Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo

被引：287

作者：

Zhang, Yong ^{[2
,3
]}

Moqtaderi, Zarmik ^{[1
]}

Rattner, Barbara P. ^{[4
]}

Euskirchen, Ghia ^{[5
]}

Snyder, Michael ^{[5
]}

Kadonaga, James T. ^{[4
]}

Liu, X. Shirley ^{[2
,3
]}

Struhl, Kevin ^{[1
]}

机构：

[1] Harvard Univ, Sch Med, Dept Biol Chem & Mol Pharmacol, Boston, MA 02115 USA

[2] Dana Farber Canc Inst, Dept Biostat & Computat Biol, Boston, MA 02115 USA

[3] Harvard Univ, Sch Publ Hlth, Boston, MA 02115 USA

[4] Univ Calif San Diego, Mol Biol Sect, La Jolla, CA 92093 USA

[5] Yale Univ, Dept Mol Cellular & Dev Biol, New Haven, CT USA

来源：

NATURE STRUCTURAL & MOLECULAR BIOLOGY | 2009年 / 16卷 / 08期

基金：

美国国家卫生研究院;

关键词：

RNA-POLYMERASE-II; HIGH-RESOLUTION; GENOME-WIDE; SEQUENCE; YEAST; PROMOTER; BINDING; ELONGATION; CHROMATIN; TRANSCRIPTION;

D O I：

10.1038/nsmb.1636

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We assess the role of intrinsic histone-DNA interactions by mapping nucleosomes assembled in vitro on genomic DNA. Nucleosomes strongly prefer yeast DNA over Escherichia coli DNA, indicating that the yeast genome evolved to favor nucleosome formation. Many yeast promoter and terminator regions intrinsically disfavor nucleosome formation, and nucleosomes assembled in vitro show strong rotational positioning. Nucleosome arrays generated by the ACF assembly factor have fewer nucleosome-free regions, reduced rotational positioning and less translational positioning than obtained by intrinsic histone-DNA interactions. Notably, nucleosomes assembled in vitro have only a limited preference for specific translational positions and do not show the pattern observed in vivo. Our results argue against a genomic code for nucleosome positioning, and they suggest that the nucleosomal pattern in coding regions arises primarily from statistical positioning from a barrier near the promoter that involves some aspect of transcriptional initiation by RNA polymerase II.

引用

页码：847 / U70

页数：7

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