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Transcriptional regulatory network shapes the genome structure of Saccharomyces cerevisiae

机译:转录调控网络塑造啤酒酵母的基因组结构。

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Among cellular processes gene transcription is central. More and more evidence is mounting that transcription is tightly connected with the spatial organization of the chromosomes. Spatial proximity of genes sharing transcriptional machinery is one of the consequences of this organization. Motivated by information on the physical relationship among genes identified via chromosomal conformation capture methods, we complement the spatial organization with the idea that genes under similar transcription factor control, but possible scattered throughout the genome, might be in physically proximity to facilitate the access of their commonly used transcription factors. Unlike the transcription factory model, “interacting” genes in our “Gene Proximity Model” are not necessarily immediate physical neighbors but are in spatial proximity. Considering the stochastic nature of TF-promoter binding, this local condensation mechanism could serve as a tie to recruit co-regulated genes to guarantee the swiftness of biological reactions. We tested this idea with a simple eukaryotic organism, Saccharomyces cerevisiae . Chromosomal interaction patterns and folding behavior generated by our model re-construct those obtained from experiments. We show that the transcriptional regulatory network has a close linkage with the genome organization in budding yeast, which is fundamental and instrumental to later studies on other more complex eukaryotes.
机译:在细胞过程中,基因转录是关键。越来越多的证据表明,转录与染色体的空间组织紧密相关。共享转录机制的基因在空间上的接近性是该组织的后果之一。受关于通过染色体构象捕获方法鉴定的基因之间的物理关系的信息的启发,我们对空间组织进行了补充,认为在相似的转录因子控制下,但可能散布在整个基因组中的基因可能在物理上接近,以促进它们的访问。常用的转录因子。与转录工厂模型不同,我们“基因邻近模型”中的“相互作用”基因不一定是直接的物理邻居,而是在空间上接近。考虑到TF-启动子结合的随机性质,这种局部缩合机制可以作为招募共同调节基因的纽带,以保证生物反应的迅速。我们用简单的真核生物酿酒酵母(Saccharomyces cerevisiae)测试了这个想法。由我们的模型产生的染色体相互作用模式和折叠行为重建了从实验中获得的染色体相互作用模式和折叠行为。我们表明,转录调控网络与出芽酵母中的基因组组织有着密切的联系,这对以后对其他更复杂的真核生物的研究是基础和有帮助的。

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