Del 531 - Methods in Enzymology

Microbial Metagenomics, Metatranscriptomics, and Metaproteomics

Inbunden, Engelska, 2013

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This new volume of Methods in Enzymology continues the legacy of this premier serial with quality chapters authored by leaders in the field. This volume covers microbial metagenomics, metatranscriptomics, and metaproteomics, and includes chapters on such topics as in-solution FISH for single cell genome preparation, preparation of BAC libraries from marine microbial community DNA, and preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton.

Continues the legacy of this premier serial with quality chapters authored by leaders in the field
Covers microbial metagenomics, metatranscriptomics, and metaproteomics
Contains chapters on such topics as in-solution fluorescence in situ hybridization (FISH) for single cell genome preparation, preparation of BAC libraries from marine microbial community DNA, and preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton

Produktinformation

Utgivningsdatum2013-11-15
Mått152 x 229 x undefined mm
Vikt1 220 g
FormatInbunden
SpråkEngelska
SerieMethods in Enzymology
Antal sidor688
FörlagElsevier Science
MedarbetareDeLong,Ed
ISBN9780124078635

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SECTION I. PREPARATION AND GENOMIC ANALYSES OF SINGLE CELLS FROM NATURAL POPULATIONS1. In-solution fluorescence in situ hybridization (FISH) for single cell genome preparation2. Ribosomal RNA-‐targeted magnetic cell separation for targeted metagenomic analysis3. Genomic characterization of uncultivated symbiont populations using FACs and genome amplification.4. Microfluidic Cell separation from complex microbial communities for single cell genome analysis5. Assessing the abundance of active/damage cells and using cell sorting to determine their composition.SECTION II. MICROBIAL COMMUNITY GENOMICS – SAMPLING, LIBRARY PREPARATION, AND SEQUENCING6. Preparation of BAC libraries from marine microbial community DNA.7. Preparation of fosmid libraries and functional metagenomic analysis of microbial community DNA8. Preparation of metagenomic libraries from naturally occurring marine phage.9. Preparation and metatranscriptomic analyses of host-‐microbe systems.10. Massively multiplexed ribosomal RNA tag sequencing on the Illumina Mi Seq platformSECTION III. MICROBIAL COMMUNITY TRANSCRIPTOMICS -‐ SAMPLING, SAMPLE PREPARATION, AND SEQUENCING11. Preparation of microbial community cDNA for metatranscriptomic analysis in marine plankton.12. Simultaneous extraction of metabolites, RNA, DNA, and proteins from the same sample13. Utilization of quantitative internal standards for microbial community metatranscriptomics14. Informatics workflows for phytoplankton metatranscriptomics15. Sample processing and cDNA preparation for microbial metatranscriptomics in complex soil communitiesSECTION IV. MICROBIAL COMMUNITY PROTETOMICS -‐ SAMPLING, SAMPLE PREPARATION, AND SPECTRAL ANALYSIS AND INTERPRETATION.16. Sample preparation and processing for planktonic microbial community protetomics.17. Bioinformatic analysis of microbial metaproteomic datasets18. Sample handling, mass spectrometry and spectra-‐peptide matching for microbial metatproteomic analysesSECTION V. MICROBIAL COMMUNITY "OMICS" – DATABASES, COMPUTATIONAL ANALYSES, COMPARATIVE ANALYSES, AND STATISTICS19. Microbial community analysis using Megan20. Microbial community analysis on the MG-‐RAST platform.21. Analysis/assembly of shotgun-re-sequenced genomes.22. Computational methods for high-‐throughput comparative analyses of natural microbial communities23. Microbial community analysis using QIIME24. Genome assembly from fosmid metagenomic library sequences25. Qualitative and quantitative analyses of metagenomic datasets26. Assembling full length rRNA genes from short read metagenomic sequence datasets using EMIRGE