The Drosophila melanogaster transcriptome by paired-end RNA sequencing
The Drosophila melanogaster transcriptome by paired-end RNA sequencing
复制标题
DOI：
10.1101/gr.107854.110
复制
发表时间：
2011-02-01
期刊：
影响因子：
7
通讯作者：
Chen, Rui
中科院分区：
文献类型：
--
作者：
Daines, Bryce;Wang, Hui;Chen, Rui
RNA-seq通过对10个发育阶段的广泛采样，用于生成黑腹果蝇转录组的广泛图谱。总共在Illumina GA II上产生了1.422亿个唯一映射的64-100 bp成对末端reads，测序覆盖率为3563。超过95%的FlyBase基因和90%的剪接被观察到。通过扩展非翻译区域、包含新的外显子和鉴定新的剪接事件，对30%的FlyBase基因模型进行了修改。共鉴定出319个新的转录本，比目前的注释增加了2%。在31%的D. melanogaster基因中观察到交替剪接，比以前的估计增加了38%，但明显低于在高等生物中观察到的。许多这种剪接是微妙的，如串联交替剪接位点。
RNA-seq was used to generate an extensive map of the Drosophila melanogaster transcriptome by broad sampling of 10 developmental stages. In total, 142.2 million uniquely mapped 64-100-bp paired-end reads were generated on the Illumina GA II yielding 3563 sequencing coverage. More than 95% of FlyBase genes and 90% of splicing junctions were observed. Modifications to 30% of FlyBase gene models were made by extension of untranslated regions, inclusion of novel exons, and identification of novel splicing events. A total of 319 novel transcripts were identified, representing a 2% increase over the current annotation. Alternate splicing was observed in 31% of D. melanogaster genes, a 38% increase over previous estimations, but significantly less than that observed in higher organisms. Much of this splicing is subtle such as tandem alternate splice sites.