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Lineage-resolved enhancer and promoter usage during a time course of embryogenesis

Item Type:Article
Title:Lineage-resolved enhancer and promoter usage during a time course of embryogenesis
Creators Name:Reddington, J.P. and Garfield, D.A. and Sigalova, O.M. and Karabacak Calviello, A. and Marco-Ferreres, R. and Girardot, C. and Viales, R.R. and Degner, J.F. and Ohler, U. and Furlong, E.E.M.
Abstract:Enhancers are essential drivers of cell states, yet the relationship between accessibility, regulatory activity, and in vivo lineage commitment during embryogenesis remains poorly understood. Here, we measure chromatin accessibility in isolated neural and mesodermal lineages across a time course of Drosophila embryogenesis. Promoters, including tissue-specific genes, are often constitutively open, even in contexts where the gene is not expressed. In contrast, the majority of distal elements have dynamic, tissue-specific accessibility. Enhancer priming appears rarely within a lineage, perhaps reflecting the speed of Drosophila embryogenesis. However, many tissue-specific enhancers are accessible in other lineages early on and become progressively closed as embryogenesis proceeds. We demonstrate the usefulness of this tissue- and time-resolved resource to definitively identify single-cell clusters, to uncover predictive motifs, and to identify many regulators of tissue development. For one such predicted neural regulator, l(3)neo38, we generate a loss-of-function mutant and uncover an essential role for neuromuscular junction and brain development.
Keywords:Chromatin Accessibility, Transcription-Factor Occupancy, DNase-Seq, Developmental Enhancers, Priming, Embryogenesis, Animals, Drosophila melanogaster
Source:Developmental Cell
Publisher:Cell Press
Page Range:648-664
Date:7 December 2020
Official Publication:https://doi.org/10.1016/j.devcel.2020.10.009
PubMed:View item in PubMed

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