Virus Dataset Detail

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Dataset Information
Accession GSE229390
Status 2023/5/7
Title HSV-2 Triggers Upregulation of MALAT1 in CD4+ T cells and Promotes HIV Latency Reversal (Bulk RNA-Seq)
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary HSV-2 coinfection is associated with increased HIV-1 viral loads and expanded tissue reservoirs, but the mechanisms are not well-defined. HSV-2 recurrences result in an influx of activated CD4+ T cells to sites of viral replication and an increase in activated CD4+ T cells in peripheral blood. We hypothesized that HSV-2 induces changes in these cells that facilitate HIV-1 reactivation and replication and tested this hypothesis in human CD4+ T cells and 2D10 cells, a model of HIV-1 latency. HSV-2 promoted latency reversal in HSV-2 infected and bystander 2D10 cells. Bulk and single-cell RNA sequencing studies of activated primary human CD4+ T cells identified decreased expression of HIV-1 restriction factors and increased expression of transcripts including MALAT1 that could drive HIV replication in both the HSV-2-infected and bystander cells. Transfection of 2D10 cells with VP16, an HSV-2 protein that regulates transcription, significantly upregulated MALAT1 expression, decreased trimethylation of lysine 27 on histone H3 protein, and triggered HIV latency reversal. Knockout of MALAT1 from 2D10 cells abrogated the response to VP16 and reduced the response to HSV-2 infection. These results demonstrate that HSV-2 contributes to HIV-1 reactivation through diverse mechanisms including upregulation of MALAT1 to release epigenetic silencing.
Samples
GSM ID Sample info Characteristics Description
GSM7162697 7_N_1.tabular patient id:7; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162698 7_N_2.tabular patient id:7; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162699 7_P_1.tabular patient id:7; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162700 7_P_2.tabular patient id:7; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162701 7_UI_1.tabular patient id:7; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162702 7_UI_2.tabular patient id:7; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162703 8_N_1.tabular patient id:8; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162704 8_N_2.tabular patient id:8; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162705 8_P_1.tabular patient id:8; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162706 8_P_2.tabular patient id:8; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162707 8_UI_1.tabular patient id:8; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162708 8_UI_2.tabular patient id:8; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162709 9_N_1.tabular patient id:9; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162710 9_P_1.tabular patient id:9; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162711 9_UI_1.tabular patient id:9; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162685 5_N_1.tabular patient id:5; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162686 5_N_2.tabular patient id:5; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162687 5_P_1.tabular patient id:5; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162688 5_P_2.tabular patient id:5; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162689 5_UI_1.tabular patient id:5; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162690 5_UI_2.tabular patient id:5; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162691 6_N_1.tabular patient id:6; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162692 6_N_2.tabular patient id:6; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162693 6_P_1.tabular patient id:6; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162694 6_P_2.tabular patient id:6; cell type:CD4+ T cells; treatment:HSV-2(333 ZAG) at MOI = 10; time:24hpi 100bp;30M reads
GSM7162695 6_UI_1.tabular patient id:6; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
GSM7162696 6_UI_2.tabular patient id:6; cell type:CD4+ T cells; treatment:mock infected; time:24hpi 100bp;30M reads
Platform GPL24676  : Illumina NovaSeq 6000 (Homo sapiens)
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* p<0.05 ** p<0.01