Mass spectrometry imaging of biological tissue: an approach for multicenter studies
- 1.6k Downloads
Mass spectrometry imaging has become a popular tool for probing the chemical complexity of biological surfaces. This led to the development of a wide range of instrumentation and preparation protocols. It is thus desirable to evaluate and compare the data output from different methodologies and mass spectrometers. Here, we present an approach for the comparison of mass spectrometry imaging data from different laboratories (often referred to as multicenter studies). This is exemplified by the analysis of mouse brain sections in five laboratories in Europe and the USA. The instrumentation includes matrix-assisted laser desorption/ionization (MALDI)-time-of-flight (TOF), MALDI-QTOF, MALDI-Fourier transform ion cyclotron resonance (FTICR), atmospheric-pressure (AP)-MALDI-Orbitrap, and cluster TOF-secondary ion mass spectrometry (SIMS). Experimental parameters such as measurement speed, imaging bin width, and mass spectrometric parameters are discussed. All datasets were converted to the standard data format imzML and displayed in a common open-source software with identical parameters for visualization, which facilitates direct comparison of MS images. The imzML conversion also allowed exchange of fully functional MS imaging datasets between the different laboratories. The experiments ranged from overview measurements of the full mouse brain to detailed analysis of smaller features (depending on spatial resolution settings), but common histological features such as the corpus callosum were visible in all measurements. High spatial resolution measurements of AP-MALDI-Orbitrap and TOF-SIMS showed comparable structures in the low-micrometer range. We discuss general considerations for planning and performing multicenter studies in mass spectrometry imaging. This includes details on the selection, distribution, and preparation of tissue samples as well as on data handling. Such multicenter studies in combination with ongoing activities for reporting guidelines, a common data format (imzML) and a public data repository can contribute to more reliability and transparency of MS imaging studies.
KeywordsMass spectrometry imaging Multicenter studies Multimodal imaging Data format imzML Data handling and processing
This work was supported by the European Union (Contract LSHG-CT-2005-518194 COMPUTIS). JLU acknowledges support by the Hessian Ministry of Science and Art (LOEWE focus Ambiprobe) and the European Research Council Starting Grant of Zoltan Takats. Alexandre Seyer is indebted to the Institut de Chimie des Substances Naturelles for a Ph.D. research fellowship. A portion of the research was performed using EMSL, a national scientific user facility sponsored by the U.S. Department of Energy’s Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory.
- 4.Schramm T, Hester A, Klinkert I, Both J-P, Heeren RMA, Brunelle A, Laprévote O, Desbenoit N, Robbe M-F, Stoeckli M, Spengler B, Römpp A (2012) imzML—a common data format for the flexible exchange and processing of mass spectrometry imaging data. J Proteomics 75(16):5106–5110. doi: 10.1016/j.jprot.2012.07.026 CrossRefGoogle Scholar
- 7.Parry RM, Galhena A, Gamage C, Bennett R, Wang M, Fernández F (2013) OmniSpect: an open MATLAB-based tool for visualization and analysis of matrix-assisted laser desorption/ionization and desorption electrospray ionization mass spectrometry images. J Am Soc Mass Spectrom 24(4):646–649. doi: 10.1007/s13361-012-0572-y CrossRefGoogle Scholar
- 8.Imabiotech (2012) Quantinetix MALDI Imaging Software. http://www.imabiotech.com/Quantinetix-TM-Maldi-Imaging.html?lang=en. Accessed 8 Jul 2012
- 9.PREMIERBiosoft (2012) MALDIVision. http://www.premierbiosoft.com/maldi-tissue-imaging/index.html. Accessed 3 Jul 2012
- 12.Sidman RL (2011) High resolution mouse brain atlas. http://www.hms.harvard.edu/research/brain/intro.html
- 13.Lein ES, Hawrylycz MJ, Ao N, Ayres M, Bensinger A, Bernard A, Boe AF, Boguski MS, Brockway KS, Byrnes EJ, Chen L, Chen L, Chen T-M, Chi Chin M, Chong J, Crook BE, Czaplinska A, Dang CN, Datta S, Dee NR, Desaki AL, Desta T, Diep E, Dolbeare TA, Donelan MJ, Dong H-W, Dougherty JG, Duncan BJ, Ebbert AJ, Eichele G, Estin LK, Faber C, Facer BA, Fields R, Fischer SR, Fliss TP, Frensley C, Gates SN, Glattfelder KJ, Halverson KR, Hart MR, Hohmann JG, Howell MP, Jeung DP, Johnson RA, Karr PT, Kawal R, Kidney JM, Knapik RH, Kuan CL, Lake JH, Laramee AR, Larsen KD, Lau C, Lemon TA, Liang AJ, Liu Y, Luong LT, Michaels J, Morgan JJ, Morgan RJ, Mortrud MT, Mosqueda NF, Ng LL, Ng R, Orta GJ, Overly CC, Pak TH, Parry SE, Pathak SD, Pearson OC, Puchalski RB, Riley ZL, Rockett HR, Rowland SA, Royall JJ, Ruiz MJ, Sarno NR, Schaffnit K, Shapovalova NV, Sivisay T, Slaughterbeck CR, Smith SC, Smith KA, Smith BI, Sodt AJ, Stewart NN, Stumpf K-R, Sunkin SM, Sutram M, Tam A, Teemer CD, Thaller C, Thompson CL, Varnam LR, Visel A, Whitlock RM, Wohnoutka PE, Wolkey CK, Wong VY, Wood M, Yaylaoglu MB, Young RC, Youngstrom BL, Feng Yuan X, Zhang B, Zwingman TA, Jones AR (2007) Genome-wide atlas of gene expression in the adult mouse brain. Nature 445(7124):168–176, http://www.nature.com/nature/journal/v445/n7124/suppinfo/nature05453_S1.html CrossRefGoogle Scholar
- 15.Dekker TJA, Balluff BD, Jones EA, Schöne CD, Schmitt M, Aubele M, Kroep JR, Smit VTHBM, Tollenaar RAEM, Mesker WE, Walch A, McDonnell LA (2014) Multicenter matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI MSI) identifies proteomic differences in breast-cancer-associated stroma. J Proteome Res 13(11):4730–4738CrossRefGoogle Scholar
- 16.McDonnell LA, Römpp A, Balluff B, Heeren RMA, Albar JP, Andren P, Corthals G, Walch A, Stoeckli M (2014) Discussion point: reporting guidelines for mass spectrometry imaging. Anal Bioanal Chem. doi: 10.1007/s00216-014-8322-6
- 17.Römpp A, Wang R, Albar JP, Urbani A, Spengler B, Hermjakob H, Vizcaino JA (2014) A public data repository for mass spectrometry imaging data. Anal Bioanal Chem. doi: 10.1007/s00216-014-8357-8