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Originally published In Press as doi:10.1074/mcp.M100015-MCP200 on October 23, 2001.
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Molecular & Cellular Proteomics 1:117-123, 2002.
© 2002 by The American Society for Biochemistry and Molecular Biology, Inc.

Research

2D Differential In-gel Electrophoresis for the Identification of Esophageal Scans Cell Cancer-specific Protein Markers*

Ge Zhou{ddagger}, Hongmei Li{ddagger}, Dianne DeCamp§, She Chen§, Hongjun Shu§,, Yi Gong{ddagger}, Michael Flaig, John W. Gillespie, Nan Hu||, Philip R. Taylor||, Michael R. Emmert-Buck, Lance A. Liotta**, Emanuel F. Petricoin, III** and Yingming Zhao{ddagger},§,{ddagger}{ddagger}

{ddagger} Department of Biochemistry University of Texas Southwestern Medical Center, Dallas, Texas 75390-9038
§ Pharmacology, University of Texas Southwestern Medical Center, Dallas, Texas 75390-9038
** Tissue Proteomics Unit, Center for Biologics, Evaluation and Research, Food and Drug Administration, Bethesda, Maryland 20857
Pathogenetics Unit, Laboratory of Pathology and Urologic Oncology Branch, the Laboratory of Pathology, NCI, National Institutes of Health, Bethesda, Maryland 20857
|| Cancer Prevention Studies Branch, NCI, National Institutes of Health, Bethesda, Maryland 20857

The reproducibility of conventional two-dimensional (2D) gel electrophoresis can be improved using differential in-gel electrophoresis (DIGE), a new emerging technology for proteomic analysis. In DIGE, two pools of proteins are labeled with 1-(5-carboxypentyl)-1'-propylindocarbocyanine halide (Cy3) N-hydroxy-succinimidyl ester and 1-(5-carboxypentyl)-1'-methylindodi-carbocyanine halide (Cy5) N-hydroxysuccinimidyl ester fluorescent dyes, respectively. The labeled proteins are mixed and separated in the same 2D gel. 2D DIGE was applied to quantify the differences in protein expression between laser capture microdissection-procured esophageal carcinoma cells and normal epithelial cells and to define cancer-specific and normal-specific protein markers. Analysis of the 2D images from protein lysates of ~ 250,000 cancer cells and normal cells identified 1038 protein spots in cancer cell lysates and 1088 protein spots in normal cell lysates. Of the detected proteins, 58 spots were up-regulated by >3-fold and 107 were down-regulated by >3-fold in cancer cells. In addition to previously identified down-regulated protein annexin I, tumor rejection antigen (gp96) was found up-regulated in esophageal squamous cell cancer. Global quantification of protein expression between laser capture-microdissected patient-matched cancer cells and normal cells using 2D DIGE in combination with mass spectrometry is a powerful tool for the molecular characterization of cancer progression and identification of cancer-specific protein markers.

To whom correspondence should be addressed: Dept. of Biochemistry, UT Southwestern Medical Center, Dallas, TX 75390-9038. Tel.: 214-648-7947; Fax: 214-648-2797; yzhao{at}biochem.swmed.edu.


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