Mass Spectrometry-Based Microbial Metabolomics

  • Edward E. K. Baidoo
  • Peter I. Benke
  • Jay D. Keasling
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 881)

Abstract

Through the characterization of metabolic pathways, metabolomics is able to illuminate the activities of a cell at the functional level. However, the metabolome, which is comprised of hundreds of chemically diverse metabolites, is rather difficult to monitor. Mass spectrometry (MS)-based profiling methods are increasingly being utilized for this purpose. To this end, MS is often coupled to the separation techniques gas chromatography (GC), liquid chromatography (LC), and capillary electrophoresis (CE). The mass-based selectivity that the MS provides, together with the chromatographic or electrophoretic separation of analytes, creates hyphenated techniques that are ideally suited to the measurement of large numbers of metabolites from microbial extracts. In this chapter, we describe GC-MS, LC-MS, and CE-MS methods that are applicable to microbial metabolomics experiments.

Key words

Metabolomics Mass spectrometry Quenching Extraction GC-MS LC-MS CE-MS 

Notes

Acknowledgments

This work conducted by ENIGMA—Ecosystems and Networks Integrated with Genes and Molecular Assemblies—was supported by the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.

This work was also part of the DOE Joint BioEnergy Institute (http://www.jbei.org) supported by the Office of Science, Office of Biological and Environmental Research, of the U.S. Department of Energy through Contract No. DE-AC02-05CH11231 between Lawrence Berkeley National Laboratory and the U.S. Department of Energy.

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Copyright information

© Springer Science+Business Media, LLC 2012

Authors and Affiliations

  • Edward E. K. Baidoo
    • 1
    • 2
  • Peter I. Benke
    • 1
    • 2
  • Jay D. Keasling
    • 3
    • 4
    • 1
    • 2
  1. 1.Physical Biosciences DivisionLawrence Berkeley National LaboratoryBerkeleyUSA
  2. 2.Joint BioEnergy InstituteEmeryvilleUSA
  3. 3.Department of Chemical EngineeringUniversity of CaliforniaBerkeleyUSA
  4. 4.Department of BioengineeringUniversity of CaliforniaBerkeleyUSA

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