Dynamics of the 4D genome during in vivo lineage specification and differentiation

A. Marieke Oudelaar; Robert A. Beagrie; Matthew Gosden; Sara de Ornellas; Emily Georgiades; Jon Kerry; Daniel Hidalgo; Joana Carrelha; Arun Shivalingam; Afaf H. El-Sagheer; Jelena M. Telenius; Tom Brown; Veronica J. Buckle; Merav Socolovsky; Douglas R. Higgs; Jim R. Hughes

doi:10.1038/s41467-020-16598-7

Nature Communications (Jun 2020)

Dynamics of the 4D genome during in vivo lineage specification and differentiation

A. Marieke Oudelaar,
Robert A. Beagrie,
Matthew Gosden,
Sara de Ornellas,
Emily Georgiades,
Jon Kerry,
Daniel Hidalgo,
Joana Carrelha,
Arun Shivalingam,
Afaf H. El-Sagheer,
Jelena M. Telenius,
Tom Brown,
Veronica J. Buckle,
Merav Socolovsky,
Douglas R. Higgs,
Jim R. Hughes

Affiliations

A. Marieke Oudelaar: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Robert A. Beagrie: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Matthew Gosden: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Sara de Ornellas: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Emily Georgiades: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Jon Kerry: MRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Daniel Hidalgo: Department of Molecular, Cell and Cancer Biology, University of Massachusetts Medical School Worcester
Joana Carrelha: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Arun Shivalingam: Department of Chemistry, University of Oxford
Afaf H. El-Sagheer: Department of Chemistry, University of Oxford
Jelena M. Telenius: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Tom Brown: Department of Chemistry, University of Oxford
Veronica J. Buckle: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Merav Socolovsky: Department of Molecular, Cell and Cancer Biology, University of Massachusetts Medical School Worcester
Douglas R. Higgs: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford
Jim R. Hughes: MRC Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford

DOI: https://doi.org/10.1038/s41467-020-16598-7
Journal volume & issue: Vol. 11, no. 1
pp. 1 – 12

Abstract

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The relationship between regulatory elements, chromatin interactions and gene expression during development remains poorly understood. Here the authors present Tiled-C, a low-input 3C approach to study genome architecture at high resolution, and apply it to mouse erythroid differentiation in vivo, finding that enhancer-promoter interactions are formed gradually during differentiation, concomitant with progressive upregulation of gene activity.

Published in Nature Communications

ISSN: 2041-1723 (Online)
Publisher: Nature Portfolio
Country of publisher: United Kingdom
LCC subjects: Science
Website: https://www.nature.com/ncomms/

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