Microbial Metabolomics : Methods and Protocols / Edited by Edward E. K. Baidoo

Includes bibliographical references and index

Microbial metabolomics : a general overview / Edward E.K. Baidoo -- Massspectrometry-based microbial metabolomics : techniques, analysis, and applications / Edward E.K. Baidoo and Veronica Teixeira Benites -- Metabolomics : a microbial physiology and metabolism perspective / Chijioke J. Joshua -- Untargeted soil metabolomics using liquid chromatography-mass spectrometry and gas chromatography-mass spectrometry / Tami L. Swenson and Trent R. Northen -- Fatty acid metabolome extraction from mycobacterial cells for GC-MS metabolomics analysis / Ilse du Preez, Derylize Beukes, and Du Toit Loots -- Total metabolome extraction from mycobacterial cells for GC-MS metabolomics analysis / Derylize Beukes, Ilse du Preez, and Du Toit Loots -- High-throughput solid-phase microextraction-liquid chromatography-mass spectrometry for microbial untargeted metabolomics / Fatemeh Mousavi, Barbara Bojko, and Janusz Pawliszyn -- Targeted metabolomics of xylose-fermenting yeasts based on mass spectrometry / Christiane Goncalves Campos, Jose Antonio de Aquino Ribeiro Joao Ricardo Moreira de Almeida, Betania Ferraz Quirino, and Patr♯łcia Verardi Abdelnur -- Exploiting high-resolution mass spectrometry for targeted metabolite quantification and 13C-labeling metabolism analysis / Zhucui Li, Yujing Li, Yinjie J. Tang, and Wenqing Shui -- Quantitative profiling of endogenous metabolites using hydrophilic interaction liquid chromatography-tandem mass spectrometry (HILIC-MS/MS) / Attila Teleki and Ralf Takors -- Liquid chromatography and mass spectrometry analysis of isoprenoid intermediates in Escherichia coli / Edward E.K. Baidoo, George Wang, Chijioke J. Joshua Veronica Teixeira Benites, and Jay D. Keasling -- Determining the mode of action of antimalarial drugs using time-resolved LC-MS-based metabolite profiling / Simon A. Cobbold and Malcolm J. McConville -- Use of liquid chromatography-mass spectrometry-based metabolomics to identify biomarkers of tuberculosis / Juntuo Zhou and Yuxin Yin -- Metabolomics analysis of leishmania by capillary electrophoresis and mass spectrometry / David Rojo, Coral Barbas, and Angeles Lopez-Gonzalvez -- High-throughput targeted metabolomics workflow for the detection of 200 polar metabolites in central carbon metabolism / Yuping Cai and Zheng-Jiang Zhu -- Cluster analysis of untargeted metabolomic experiments / Joshua Heinemann -- Machine learning in untargeted metabolomics experiments / Joshua Heinemann -- Dynamic 13C labeling of fast turnover metabolites for analysis of metabolic fluxes and metabolite channeling / Mary Abernathy, Ni Wan, Wenqing Shui, and Yinjie J. Tang -- Genome-scale 13C fluxomics modeling for metabolic engineering of Saccharomyces cerevisiae / David Ando and Hector Garcia Martin.

This detailed volume includes protocols that represent the breadth of microbial metabolomics approaches to both large-scale and small-scale experiments with intention of highlighting techniques that can be used for applications ranging from environmental microbiology to human disease. Utilizing mass spectrometry as their primary measurement tool, the chapters explore microbial metabolomics, metabolism and microbial physiology, metabolite sample preparation, current analytical techniques used to profile primary and secondary metabolites and lipids, as well as establishing data analysis workflows for targeted metabolomics, untargeted metabolomics, analysis of metabolic fluxes, and genome-scale models. Written for the highly successful Methods in Molecular Biology series, chapters include introduction to their respective topics, lists of the necessary materials and reagents, step-by-step readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Microbial Metabolomics: Methods and Protocols serves as an ideal reference for both novice and advanced users and can be adapted to similar analytical platforms or customized to suit the needs of the researcher.

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