Parallel Single-Cell Sequencing Links Transcriptional and Epigenetic Heterogeneity Researchers report scM&T-seq, a method for parallel single-cell genome-wide methylome and transcriptome sequencing that allows for the discovery of associations between transcriptional and epigenetic variation. Profiling of 61 mouse embryonic stem cells confirmed known links between DNA methylation and transcription. [Nat Methods] Abstract FOXD3 Regulates Pluripotent Stem Cell Potential by Simultaneously Initiating and Repressing Enhancer Activity Scientists evaluated regulation of enhancer activity during differentiation of embryonic stem to epiblast cells and uncovered the forkhead transcription factor FOXD3 as a major regulator of the developmental potential of both pluripotent states. [Cell Stem Cell] Abstract | Graphical Abstract Pluripotency-Associated miR-290/302 Family of MicroRNAs Promote the Dismantling of Naive Pluripotency Investigators revealed microRNAs (miRNAs) as an important class of regulators potentiating embryonic stem cells to transition from naive to primed pluripotency, and uncovers context-dependent functions of the miR-290/302 family of miRNAs at different developmental stages. [Cell Res] Full Article Reprogramming Triggers Endogenous L1 and Alu Retrotransposition in Human Induced Pluripotent Stem Cells Scientists applied retrotransposon capture sequencing to eight human induced pluripotent stem cells lines and three human embryonic stem cell lines, revealing endogenous LINE-1 (L1), Alu and SINE-VNTR-Alu mobilization during reprogramming and pluripotent stem cell cultivation. [Nat Commun] Full Article Enhanced Engraftment, Proliferation, and Therapeutic Potential in Heart Using Optimized Human iPSC-Derived Cardiomyocytes To optimize graft cells for cardiac reconstruction, investigators compared the engraftment efficiency of intramyocardially-injected undifferentiated-induced pluripotent stem cells (iPSCs), day 4 mesodermal cells, and day 8, day 20, and day 30 purified iPSC-cardiomyocytes after initial differentiation by tracing the engraftment ratio using in vivo bioluminescence imaging. [Sci Rep] Full Article | Press Release BMP Sustains Embryonic Stem Cell Self-Renewal through Distinct Functions of Different Krüppel-like Factors The authors examined the roles of bone morphogenetic protein (BMP)-4 using mouse embryonic stem cells (mESCs) in naive and primed states. SMAD1 and SMAD5, which transduce BMP signals, recognize enhancer regions together with KLF4 and KLF5 in naive mESCs. [Stem Cell Reports] Full Article | Graphical Abstract Overcoming Pluripotent Stem Cell Dependence on the Repair of Endogenous DNA Damage Investigators reveal that pluripotent stem cells possess hyperactive CHK1 signaling that restricts their self-renewal in the absence of error-free DNA repair. [Stem Cell Reports] Full Article | Graphical Abstract | Press Release Regulation of c-Myc Expression by Ahnak Promotes Induced Pluripotent Stem Cell Generation Researchers showed that inhibition of Ahnak can promote generation of induced pluripotent stem cells via up-regulation of endogenous c-Myc. [J Biol Chem] Abstract Expression of Ribosomal RNA and Protein Genes in Human Embryonic Stem Cells Is Associated with the Activating H3K4me3 Histone Mark Investigators tested the hypothesis that expression of ribosomal RNA and ribosomal protein genes contribute to the ability of human embryonic stem cells to proliferate indefinitely. [J Cell Physiol] Abstract |