Comprehensive identification of Drosophila dorsal-ventral patterning genes using a whole-genome tiling array
Comprehensive identification of Drosophila dorsal-ventral patterning genes using a whole-genome tiling array
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DOI：
10.1073/pnas.0604484103
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发表时间：
2006-08-22
影响因子：
11.1
通讯作者：
Levine, Michael S.
中科院分区：
文献类型：
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作者：
Biemar, Frederic;Nix, David A.;Levine, Michael S.
果蝇胚胎的背腹（DV）图案是由Dorsal启动的，Dorsal是一种序列特异性转录因子，在前细胞胚胎中分布在广泛的核梯度中。以前的研究已经确定了多达70个蛋白质编码基因和一个microRNA（miRNA）基因，这些基因直接或间接地受到这种梯度的调控。一个基因调控网络，或电路图，包括40个背靶基因和20个相关的组织特异性增强子之间的功能互连，已被确定为原肠胚形成的初始阶段。在这里，我们试图通过使用最近开发的全基因组平铺阵列识别额外的DV模式基因来扩展这种分析。这项分析导致了另外30个蛋白质编码基因的鉴定，包括果蝇的Iclax同源物，一种Writ信号传导的抑制剂。此外，在早期注释中遗漏的大约100个蛋白质编码基因中，至少有10个的5 ′端外显子被鉴定出来。鉴定了多达9个基因间未表征的转录单位，包括两个含有已知microRNA的miR-1和-9a。我们讨论了这些最近发现的基因的潜在功能，并建议内含子增强子是DV基因网络的一个共同特征。
Dorsal-ventral (DV) patterning of the Drosophila embryo is initiated by Dorsal, a sequence-specific transcription factor distributed in a broad nuclear gradient in the precellular embryo. Previous studies have identified as many as 70 protein-coding genes and one microRNA (miRNA) gene that are directly or indirectly regulated by this gradient. A gene regulation network, or circuit diagram, including the functional interconnections among 40 Dorsal target genes and 20 associated tissue-specific enhancers, has been determined for the initial stages of gastrulation. Here, we attempt to extend this analysis by identifying additional DV patterning genes using a recently developed whole-genome tiling array. This analysis led to the identification of another 30 protein-coding genes, including the Drosophila homolog of Iclax, an inhibitor of Writ signaling. in addition, remote 5'exons were identified for at least 10 of the approximate to 100 protein-coding genes that were missed in earlier annotations. As many as nine intergenic uncharacterized transcription units were identified, including two that contain known microRNAs, miR-1 and -9a. We discuss the potential functions of these recently identified genes and suggest that intronic enhancers are a common feature of the DV gene network.