Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin.
Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin.
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DOI：
10.1016/j.molcel.2015.04.006
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发表时间：
2015-06-18
期刊：
影响因子：
16
通讯作者：
Adelman, Karen
中科院分区：
文献类型：
--
作者：
Scruggs, Benjamin S.;Gilchrist, Daniel A.;Nechaev, Sergei;Muse, Ginger W.;Burkholder, Adam;Fargo, David C.;Adelman, Karen
起源于哺乳动物蛋白质编码基因上游的反义转录是一种有充分证据的现象，但对反义启动子及其产生的非编码RNA的调节或功能知之甚少。在这里，我们定义了在核苷酸分辨率附近的分化转录起始点(TSS)附近的小鼠的mRNA基因。我们发现，耦合的正义和反义TSS精确地定义了高度富含转录因子(TF)基序的核小体缺失区域(NDR)的边界。值得注意的是，随着正义和反义TSS之间距离的增加，NDR的大小、信号依赖的转铁蛋白结合水平和基因激活也随之增加。我们进一步在巨噬细胞中发现了一组具有增强子样染色质特征的反义SSs。有趣的是，这个特征识别在免疫挑战过程中被激活的不同启动子。我们认为反义启动子可以作为TF结合和建立活性染色质的平台，以进一步调节或增强正义链mRNA的表达。
Anti-sense transcription originating upstream of mammalian protein-coding genes is a well-documented phenomenon, but remarkably little is known about the regulation or function of anti-sense promoters and the non-coding RNAs they generate. Here we define at nucleotide resolution the divergent transcription start sites (TSSs) near mouse mRNA genes. We find that coupled sense and anti-sense TSSs precisely define the boundaries of a nucleosome-depleted region (NDR) that is highly enriched in transcription factor (TF) motifs. Notably, as the distance between sense and anti-sense TSSs increases, so does the size of the NDR, the level of signal-dependent TF binding and gene activation. We further discover a group of anti-sense TSSs in macrophages with an enhancer-like chromatin signature. Interestingly, this signature identifies divergent promoters that are activated during immune challenge. We propose that anti-sense promoters serve as platforms for TF binding and establishment of active chromatin to further regulate or enhance sense-strand mRNA expression.
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影响因子：
56.9
作者：
Carninci, P;Kasukawa, T;Hayashizaki, Y
通讯作者：
Hayashizaki, Y
影响因子：
56.9
作者：
Cheng, J;Kapranov, P;Gingeras, TR
通讯作者：
Gingeras, TR
影响因子：
64.8
作者：
Heintzman, Nathaniel D.;Hon, Gary C.;Hawkins, R. David;Kheradpour, Pouya;Stark, Alexander;Harp, Lindsey F.;Ye, Zhen;Lee, Leonard K.;Stuart, Rhona K.;Ching, Christina W.;Ching, Keith A.;Antosiewicz-Bourget, Jessica E.;Liu, Hui;Zhang, Xinmin;Green, Roland D.;Lobanenkov, Victor V.;Stewart, Ron;Thomson, James A.;Crawford, Gregory E.;Kellis, Manolis;Ren, Bing
通讯作者：
Ren, Bing
影响因子：
64.5
作者：
Bhatt DM;Pandya-Jones A;Tong AJ;Barozzi I;Lissner MM;Natoli G;Black DL;Smale ST
通讯作者：
Smale ST
DOI：
10.1126/science.1179050
发表时间：
2009-10-09
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Amit I;Garber M;Chevrier N;Leite AP;Donner Y;Eisenhaure T;Guttman M;Grenier JK;Li W;Zuk O;Schubert LA;Birditt B;Shay T;Goren A;Zhang X;Smith Z;Deering R;McDonald RC;Cabili M;Bernstein BE;Rinn JL;Meissner A;Root DE;Hacohen N;Regev A
通讯作者：
Regev A