The prevalence, evolution and chromatin signatures of plant regulatory elements
The prevalence, evolution and chromatin signatures of plant regulatory elements
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DOI：
10.1038/s41477-019-0548-z
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发表时间：
2019-12-01
期刊：
影响因子：
18
通讯作者：
Schmitz, Robert J.
中科院分区：
文献类型：
--
作者：
Lu, Zefu;Marand, Alexandre P.;Schmitz, Robert J.
染色质的可接近性和修饰是调控DNA的标志，对其的研究导致了顺式调控元件（克雷斯）的发现。在这里，我们的特点染色质的可及性，组蛋白修饰和序列保守的13种植物。我们鉴定了数千种推定的克雷斯，并揭示了远端克雷斯在植物中普遍存在，特别是在具有大而复杂的基因组的物种中。大多数远端克雷斯已经通过转座元件（TE）增殖从其靶基因移开，但大量远端克雷斯似乎也由TE产生。最后，植物远端克雷斯与三种主要类型的染色质签名是不同的后生动物。综上所述，这些结果表明，克雷斯在植物中普遍存在，在进化过程中高度动态，并通过不同的染色质途径调节基因表达。
Chromatin accessibility and modification is a hallmark of regulatory DNA, the study of which led to the discovery of cis-regulatory elements (CREs). Here, we characterize chromatin accessibility, histone modifications and sequence conservation in 13 plant species. We identified thousands of putative CREs and revealed that distal CREs are prevalent in plants, especially in species with large and complex genomes. The majority of distal CREs have been moved away from their target genes by transposable-element (TE) proliferation, but a substantial number of distal CREs also seem to be created by TEs. Finally, plant distal CREs are associated with three major types of chromatin signatures that are distinct from metazoans. Taken together, these results suggest that CREs are prevalent in plants, highly dynamic during evolution and function through distinct chromatin pathways to regulate gene expression.