Pressure-assisted protein extraction: a novel method for recovering proteins from archival tissue for proteomic analysis.

Journal of Proteome Research
Carol B FowlerJeffrey T Mason

Abstract

Formaldehyde-fixed, paraffin-embedded (FFPE) tissue repositories represent a valuable resource for the retrospective study of disease progression and response to therapy. However, the proteomic analysis of FFPE tissues has been hampered by formaldehyde-induced protein modifications, which reduce protein extraction efficiency and may lead to protein misidentification. Here, we demonstrate the use of heat augmented with high hydrostatic pressure (40,000 psi) as a novel method for the recovery of intact proteins from FFPE mouse liver. When FFPE mouse liver was extracted using heat and elevated pressure, there was a 4-fold increase in protein extraction efficiency, a 3-fold increase in the extraction of intact proteins, and up to a 30-fold increase in the number of nonredundant proteins identified by mass spectrometry, compared to matched tissue extracted with heat alone. More importantly, the number of nonredundant proteins identified in the FFPE tissue was nearly identical to that of matched fresh-frozen tissue.

References

Jun 1, 1991·The Journal of Histochemistry and Cytochemistry : Official Journal of the Histochemistry Society·S R ShiK L Kalra
Nov 26, 1997·The Journal of Pathology·S A PileriB Falini
Feb 18, 2004·Laboratory Investigation; a Journal of Technical Methods and Pathology·Vladimir K RaitJeffrey T Mason
Aug 11, 2005·Molecular & Cellular Proteomics : MCP·Brian L HoodDavid B Krizman
Jan 10, 2006·The Journal of Histochemistry and Cytochemistry : Official Journal of the Histochemistry Society·Shan-Rong ShiClive R Taylor
Mar 15, 2006·BioTechniques·DaRue A PrietoDavid B Krizman
Apr 6, 2007·The Journal of Histochemistry and Cytochemistry : Official Journal of the Histochemistry Society·Tong GuoBrian M Balgley
May 29, 2007·Laboratory Investigation; a Journal of Technical Methods and Pathology·Carol B FowlerJeffrey T Mason
Jul 12, 2007·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Dali HuangGeorge P Hemstreet
Dec 26, 2007·Laboratory Investigation; a Journal of Technical Methods and Pathology·Carol B FowlerJeffrey T Mason
Feb 19, 2008·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Vyomesh PatelJ Silvio Gutkind
May 21, 2008·Laboratory Investigation; a Journal of Technical Methods and Pathology·Carol B FowlerJeffrey T Mason
Oct 14, 2008·Pancreatology : Official Journal of the International Association of Pancreatology (IAP) ... [et Al.]·Wang CheungAnirban Maitra
Dec 10, 2008·Journal of Immunological Methods·Fabio D'AmicoFranca Stivala
Jan 9, 2009·Journal of Proteome Research·Brian M BalgleyCheng S Lee
Apr 25, 2009·Clinics in Laboratory Medicine·Josip Blonder, Timothy D Veenstra
Aug 14, 2009·International Journal of Cancer. Journal International Du Cancer·Dali HuangGeorge P Hemstreet
Nov 6, 2009·Biotechnic & Histochemistry : Official Publication of the Biological Stain Commission·T J O'LearyJ T Mason
Nov 17, 2009·European Journal of Cancer : Official Journal for European Organization for Research and Treatment of Cancer (EORTC) [and] European Association for Cancer Research (EACR)·Daniela BergKarl-Friedrich Becker
Dec 17, 2009·Methods in Molecular Biology·Gary L Bratthauer
Feb 4, 2010·The Journal of Histochemistry and Cytochemistry : Official Journal of the Histochemistry Society·Zhefeng XiaoZhuchu Chen
Jul 8, 2010·Journal of Proteome Research·Omid AzimzadehSoile Tapio
Jul 14, 2010·Nature Biotechnology·Parag Mallick, Bernhard Kuster
Aug 4, 2010·Methods in Molecular Biology·Maxence WisztorskiIsabelle Fournier
Oct 21, 2011·Nature Protocols·Rita Casadonte, Richard M Caprioli

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Citations

Aug 12, 2014·Omics : a Journal of Integrative Biology·Rémi LonguespéeEdwin De Pauw
Sep 3, 2013·Expert Review of Proteomics·Carol B FowlerJeffrey T Mason
Apr 12, 2013·Expert Review of Proteomics·Laura Giusti, Antonio Lucacchini
Oct 16, 2012·Clinical Biochemistry·David Cilia Vincenti, Graeme I Murray
Nov 3, 2012·Bioresource Technology·Xiaoqin Wang, Xuewu Zhang
Jan 23, 2013·Proteomics. Clinical Applications·Zongming FuJennifer E Van Eyk
Jan 23, 2013·Proteomics. Clinical Applications·Shan-Rong ShiJeffrey T Mason
Feb 26, 2013·Proteomics. Clinical Applications·Angelo Gámez-PozoJuan Ángel Fresno Vara
Oct 17, 2013·Journal of Mass Spectrometry : JMS·Jason D TheisAhmet Dogan
Oct 16, 2014·Biochimica Et Biophysica Acta·Ove J R GustafssonPeter Hoffmann
Jan 4, 2015·Biochimica Et Biophysica Acta·Shiying ShaoRuedi Aebersold
Jan 23, 2018·Chembiochem : a European Journal of Chemical Biology·Sara OngayRainer Bischoff
Aug 8, 2019·Mass Spectrometry Reviews·Irena DapicGarry L Corthals
May 7, 2013·Journal of Materials Chemistry. B, Materials for Biology and Medicine·Ying ShenLanqun Mao
Jul 21, 2021·Biochemical Society Transactions·Tiago OliveiraDaniel Kolarich

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Methods Mentioned

BETA
fluorescence imaging
laser capture microdissection
electrophoresis
protein assay

Software Mentioned

GOMiner
Adobe Photoshop

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