Systematic Study of Nucleosome-Displacing Factors in Budding Yeast.
Systematic Study of Nucleosome-Displacing Factors in Budding Yeast.
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DOI：
10.1016/j.molcel.2018.06.017
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发表时间：
2018-07-19
期刊：
影响因子：
16
通讯作者：
Bai L
中科院分区：
文献类型：
--
作者：
Yan C;Chen H;Bai L
核小体为大多数转录因子 (TF) 的结合提供了屏障。然而，称为核小体置换因子（NDF）的特殊转录因子可以进入嵌入位点并导致局部核小体的耗尽以及邻近核小体的重新定位。在这里，我们在酵母中开发了一种新的高通量方法来识别 104 个 TF 中的 NDF，并系统地表征了其结合基序的方向、亲和力、位置和拷贝数对核小体占据的影响。使用该测定，我们鉴定了 29 个 NDF 基序，并将核 TF 分为三组，分别具有强、弱和无核小体置换活性。进一步的研究表明，紧密的 DNA 结合是 NDF 活性的关键特性，NDF 可能部分依赖 DNA 复制来与核小体竞争。总的来说，我们的研究提出了一个框架来功能表征 NDF 并阐明核小体入侵的机制。核小体置换因子 (NDF) 打开染色体并允许转录因子结合并启动基因表达。严等人。开发了一种识别 NDF 并研究其活动的方法。 NDF 与其他无 NDF 活性的因子之间的比较可以深入了解核小体入侵的机制。
Nucleosomes present a barrier for the binding of most transcription factors (TFs). However, special TFs known as nucleosome-displacing factors (NDFs) can access embedded sites and cause the depletion of the local nucleosomes as well as repositioning of the neighboring nucleosomes. Here, we developed a novel high-throughput method in yeast to identify NDFs among 104 TFs and systematically characterized the impact of orientation, affinity, location, and copy number of their binding motifs on the nucleosome occupancy. Using this assay, we identified 29 NDF motifs and divided the nuclear TFs into three groups with strong, weak, and no nucleosome-displacing activities. Further studies revealed that tight DNA binding is the key property that underlies NDF activity, and the NDFs may partially rely on the DNA replication to compete with nucleosome. Overall, our study presents a framework to functionally characterize NDFs and elucidate the mechanism of nucleosome invasion. Nucleosome-displacing factors (NDFs) open chromosomes and allow transcription factors to bind and initiate gene expression. Yan et al. developed a method to identify NDFs and study their activities. Comparison between NDFs and other factors with no NDF activities generates insights into the mechanism of nucleosome invasion.
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