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Article

Slow Off-Rate Modified Aptamer (SOMAmer) Proteomic Analysis of Patient-Derived Malignant Glioma Identifies Distinct Cellular Proteomes

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Department of Human Anatomy and Cell Science, University of Manitoba, Winnipeg, MB R3E 0J9, Canada
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Department of Physiology & Pathophysiology, University of Manitoba, Winnipeg, MB R3E 0J9, Canada
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Children’s Hospital Research Institute of Manitoba, Winnipeg, MB R3E 3P4, Canada
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Department of Surgery, University of Manitoba, Winnipeg, MB R3E 0Z2, Canada
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Department of Pathology, University of Manitoba, Winnipeg, MB R3E 0Z2, Canada
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Department of Internal Medicine, University of Manitoba, Winnipeg, MB R3E 0Z2, Canada
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Research Institute in Oncology and Hematology (RIOH), CancerCare Manitoba, Winnipeg, MB R3E 0V9, Canada
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Canada’s Michael Smith Genome Sciences Centre, BC Cancer, Vancouver, BC V5Z 1L3, Canada
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Manitoba Centre for Proteomics and Systems Biology, Winnipeg, MB R3E 3P4, Canada
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Medical Microbiology & Infectious Diseases, Rady Faculty of Health Sciences, College of Medicine, University of Manitoba, Winnipeg, MB R3E 0J9, Canada
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Author to whom correspondence should be addressed.
Academic Editors: Marek J. Łos and Wirginia Likus
Int. J. Mol. Sci. 2021, 22(17), 9566; https://doi.org/10.3390/ijms22179566
Received: 26 July 2021 / Revised: 30 August 2021 / Accepted: 31 August 2021 / Published: 3 September 2021
(This article belongs to the Special Issue Biotechnology-Recent Advances)
Malignant gliomas derive from brain glial cells and represent >75% of primary brain tumors. This includes anaplastic astrocytoma (grade III; AS), the most common and fatal glioblastoma multiforme (grade IV; GBM), and oligodendroglioma (ODG). We have generated patient-derived AS, GBM, and ODG cell models to study disease mechanisms and test patient-centered therapeutic strategies. We have used an aptamer-based high-throughput SOMAscan® 1.3K assay to determine the proteomic profiles of 1307 different analytes. SOMAscan® proteomes of AS and GBM self-organized into closely adjacent proteomes which were clearly distinct from ODG proteomes. GBM self-organized into four proteomic clusters of which SOMAscan® cluster 4 proteome predicted a highly inter-connected proteomic network. Several up- and down-regulated proteins relevant to glioma were successfully validated in GBM cell isolates across different SOMAscan® clusters and in corresponding GBM tissues. Slow off-rate modified aptamer proteomics is an attractive analytical tool for rapid proteomic stratification of different malignant gliomas and identified cluster-specific SOMAscan® signatures and functionalities in patient GBM cells. View Full-Text
Keywords: glioma; glioblastoma; proteomic clusters; SOMAmers; patient cell isolates glioma; glioblastoma; proteomic clusters; SOMAmers; patient cell isolates
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MDPI and ACS Style

Thanasupawat, T.; Glogowska, A.; Pascoe, C.; Krishnan, S.N.; Munir, M.; Begum, F.; Beiko, J.; Krcek, J.; Del Bigio, M.R.; Pitz, M.; Shen, Y.; Spicer, V.; Coombs, K.M.; Wilkins, J.; Hombach-Klonisch, S.; Klonisch, T. Slow Off-Rate Modified Aptamer (SOMAmer) Proteomic Analysis of Patient-Derived Malignant Glioma Identifies Distinct Cellular Proteomes. Int. J. Mol. Sci. 2021, 22, 9566. https://doi.org/10.3390/ijms22179566

AMA Style

Thanasupawat T, Glogowska A, Pascoe C, Krishnan SN, Munir M, Begum F, Beiko J, Krcek J, Del Bigio MR, Pitz M, Shen Y, Spicer V, Coombs KM, Wilkins J, Hombach-Klonisch S, Klonisch T. Slow Off-Rate Modified Aptamer (SOMAmer) Proteomic Analysis of Patient-Derived Malignant Glioma Identifies Distinct Cellular Proteomes. International Journal of Molecular Sciences. 2021; 22(17):9566. https://doi.org/10.3390/ijms22179566

Chicago/Turabian Style

Thanasupawat, Thatchawan, Aleksandra Glogowska, Christopher Pascoe, Sai N. Krishnan, Maliha Munir, Farhana Begum, Jason Beiko, Jerry Krcek, Marc R. Del Bigio, Marshall Pitz, Yaoqing Shen, Victor Spicer, Kevin M. Coombs, John Wilkins, Sabine Hombach-Klonisch, and Thomas Klonisch. 2021. "Slow Off-Rate Modified Aptamer (SOMAmer) Proteomic Analysis of Patient-Derived Malignant Glioma Identifies Distinct Cellular Proteomes" International Journal of Molecular Sciences 22, no. 17: 9566. https://doi.org/10.3390/ijms22179566

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