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Analysis of Neuropeptides by MALDI Imaging Mass Spectrometry

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The Low Molecular Weight Proteome

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1023))

Abstract

Matrix-assisted laser desorption ionization (MALDI) imaging mass spectrometry (IMS) is one of the most effective tools for localizing small molecules and compounds directly in thin tissue sections. MALDI IMS should be used when the distribution of molecular species is not known and to localize changes due to a disease process or a treatment. In recent years it has become increasingly clear that many pathological processes are not readily correlated to dramatic changes in protein levels. MALDI IMS can aid the localization of areas where the cellular concentration of proteins may be high enough to play an important biological role, but when the precise location is unknown. Here, we present a MALDI IMS protocol and data analysis of molecular imaging of multiple rat brain sections.

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References

  1. Caprioli RM, Farmer TB, Gile J (1997) Molecular imaging of biological samples: localization of peptides and proteins using MALDI-TOF MS. Anal Chem 69:4751–4760

    Article  PubMed  CAS  Google Scholar 

  2. Stoeckli M, Chaurand P, Hallahan DE, Caprioli RM (2001) Imaging mass spectrometry: a new technology for the analysis of protein expression in mammalian tissues. Nat Med 7:493–496

    Article  PubMed  CAS  Google Scholar 

  3. Burnum KE, Cornett DS, Puolitaival SM, Milne SB, Myers DS, Tranguch S, Brown HA, Dey SK, Caprioli RM (2009) Spatial and temporal alterations of phospholipids determined by mass spectrometry during mouse embryo implantation. J Lipid Res 50:2290–2298

    Article  PubMed  CAS  Google Scholar 

  4. Puolitaival SM, Burnum KE, Cornett DS, Caprioli RM (2008) Solvent-free matrix dry-coating for MALDI imaging of phospholipids. J Am Soc Mass Spectrom 19:882–886

    Article  PubMed  CAS  Google Scholar 

  5. Groseclose MR, Andersson M, Hardesty WM, Caprioli RM (2007) Identification of proteins directly from tissue: in situ tryptic digestions coupled with imaging mass spectrometry. J Mass Spectrom 42:254–262

    Article  PubMed  CAS  Google Scholar 

  6. Jackson SN, Woods AS (2009) Direct profiling of tissue lipids by MALDI-TOFMS. J Chromatogr B Analyt Technol Biomed Life Sci 877:2822–2829

    Article  PubMed  CAS  Google Scholar 

  7. Khatib-Shahidi S, Andersson M, Herman JL, Gillespie TA, Caprioli RM (2006) Direct molecular analysis of whole-body animal tissue sections by imaging MALDI mass spectrometry. Anal Chem 78:6448–6456

    Article  PubMed  CAS  Google Scholar 

  8. Reyzer ML, Caprioli RM (2007) MALDI-MS-based imaging of small molecules and proteins in tissues. Curr Opin Chem Biol 11:29–35

    Article  PubMed  CAS  Google Scholar 

  9. Reyzer ML, Hsieh YS, Ng K, Korfmacher WA, Caprioli RM (2003) Direct analysis of drug candidates in tissue by matrix-assisted laser desorption/ionization mass spectrometry. J Mass Spectrom 38:1081–1092

    Article  PubMed  CAS  Google Scholar 

  10. Stoeckli M, Knochenmuss R, McCombie G, Mueller D, Rohner T, Staab D, Wiederhold KH (2006) MALDI MS imaging of amyloid. Methods Enzymol 412:94–106

    Article  PubMed  CAS  Google Scholar 

  11. Rubakhin SS, Sweedler JV (2010) A mass spectrometry primer for mass spectrometry imaging. Methods Mol Biol 656:21–49

    Article  PubMed  CAS  Google Scholar 

  12. Cornett DS, Frappier SL, Caprioli RM (2008) MALDI-FTICR imaging mass spectrometry of drugs and metabolites in tissue. Anal Chem 80:5648–5653

    Article  PubMed  CAS  Google Scholar 

  13. McLean JA, Ridenour WB, Caprioli RM (2007) Profiling and imaging of tissues by imaging ion mobility-mass spectrometry. J Mass Spectrom 42:1099–1105

    Article  PubMed  CAS  Google Scholar 

  14. Efron B, Tibshirani R (2002) Empirical bayes methods and false discovery rates for microarrays. Genet Epidemiol 23:70–86

    Article  PubMed  Google Scholar 

  15. Smyth GK, Michaud J, Scott HS (2005) Use of within-array replicate spots for assessing differential expression in microarray experiments. Bioinformatics 21:2067–2075

    Article  PubMed  CAS  Google Scholar 

  16. Andersson M, Groseclose MR, Deutch AY, Caprioli RM (2008) Imaging mass spectrometry of proteins and peptides: 3D volume reconstruction. Nat Methods 5:101–108

    Article  PubMed  CAS  Google Scholar 

  17. Falth M, Skold K, Norrman M, Svensson M, Fenyo D, Andren PE (2006) SwePep, a database designed for endogenous peptides and mass spectrometry. Mol Cell Proteomics 5:998–1005

    Article  PubMed  Google Scholar 

  18. Groseclose MR, Massion PP, Chaurand P, Caprioli RM (2008) High-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue microarrays using MALDI imaging mass spectrometry. Proteomics 8:3715–3724

