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Combined MALDI Mass Spectrometry Imaging and Parafilm-Assisted Microdissection-Based LC-MS/MS Workflows in the Study of the Brain

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Neuroproteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1598))

Abstract

Proteins and other biomolecules such as lipids are significant players in the central nervous system and are implicated in various neurological disorders. Their identification, quantification, and distribution are thus important not only in understanding the disease but also in developing treatments. A combined workflow allowing the localized microextraction of discrete regions identified by a matrix-assisted laser desorption/ionization mass spectrometry (MSI) imaging experiment for proteomics analysis by liquid chromatography/tandem mass spectrometry (LC MS/MS) is described in this chapter. MSI was initially used to map lipid distributions allowing for the identification of regions of interest (ROIs) that are then subjected to microextraction in a consecutive tissue section. Mounting of consecutive tissue on parafilm allows microdissection of the ROIs, where proteins can then be recovered for processing and LC MS/MS analysis. The PAM method provides a fast and cheap means to perform further downstream analysis after an MSI experiment.

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References

  1. Pan S, Zhu D, Quinn JF, Peskind ER, Montine TJ, Lin B, Goodlett DR, Taylor G, Eng J, Zhang J (2007) A combined dataset of human cerebrospinal fluid proteins identified by multi-dimensional chromatography and tandem mass spectrometry. Proteomics 7:469–473

    Google Scholar 

  2. Schoonenboom NS, Reesink FE, Verwey NA, Kester MI, Teunissen CE, van de Ven PM, Pijnenburg YA, Blankenstein MA, Rozemuller AJ, Scheltens P, van der Flier WM (2012) Cerebrospinal fluid markers for differential dementia diagnosis in a large memory clinic cohort. Neurology 78:47–54

    Article  CAS  PubMed  Google Scholar 

  3. Kristiansen G (2010) Manual microdissection. Methods Mol Biol 576:31–38

    Article  CAS  PubMed  Google Scholar 

  4. Wisniewski JR, Dus K, Mann M (2013) Proteomic workflow for analysis of archival formalin-fixed and paraffin-embedded clinical samples to a depth of 10 000 proteins. Proteomics Clin Appl 7:225–233

    Article  CAS  PubMed  Google Scholar 

  5. Wisniewski JR, Dus-Szachniewicz K, Ostasiewicz P, Ziolkowski P, Rakus D, Mann M (2015) Absolute proteome analysis of colorectal mucosa, adenoma, and cancer reveals drastic changes in fatty acid metabolism and plasma membrane transporters. J Proteome Res 14:4005–4018

    Article  CAS  PubMed  Google Scholar 

  6. Wisztorski M, Croix D, Macagno E, Fournier I, Salzet M (2008) Molecular MALDI imaging: an emerging technology for neuroscience studies. Dev Neurobiol 68:845–858

    Google Scholar 

  7. Caprioli RM (2016) Imaging mass spectrometry: molecular microscopy for the new age of biology and medicine. Proteomics 16:1607–1612

    Article  CAS  PubMed  Google Scholar 

  8. Demeyer M, Wisztorski M, Decroo C, De Winter J, Caulier G, Hennebert E, Eeckhaut I, Fournier I, Flammang P, Gerbaux P (2015) Inter- and intra-organ spatial distributions of sea star saponins by MALDI imaging. Anal Bioanal Chem 407:8813–8824

    Google Scholar 

  9. Li B, Bhandari DR, Janfelt C, Rompp A, Spengler B (2014) Natural products in Glycyrrhiza glabra (licorice) rhizome imaged at the cellular level by atmospheric pressure matrix-assisted laser desorption/ionization tandem mass spectrometry imaging. Plant J 80:161–171

    Google Scholar 

  10. Cerruti CD, Benabdellah F, Laprevote O, Touboul D, Brunelle A (2012) MALDI imaging and structural analysis of rat brain lipid negative ions with 9-aminoacridine matrix. Anal Chem 84:2164–2171

    Google Scholar 

  11. Gustafsson OJ, Briggs MT, Condina MR, Winderbaum LJ, Pelzing M, McColl SR, Everest-Dass AV, Packer NH, Hoffmann P (2015) MALDI imaging mass spectrometry of N-linked glycans on formalin-fixed paraffin-embedded murine kidney. Anal Bioanal Chem 407:2127–2139

    Google Scholar 

  12. Pratavieira M, da Silva Menegasso AR, Garcia AM, Dos Santos DS, Gomes PC, Malaspina O, Palma MS (2014) MALDI imaging analysis of neuropeptides in the Africanized honeybee (Apis mellifera) brain: effect of ontogeny. J Proteome Res 13:3054–3064

    Google Scholar 

  13. Schey KL, Hachey AJ, Rose KL, Grey AC (2016) MALDI imaging mass spectrometry of Pacific White Shrimp L. vannamei and identification of abdominal muscle proteins. Proteomics 16:1767–1774

    Google Scholar 

  14. Andersson M, Andren P, Caprioli RM (2010) MALDI imaging and profiling mass spectrometry in neuroproteomics. In: Alzate O (ed) Neuroproteomics (Chapter 7). CRC Press/Taylor & Francis, Boca Raton, FL, p 115

    Google Scholar 

  15. Kiss A, Hopfgartner G (2016) Laser-based methods for the analysis of low molecular weight compounds in biological matrices. Methods 104:142–153

    Article  CAS  PubMed  Google Scholar 

  16. Spraggins JM, Rizzo DG, Moore JL, Noto MJ, Skaar EP, Caprioli RM (2016) Next-generation technologies for spatial proteomics: integrating ultra-high speed MALDI -TOF and high mass resolution MALDI FTICR imaging mass spectrometry for protein analysis. Proteomics 16:1678–1689

