Three-dimensional genome architecture coordinates key regulators of lineage specification in mammary epithelial cells

Milevskiy, Michael JG; Coughlan, Hannah D; Kane, Serena R; Johanson, Timothy M; Kordafshari, Somayeh; Chan, Wing Fuk; Tsai, Minhsuang; Surgenor, Elliot; Wilcox, Stephen; Allan, Rhys S; Chen, Yunshun; Lindeman, Geoffrey J; Smyth, Gordon K; Visvader, Jane E

Author(s): Milevskiy, Michael JG; Coughlan, Hannah D; Kane, Serena R; Johanson, Timothy M; Kordafshari, Somayeh; Chan, Wing Fuk; Tsai, Minhsuang; Surgenor, Elliot; Wilcox, Stephen; Allan, Rhys S; Chen, Yunshun; Lindeman, Geoffrey J; Smyth, Gordon K; Visvader, Jane E;
Details: Publication Year 2023-11-08,Volume 3,Issue #11,Page 100424
Journal Title: Cell Genomics
Abstract: Summary Although lineage-specific genes have been identified in the mammary gland, little is known about the contribution of the 3D genome organization to gene regulation in the epithelium. Here, we describe the chromatin landscape of the three major epithelial subsets through integration of long- and short-range chromatin interactions, accessibility, histone modifications, and gene expression. While basal genes display exquisite lineage specificity via distal enhancers, luminal-specific genes show widespread promoter priming in basal cells. Cell specificity in luminal progenitors is largely mediated through extensive chromatin interactions with super-enhancers in gene-body regions in addition to interactions with polycomb silencer elements. Moreover, lineage-specific transcription factors appear to be controlled through cell-specific chromatin interactivity. Finally, chromatin accessibility rather than interactivity emerged as a defining feature of the activation of quiescent basal stem cells. This work provides a comprehensive resource for understanding the role of higher-order chromatin interactions in cell-fate specification and differentiation in the adult mouse mammary gland.
Publisher: Elsevier
Keywords: mammary gland; epigenetics; enhancer; chromatin looping; stem cells; transcription factors; polycomb
Research Division(s): Advanced Technology And Biology; Bioinformatics; Immunology; Cancer Biology And Stem Cells; Bioinformatics; Immunology; Advanced Technology and Biology
Publisher's Version: https://doi.org/10.1016/j.xgen.2023.100424
Open Access at Publisher's Site: https://doi.org/https://doi.org/10.1016/j.xgen.2023.100424
Terms of Use/Rights Notice: Refer to copyright notice on published article.
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Creation Date: 2023-11-15 05:35:23

Last Modified: 2023-12-13 10:19:48