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Nat Commun. 2019 Oct 18;10(1):4749. doi: 10.1038/s41467-019-12720-6.

Super-enhancer-guided mapping of regulatory networks controlling mouse trophoblast stem cells.

Author information

1
Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX, 78712, USA.
2
Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, 78712, USA.
3
Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX, 78712, USA. jonghwankim@mail.utexas.edu.
4
Institute for Cellular and Molecular Biology, The University of Texas at Austin, Austin, TX, 78712, USA. jonghwankim@mail.utexas.edu.
5
Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX, 78712, USA. jonghwankim@mail.utexas.edu.

Abstract

Trophectoderm (TE) lineage development is pivotal for proper implantation, placentation, and healthy pregnancy. However, only a few TE-specific transcription factors (TFs) have been systematically characterized, hindering our understanding of the process. To elucidate regulatory mechanisms underlying TE development, here we map super-enhancers (SEs) in trophoblast stem cells (TSCs) as a model. We find both prominent TE-specific master TFs (Cdx2, Gata3, and Tead4), and >150 TFs that had not been previously implicated in TE lineage, that are SE-associated. Mapping targets of 27 SE-predicted TFs reveals a highly intertwined transcriptional regulatory circuitry. Intriguingly, SE-predicted TFs show 4 distinct expression patterns with dynamic alterations of their targets during TSC differentiation. Furthermore, depletion of a subset of TFs results in dysregulation of the markers for specialized cell types in placenta, suggesting a role during TE differentiation. Collectively, we characterize an expanded TE-specific regulatory network, providing a framework for understanding TE lineage development and placentation.

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