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Predicting the function of eukaryotic scaffold/matrix attachment regions via DNA mechanics
Li, M; Ou-Yang, ZC
2005
Conference NameInternational Workshop on Physics of Soft Matter Complexes
Source PublicationJOURNAL OF PHYSICS-CONDENSED MATTER
Volume17
Issue31
PagesS2853-S2860
Conference DateNOV 29-DEC 02, 2004
Conference PlaceTokyo Metropolitan Univ, Tokyo, JAPAN
Author of SourceTokyo Metropolitan Univ
Publication PlaceBRISTOL
ISSN0953-8984
PublisherIOP PUBLISHING LTD
AbstractEukaryotic chromatin undergoes a few steps of compaction to form a chromosome. Among the several levels of chromatin assembly, successive chromatin loops (5-100 kb) demarcated by the nuclear matrix are of primary importance since they behave as topologically independent domains for coordinate regulation of harboured genes. The bases of the loops are called SMARs (scaffold/matrix attachment regions). On one hand, this chromosome structure imposes stress on the DNA molecule since the double-stranded DNA is actually unwound and bent by histones and other proteins. On the other hand, the stressed DNA itself affects chromatin assembly inversely, e.g., the unwinding stress may promote SMAR binding to the matrix. The interplay between chromosome structure and unwinding stress contributes significantly to eukaryotic gene regulation. In this paper, we investigate two issues: how torsional stress may promote SMAR anchorage to the matrix; and how the formation of chromatin loops may affect basic biochemical processes. We employ the Benham model for these purposes. Our analysis gives theoretical evidence that at least some SMARs are unwound under torsional stress and at the same time could serve as topological barriers for retaining the torsional stress on the chromatin loop which may be necessary for gene transcription.
KeywordDOMAINS GENE
DOI10.1088/0953-8984/17/31/011
URL查看原文
Indexed ByCPCI
Language英语
WOS Research AreaPhysics
WOS SubjectPhysics, Condensed Matter
Citation statistics
Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type会议论文
Identifierhttp://ir.itp.ac.cn/handle/311006/23699
CollectionSCI会议论文
AffiliationChinese Acad Sci, Inst Theoret Phys, Beijing 100080, Peoples R China
First Author AffilicationInstitute of Theoretical Physics, Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Li, M,Ou-Yang, ZC. Predicting the function of eukaryotic scaffold/matrix attachment regions via DNA mechanics[C]//Tokyo Metropolitan Univ. BRISTOL:IOP PUBLISHING LTD,2005:S2853-S2860.
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