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Ye W, Liang X, Chen G, Chen Q, Zhang H, Zhang N, Huang Y, Cheng Q, Chen X. NDC80/HEC1 promotes macrophage polarization and predicts glioma prognosis via single-cell RNA-seq and in vitro experiment. CNS Neurosci Ther 2024; 30:e14850. [PMID: 39021287 PMCID: PMC11255415 DOI: 10.1111/cns.14850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2024] [Revised: 06/19/2024] [Accepted: 06/28/2024] [Indexed: 07/20/2024] Open
Abstract
INTRODUCTION Glioma is the most frequent and lethal form of primary brain tumor. The molecular mechanism of oncogenesis and progression of glioma still remains unclear, rendering the therapeutic effect of conventional radiotherapy, chemotherapy, and surgical resection insufficient. In this study, we sought to explore the function of HEC1 (highly expressed in cancer 1) in glioma; a component of the NDC80 complex in glioma is crucial in the regulation of kinetochore. METHODS Bulk RNA and scRNA-seq analyses were used to infer HEC1 function, and in vitro experiments validated its function. RESULTS HEC1 overexpression was observed in glioma and was indicative of poor prognosis and malignant clinical features, which was confirmed in human glioma tissues. High HEC1 expression was correlated with more active cell cycle, DNA-associated activities, and the formation of immunosuppressive tumor microenvironment, including interaction with immune cells, and correlated strongly with infiltrating immune cells and enhanced expression of immune checkpoints. In vitro experiments and RNA-seq further confirmed the role of HEC1 in promoting cell proliferation, and the expression of DNA replication and repair pathways in glioma. Coculture assay confirmed that HEC1 promotes microglial migration and the transformation of M1 phenotype macrophage to M2 phenotype. CONCLUSION Altogether, these findings demonstrate that HEC1 may be a potential prognostic marker and an immunotherapeutic target in glioma.
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Affiliation(s)
- Weijie Ye
- Department of Clinical Pharmacology, Xiangya HospitalCentral South UniversityChangshaChina
- Hunan Key Laboratory of Pharmacogenetics, Institute of Clinical PharmacologyCentral South UniversityChangshaChina
| | - Xisong Liang
- Department of Neurosurgery, Xiangya HospitalCentral South UniversityChangshaChina
| | - Ge Chen
- Department of Clinical Pharmacology, Xiangya HospitalCentral South UniversityChangshaChina
- Hunan Key Laboratory of Pharmacogenetics, Institute of Clinical PharmacologyCentral South UniversityChangshaChina
| | - Qiao Chen
- Department of Clinical Pharmacology, Xiangya HospitalCentral South UniversityChangshaChina
- Hunan Key Laboratory of Pharmacogenetics, Institute of Clinical PharmacologyCentral South UniversityChangshaChina
| | - Hao Zhang
- Department of Neurosurgery, Xiangya HospitalCentral South UniversityChangshaChina
- Department of Neurosurgery, The Second Affiliated HospitalChongqing Medical UniversityChongqingChina
| | - Nan Zhang
- Department of Neurosurgery, Xiangya HospitalCentral South UniversityChangshaChina
- College of Life Science and TechnologyHuazhong University of Science and TechnologyWuhanHubeiChina
| | - Yuanfei Huang
- Department of Clinical Pharmacology, Xiangya HospitalCentral South UniversityChangshaChina
- Hunan Key Laboratory of Pharmacogenetics, Institute of Clinical PharmacologyCentral South UniversityChangshaChina
| | - Quan Cheng
- Department of Neurosurgery, Xiangya HospitalCentral South UniversityChangshaChina
| | - Xiaoping Chen
- Department of Clinical Pharmacology, Xiangya HospitalCentral South UniversityChangshaChina
- Hunan Key Laboratory of Pharmacogenetics, Institute of Clinical PharmacologyCentral South UniversityChangshaChina
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He W, Zhang Z, Tan Z, Liu X, Wang Z, Xiong B, Shen X, Zhu X. PSMB2 plays an oncogenic role in glioma and correlates to the immune microenvironment. Sci Rep 2024; 14:5861. [PMID: 38467767 PMCID: PMC10928079 DOI: 10.1038/s41598-024-56493-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Accepted: 03/07/2024] [Indexed: 03/13/2024] Open
Abstract
There has been an upward trend in the incidence of glioma, with high recurrence and high mortality. The beta subunits of the 20S proteasome are encoded by the proteasome beta (PSMB) genes and may affect the proteasome's function in glioma, assembly and inhibitor binding. This study attempted to reveal the function of the proliferation and invasion of glioma cells, which is affected by proteasome 20S subunit beta 2 (PSMB2). We subjected the data downloaded from the TCGA database to ROC, survival, and enrichment analyses. After establishing the stable PSMB2 knockdown glioma cell line. We detect the changes in the proliferation, invasion and migration of glioma cells by plate colony formation assay, transwell assay, wound healing assay and flow cytometry and PSMB2 expression was verified by quantitative PCR and Western blotting to identify the mRNA and protein levels. PSMB2 expression was higher in glioma tissues, and its expression positively correlated with poor prognosis and high tumor grade and after PSMB2 knockdown, the proliferation, invasion and migration of glioma cells were weakened.
