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Mass Spectrometry: Analysis of a Literature Article

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    288103

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    Plantomics: Group exercise

    This worksheet is based on: Mass Spectrometry in Plant-omics. Erin Gemperline Caitlin Keller, and Lingjun Li.  Anal. Chem. 2016, 88, 3422−3434.  DOI: 10.1021/acs.analchem.5b02938.

    After reading the article: answer the following questions as a group. 

    1. You wish to do a bottom-up proteomics experiment to identify phosphoproteins in a given plant sample. Outline the steps you would take to do your experiment, from sample preparation to separation, to which MS technique (i.e ionization & mass analyzer) you would choose to use.














       
      1. For plants, the proteome and genome are not always sequenced.  How does that affect the ability of researchers to detect and identify peptides with peptidomics? 










         
      2. Much of MS relies on databases to match observed mass spectra with reference spectra.  What types of databases would you want to build (i.e. what reference data would you want) to accomplish proteomics and peptidomics in plants?









         
    3. Metabolomics often uses GC-MS to look at small molecules.  Outline the steps you would take to do a GC-MS metabolomics experiment, from sample preparation to separation, to which MS technique (i.e ionization & mass analyzer) you would choose to use.









       
      1. Compare and contrast orbitraps/TOF/FT-ICR as mass analyzers for mass spectrometry imaging. 










         
      2. Compare and contrast SIMS/DESI/MALDI for MS imaging ionization sources. 










         
      3. If you could only buy one instrument and wanted to image plant leafs, identifying signatures of damage due to pest infection, which ionization source and mass analyzer would you choose?  Why?







         

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