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
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
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
Kristiansen G (2010) Manual microdissection. Methods Mol Biol 576:31–38
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
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
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
Caprioli RM (2016) Imaging mass spectrometry: molecular microscopy for the new age of biology and medicine. Proteomics 16:1607–1612
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
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
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
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
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
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
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
Kiss A, Hopfgartner G (2016) Laser-based methods for the analysis of low molecular weight compounds in biological matrices. Methods 104:142–153
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
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
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
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
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
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
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
Alexandrov T (2012) MALDI imaging mass spectrometry: statistical data analysis and current computational challenges. BMC Bioinformatics 13(Suppl 16):S11
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
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
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
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
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
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
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
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
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
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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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