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      scRNA‐seq and proteomics reveal the distinction of M2‐like macrophages between primary and recurrent malignant glioma and its critical role in the recurrence

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          Abstract

          Aims

          Tumor‐associated macrophages (TAMs) in the immune microenvironment play an important role in the increased drug resistance and recurrence of malignant glioma, but the mechanism remains incompletely inventoried. The focus of this study was to investigate the distinctions of M2‐like TAMs in the immune microenvironment between primary and recurrent malignant glioma and its influence in the recurrence.

          Methods

          We employed single‐cell RNA sequencing to construct a single‐cell atlas for a total of 23,010 individual cells from 6 patients with primary or recurrent malignant glioma and identified 5 cell types, including TAMs and malignant cells. Immunohistochemical techniques and proteomics analysis were performed to investigate the role of intercellular interaction between malignant cells and TAMs in the recurrence of malignant glioma.

          Results

          Six subgroups of TAMs were annotated and M2‐like TAMs were found to increase in recurrent malignant glioma significantly. A pseudotime trajectory and a dynamic gene expression profiling during the recurrence of malignant glioma were reconstructed. Up‐regulation of several cancer pathways and intercellular interaction‐related genes are associated with the recurrence of malignant glioma. Moreover, the M2‐like TAMs can activate the PI3K/Akt/HIF‐1α/CA9 pathway in the malignant glioma cells via SPP1‐CD44‐mediated intercellular interaction. Interestingly, high expression of CA9 can trigger the immunosuppressive response in the malignant glioma, thus promoting the degree of malignancy and drug resistance.

          Conclusion

          Our study uncovers the distinction of M2‐like TAMs between primary and recurrent glioma, which offers unparalleled insights into the immune microenvironment of primary and recurrent malignant glioma.

          Abstract

          Intercellular interaction between M2‐like TAMs and malignant cells was revealed. PI3K/Akt/HIF‐1α/CA9 activation promotes the recurrence of malignant glioma.

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          Most cited references65

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          Integrating single-cell transcriptomic data across different conditions, technologies, and species

          Computational single-cell RNA-seq (scRNA-seq) methods have been successfully applied to experiments representing a single condition, technology, or species to discover and define cellular phenotypes. However, identifying subpopulations of cells that are present across multiple data sets remains challenging. Here, we introduce an analytical strategy for integrating scRNA-seq data sets based on common sources of variation, enabling the identification of shared populations across data sets and downstream comparative analysis. We apply this approach, implemented in our R toolkit Seurat (http://satijalab.org/seurat/), to align scRNA-seq data sets of peripheral blood mononuclear cells under resting and stimulated conditions, hematopoietic progenitors sequenced using two profiling technologies, and pancreatic cell 'atlases' generated from human and mouse islets. In each case, we learn distinct or transitional cell states jointly across data sets, while boosting statistical power through integrated analysis. Our approach facilitates general comparisons of scRNA-seq data sets, potentially deepening our understanding of how distinct cell states respond to perturbation, disease, and evolution.
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            Universal sample preparation method for proteome analysis.

            We describe a method, filter-aided sample preparation (FASP), which combines the advantages of in-gel and in-solution digestion for mass spectrometry-based proteomics. We completely solubilized the proteome in sodium dodecyl sulfate, which we then exchanged by urea on a standard filtration device. Peptides eluted after digestion on the filter were pure, allowing single-run analyses of organelles and an unprecedented depth of proteome coverage.
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              Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma.

              Human cancers are complex ecosystems composed of cells with distinct phenotypes, genotypes, and epigenetic states, but current models do not adequately reflect tumor composition in patients. We used single-cell RNA sequencing (RNA-seq) to profile 430 cells from five primary glioblastomas, which we found to be inherently variable in their expression of diverse transcriptional programs related to oncogenic signaling, proliferation, complement/immune response, and hypoxia. We also observed a continuum of stemness-related expression states that enabled us to identify putative regulators of stemness in vivo. Finally, we show that established glioblastoma subtype classifiers are variably expressed across individual cells within a tumor and demonstrate the potential prognostic implications of such intratumoral heterogeneity. Thus, we reveal previously unappreciated heterogeneity in diverse regulatory programs central to glioblastoma biology, prognosis, and therapy. Copyright © 2014, American Association for the Advancement of Science.
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                Author and article information

                Contributors
                grouplin@fjmu.edu.cn
                Journal
                CNS Neurosci Ther
                CNS Neurosci Ther
                10.1111/(ISSN)1755-5949
                CNS
                CNS Neuroscience & Therapeutics
                John Wiley and Sons Inc. (Hoboken )
                1755-5930
                1755-5949
                17 May 2023
                November 2023
                : 29
                : 11 ( doiID: 10.1002/cns.v29.11 )
                : 3391-3405
                Affiliations
                [ 1 ] Department of Neurosurgery Fujian Medical University Union Hospital Fuzhou China
                [ 2 ] Fujian Medical University Fuzhou China
                [ 3 ] Department of Gynaecology, Fujian Provincial Maternity and Children's Hospital Affiliated Hospital of Fujian Medical University Fuzhou China
                [ 4 ] Department of Neurosurgery Affiliated Hospital of Putian University Putian China
                [ 5 ] Pingtan Comprehensive Experimental Area Hospital Fuzhou China
                Author notes
                [*] [* ] Correspondence

                Caihou Lin, Department of Neurosurgery, Fujian Medical University Union Hospital, Fuzhou, China.

                Email: grouplin@ 123456fjmu.edu.cn

                Author information
                https://orcid.org/0000-0001-6715-5806
                Article
                CNS14269 CNSNT-2023-030.R2
                10.1111/cns.14269
                10580349
                37194413
                a9d12f01-4754-4d92-86fb-27480e0b02aa
                © 2023 The Authors. CNS Neuroscience & Therapeutics published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 02 May 2023
                : 09 January 2023
                : 03 May 2023
                Page count
                Figures: 7, Tables: 0, Pages: 15, Words: 7930
                Funding
                Funded by: Excellent Young Scholars Cultivation Project of Fujian Medical University Union Hospital
                Award ID: 2022XH039
                Funded by: Joint Funds for the Innovation of Science and Technology, Fujian Province
                Award ID: 2018Y9024
                Funded by: Natural Science Foundation of Fujian Province , doi 10.13039/501100003392;
                Award ID: 2021J01760
                Categories
                Original Article
                Original Articles
                Custom metadata
                2.0
                November 2023
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.3.4 mode:remove_FC converted:17.10.2023

                Neurosciences
                immune microenvironment,intercellular interaction,recurrent malignant glioma,single‐cell rna sequencing,tumor‐associated macrophages

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