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Affiliation(s)
- Wei He
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
- Institute of Neuroscience, Nanchang University, Nanchang, Jiangxi, China
| | - Zhe Zhang
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
- Institute of Neuroscience, Nanchang University, Nanchang, Jiangxi, China
| | - ZiLong Tan
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
| | - XinXian Liu
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
| | - ZeKun Wang
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
| | - Bo Xiong
- Department of Neurosurgery, The People's Hospital of Gao an, Yichun, China
| | - XiaoLi Shen
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China
| | - XinGen Zhu
- Department of Neurosurgery, The Second affiliated hospital, Jiangxi Medical College, Nanchang University, Nanchang, Jiangxi, China.
- Institute of Neuroscience, Nanchang University, Nanchang, Jiangxi, China.
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Li Z, Ying Y, Zeng X, Liu J, Xie Y, Deng Z, Hu Z, Yang J. DNMT1/DNMT3a-mediated promoter hypermethylation and transcription activation of ICAM5 augments thyroid carcinoma progression. Funct Integr Genomics 2024; 24:12. [PMID: 38228798 DOI: 10.1007/s10142-024-01293-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 01/03/2024] [Accepted: 01/05/2024] [Indexed: 01/18/2024]
Abstract
Promoter methylation is one of the most studied epigenetic modifications and it is highly relevant to the onset and progression of thyroid carcinoma (THCA). This study investigates the promoter methylation and expression pattern of intercellular adhesion molecule 5 (ICAM5) in THCA. CpG islands with aberrant methylation pattern in THCA, and the expression profiles of the corresponding genes in THCA, were analyzed using bioinformatics. ICAM5 was suggested to have a hypermethylation status, and it was highly expressed in THCA tissues and cells. Its overexpression promoted proliferation, mobility, and tumorigenic activity of THCA cells. As for the downstream signaling, ICAM5 was found to activate the MAPK/ERK and MAPK/JNK signaling pathways. Either inhibition of ERK or JNK blocked the oncogenic effects of ICAM5. DNA methyltransferases 1 (DNMT1) and DNMT3a were found to induce promoter hypermethylation of ICAM5 in THCA cells. Knockdown of DNMT1 or DNMT3a decreased the ICAM5 expression and suppressed malignant properties of THCA cells in vitro and in vivo, which were, however, restored by further artificial ICAM5 overexpression. Collectively, this study reveals that DNMT1 and DNMT3a mediates promoter hypermethylation and transcription activation of ICAM5 in THCA, which promotes malignant progression of THCA through the MAPK signaling pathway.
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Affiliation(s)
- Zanbin Li
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Yong Ying
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Xiangtai Zeng
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Jiafeng Liu
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Yang Xie
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Zefu Deng
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Zhiqiang Hu
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China
| | - Junjie Yang
- Department of Thyroid and Hernia Surgery, First Affiliated Hospital of Gannan Medical College, No. 128, Jinling West Road, Ganzhou, 341000, Jiangxi, People's Republic of China.