    Google Scholar 

  17. Lemaire R, Wisztorski M, Desmons A, Tabet JC, Day R, Salzet M, Fournier I (2006) MALDI -MS direct tissue analysis of proteins: improving signal sensitivity using organic treatments. Anal Chem 78:7145–7153

    Google Scholar 

  18. Franck J, Arafah K, Barnes A, Wisztorski M, Salzet M, Fournier I (2009) Improving tissue preparation for matrix-assisted laser desorption ionization mass spectrometry imaging. Part 1: using microspotting. Anal Chem 81:8193–8202

    Article  CAS  PubMed  Google Scholar 

  19. Schober Y, Guenther S, Spengler B, Rompp A (2012) High-resolution matrix-assisted laser desorption/ionization imaging of tryptic peptides from tissue. Rapid Commun Mass Spectrom 26:1141–1146

    Google Scholar 

  20. Franck J, Longuespee R, Wisztorski M, Van Remoortere A, Van Zeijl R, Deelder A, Salzet M, McDonnell L, Fournier I (2010) MALDI mass spectrometry imaging of proteins exceeding 30,000 daltons. Med Sci Monit 16:BR293–BR299

    Google Scholar 

  21. van Remoortere A, van Zeijl RJ, van den Oever N, Franck J, Longuespee R, Wisztorski M, Salzet M, Deelder AM, Fournier I, McDonnell LA (2010) MALDI imaging and profiling MS of higher mass proteins from tissue. J Am Soc Mass Spectrom 21:1922–1929

    Google Scholar 

  22. Franck J, Ayed ME, Wisztorski M, Salzet M, Fournier I (2010) On tissue protein identification improvement by N-terminal peptide derivatization. Methods Mol Biol 656:323–338

    Google Scholar 

  23. Alexandrov T (2012) MALDI imaging mass spectrometry: statistical data analysis and current computational challenges. BMC Bioinformatics 13(Suppl 16):S11

    Google Scholar 

  24. 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  CAS  PubMed  Google Scholar 

  25. Lemaire R, Desmons A, Tabet JC, Day R, Salzet M, Fournier I (2007) Direct analysis and MALDI imaging of formalin-fixed, paraffin-embedded tissue sections. J Proteome Res 6:1295–1305

    Google Scholar 

  26. Quanico J, Franck J, Dauly C, Strupat K, Dupuy J, Day R, Salzet M, Fournier I, Wisztorski M (2013) Development of liquid microjunction extraction strategy for improving protein identification from tissue sections. J Proteomics 79:200–218

    Google Scholar 

  27. Franck J, Quanico J, Wisztorski M, Day R, Salzet M, Fournier I (2013) Quantification-based mass spectrometry imaging of proteins by parafilm assisted microdissection. Anal Chem 85:8127–8134

    Article  CAS  PubMed  Google Scholar 

  28. Harris GA, Nicklay JJ, Caprioli RM (2013) Localized in situ hydrogel-mediated protein digestion and extraction technique for on-tissue analysis. Anal Chem 85:2717–2723

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  29. Quanico J, Franck J, Gimeno JP, Sabbagh R, Salzet M, Day R, Fournier I (2015) Parafilm-assisted microdissection: a sampling method for mass spectrometry-based identification of differentially expressed prostate cancer protein biomarkers. Chem Commun 51:4564–4567

    Article  CAS  Google Scholar 

  30. Meriaux C, Franck J, Park DB, Quanico J, Kim YH, Chung CK, Park YM, Steinbusch H, Salzet M, Fournier I (2014) Human temporal lobe epilepsy analyses by tissue proteomics. Hippocampus 24:628–642

    Article  CAS  PubMed  Google Scholar 

  31. Schramm T, Hester A, Klinkert I, Both JP, Heeren RM, Brunelle A, Laprevote O, Desbenoit N, Robbe MF, Stoeckli M, Spengler B, Rompp A (2012) imzML—a common data format for the flexible exchange and processing of mass spectrometry imaging data. J Proteomics 75:5106–5110

    Article  CAS  PubMed  Google Scholar 

  32. Bemis KD, Harry A, Eberlin LS, Ferreira C, van de Ven SM, Mallick P, Stolowitz M, Vitek O (2015) Cardinal: an R package for statistical analysis of mass spectrometry-based imaging experiments. Bioinformatics 31:2418–2420

    Article  CAS  PubMed  PubMed Central  Google Scholar 

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Authors and Affiliations

  1. Université de Lille 1, Inserm, U-1192 - Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), F-59000, Lille, France

    Jusal Quanico, Julien Franck, Maxence Wisztorski, Michel Salzet & Isabelle Fournier

Authors
  1. Jusal Quanico
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  2. Julien Franck
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  3. Maxence Wisztorski
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  4. Michel Salzet
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  5. Isabelle Fournier
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Corresponding author

Correspondence to Isabelle Fournier .

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Editors and Affiliations

  1. Department of Psychiatry, University of Florida McKnight Brain Institute, Gainesville, Florida, USA

    Firas H. Kobeissy

  2. Department of Cell Biology, Microbiology, & Molecular Biology, University of South Florida, Tampa, Florida, USA

    Stanley M. Stevens, Jr.

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Quanico, J., Franck, J., Wisztorski, M., Salzet, M., Fournier, I. (2017). Combined MALDI Mass Spectrometry Imaging and Parafilm-Assisted Microdissection-Based LC-MS/MS Workflows in the Study of the Brain. In: Kobeissy, F., Stevens, Jr., S. (eds) Neuroproteomics. Methods in Molecular Biology, vol 1598. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6952-4_13

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  • DOI: https://doi.org/10.1007/978-1-4939-6952-4_13

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6950-0

  • Online ISBN: 978-1-4939-6952-4

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