Angiotensin receptor blockers and CD4 T cell transcriptional and epigenetic states in systemic lupus erythematosus. RNAseq [ATAC-seq]

In systemic lupus erythematosus (lupus), environmental effects acting within a permissive genetic background lead to autoimmune dysregulation. Dysfunction of CD4+ T cells contributes to pathology by providing help to autoreactive B and T cells, and CD4+ T cell dysfunction coincides with altered DNA methylation and histone modifications of select gene loci. However, chromatin accessibility states of distinct T cell subsets and mechanisms driving heterogeneous chromatin states across patients remain poorly understood. We defined the transcriptome and epigenome of multiple CD4+ T cell populations from lupus patients and healthy individuals. Most lupus patients, regardless of disease activity, had enhanced chromatin accessibility bearing hallmarks of inflammatory cytokine signals. Single cell approaches revealed that chromatin changes extended to naive CD4+ T cells; uniformly affecting naive subpopulations. Transcriptional data and cellular and protein analyses suggested that the TNF family members, TNFɑ, LIGHT, and TWEAK, were linked to observed molecular changes and the altered lupus chromatin state. However, we identified a patient subgroup prescribed angiotensin receptor blockers (ARBs) which lacked TNF-linked lupus chromatin accessibility features. These data raise questions about the role of lupus-associated chromatin changes in naive CD4+ T cell activation and differentiation and implicate ARBs in the regulation of disease-driven epigenetic states ATAC Seq Samples from sorted populations of CD4+ T cells. CD4 T cells were enriched from human PBMCs and then sorted for CD45RA+CD27+ naive TH, CXCR5+PD1+ICOS+CD38+ AcTfh, CXCR5+PD1+ICOSCD38- cTfh, and CXCR5-PD1-CXCR3+ Th1 cells. Cell come from individuals with Lupus and healthy individuals