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Xiong C, Pan G, Wang H, Meng G, Yan L, Li R, Yan Y, Yang Y, Zhang X, Yang C, Dong Z, Li T. Construction of an anoikis‒related prognostic signature to predict immunotherapeutic response and prognosis in hepatocellular carcinoma. J Cancer Res Clin Oncol 2023; 149:16869-16884. [PMID: 37736789 DOI: 10.1007/s00432-023-05428-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Accepted: 09/13/2023] [Indexed: 09/23/2023]
Abstract
PURPOSE Anoikis resistance is an important inducer of tumor metastasis. The role of anoikis-related genes (ARGs) in hepatocellular carcinoma (HCC) remains unclear. METHODS A list of ARGs was obtained and regression analysis was employed to assemble an anoikis-related prognostic signature and risk score formula from mRNA data and clinical prognostic data downloaded from The Cancer Genome Atlas database. Quantitative real-time PCR (qRT-PCR) was performed on clinical samples to validate the selected ARGs expressions. Kaplan‒Meier curves, ROC curves, and Cox regression analyses were used to demonstrated the prognostic value of this signature. Biological functional enrichment analysis and immune infiltration analysis were utilized to analyze the differences in potential biological functions, immune cell infiltration, immune functions, and immunotherapeutic responses. RESULTS A prognostic signature based on 6 ARGs and corresponding prognostic nomogram were established. Our qRT-PCR results showed a higher expression of 6 ARGs in HCC tissues (p value < 0.05). Kaplan‒Meier curves, ROC curves, and Cox regression analyses demonstrated good prognostic value of the signature in HCC (p value < 0.05). Significant differences between the enriched biological functions and immune landscapes of patients in different risk groups were discovered (p value < 0.05). In addition, patients with higher risk scores possibly had poor therapeutic response to transhepatic arterial chemotherapy and embolization or sorafenib, but their responses to immunotherapy might be more effective. CONCLUSION A successful anoikis-related prognostic signature and corresponding clinical nomogram were established, which might facilitate better predictions of prognosis and therapeutic responses for HCC patients.
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Affiliation(s)
- Chen Xiong
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Guoqiang Pan
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Hanchao Wang
- Institute for Financial Studies, Shandong University, Jinan, 250100, China
| | - Guangxiao Meng
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Lunjie Yan
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Ruizhe Li
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Yuchuan Yan
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Yafei Yang
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Xiao Zhang
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Chuncheng Yang
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China
| | - Zhaoru Dong
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China.
| | - Tao Li
- Department of General Surgery, Qilu Hospital, Shandong University, Jinan, 250100, China.
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Yang X, Man D, Zhao P, Li X. Quantitative study of bioinformatics analysis on glioma: a bibliometric analysis. Front Oncol 2023; 13:1222797. [PMID: 38045000 PMCID: PMC10690598 DOI: 10.3389/fonc.2023.1222797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 10/09/2023] [Indexed: 12/05/2023] Open
Abstract
Background The bioinformatics analysis on glioma has been a hot point recently. The purpose of this study was to provide an overview of the research in this field using a bibliometric method. Methods The Web of Science Core Collection (WOSCC) database was used to search for literature related to the bioinformatics analysis of gliomas. Countries, institutions, authors, references, and keywords were analyzed using VOSviewer, CiteSpace, and Microsoft Excel software. Result China was the most productive country, while the USA was the most cited. Capital Medical University had the largest number of publications and citations. Institutions tend to collaborate more with other institutions in their countries rather than foreign ones. The most productive and most cited author was Jiang Tao. Two citation paths were identified, with literature in basic research journals often cited in clinical journals. Immune-related vocabularies appeared frequently in recent studies. Conclusion Glioma bioinformatics analyses spanned a wide range of fields. The international communication in this field urgently needs to be strengthened. Glioma bioinformatics approaches are developing from basic research to clinical applications. Recently, immune-related research has become a focus.
