SILAC-based quantitative proteomic approach to identify potential biomarkers from the esophageal squamous cell carcinoma secretome.
The identification of secreted proteins that are differentially expressed between non-neoplastic and esophageal squamous cell carcinoma (ESCC) cells can provide potential biomarkers of ESCC. We used a SILAC-based quantitative proteomic approach to compare the secretome of ESCC cells with that of non-neoplastic esophageal squamous epithelial cells. Proteins were resolved by SDS-PAGE, and tandem mass spectrometry analysis (LC-MS/MS) of in-gel trypsin-digested peptides was carried out on a high-accuracy qTOF mass spectrometer. In total, we identified 441 proteins in the combined secretomes, including 120 proteins with > 2-fold upregulation in the ESCC secretome vs. that of non-neoplastic esophageal squamous epithelial cells. In this study, several potential protein biomarkers previously known to be increased in ESCC including matrix metalloproteinase 1, transferrin receptor, and transforming growth factor beta-induced 68 kDa were identified as overexpressed in the ESCC-derived secretome. In addition, we identified several novel proteins that have not been previously reported to be associated with ESCC. Among the novel candidate proteins identified, protein disulfide isomerase family a member 3 (PDIA3), GDP dissociation inhibitor 2 (GDI2), and lectin galactoside binding soluble 3 binding protein (LGALS3BP) were further validated by immunoblot analysis and immunohistochemical labeling using tissue microarrays. This tissue microarray analysis showed overexpression of protein disulfide isomerase family a member 3, GDP dissociation inhibitor 2, and lectin galactoside binding soluble 3 binding protein in 93%, 93% and 87% of 137 ESCC cases, respectively. Hence, we conclude that these potential biomarkers are excellent candidates for further evaluation to test their role and efficacy in the early detection of ESCC.
Kashyap
Manoj Kumar
MK
Institute of Bioinformatics, International Technology Park, Bangalore, India.
Harsha
H C
HC
Renuse
Santosh
S
Pawar
Harsh
H
Sahasrabuddhe
Nandini A
NA
Kim
Min-Sik
MS
Marimuthu
Arivusudar
A
Keerthikumar
Shivakumar
S
Muthusamy
Babylakshmi
B
Kandasamy
Kumaran
K
Subbannayya
Yashwanth
Y
Prasad
Thottethodi Subrahmanya Keshava
TS
Mahmood
Riaz
R
Chaerkady
Raghothama
R
Meltzer
Stephen J
SJ
Kumar
Rekha V
RV
Rustgi
Anil K
AK
Pandey
Akhilesh
A
D000328:Adult; D000368:Aged; D000596:Amino Acids / Q000737:chemistry / Q000378:metabolism; D014408:Biomarkers, Tumor / Q000032:analysis* / Q000378:metabolism; D015153:Blotting, Western; D002247:Carbon Isotopes / Q000737:chemistry; D002294:Carcinoma, Squamous Cell / Q000378:metabolism* / Q000473:pathology; D002460:Cell Line; D045744:Cell Line, Tumor; D002853:Chromatography, Liquid; D004591:Electrophoresis, Polyacrylamide Gel; D004938:Esophageal Neoplasms / Q000378:metabolism* / Q000473:pathology; D006801:Humans; D007150:Immunohistochemistry; D007553:Isotope Labeling / Q000379:methods; D013058:Mass Spectrometry / Q000379:methods; D008875:Middle Aged; D009587:Nitrogen Isotopes / Q000737:chemistry; D020543:Proteome / Q000032:analysis* / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D046888:Tissue Array Analysis
D000596:Amino Acids; D014408:Biomarkers, Tumor; D002247:Carbon Isotopes; D009587:Nitrogen Isotopes; D020543:Proteome