Hybrid Sequencing of Full-Length cDNA Transcripts of the Medicinal Plant Scutellaria baicalensis
Hybrid Sequencing of Full-Length cDNA Transcripts of the Medicinal Plant Scutellaria baicalensis
复制标题
药用植物黄芩全长 cDNA 转录本的杂交测序
DOI：
10.3390/ijms20184426
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发表时间：
2019-09-02
影响因子：
5.6
通讯作者：
Sun, Chao
中科院分区：
文献类型：
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作者：
Gao, Ting;Xu, Zhichao;Sun, Chao
黄芩是一种具有生物活性的黄酮类化合物，如黄芩苷、黄芩素和汉黄芩素。药理学研究表明，这些化合物具有抗炎、抗菌和抗癌活性。因此，研究其遗传信息具有重要意义。黄芩，特别是与这些化合物的生物合成途径相关的基因。在此，我们构建了S.结果表明，该方法获得了338，136条全长序列，占总序列的93.3%。在去除冗余并使用Illumina短读段进行校正后，生成了75，785个非冗余转录物，其中约98%在蛋白质数据库中被注释为显著命中，并且11，135个序列被分类为lncRNA。差异表达基因（DEG）分析表明，大部分与类黄酮生物合成相关的基因在根中高表达，这与前人报道的类黄酮主要在根中合成和积累的观点一致。黄芩通过构建独特的转录模型，共识别出44，071个选择性剪接（AS）事件，其中内含子保留（IR）所占比例最高（44.5%）。在5个类黄酮生物合成相关的关键基因上共检测到94个AS事件，表明AS可能在类黄酮生物合成调控中起重要作用。黄芩本研究获得了大量高准确度的全长转录本，为进一步开展该菌的分子生物学研究提供了宝贵的遗传资源。黄芩等的开发、育种及有效成分的生物合成。
Scutellaria baicalensis is a well-known medicinal plant that produces biologically active flavonoids, such as baicalin, baicalein, and wogonin. Pharmacological studies have shown that these compounds have anti-inflammatory, anti-bacterial, and anti-cancer activities. Therefore, it is of great significance to investigate the genetic information of S. baicalensis, particularly the genes related to the biosynthetic pathways of these compounds. Here, we constructed the full-length transcriptome of S. baicalensis using a hybrid sequencing strategy and acquired 338,136 full-length sequences, accounting for 93.3% of the total reads. After the removal of redundancy and correction with Illumina short reads, 75,785 nonredundant transcripts were generated, among which approximately 98% were annotated with significant hits in the protein databases, and 11,135 sequences were classified as lncRNAs. Differentially expressed gene (DEG) analysis showed that most of the genes related to flavonoid biosynthesis were highly expressed in the roots, consistent with previous reports that the flavonoids were mainly synthesized and accumulated in the roots of S. baicalensis. By constructing unique transcription models, a total of 44,071 alternative splicing (AS) events were identified, with intron retention (IR) accounting for the highest proportion (44.5%). A total of 94 AS events were present in five key genes related to flavonoid biosynthesis, suggesting that AS may play important roles in the regulation of flavonoid biosynthesis in S. baicalensis. This study provided a large number of highly accurate full-length transcripts, which represents a valuable genetic resource for further research of the molecular biology of S. baicalensis, such as the development, breeding, and biosynthesis of active ingredients.