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DOI10.4161/epi.28794
The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes
Gushchanskaya, Ekaterina S.1,2,3,4; Artemov, Artem V.5,6; Ulyanov, Sergey V.1; Logacheva, Maria D.7; Penin, Aleksey A.7; Kotova, Elena S.8; Akopov, Sergey B.8; Nikolaev, Lev G.8; Iarovaia, Olga V.1,3,4; Sverdlov, Eugene D.8; Gavrilov, Alexey A.1,3,4; Razin, Sergey V.1,2,3,4
通讯作者Gavrilov, Alexey A.
来源期刊EPIGENETICS
ISSN1559-2294
EISSN1559-2308
出版年2014
卷号9期号:7页码:951-963
英文摘要

We used the 4C-Seq technique to characterize the genome-wide patterns of spatial contacts of several CpG islands located on chromosome 14 in cultured chicken lymphoid and erythroid cells. We observed a clear tendency for the spatial clustering of CpG islands present on the same and different chromosomes, regardless of the presence or absence of promoters within these CpG islands. Accordingly, we observed preferential spatial contacts between Sp1 binding motifs and other GC-rich genomic elements, including the DNA sequence motifs capable of forming G-quadruplexes. However, an anchor placed in a gene/CpG island-poor area formed spatial contacts with other gene/CpG island-poor areas on chromosome 14 and other chromosomes. These results corroborate the two-compartment model of the spatial organization of interphase chromosomes and suggest that the clustering of CpG islands constitutes an important determinant of the 3D organization of the eukaryotic genome in the cell nucleus. Using the ChIP-Seq technique, we mapped the genome-wide CTCF deposition sites in the chicken lymphoid and erythroid cells that were used for the 4C analysis. We observed a good correlation between the density of CTCF deposition sites and the level of 4C signals for the anchors located in CpG islands but not for an anchor located in a gene desert. It is thus possible that CTCF contributes to the clustering of CpG islands observed in our experiments.


英文关键词CpG island housekeeping gene CTCF genome spatial organization 4C
类型Article
语种英语
国家Russia ; France
收录类别SCI-E
WOS记录号WOS:000338429500004
WOS关键词ACTIVE CHROMATIN HUB ; TRANSCRIPTION FACTORIES ; GENE-EXPRESSION ; NUCLEAR-ORGANIZATION ; HUMAN GENOME ; REGULATORY ELEMENTS ; REPLICATION ORIGINS ; RNA-POLYMERASES ; GLOBIN LOCUS ; CTCF
WOS类目Biochemistry & Molecular Biology ; Genetics & Heredity
WOS研究方向Biochemistry & Molecular Biology ; Genetics & Heredity
资源类型期刊论文
条目标识符http://119.78.100.177/qdio/handle/2XILL650/181984
作者单位1.Russian Acad Sci, Inst Gene Biol, Moscow, Russia;
2.Moscow MV Lomonosov State Univ, Dept Mol Biol, Moscow, Russia;
3.French Joint Canc Res Lab, Villejuif, France;
4.Russian Joint Canc Res Lab, Moscow, Russia;
5.Moscow MV Lomonosov State Univ, Fac Bioengn & Bioinformat, Moscow, Russia;
6.Russian Acad Sci, Inst Informat Transmiss Problems, Moscow, Russia;
7.Moscow MV Lomonosov State Univ, Lab Evolutionary Genom, Moscow, Russia;
8.Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Moscow, Russia
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GB/T 7714
Gushchanskaya, Ekaterina S.,Artemov, Artem V.,Ulyanov, Sergey V.,et al. The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes[J],2014,9(7):951-963.
APA Gushchanskaya, Ekaterina S..,Artemov, Artem V..,Ulyanov, Sergey V..,Logacheva, Maria D..,Penin, Aleksey A..,...&Razin, Sergey V..(2014).The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes.EPIGENETICS,9(7),951-963.
MLA Gushchanskaya, Ekaterina S.,et al."The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes".EPIGENETICS 9.7(2014):951-963.
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