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Affiliation(s)
- Xiaobing Yang
- Department of Neurosurgery, Qilu Hospital, Cheeloo College of Medicine and Institute of Brain and Brain-Inspired Science, Shandong University, Jinan, China
- Jinan Microecological Biomedicine Shandong Laboratory and Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
- Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
| | - Dulegeqi Man
- Department of Neurosurgery, International Mongolia Hospital of Inner Mongolia, Hohhot, China
| | - Peng Zhao
- Department of Neurosurgery, Qilu Hospital, Cheeloo College of Medicine and Institute of Brain and Brain-Inspired Science, Shandong University, Jinan, China
- Jinan Microecological Biomedicine Shandong Laboratory and Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
- Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
| | - Xingang Li
- Department of Neurosurgery, Qilu Hospital, Cheeloo College of Medicine and Institute of Brain and Brain-Inspired Science, Shandong University, Jinan, China
- Jinan Microecological Biomedicine Shandong Laboratory and Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
- Shandong Key Laboratory of Brain Function Remodeling, Jinan, China
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Liu C, Zhang N, Xu Z, Wang X, Yang Y, Bu J, Cao H, Xiao J, Xie Y. Nuclear mitochondria-related genes-based molecular classification and prognostic signature reveal immune landscape, somatic mutation, and prognosis for glioma. Heliyon 2023; 9:e19856. [PMID: 37809472 PMCID: PMC10559255 DOI: 10.1016/j.heliyon.2023.e19856] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 08/22/2023] [Accepted: 09/04/2023] [Indexed: 10/10/2023] Open
Abstract
Background Glioma is the most frequent malignant primary brain tumor, and mitochondria may influence the progression of glioma. The aim of this study was to analyze the role of nuclear mitochondria related genes (MTRGs) in glioma, identify subtypes and construct a prognostic model based on nuclear MTRGs and machine learning algorithms. Methods Samples containing both gene expression profiles and clinical information were retrieved from the TCGA database, CGGA database, and GEO database. We selected 16 nuclear MTRGs and identified two clusters of glioma. Prognostic features, microenvironment, mutation landscape, and drug sensitivity were compared between the clusters. A prognostic model based on multiple machine learning algorithms was then constructed and validated by multiple datasets. Results We observed significant discrepancies between the two clusters. Cluster One had higher nuclear MTRG expression, a lower survival rate, and higher immune infiltration than Cluster Two. For the two clusters, we found distinct predictive drug sensitivities and responses to immune therapy, and the infiltration of immune cells was significantly different. Among the 22 combinations of machine learning algorithms we tested, LASSO was the most effective in constructing the prognostic model. The model's accuracy was further verified in three independent glioma datasets. We identified MGME1 as a vital gene associated with infiltrating immune cells in multiple types of tumors. Conclusion In short, our research identified two clusters of glioma and developed a dependable prognostic model based on machine learning methods. MGME1 was identified as a potential biomarker for multiple tumors. Our results will contribute to precise medicine and glioma management.
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Affiliation(s)
- Chang Liu
- College of Life Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- Second School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
| | - Ning Zhang
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- First School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Anhui Medical University, Hefei, 230022, Anhui, China
| | - Zhihao Xu
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- First School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
- Department of Neurosurgery, First Affiliated Hospital of Anhui Medical University, Hefei, 230022, Anhui, China
| | - Xiaofeng Wang
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
| | - Yang Yang
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- First School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
| | - Junming Bu
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- Second School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
| | - Huake Cao
- School of Basic Medical Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
- First School of Clinical Medicine, Anhui Medical University, Hefei, 230032, Anhui, China
| | - Jin Xiao
- Department of Neurosurgery, First Affiliated Hospital of Anhui Medical University, Hefei, 230022, Anhui, China
| | - Yinyin Xie
- College of Life Sciences, Anhui Medical University, Hefei, 230032, Anhui, China
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Pro- vs. Anti-Inflammatory Features of Monocyte Subsets in Glioma Patients. Int J Mol Sci 2023; 24:ijms24031879. [PMID: 36768201 PMCID: PMC9915868 DOI: 10.3390/ijms24031879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 01/12/2023] [Accepted: 01/14/2023] [Indexed: 01/19/2023] Open
Abstract
Monocytes constitute a heterogenous group of antigen-presenting cells that can be subdivided based on CD14, CD16 and SLAN expression. This division reflects the functional diversity of cells that may play different roles in a variety of pathologies including gliomas. In the current study, the three monocyte subpopulations: classical (CD14+ CD16+ SLAN-), intermediate (CD14dim CD16+ SLAN-) and non-classical (CD14low/- CD16+ SLAN+) in glioma patients' peripheral blood were analysed with flow cytometry. The immune checkpoint molecule (PD-1, PD-L1, SIRPalpha, TIM-3) expression along with pro- and anti-inflammatory cytokines (TNF, IL-12, TGF-beta, IL-10) were assessed. The significant overproduction of anti-inflammatory cytokines by intermediate monocytes was observed. Additionally, SLAN-positive cells overexpressed IL-12 and TNF when compared to the other two groups of monocytes. In conclusion, these results show the presence of different profiles of glioma patient monocytes depending on CD14, CD16 and SLAN expression. The bifold function of monocyte subpopulations might be an additional obstacle to the effectiveness of possible immunotherapies.
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