Methylationâinduced gene silencing represents a major obstacle to efficient transgene expression in pluripotent cells and thereof derived tissues. As ubiquitous chromatin opening elements (UCOE) have been shown to prevent transgene silencing in cell lines and primary hematopoietic cells, we hypothesized a similar activity in pluripotent cells. This concept was investigated in the context of cytidine deaminase (CDD) gene transfer, an approach to render hematopoietic cells resistant to the chemotherapeutic agent AraâC. When murine induced pluripotent stem cells (iPSC)/embryonic stem cells (ESCs) were transduced with selfâinactivating lentiviral vectors using housekeeping (truncated elongation factor 1α; EFS) or viral (spleen focusâforming virus; SFFV) promoters, incorporation of an heterogeneous nuclear ribonucleoproteins A2 B1/chromobox protein homolog 3 locusâderived UCOE (A2UCOE) significantly increased transgene expression and AraâC resistance and effectively prevented silencing of the SFFVâpromoter. The EFS promoter showed relatively stable transgene expression in naĂŻve iPSCs, but rapid transgene silencing was observed upon hematopoietic differentiation. When combined with the A2UCOE, however, the EFS promoter yielded stable transgene expression in 73% ± 6% of CD41+ hematopoietic progeny, markedly increased CDD expression levels, and significantly enhanced AraâC resistance in clonogenic cells. Bisulfite sequencing revealed protection from differentiationâinduced promoter CpG methylation to be associated with these effects. Similar transgene promoting activities of the A2UCOE were observed during murine neurogenic differentiation, in naĂŻve human pluripotent cells, and during nondirected multilineage differentiation of these cells. Thus, our data provide strong evidence that UCOEs can efficiently prevent transgene silencing in iPS/ESCs and their differentiated progeny and thereby introduce a generalized concept to circumvent differentiationâinduced transgene silencing during the generation of advanced iPSC/ESCâbased gene and cell therapy products. STEM CELLS2013;31:488â499