Description

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Introduction.- Broadening the SEVA plasmid repertoire to facilitate genomic editing of Gram-negative bacteria.- Protocols on regulation of gene expression.- Ultra-high-throughput transposon scanning of bacterial genomes.- Knock-in-leave-behind (KILB): Genetic grafting of protease-cleaving sequences into permissive sites of proteins with a Tn5-based transposition system.- Deep sequencing to study microbial transcriptomic responses to hydrocarbon degradation/production/stress.- Shotgun proteomics for hydrocarbon microbiology.- Interactomic characterization of membrane-associated mega-complexes for the anaerobic respiration in Pseudomonas aeruginosa.- Lipidomic analysis of bacteria by thin layer chromatography and liquid chromatography/mass spectrometry.- Accurate microbial genome annotation using an integrated and user-friendly environment for community expertise of gene functions: the MicroScope platform.- Approaches for displaying complete transcriptomes of environmental bacteria.- A practical protocol for integration of transcriptomics data into genome-scale metabolic reconstructions.- GC-MS based determination of mass isotopomer distributions for 13C-based metabolic flux analysis.- Analysis of the hierarchical and metabolic regulation of flux through metabolic pathways.