Tissue fixed with formalin and processed without paraffin embedding is suitable for imaging of both peptides and lipids by MALDI-IMS

Proteomics

Volumn 16, Issue 11-12, 2016, Pages 1670-1677

  Pietrowska, Monika ^a   Gawin, Marta ^a,b   Polańska, Joanna ^c   Widłak, Piotr ^a  

^a INSTITUTE OF ONCOLOGY   (Poland)

^b JAGIELLONIAN UNIVERSITY   (Poland)

^c SILESIAN UNIVERSITY OF TECHNOLOGY   (Poland)

Author keywords

Clinical material; Imaging mass spectrometry; Mouse kidney; Sample preparation; Technology; Tissue fixation

Indexed keywords

FORMALDEHYDE; LIPID; PARAFFIN; PEPTIDE; TRYPSIN;

ANIMAL TISSUE; ARTICLE; KIDNEY CORTEX; KIDNEY MEDULLA; MALE; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION IMAGING MASS SPECTROMETRY; MOUSE; NONHUMAN; PRIORITY JOURNAL; SIGNAL NOISE RATIO; TISSUE FIXATION; TISSUE PREPARATION; TISSUE SECTION;

EID: 84974807326     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201500424     Document Type: Article

References (29)

1. Welch D. R., Tumor heterogeneity – a ‘contemporary concept’ founded on historical insights and predictions. Cancer Res. 2016, 76, 4–6.
2. Seeley, E. H., Caprioli, R. M., MALDI imaging mass spectrometry of human tissue: method challenges and clinical perspectives. Trends Biotechnol. 2011, 29, 136–143.
3. Schöne, C., Höfler, H., Walch, A., MALDI imaging mass spectrometry in cancer research: combining proteomic profiling and histological evaluation. Clin. Biochem. 2013, 46, 539–545.
4. Oppenheimer, R. S., Mi, D., Sanders, M. E., Caprioli, R. M., Molecular analysis of tumor margins by MALDI mass spectrometry in renal carcinoma. J. Proteome Res. 2010, 9, 2182–2190.
5. Espinoza, L. A., in: Hayat, M. A. (Ed.), Handbook of Immunochistochemistry and In Situ Hybridization of Human Carcinomas, 1st edn, Elsevier Academic Press, Amsterdam 2006, pp. 151–156.
6. Burry, R. W., Immunocytochemistry. A Practical Guide for Biomedical Research, Springer, Berlin 2010.
7. D'Amico, F., Skarmoutsou, E., Stivala, F., State of the art in antigen retrieval for immunohistochemistry. J. Immunol. Methods 2009, 341, 1–18.
8. Groseclose, M. R., Massion, P. P., Chaurand, P., Caprioli, R. M., High-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue microarrays using MALDI imaging mass spectrometry. Proteomics 2008, 8, 3715–3724.
9. Lemaire, R., Desmons, A., Tabet, J. C., Day, R. et al., Direct analysis and MALDI imaging of formalin-fixed, paraffin-embedded tissue sections. J. Proteome Res. 2007, 6, 1295–1305.
10. Fowler, C. B., Cunningham, R. E., O'Leary, T. J., Mason, J. T., ‘Tissue surrogates’ as a model for archival formalin-fixed paraffin-embedded tissues. Lab. Invest. 2007, 87, 836–846.
11. Casadonte, R., Kriegsmann, M., Zweynert, F., Friedrich, K. et al., Imaging mass spectrometry to discriminate breast from pancreatic cancer metastasis in formalin-fixed paraffin-embedded tissues. Proteomics 2014, 14, 956–964.
12. Wojakowska, A., Marczak, Ł., Jelonek, K., Polanski, K. et al., An optimized method of metabolite extraction from Formalin-Fixed Paraffin-Embedded tissue for GC/MS analysis. PLoS ONE 2015, 10, e0136902.
13. Polanski, A., Marczyk, M., Pietrowska, M., Widlak, P. et al., Signal Partitioning Algorithm for Highly Efficient Gaussian Mixture Modeling in Mass Spectrometry. Plos ONE 2015, 10, e0134256.
