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  Label-free protein profiling of formalin-fixed paraffin-embedded (FFPE) heart tissue reveals immediate mitochondrial impairment after ionising radiation

Azimzadeh, O., Scherthan, H., Yentrapalli, R., Barjaktarovic, Z., Ueffing, M., Conrad, M., et al. (2012). Label-free protein profiling of formalin-fixed paraffin-embedded (FFPE) heart tissue reveals immediate mitochondrial impairment after ionising radiation. Journal of Proteomics, 75(8), 2384-2395. doi:10.1016/j.jprot.2012.02.019.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-EC64-E Version Permalink: http://hdl.handle.net/11858/00-001M-0000-000E-EC65-C
Genre: Journal Article

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 Creators:
Azimzadeh, O., Author
Scherthan, H.1, 2, Author              
Yentrapalli, R., Author
Barjaktarovic, Z., Author
Ueffing, M., Author
Conrad, M., Author
Neff, F., Author
Calzada-Wack, J., Author
Aubele, M., Author
Buske, C., Author
Atkinson, M. J., Author
Hauck, S. M., Author
Tapio, S., Author
Affiliations:
1Dept. of Human Molecular Genetics (Head: Hans-Hilger Ropers), Max Planck Institute for Molecular Genetics, Max Planck Society, Berlin, Germany, ou_1433549              
2 Bundeswehr Institute of Radiobiology affiliated to the University of Ulm, Munich, Germany, ou_persistent22              

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 Abstract: Qualitative proteome profiling of formalin-fixed, paraffin-embedded (FFPE) tissue is advancing the field of clinical proteomics. However, quantitative proteome analysis of FFPE tissue is hampered by the lack of an efficient labelling method. The usage of conventional protein labelling on FFPE tissue has turned out to be inefficient. Classical labelling targets lysine residues that are blocked by the formalin treatment. The aim of this study was to establish a quantitative proteomics analysis of FFPE tissue by combining the label-free approach with optimised protein extraction and separation conditions. As a model system we used FFPE heart tissue of control and exposed C57BL/6 mice after total body irradiation using a gamma ray dose of 3 gray. We identified 32 deregulated proteins (p</=0.05) in irradiated hearts 24h after the exposure. The proteomics data were further evaluated and validated by bioinformatics and immunoblotting investigation. In good agreement with our previous results using fresh-frozen tissue, the analysis indicated radiation-induced alterations in three main biological pathways: respiratory chain, lipid metabolism and pyruvate metabolism. The label-free approach enables the quantitative measurement of radiation-induced alterations in FFPE tissue and facilitates retrospective biomarker identification using clinical archives.

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Language(s): eng - English
 Dates: 2012-02-232012-04-18
 Publication Status: Published in print
 Pages: -
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 Rev. Type: Peer
 Identifiers: DOI: 10.1016/j.jprot.2012.02.019
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Title: Journal of Proteomics
Source Genre: Journal
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Publ. Info: Elsevier
Pages: - Volume / Issue: 75 (8) Sequence Number: - Start / End Page: 2384 - 2395 Identifier: ISSN: 1615-9853
CoNE: https://pure.mpg.de/cone/journals/resource/1000000000294310