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An up-to-date view of molecular mechanisms for investigating microbial communities and their biological activities, this new volume of Environmental Microbiology: Methods and Protocols looks at recent advances that are having a big impact on the field such as metagenomics and other "omics" technologies, NanoSIMS, as well as stable isotope probing and more. Conveniently divided into four parts, the first section looks at methods involved in sampling environmental microorganisms, the second profiles different methods for investigating the diversity and composition of microbial communities, the third focuses on techniques for analyzing biological activities in situ, and the final section examines high throughput "omics" approaches for the characterization of environmental microbial communities. This book was written as part of the highly successful Methods in Molecular Biology series, and, as such, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Fully updated and authoritative, Environmental Microbiology: Methods and Protocols, Second Edition aims to provide an unprecedented glimpse into the structure, composition, and activity of microbial communities across diverse environments and illuminate their impact on global ecological processes.
List of contents
Methods for Isolation and Cultivation of Filamentous Fungi.- Rapid Extraction of PCR-Competent DNA from Recalcitrant Environmental Samples.- Quantitative PCR for Detection of mRNA and gDNA in Environmental Isolates.- Analysis of Community Dynamics in Environmental Samples Using Denaturing Gradient Gel Electrophoresis.- Terminal Restriction Fragment Length Polymorphism (T-RFLP) Profiling of Bacterial 16S rRNA Genes.- Profiling the Diversity of Microbial Communities with Single-Strand Conformation Polymorphism (SSCP).- Human Fecal Source Identification with Real-Time Quantitative PCR.- Next Generation Barcode Tagged Sequencing for Monitoring Microbial Community Dynamics.- Analysis of Methanotroph Community Structure Using a pmoA-Based Microarray.- Biolog Phenotype MicroArrays for Phenotypic Characterization of Microbial Cells.- Visualization of Metabolic Properties of Bacterial Cells Using Nanoscale Secondary Ion Mass Spectrometry (NanoSIMS).- Single-Cell Raman Sorting.- Bacterial Whole Cell Biosensors for the Detection of Contaminants in Water and Soils.- Stable Isotope Probing to Study Functional Components of Complex Microbial Ecosystems.- Metagenomics Using Next-Generation Sequencing.- Targeted Genomics of Flow Cytometrically Sorted Cultured and Uncultured Microbial Groups.- Quantitative Microbial Metatranscriptomics.- Quantitative Metaproteomics: Functional Insights into Microbial Communities.
Summary
An up-to-date view of molecular mechanisms for investigating microbial communities and their biological activities, this new volume of Environmental Microbiology: Methods and Protocols looks at recent advances that are having a big impact on the field such as metagenomics and other “omics” technologies, NanoSIMS, as well as stable isotope probing and more. Conveniently divided into four parts, the first section looks at methods involved in sampling environmental microorganisms, the second profiles different methods for investigating the diversity and composition of microbial communities, the third focuses on techniques for analyzing biological activities in situ, and the final section examines high throughput “omics” approaches for the characterization of environmental microbial communities. This book was written as part of the highly successful Methods in Molecular Biology series, and, as such, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Fully updated and authoritative, Environmental Microbiology: Methods and Protocols, Second Edition aims to provide an unprecedented glimpse into the structure, composition, and activity of microbial communities across diverse environments and illuminate their impact on global ecological processes.
