Data from: SNP discovery in black cottonwood (Populus trichocarpa) by population transcriptome resequencing

AbstractThe western black cottonwood (Populus trichocarpa) was the first tree to have its genome fully sequenced and has emerged as the model species for the study of secondary growth and wood formation. It is also a good candidate species for the production of lignocellulosic biofuels. Here we present and make available to the research community the results of the sequencing of the transcriptome of developing xylem in 20 accessions with high throughput next generation sequencing technology. We found over 0.5 million putative SNPs in 26,595 genes that are expressed in developing secondary xylem. More than two thirds of all SNPs were found in annotated exons, with 18% and 14% in regions of the genome annotated as introns and intergenic, respectively, where only 3% and 4% of sequence reads mapped. This suggests that the current annotation of the poplar genome is remarkably incomplete and that there are many transcripts and novel genes waiting to be annotated. We hope that this resource will stimulate further research in expression profiling, detection of alternative splicing and adaptive evolution in poplar., Usage notesMASTER_REPORT_MER_GERALDES2011

**摘要**
毛果杨（Populus trichocarpa）是首个完成全基因组测序的木本植物，现已成为次生生长与木材形成研究的模式物种，同时也是木质纤维素生物燃料生产的理想候选物种。本研究采用高通量下一代测序技术，对20个种质的发育次生木质部转录组进行测序，并将研究结果向科研社区公开共享。我们在发育次生木质部表达的26595个基因中，共鉴定出超过50万个潜在单核苷酸多态性位点（SNPs）。其中超三分之二的SNPs位于已注释的外显子区域，另有18%和14%的SNPs分别分布于基因组注释的内含子与基因间区，而仅有3%和4%的测序读段可比对至这些区域。该结果提示当前毛果杨基因组的注释仍存在显著疏漏，尚有大量未被发现的转录本与新基因有待注释。我们期望本数据集能够推动杨树在表达谱分析、可变剪接及适应性进化方向的后续研究。
**使用说明**：MASTER_REPORT_MER_GERALDES2011