14. Marczyk, M., Jaksik, R., Polanski, A., Polanska, J., Adaptive filtering of microarray expression data based on Gaussian mixture decomposition. BMC Bioinformatics 2013, 14, 101.
15. Snijders, T. A., Dormaar, M., Van Schuur, W. H., Dijkman-Caes, C. et al., Distribution of some similarity coefficients for dyadic binary data in the case of associated attributes. J. Classif. 1990, 7, 5–31.
16. O'Rourke, M. B., Djordjevic, S. P., Padula, M. P., A non-instrument-based method for the analysis of formalin-fixed paraffin-embedded human spinal cord via matrix-assisted laser desorption/ionisation imaging mass spectrometry. Rapid Commun. Mass Spectrom. 2015, 29, 1836–1840.
17. De Sio, G., Smith, A. J., Galli, M., Garancini, M. et al., A MALDI-Mass Spectrometry Imaging method applicable to different formalin-fixed paraffin-embedded human tissues. Mol. Biosyst. 2015, 11, 1507–1514.
18. Gustafsson, O. J., Eddes, J. S., Meding, S., McColl, S. R. et al., Matrix-assisted laser desorption/ionization imaging protocol for in situ characterization of tryptic peptide identity and distribution in formalin-fixed tissue. Rapid Commun. Mass Spectrom. 2012, 27, 655–670.
19. Casadonte, R., Caprioli, R. M., Proteomic analysis of formalin-fixed paraffin-embedded tissue by MALDI imaging mass spectrometry. Nat. Protoc. 2011, 6, 1695–1709.
20. Carter, C. L., McLeod, C. W., Bunch, J. Imaging of phospholipids in formalin fixed rat brain sections by matrix assisted laser desorption/ionization mass spectrometry. J. Am. Soc. Mass Spectrom. 2011, 22, 1991–1998.
21. Marsching, C., Eckhardt, M., Gröne, H. J., Sandhoff, R. et al., Imaging of complex sulfatides SM3 and SB1a in mouse kidney using MALDI-TOF/TOF mass spectrometry. Anal. Bioanal. Chem. 2011, 401, 53–64.
22. Grobe, N., Elased, K. M., Cool, D. R., Morris, M., Mass spectrometry for the molecular imaging of angiotensin metabolism in kidney. Am. J. Physiol. Endocrinol. Metab. 2012, 302, E1016-E1024.
23. Trede, D., Schiffler, S., Becker, M., Wirtz, S. et al., Exploring three-dimensional matrix-assisted laser desorption/ionization imaging mass spectrometry data: three-dimensional spatial segmentation of mouse kidney. Anal. Chem. 2012, 84, 6079–6087.
24. Jones, E. E., Dworski, S., Canals, D., Casas, J. et al., On-tissue localization of ceramides and other sphingolipids by MALDI mass spectrometry imaging. Anal. Chem. 2014, 86, 8303–8311.
25. Schiller J., Süss R., Arnhold J., Fuchs B. et al., MALDI TOF MS in lipid and phospholipid research. Prog. Lipid Res. 2004, 43, 449–488.
26. Sprung, Jr., R. W., Brock, J. W. C., Tanksley, J. P., Li, M. et al., Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis. Mol. Cell. Proteomics 2009, 8, 1988–1998.
27. Ivanova, P. T., Cerda, B. A., Horn, D. M., Cohen, J. S. et al., Electrospray ionization mass spectrometry analysis of changes in phospholipids in RBL-2H3 mastocytoma cells during degranulation. PNAS 2001, 98, 7152–7157.
28. Buck, A., Ly, A., Balluff, B., Sun N. et al., High-resolution MALDI-FT-ICR MS imaging for the analysis of metabolites from formalin-fixed, paraffin-embedded clinical tissue samples. J. Pathol. 2015, 237, 123–132.
29. Hackett, M. J., McQuillan, J. A., El-Assaad, F., Aitken, J. B. et al., Chemical alterations to murine brain tissue induced by formalin fixation: implications for biospectroscopic imaging and mapping studies of disease pathogenesis. Analyst 2009, 136, 2941–2952.