A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle

BACKGROUND: The CCCTC-binding factor (CTCF) is a highly conserved insulator protein that plays various roles in many cellular processes. CTCF is one of the main architecture proteins in higher eukaryotes, and in combination with other architecture proteins and regulators, also shapes the three-dimen...

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Autores principales:	Shen,Wenlong, Wang,Dong, Ye,Bingyu, Shi,Minglei, Zhang,Yan, Zhao,Zhihu
Lenguaje:	English
Publicado:	Sociedad de Biología de Chile 2015
Materias:	dCTCF Cell cycle Chromatin domains Mitotic bookmarking Bioinformatics
Acceso en línea:	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100027
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spelling	oai:scielo:S0716-976020150001000272016-02-16A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycleShen,WenlongWang,DongYe,BingyuShi,MingleiZhang,YanZhao,Zhihu dCTCF Cell cycle Chromatin domains Mitotic bookmarking Bioinformatics BACKGROUND: The CCCTC-binding factor (CTCF) is a highly conserved insulator protein that plays various roles in many cellular processes. CTCF is one of the main architecture proteins in higher eukaryotes, and in combination with other architecture proteins and regulators, also shapes the three-dimensional organization of a genome. Experiments show CTCF partially remains associated with chromatin during mitosis. However, the role of CTCF in the maintenance and propagation of genome architectures throughout the cell cycle remains elusive. RESULTS: We performed a comprehensive bioinformatics analysis on public datasets of Drosophila CTCF (dCTCF). We characterized dCTCF-binding sites according to their occupancy status during the cell cycle, and identified three classes: interphase-mitosis-common (IM), interphase-only (IO) and mitosis-only (MO) sites. Integrated function analysis showed dCTCF-binding sites of different classes might be involved in different biological processes, and IM sites were more conserved and more intensely bound. dCTCF-binding sites of the same class preferentially localized closer to each other, and were highly enriched at chromatin syntenic and topologically associating domains boundaries. CONCLUSIONS: Our results revealed different functions of dCTCF during the cell cycle and suggested that dCTCF might contribute to the establishment of the three-dimensional architecture of the Drosophila genome by maintaining local chromatin compartments throughout the whole cell cycle.info:eu-repo/semantics/openAccessSociedad de Biología de ChileBiological Research v.48 20152015-01-01text/htmlhttp://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100027en10.1186/S40659-015-0019-6
institution	Scielo Chile
collection	Scielo Chile
language	English
topic	dCTCF Cell cycle Chromatin domains Mitotic bookmarking Bioinformatics
spellingShingle	dCTCF Cell cycle Chromatin domains Mitotic bookmarking Bioinformatics Shen,Wenlong Wang,Dong Ye,Bingyu Shi,Minglei Zhang,Yan Zhao,Zhihu A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
description	BACKGROUND: The CCCTC-binding factor (CTCF) is a highly conserved insulator protein that plays various roles in many cellular processes. CTCF is one of the main architecture proteins in higher eukaryotes, and in combination with other architecture proteins and regulators, also shapes the three-dimensional organization of a genome. Experiments show CTCF partially remains associated with chromatin during mitosis. However, the role of CTCF in the maintenance and propagation of genome architectures throughout the cell cycle remains elusive. RESULTS: We performed a comprehensive bioinformatics analysis on public datasets of Drosophila CTCF (dCTCF). We characterized dCTCF-binding sites according to their occupancy status during the cell cycle, and identified three classes: interphase-mitosis-common (IM), interphase-only (IO) and mitosis-only (MO) sites. Integrated function analysis showed dCTCF-binding sites of different classes might be involved in different biological processes, and IM sites were more conserved and more intensely bound. dCTCF-binding sites of the same class preferentially localized closer to each other, and were highly enriched at chromatin syntenic and topologically associating domains boundaries. CONCLUSIONS: Our results revealed different functions of dCTCF during the cell cycle and suggested that dCTCF might contribute to the establishment of the three-dimensional architecture of the Drosophila genome by maintaining local chromatin compartments throughout the whole cell cycle.
author	Shen,Wenlong Wang,Dong Ye,Bingyu Shi,Minglei Zhang,Yan Zhao,Zhihu
author_facet	Shen,Wenlong Wang,Dong Ye,Bingyu Shi,Minglei Zhang,Yan Zhao,Zhihu
author_sort	Shen,Wenlong
title	A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
title_short	A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
title_full	A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
title_fullStr	A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
title_full_unstemmed	A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle
title_sort	possible role of drosophila ctcf in mitotic bookmarking and maintaining chromatin domains during the cell cycle
publisher	Sociedad de Biología de Chile
publishDate	2015
url	http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602015000100027
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A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle

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