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The Nucleosome Map of the Mammalian Liver

Mammalian genomes contain billions of basepairs of DNA that must be highly compacted as chromatin to fit into the nano-scale of the nucleus, but yet be accessible to allow for transcription to occur. Binding to nucleosomal DNA is critical for ‘pioneer’ transcription factors such as the winged helix...

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Autores principales: Li, Zhaoyu, Schug, Jonathan, Tuteja, Geetu, White, Peter, Kaestner, Klaus H.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3148658/
https://www.ncbi.nlm.nih.gov/pubmed/21623366
http://dx.doi.org/10.1038/nsmb.2060
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author Li, Zhaoyu
Schug, Jonathan
Tuteja, Geetu
White, Peter
Kaestner, Klaus H.
author_facet Li, Zhaoyu
Schug, Jonathan
Tuteja, Geetu
White, Peter
Kaestner, Klaus H.
author_sort Li, Zhaoyu
collection PubMed
description Mammalian genomes contain billions of basepairs of DNA that must be highly compacted as chromatin to fit into the nano-scale of the nucleus, but yet be accessible to allow for transcription to occur. Binding to nucleosomal DNA is critical for ‘pioneer’ transcription factors such as the winged helix transcription factors Foxa1 and Foxa2 to regulate chromatin structure and gene activation. Here we report the genome-wide map of nucleosome positions in the mouse liver, with emphasis on transcriptional start sites, CpG islands, Foxa2 binding sites, and their correlation with gene expression. Despite the heterogeneity of liver tissue, we could clearly discern the nucleosome pattern of the predominant liver cell, the hepatocyte. By analyzing nucleosome occupancy and the distributions of heterochromatin protein 1 (Hp1), CBP (also known as Crebbp), and p300 (Ep300) in Foxa1/2-deficient livers we find, surprisingly, that the maintenance of nucleosome position and chromatin structure surrounding Foxa2 binding sites is independent of Foxa1/2.
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spelling pubmed-31486582011-12-01 The Nucleosome Map of the Mammalian Liver Li, Zhaoyu Schug, Jonathan Tuteja, Geetu White, Peter Kaestner, Klaus H. Nat Struct Mol Biol Article Mammalian genomes contain billions of basepairs of DNA that must be highly compacted as chromatin to fit into the nano-scale of the nucleus, but yet be accessible to allow for transcription to occur. Binding to nucleosomal DNA is critical for ‘pioneer’ transcription factors such as the winged helix transcription factors Foxa1 and Foxa2 to regulate chromatin structure and gene activation. Here we report the genome-wide map of nucleosome positions in the mouse liver, with emphasis on transcriptional start sites, CpG islands, Foxa2 binding sites, and their correlation with gene expression. Despite the heterogeneity of liver tissue, we could clearly discern the nucleosome pattern of the predominant liver cell, the hepatocyte. By analyzing nucleosome occupancy and the distributions of heterochromatin protein 1 (Hp1), CBP (also known as Crebbp), and p300 (Ep300) in Foxa1/2-deficient livers we find, surprisingly, that the maintenance of nucleosome position and chromatin structure surrounding Foxa2 binding sites is independent of Foxa1/2. 2011-05-29 2011-06 /pmc/articles/PMC3148658/ /pubmed/21623366 http://dx.doi.org/10.1038/nsmb.2060 Text en Users may view, print, copy, download and text and data- mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Li, Zhaoyu
Schug, Jonathan
Tuteja, Geetu
White, Peter
Kaestner, Klaus H.
The Nucleosome Map of the Mammalian Liver
title The Nucleosome Map of the Mammalian Liver
title_full The Nucleosome Map of the Mammalian Liver
title_fullStr The Nucleosome Map of the Mammalian Liver
title_full_unstemmed The Nucleosome Map of the Mammalian Liver
title_short The Nucleosome Map of the Mammalian Liver
title_sort nucleosome map of the mammalian liver
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3148658/
https://www.ncbi.nlm.nih.gov/pubmed/21623366
http://dx.doi.org/10.1038/nsmb.2060
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