtures of structurally diverse compounds with different physical and...
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Introduction to Primer-Based Detection of Microbial Genes, Particularly Those Encoding Enzymes for Aromatic/Aliphatic Hydrocarbon Biodegradation
One major contribution to understand the microbial ecology of biodegradation of pollutants in the environment has been the retrieval of information...
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Comprehensive Two-Dimensional Gas Chromatography to Assess Petroleum Product Weathering
Petroleum products are highly diverse, complex organic mixtures often comprising thousands of hydrocarbon compounds. When released into the...
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Microbial Community Analysis by Single-Amplicon High-Throughput Next Generation Sequencing: Data Analysis – From Raw Output to Ecology
Quantifying the functional and taxonomic diversity of microbial assemblages is essential to understanding almost all aspects of microbial ecology. In...