Transcriptome profiling of siliques at 4 developmental stages in Arabidopsis

To search for the differential expressed genes during postferlization and embryonic development in Arabidopsis, We profiled transcriptome of siliques at 4 developmental stages using RNA-seq based on poly(A) selection. Each RNA library yielded 100 million 101-bp paired-end reads.Using Tophat and Cufflinks with the Arabidopsis TAIR10 annotation as reference, we identifed 33,451 assembled transcripts in 4 samples. Of them, 5,608 were up-regulated genes in at least one sample. A group of them are preferentially expressed at mature green-stage of seeds. Overall design: Transcriptome profiling in 0-5 day, 6-10 day, 11-15 day and 16-20 day post-anthesis siliques

为鉴定拟南芥（Arabidopsis）受精后及胚胎发育过程中的差异表达基因，我们采用基于poly(A)选择法（poly(A) selection）的RNA测序（RNA-seq）技术，对4个发育阶段的角果（siliques）转录组开展测序分析。每个RNA文库均可产出1亿条101bp双端读段（paired-end reads）。我们以拟南芥TAIR10注释文件作为参考注释，使用Tophat与Cufflinks软件对4个样本进行转录本组装，共鉴定得到33451条组装转录本。其中，至少在1个样本中呈上调表达的基因共计5608个，部分基因在种子成熟绿期呈现优先表达模式。实验整体设计：对开花后0-5天、6-10天、11-15天及16-20天的角果进行转录组测序分析。