Key Laboratory of Silviculture in Shandong Province, College of Forestry, Shandong Agriculture University, Tai'an, China.
College of Forestry, Nanjing Forestry University, Nanjing, China.
Gene. 2018 Aug 30;669:8-14. doi: 10.1016/j.gene.2018.05.066. Epub 2018 May 22.
The Ginkgo biloba L. chichi is a unique organ. To explore the molecular mechanisms underlying the ontogenesis of G. biloba chichi, we used RNA-seq to analyse the transcriptome profile of rooted chichi at two developmental stages (ch1 and ch2) and nearby tissues (ck), and each sample had three biological replicates. A total of 57.74 Gb of clean bases were generated in nine cDNA libraries. These bases were de novo assembled into 68,277 unigenes with average length of 844 bp, and 51.47% of the unigenes had a match in at least one public database. The differentially expressed genes (DEGs) in ch1 vs. ck and ch2 vs. ck were 2748 and 8594, respectively. The DEGs involved in the auxin signal pathway, auxin polar transport, storage-related proteins, and the cell cycle pathway might play roles in the ontogenesis of chichi. The quantitative real-time PCR results were closely correlated with transcriptome data. The transcriptome resources generated in the current study provide gene expression profiles and differential expression profiles of G. biloba chichi and offer an essential resource to probe the molecular mechanisms underlying the ontogenesis of G. biloba chichi.
《中华银杏白果奇》是一个独特的器官。为了探索中华银杏白果奇发生的分子机制，我们使用 RNA-seq 分析了两个发育阶段（ch1 和 ch2）的白果根和附近组织（ck）的转录组图谱，每个样本有三个生物学重复。在九个 cDNA 文库中生成了 57.74 Gb 的清洁碱基。这些碱基从头组装成 68277 个 unigenes，平均长度为 844 bp，51.47%的 unigenes在至少一个公共数据库中有匹配。ch1 与 ck 和 ch2 与 ck 之间的差异表达基因（DEGs）分别为 2748 和 8594。参与生长素信号通路、生长素极性运输、储存相关蛋白和细胞周期途径的 DEGs 可能在白果奇的发生中发挥作用。定量实时 PCR 结果与转录组数据密切相关。本研究中生成的转录组资源提供了中华银杏白果奇的基因表达谱和差异表达谱，为探究中华银杏白果奇发生的分子机制提供了重要资源。
