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Analysis of chromatin accessibility in decidualizing human endometrial stromal cells
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Vrljicak, Pavle, Lucas, Emma S., Lansdowne, Lauren, Lucciola, Raffaella, Muter, Joanne, Dyer, Nigel P., Brosens, Jan J. and Ott, Sascha (2018) Analysis of chromatin accessibility in decidualizing human endometrial stromal cells. FASEB Journal, 32 (5). 2467-2477 . doi:10.1096/fj.201701098R
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Official URL: http://doi.org/10.1096/fj.201701098R
Abstract
Spontaneous decidualization of the endometrium in response to progesterone signaling is confined to menstruating species, including humans and other higher primates. During this process, endometrial stromal cells (EnSCs) differentiate into specialized decidual cells that control embryo implantation. We subjected undifferentiated and decidualizing human EnSCs to an assay for transposase accessible chromatin with sequencing (ATAC-seq) to map the underlying chromatin changes. A total of 185,084 open DNA loci were mapped accurately in EnSCs. Altered chromatin accessibility upon decidualization was strongly associated with differential gene expression. Analysis of 1533 opening and closing chromatin regions revealed over-representation of DNA binding motifs for known decidual transcription factors (TFs) and identified putative new regulators. ATAC-seq footprint analysis provided evidence of TF binding at specific motifs. One of the largest footprints involved the most enriched motif-basic leucine zipper-as part of a triple motif that also comprised the estrogen receptor and Pax domain binding sites. Without exception, triple motifs were located within Alu elements, which suggests a role for this primate-specific transposable element (TE) in the evolution of decidual genes. Although other TEs were generally under-represented in open chromatin of undifferentiated EnSCs, several classes contributed to the regulatory DNA landscape that underpins decidual gene expression.
| Item Type: | Journal Article | |||||||||
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| Subjects: | R Medicine > RG Gynecology and obstetrics | |||||||||
| Divisions: | Faculty of Medicine > Warwick Medical School > Biomedical Sciences Faculty of Science > Computer Science Faculty of Science > Life Sciences (2010- ) Faculty of Medicine > Warwick Medical School |
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| SWORD Depositor: | Library Publications Router | |||||||||
| Library of Congress Subject Headings (LCSH): | Human embryo -- Transplantation -- Physiological aspects, Endometrium, Progesterone, Genetic regulation, Chromatin | |||||||||
| Journal or Publication Title: | FASEB Journal | |||||||||
| Publisher: | Federation of American Societies for Experimental Biology | |||||||||
| ISSN: | 0892-6638 | |||||||||
| Official Date: | 1 May 2018 | |||||||||
| Dates: |
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| Date of first compliant deposit: | 3 January 2018 | |||||||||
| Volume: | 32 | |||||||||
| Number: | 5 | |||||||||
| Page Range: | 2467-2477 | |||||||||
| DOI: | 10.1096/fj.201701098R | |||||||||
| Status: | Peer Reviewed | |||||||||
| Publication Status: | Published | |||||||||
| Publisher Statement: | ** From PubMed via Jisc Publications Router. ** History: received 09-10-2017; accepted 04-12-2017. | |||||||||
| Access rights to Published version: | Open Access | |||||||||
| RIOXX Funder/Project Grant: |
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