    Article  PubMed  CAS  Google Scholar 

  19. Chaurand P, Latham JC, Lane KB, Mobley JA, Polosukhin VV, Wirth PS, Nanney LB, Caprioli RM (2008) Imaging mass spectrometry of intact proteins from alcohol-preserved tissue specimens: bypassing formalin fixation. J Proteome Res 7:3543–3555

    Article  PubMed  CAS  Google Scholar 

  20. Goodwin RJ, Dungworth JC, Cobb SR, Pitt AR (2008) Time-dependent evolution of tissue markers by MALDI-MS imaging. Proteomics 8:3801–3808

    Article  PubMed  CAS  Google Scholar 

  21. Goodwin RJ, Pennington SR, Pitt AR (2008) Protein and peptides in pictures: imaging with MALDI mass spectrometry. Proteomics 8:3785–3800

    Article  PubMed  CAS  Google Scholar 

  22. Scholz B, Skold K, Kultima K, Fernandez C, Waldemarson S, Savitski MM, Söderquist M, Boren M, Stella R, Andren PE, Zubarev R, James P (2011) Impact of temperature dependent sampling procedures in proteomics and peptidomics—a characterization of the liver and pancreas post mortem degradome. Mol Cell Proteomics 10:M900229MCP200

    PubMed  Google Scholar 

  23. Svensson M, Boren M, Skold K, Falth M, Sjogren B, Andersson M, Svenningsson P, Andren PE (2009) Heat stabilization of the tissue proteome: a new technology for improved proteomics. J Proteome Res 8:974–981

    Article  PubMed  CAS  Google Scholar 

  24. Schwartz SA, Reyzer ML, Caprioli RM (2003) Direct tissue analysis using matrix-assisted laser desorption/ionization mass spectrometry: practical aspects of sample preparation. J Mass Spectrom 38:699–708

    Article  PubMed  CAS  Google Scholar 

  25. Seeley EH, Oppenheimer SR, Mi D, Chaurand P, Caprioli RM (2008) Enhancement of protein sensitivity for MALDI imaging mass spectrometry after chemical treatment of tissue sections. J Am Soc Mass Spectrom 19:1069–1077

    Article  PubMed  CAS  Google Scholar 

  26. Aerni HR, Cornett DS, Caprioli RM (2006) Automated acoustic matrix deposition for MALDI sample preparation. Anal Chem 78:827–834

    Article  PubMed  CAS  Google Scholar 

  27. Klinkert I, McDonnell LA, Luxembourg SL, Altelaar AF, Amstalden ER, Piersma SR, Heeren RM (2007) Tools and strategies for visualization of large image data sets in high-resolution imaging mass spectrometry. Rev Sci Instrum 78:053716

    Article  PubMed  Google Scholar 

  28. Norris JL, Cornett DS, Mobley JA, Andersson M, Seeley EH, Chaurand P, Caprioli RM (2007) Processing MALDI mass spectra to improve mass spectral direct tissue analysis. Int J Mass Spectrom 260:212–221

    Article  PubMed  CAS  Google Scholar 

  29. Albrethsen J (2007) Reproducibility in protein profiling by MALDI-TOF mass spectrometry. Clin Chem 53:852–858

    Article  PubMed  CAS  Google Scholar 

  30. Hilario M, Kalousis A, Pellegrini C, Muller M (2006) Processing and classification of protein mass spectra. Mass Spectrom Rev 25:409–449

    Article  PubMed  CAS  Google Scholar 

  31. Dijkstra M, Vonk RJ, Jansen RC (2007) SELDI-TOF mass spectra: a view on sources of variation. J Chromatogr B Analyt Technol Biomed Life Sci 847:12–23

    Article  PubMed  CAS  Google Scholar 

  32. Villanueva J, Philip J, Chaparro CA, Li Y, Toledo-Crow R, DeNoyer L, Fleisher M, Robbins RJ, Tempst P (2005) Correcting common errors in identifying cancer-specific serum peptide signatures. J Proteome Res 4:1060–1072

    Article  PubMed  CAS  Google Scholar 

  33. Baggerly KA, Morris JS, Wang J, Gold D, Xiao LC, Coombes KR (2003) A comprehensive approach to the analysis of matrix-assisted laser desorption/ionization-time of flight proteomics spectra from serum samples. Proteomics 3:1667–1672

    Article  PubMed  CAS  Google Scholar 

  34. Dekker LJ, Dalebout JC, Siccama I, Jenster G, Sillevis Smitt PA, Luider TM (2005) A new method to analyze matrix-assisted laser desorption/ionization time-of-flight peptide profiling mass spectra. Rapid Commun Mass Spectrom 19:865–870

    Article  PubMed  CAS  Google Scholar 

  35. Zhang J, Zenobi R (2004) Matrix-dependent cationization in MALDI mass spectrometry. J Mass Spectrom 39:808–816

    Article  PubMed  CAS  Google Scholar 

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Ljungdahl, A., Hanrieder, J., Bergquist, J., Andersson, M. (2013). Analysis of Neuropeptides by MALDI Imaging Mass Spectrometry. In: Bäckvall, H., Lehtiö, J. (eds) The Low Molecular Weight Proteome. Methods in Molecular Biology, vol 1023. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-7209-4_7

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  • DOI: https://doi.org/10.1007/978-1-4614-7209-4_7

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  • Publisher Name: Springer, New York, NY

  • Print ISBN: 978-1-4614-7167-7

  • Online ISBN: 978-1-4614-7209-4

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