Department of Genetics and Developmental Biology, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, Connecticut 06030-6403, USA.
Nature. 2011 Mar 24;471(7339):473-9. doi: 10.1038/nature09715. Epub 2010 Dec 22.
Drosophila melanogaster is one of the most well studied genetic model organisms; nonetheless, its genome still contains unannotated coding and non-coding genes, transcripts, exons and RNA editing sites. Full discovery and annotation are pre-requisites for understanding how the regulation of transcription, splicing and RNA editing directs the development of this complex organism. Here we used RNA-Seq, tiling microarrays and cDNA sequencing to explore the transcriptome in 30 distinct developmental stages. We identified 111,195 new elements, including thousands of genes, coding and non-coding transcripts, exons, splicing and editing events, and inferred protein isoforms that previously eluded discovery using established experimental, prediction and conservation-based approaches. These data substantially expand the number of known transcribed elements in the Drosophila genome and provide a high-resolution view of transcriptome dynamics throughout development.
黑腹果蝇是研究最为透彻的遗传模式生物之一；尽管如此，其基因组仍然包含未经注释的编码和非编码基因、转录本、外显子和 RNA 编辑位点。全面发现和注释是理解转录、剪接和 RNA 编辑调控如何指导这个复杂生物体发育的前提条件。在这里，我们使用 RNA-Seq、平铺微阵列和 cDNA 测序来探索 30 个不同发育阶段的转录组。我们鉴定了 111195 个新元件，包括数千个基因、编码和非编码转录本、外显子、剪接和编辑事件，并推断出以前使用既定的实验、预测和基于保守性的方法无法发现的蛋白质同工型。这些数据大大扩展了果蝇基因组中已知转录元件的数量，并提供了整个发育过程中转录组动态的高分辨率视图。
