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Title: Mass spectrometry-based proteomic platforms for better understanding of SARS-CoV-2 induced pathogenesis and potential diagnostic approaches 
Authors: Ahsan, Nagib
Rao, R. Shyama Prasad
Wilson, Rashaun S.
Punyamurtula, Ujwal
Salvato, Fernanda
Petersen, Max
Ahmed, Mohammad Kabir
Abid, M. Ruhul
Verburgt, Jacob C.
Kihara, Daisuke
Yang, Zhibo
Fornelli, Luca
Foster, Steven B.
Ramratnam, Bharat
Keywords: Biomarkers
Comparative proteomics
Kinase-substrate signaling
Post-translational modifications
Targeted proteomic
Stop-down proteomics
Issue Date: May-2021
Publisher: John Wiley and Sons Inc
Citation: Ahsan, N., Rao, R. S. P., Wilson, R. S., Punyamurtula, U., Salvato, F., Petersen, M., Ahmed, M. K., Abid, M. R., Verburgt, J. C., Kihara, D., Yang, Z., Fornelli, L., Foster, S. B., & Ramratnam, B. (2021). Mass spectrometry‐based proteomic platforms for better understanding of SARS‐CoV‐2 induced pathogenesis and potential diagnostic approaches. Proteomics, 21(10), 2000279.
Abstract: While protein–protein interaction is the first step of the SARS-CoV-2 infection, recent comparative proteomic profiling enabled the identification of over 11,000 protein dynamics, thus providing a comprehensive reflection of the molecular mechanisms underlying the cellular system in response to viral infection. Here we summarize and rationalize the results obtained by various mass spectrometry (MS)-based proteomic approaches applied to the functional characterization of proteins and pathways associated with SARS-CoV-2-mediated infections in humans. Comparative analysis of cell-lines versus tissue samples indicates that our knowledge in proteome profile alternation in response to SARS-CoV-2 infection is still incomplete and the tissue-specific response to SARS-CoV-2 infection can probably not be recapitulated efficiently by in vitro experiments. However, regardless of the viral infection period, sample types, and experimental strategies, a thorough cross-comparison of the recently published proteome, phosphoproteome, and interactome datasets led to the identification of a common set of proteins and kinases associated with PI3K-Akt, EGFR, MAPK, Rap1, and AMPK signaling pathways. Ephrin receptor A2 (EPHA2) was identified by 11 studies including all proteomic platforms, suggesting it as a potential future target for SARS-CoV-2 infection mechanisms and the development of new therapeutic strategies. We further discuss the potentials of future proteomics strategies for identifying prognostic SARS-CoV-2 responsive age-, gender-dependent, tissue-specific protein targets
ISSN: 16159853
Appears in Collections:Journal Articles

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