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Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics

SIMPLE SUMMARY: In this study, we carried out global proteomic profiling of esophageal squamous cell carcinoma and adjacent non-neoplastic esophageal tissue to identify putative biomarkers and targets. We identified several differentially expressed proteins including PDPN, TOP2A, POSTN and MMP2 that...

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Autores principales: Mangalaparthi, Kiran K., Patel, Krishna, Khan, Aafaque Ahmad, Nair, Bipin, Kumar, Rekha V., Prasad, Thottethodi Subrahmanya Keshav, Sidransky, David, Chatterjee, Aditi, Pandey, Akhilesh, Gowda, Harsha
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10340553/
https://www.ncbi.nlm.nih.gov/pubmed/37444412
http://dx.doi.org/10.3390/cancers15133302
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author Mangalaparthi, Kiran K.
Patel, Krishna
Khan, Aafaque Ahmad
Nair, Bipin
Kumar, Rekha V.
Prasad, Thottethodi Subrahmanya Keshav
Sidransky, David
Chatterjee, Aditi
Pandey, Akhilesh
Gowda, Harsha
author_facet Mangalaparthi, Kiran K.
Patel, Krishna
Khan, Aafaque Ahmad
Nair, Bipin
Kumar, Rekha V.
Prasad, Thottethodi Subrahmanya Keshav
Sidransky, David
Chatterjee, Aditi
Pandey, Akhilesh
Gowda, Harsha
author_sort Mangalaparthi, Kiran K.
collection PubMed
description SIMPLE SUMMARY: In this study, we carried out global proteomic profiling of esophageal squamous cell carcinoma and adjacent non-neoplastic esophageal tissue to identify putative biomarkers and targets. We identified several differentially expressed proteins including PDPN, TOP2A, POSTN and MMP2 that were overexpressed in ESCC. We also identified overexpression of SOX2, TP63, IGF2BP2 and RNF13 that are encoded by 3q26 region, a known hotspot region in ESCC. Synoviolin 1 (SYVN1), a protein involved in endoplasmic reticulum (ER)-associated degradation and other ER stress response proteins were overexpressed in ESCC. SYVN1 could be a potential therapeutic target in ESCC. ABSTRACT: Esophageal squamous cell carcinoma (ESCC) is a heterogeneous cancer associated with a poor prognosis in advanced stages. In India, it is the sixth most common cause of cancer-related mortality. In this study, we employed high-resolution mass spectrometry-based quantitative proteomics to characterize the differential protein expression pattern associated with ESCC. We identified several differentially expressed proteins including PDPN, TOP2A, POSTN and MMP2 that were overexpressed in ESCC. In addition, we identified downregulation of esophagus tissue-enriched proteins such as SLURP1, PADI1, CSTA, small proline-rich proteins such as SPRR3, SPRR2A, SPRR1A, KRT4, and KRT13, involved in squamous cell differentiation. We identified several overexpressed proteins mapped to the 3q24-29 chromosomal region, aligning with CNV alterations in this region reported in several published studies. Among these, we identified overexpression of SOX2, TP63, IGF2BP2 and RNF13 that are encoded by genes in the 3q26 region. Functional enrichment analysis revealed proteins involved in cell cycle pathways, DNA replication, spliceosome, and DNA repair pathways. We identified the overexpression of multiple proteins that play a major role in alleviating ER stress, including SYVN1 and SEL1L. The SYVN1/SEL1L complex is an essential part of the ER quality control machinery clearing misfolded proteins from the ER. SYVN1 is an E3 ubiquitin ligase that ubiquitinates ER-resident proteins. Interestingly, there are also other non-canonical substrates of SYVN1 which are known to play a crucial role in tumor progression. Thus, SYVN1 could be a potential therapeutic target in ESCC.
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spelling pubmed-103405532023-07-14 Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics Mangalaparthi, Kiran K. Patel, Krishna Khan, Aafaque Ahmad Nair, Bipin Kumar, Rekha V. Prasad, Thottethodi Subrahmanya Keshav Sidransky, David Chatterjee, Aditi Pandey, Akhilesh Gowda, Harsha Cancers (Basel) Article SIMPLE SUMMARY: In this study, we carried out global proteomic profiling of esophageal squamous cell carcinoma and adjacent non-neoplastic esophageal tissue to identify putative biomarkers and targets. We identified several differentially expressed proteins including PDPN, TOP2A, POSTN and MMP2 that were overexpressed in ESCC. We also identified overexpression of SOX2, TP63, IGF2BP2 and RNF13 that are encoded by 3q26 region, a known hotspot region in ESCC. Synoviolin 1 (SYVN1), a protein involved in endoplasmic reticulum (ER)-associated degradation and other ER stress response proteins were overexpressed in ESCC. SYVN1 could be a potential therapeutic target in ESCC. ABSTRACT: Esophageal squamous cell carcinoma (ESCC) is a heterogeneous cancer associated with a poor prognosis in advanced stages. In India, it is the sixth most common cause of cancer-related mortality. In this study, we employed high-resolution mass spectrometry-based quantitative proteomics to characterize the differential protein expression pattern associated with ESCC. We identified several differentially expressed proteins including PDPN, TOP2A, POSTN and MMP2 that were overexpressed in ESCC. In addition, we identified downregulation of esophagus tissue-enriched proteins such as SLURP1, PADI1, CSTA, small proline-rich proteins such as SPRR3, SPRR2A, SPRR1A, KRT4, and KRT13, involved in squamous cell differentiation. We identified several overexpressed proteins mapped to the 3q24-29 chromosomal region, aligning with CNV alterations in this region reported in several published studies. Among these, we identified overexpression of SOX2, TP63, IGF2BP2 and RNF13 that are encoded by genes in the 3q26 region. Functional enrichment analysis revealed proteins involved in cell cycle pathways, DNA replication, spliceosome, and DNA repair pathways. We identified the overexpression of multiple proteins that play a major role in alleviating ER stress, including SYVN1 and SEL1L. The SYVN1/SEL1L complex is an essential part of the ER quality control machinery clearing misfolded proteins from the ER. SYVN1 is an E3 ubiquitin ligase that ubiquitinates ER-resident proteins. Interestingly, there are also other non-canonical substrates of SYVN1 which are known to play a crucial role in tumor progression. Thus, SYVN1 could be a potential therapeutic target in ESCC. MDPI 2023-06-23 /pmc/articles/PMC10340553/ /pubmed/37444412 http://dx.doi.org/10.3390/cancers15133302 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Mangalaparthi, Kiran K.
Patel, Krishna
Khan, Aafaque Ahmad
Nair, Bipin
Kumar, Rekha V.
Prasad, Thottethodi Subrahmanya Keshav
Sidransky, David
Chatterjee, Aditi
Pandey, Akhilesh
Gowda, Harsha
Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title_full Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title_fullStr Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title_full_unstemmed Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title_short Molecular Characterization of Esophageal Squamous Cell Carcinoma Using Quantitative Proteomics
title_sort molecular characterization of esophageal squamous cell carcinoma using quantitative proteomics
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10340553/
https://www.ncbi.nlm.nih.gov/pubmed/37444412
http://dx.doi.org/10.3390/cancers15133302
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