Genome-wide analysis of mammalian promoter architecture and evolution
Genome-wide analysis of mammalian promoter architecture and evolution
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DOI：
10.1038/ng1789
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发表时间：
2006-06-01
期刊：
影响因子：
30.8
通讯作者：
Hayashizaki, Yoshihide
中科院分区：
文献类型：
--
作者：
Carninci, Piero;Sandelin, Albin;Hayashizaki, Yoshihide
哺乳动物启动子可分为两类：保守的富含 TATA 盒的启动子（在明确的位点起始）和更具可塑性、广泛且可进化的富含 CpG 的启动子。我们对小鼠和人类基因组中数十万个转录起始位点 (TSS) 对应的标签进行了测序，从而可以精确分析不同启动子类别的序列结构和进化。不同的组织和基因家族不同地使用不同类型的启动子。我们的标记方法允许对不同组织中启动子的使用进行定量分析，并表明差异调节的替代 TSS 是蛋白质编码基因的一个共同特征，并且通常会产生替代 N 末端。在 TSS 中，我们确定了与大多数外显子和 3' UTR 相关的新起始位点。这些数据允许在基因组规模上鉴定组织特异性启动子并分析与其相关的顺式作用元件。
Mammalian promoters can be separated into two classes, conserved TATA box-enriched promoters, which initiate at a welldefined site, and more plastic, broad and evolvable CpG-rich promoters. We have sequenced tags corresponding to several hundred thousand transcription start sites (TSSs) in the mouse and human genomes, allowing precise analysis of the sequence architecture and evolution of distinct promoter classes. Different tissues and families of genes differentially use distinct types of promoters. Our tagging methods allow quantitative analysis of promoter usage in different tissues and show that differentially regulated alternative TSSs are a common feature in protein-coding genes and commonly generate alternative N termini. Among the TSSs, we identified new start sites associated with the majority of exons and with 3' UTRs. These data permit genome-scale identification of tissue-specific promoters and analysis of the cis-acting elements associated with them.