Nucleosome positioning as a determinant of exon recognition
Nucleosome positioning as a determinant of exon recognition
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DOI：
10.1038/nsmb.1658
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发表时间：
2009-09-01
影响因子：
16.8
通讯作者：
Guigo, Roderic
中科院分区：
文献类型：
--
作者：
Tilgner, Hagen;Nikolaou, Christoforos;Guigo, Roderic
染色质结构影响转录，但其在随后的RNA加工中的作用尚不清楚。在这里，我们提出了高通量数据的分析，这意味着核小体定位和外显子定义之间的关系。首先，我们已经发现了稳定的核小体占用内的人类和秀丽隐杆线虫外显子，是较强的外显子与弱剪接位点。相反，我们发现，假外显子-内含子序列，不包括在mRNA中，但侧翼强剪接位点-显示核小体消耗。第二，外显子内和上游的核小体占据率之间的比率与外显子包含水平相关。第三，核小体位于外显子的中心，而不是剪接位点的近端。这些外显子核小体模式也在非表达基因中观察到，表明在转录不存在的情况下存在外显子的核小体标记。我们的分析提供了一个框架，有助于了解剪接的基础上染色质架构。
Chromatin structure influences transcription, but its role in subsequent RNA processing is unclear. Here we present analyses of high-throughput data that imply a relationship between nucleosome positioning and exon definition. First, we have found stable nucleosome occupancy within human and Caenorhabditis elegans exons that is stronger in exons with weak splice sites. Conversely, we have found that pseudoexons-intronic sequences that are not included in mRNAs but are flanked by strong splice sites-show nucleosome depletion. Second, the ratio between nucleosome occupancy within and upstream from the exons correlates with exon-inclusion levels. Third, nucleosomes are positioned central to exons rather than proximal to splice sites. These exonic nucleosomal patterns are also observed in non-expressed genes, suggesting that nucleosome marking of exons exists in the absence of transcription. Our analysis provides a framework that contributes to the understanding of splicing on the basis of chromatin architecture.