Transcriptional profile of sorted Th1 or Tfh from CD4 T cells with defieciency of Dnmt3a and/or Tet2 (set 1)

DNA methylation programming is associated with enforcement of T cell dysfunction in the context of chronic viral infection. Loss of function in Tet2 and Dnmt3a is also associated with peripheral T cell lymphomas and human angioimmunoblastic T cell lymphoma. As such, we set to test how the loss of either Dnmt3a or Tet2 as well as the combined loss of Dnmt3a and Tet2 would fundamentally alter CD4 T cell functional and response during chronic viral infection. Overall design: We utilized an adoptively-transfer model with SMARTA CD4 T cells (Cre+) with either Tet2 KO or Dnmt3a f/f or Tet2 KO; Dnmt3a f/f. Chronic viral infection was induced by infecting mice with LCMV-cl13. At day 7 post-infection, spleens were isolated and FACS sorting utilized to sort Th1 or Tfh SMARTA CD4 T cells. RNA was isolated by Tri-Reagent and purified by Direct-zol RNA-prep kit from Zymo.