Genome binding/occupancy profiling by high throughput sequencing Expression profiling by high throughput sequencing
Summary
A challenge for understanding the development of brain circuits is to identify the factors that instruct neurons to accomplish each developmental step at the appropriate stage. Neuronal maturation follows an intrinsic species-specific developmental pace that is extremely protracted in humans and that is retained during human pluripotent stem cells (hPSCs) differentiations. Using a novel platform that synchronized the generation of cortical neurons from hPSC, we established morphological, functional, and molecular roadmaps of maturation. We found that the temporal unfolding of maturation programs proceeds gradually and is limited by the retention of complex epigenetic signatures. Loss-of-function of multiple such epigenetic factors at the neuron stage triggered precocious molecular and functional maturation. Remarkably, transient pharmacological manipulation of a subset of epigenetic factors, including EZH2, EHMT1/2 and DOT1L, at the progenitor cell stage can prime precursors to reach enhanced molecular and functional signatures of maturity as neurons. Our results indicate that the rate at which neurons mature is set well before neurogenesis through the establishment of an “epigenetic barrier” in progenitor cells that gets slowly erased in neurons, allowing the gradual onset of maturation programs.
Overall design
Cleavage Under Targets and Release Using Nuclease (CUT&RUN) enriching for histone modifications in human pluripotent stem cell (hPSC)-derived neural progenitor cells and neurons. Cleavage Under Targets and Release Using Nuclease (CUT&RUN) enriching for histone modifications in human pluripotent stem cell (hPSC)-derived neural progenitor cells treated with DMSO or inhibitors of chromatin modifiers. RNA sequencing of WA09 (H9) human pluripotent stem cell (hPSC)-derived neurons at different stages of differentiation and treated with DMSO or inhibitors of chromatin modifiers. RNA sequencing of MSK_SRF001 induced human pluripotent stem cell (hPSC)-derived neurons at day 37 of differentiation and treated with DMSO or inhibitors of chromatin modifiers. RNA sequencing of induced human pluripotent stem cell (hPSC)-derived neurons at day 38 of differentiation and treated with DMSO or inhibitors of chromatin modifiers.
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