RNA-seq transcriptome profiling in the Fagus sylvatica trunk. Fagus sylvatica RNA-seq

In a field study, trees from two sites in Lower Saxony, Germany, were compared. RNA-seq (performed on an Illumina HiSeq 2000) was conducted on RNA from developing xylem tissue from 4 different harvests throughout the growth season to analyze transcriptional changes related to variations in wood formation and development. A transcriptome contig database was created from the combined raw reads using ABySS. Mapping of reads from distinct samples to the contig database was performed using Bowtie.

本野外研究对德国下萨克森州两个样地的林木开展了对比分析。针对整个生长季内4次采样获得的发育中木质部组织的RNA，采用Illumina HiSeq 2000测序平台完成RNA测序（RNA-seq），以分析与木材形成及发育变异相关的转录变化。研究人员利用ABySS软件对合并后的原始测序读段进行组装，构建得到转录组重叠群（contig）数据库；随后采用Bowtie软件将不同样本的测序读段比对至该重叠群数据库。