An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication
Abstract. Background:. Previous studies have examined the bulk transcriptome of peripheral blood immune cells in acquired immunodeficiency syndrome patients experiencing immunological non-responsiveness. This study aimed to investigate the characteristics of specific immune cell subtypes in acquire...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Wolters Kluwer
2023-11-01
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| Series: | Chinese Medical Journal |
| Online Access: | http://journals.lww.com/10.1097/CM9.0000000000002918 |
| _version_ | 1797449490402115584 |
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| author | Yahong Chen Xin Li Shuran Liu Wen Ao Jing Lin Zhenting Li Shouli Wu Hanhui Ye Xiao Han Dongliang Li Sihan Zhou Xiuyuan Hao |
| author_facet | Yahong Chen Xin Li Shuran Liu Wen Ao Jing Lin Zhenting Li Shouli Wu Hanhui Ye Xiao Han Dongliang Li Sihan Zhou Xiuyuan Hao |
| author_sort | Yahong Chen |
| collection | DOAJ |
| description | Abstract.
Background:. Previous studies have examined the bulk transcriptome of peripheral blood immune cells in acquired immunodeficiency syndrome patients experiencing immunological non-responsiveness. This study aimed to investigate the characteristics of specific immune cell subtypes in acquired immunodeficiency syndrome patients who exhibit immunological non-responsiveness.
Methods:. A single-cell transcriptome sequencing of peripheral blood mononuclear cells obtained from both immunological responders (IRs) (CD4+ T-cell count >500) and immunological non-responders (INRs) (CD4+ T-cell count <300) was conducted. The transcriptomic profiles were used to identify distinct cell subpopulations, marker genes, and differentially expressed genes aiming to uncover potential genetic factors associated with immunological non-responsiveness.
Results:. Among the cellular subpopulations analyzed, the ratios of monocytes, CD16+ monocytes, and exhausted B cells demonstrated the most substantial differences between INRs and IRs, with fold changes of 39.79, 11.08, and 2.71, respectively. In contrast, the CD4+ T cell ratio was significantly decreased (0.39-fold change) in INRs compared with that in IRs. Similarly, the ratios of natural killer cells and terminal effector CD8+ T cells were also lower (0.37-fold and 0.27-fold, respectively) in the INRs group. In addition to several well-characterized immune cell-specific markers, we identified a set of 181 marker genes that were enriched in biological pathways associated with human immunodeficiency virus (HIV) replication. Notably, ISG15, IFITM3, PLSCR1, HLA-DQB1, CCL3L1, and DDX5, which have been demonstrated to influence HIV replication through their interaction with viral proteins, emerged as significant monocyte marker genes. Furthermore, the differentially expressed genes in natural killer cells were also enriched in biological pathways associated with HIV replication.
Conclusions:. We generated an atlas of immune cell transcriptomes in HIV-infected IRs and INRs. Host genes associated with HIV replication were identified as markers of, and were found to be differentially expressed in, different types of immune cells. |
| first_indexed | 2024-03-09T14:26:51Z |
| format | Article |
| id | doaj.art-69af4222c9694171b83461de1b853b11 |
| institution | Directory Open Access Journal |
| issn | 0366-6999 2542-5641 |
| language | English |
| last_indexed | 2024-03-09T14:26:51Z |
| publishDate | 2023-11-01 |
| publisher | Wolters Kluwer |
| record_format | Article |
| series | Chinese Medical Journal |
| spelling | doaj.art-69af4222c9694171b83461de1b853b112023-11-28T07:08:38ZengWolters KluwerChinese Medical Journal0366-69992542-56412023-11-01136222694270510.1097/CM9.0000000000002918202311200-00006An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replicationYahong Chen0Xin Li1Shuran Liu2Wen Ao3Jing Lin4Zhenting Li5Shouli Wu6Hanhui Ye7Xiao Han8Dongliang Li9Sihan ZhouXiuyuan Hao1 Department of infection, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou, Fujian 350025, China3 College of Biological Science and Engineering, Fuzhou University, Fuzhou, Fujian 350025, China3 College of Biological Science and Engineering, Fuzhou University, Fuzhou, Fujian 350025, China1 Department of infection, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou, Fujian 350025, China1 Department of infection, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou, Fujian 350025, China1 Department of infection, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou, Fujian 350025, China4 Fujian Provincial Center for Disease Control and Prevention, No. 76 Jintai Road, Fuzhou, Fujian 350001, China1 Department of infection, Mengchao Hepatobiliary Hospital of Fujian Medical University, Fuzhou, Fujian 350025, China3 College of Biological Science and Engineering, Fuzhou University, Fuzhou, Fujian 350025, China2 Department of infection, Fuzong Clinical Medical College of Fujian Medical University, Fuzhou, Fujian 362002, ChinaAbstract. Background:. Previous studies have examined the bulk transcriptome of peripheral blood immune cells in acquired immunodeficiency syndrome patients experiencing immunological non-responsiveness. This study aimed to investigate the characteristics of specific immune cell subtypes in acquired immunodeficiency syndrome patients who exhibit immunological non-responsiveness. Methods:. A single-cell transcriptome sequencing of peripheral blood mononuclear cells obtained from both immunological responders (IRs) (CD4+ T-cell count >500) and immunological non-responders (INRs) (CD4+ T-cell count <300) was conducted. The transcriptomic profiles were used to identify distinct cell subpopulations, marker genes, and differentially expressed genes aiming to uncover potential genetic factors associated with immunological non-responsiveness. Results:. Among the cellular subpopulations analyzed, the ratios of monocytes, CD16+ monocytes, and exhausted B cells demonstrated the most substantial differences between INRs and IRs, with fold changes of 39.79, 11.08, and 2.71, respectively. In contrast, the CD4+ T cell ratio was significantly decreased (0.39-fold change) in INRs compared with that in IRs. Similarly, the ratios of natural killer cells and terminal effector CD8+ T cells were also lower (0.37-fold and 0.27-fold, respectively) in the INRs group. In addition to several well-characterized immune cell-specific markers, we identified a set of 181 marker genes that were enriched in biological pathways associated with human immunodeficiency virus (HIV) replication. Notably, ISG15, IFITM3, PLSCR1, HLA-DQB1, CCL3L1, and DDX5, which have been demonstrated to influence HIV replication through their interaction with viral proteins, emerged as significant monocyte marker genes. Furthermore, the differentially expressed genes in natural killer cells were also enriched in biological pathways associated with HIV replication. Conclusions:. We generated an atlas of immune cell transcriptomes in HIV-infected IRs and INRs. Host genes associated with HIV replication were identified as markers of, and were found to be differentially expressed in, different types of immune cells.http://journals.lww.com/10.1097/CM9.0000000000002918 |
| spellingShingle | Yahong Chen Xin Li Shuran Liu Wen Ao Jing Lin Zhenting Li Shouli Wu Hanhui Ye Xiao Han Dongliang Li Sihan Zhou Xiuyuan Hao An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication Chinese Medical Journal |
| title | An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication |
| title_full | An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication |
| title_fullStr | An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication |
| title_full_unstemmed | An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication |
| title_short | An atlas of immune cell transcriptomes in human immunodeficiency virus-infected immunological non-responders identified marker genes that control viral replication |
| title_sort | atlas of immune cell transcriptomes in human immunodeficiency virus infected immunological non responders identified marker genes that control viral replication |
| url | http://journals.lww.com/10.1097/CM9.0000000000002918 |
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