Different Gene Expression Patterns between Leaves and Flowers in Lonicera japonica Revealed by Transcriptome Analysis.
Different Gene Expression Patterns between Leaves and Flowers in Lonicera japonica Revealed by Transcriptome Analysis.
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转录组分析揭示金银花叶和花基因表达模式的差异
DOI：
10.3389/fpls.2016.00637
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发表时间：
2016
影响因子：
5.6
通讯作者：
Li M
中科院分区：
文献类型：
--
作者：
Zhang L;Long Y;Fu C;Xiang J;Gan J;Wu G;Jia H;Yu L;Li M
日本藤为多年生常绿缠绕藤本植物，是一种重要的中草药，具有很高的经济价值。然而，花和叶的基因表达信息，L。粳稻的功能基因组学研究一直是个难题。在这项研究中，L.使用下一代测序技术检测了日本。使用总共23941万个干净的读段用于用Trinity软件进行从头组装，其产生150，523个单基因，其中N50含有947 bp。使用Nr、SwissProt、COG（Clusters of Orthogonal Groups）、GO（Gene Ontology）和KEGG（京都基因和基因组百科全书（Encyclopedia of Genes and Genomes））数据库注释所有单基因。共检测到35，327个差异表达基因（DEGs，P ≤ 0.05）。其中6602个DEG分别与"代谢过程"、"对刺激的反应"、"细胞过程"等重要生物学过程相关。KEGG分析表明，参与绿原酸生物合成的3种酶在花中表达上调。此外，还研究了L。japonica鉴定了3个在叶和花间差异表达的转录因子，表明它们在L.日本。综上所述，本研究提供了一个整体的图像，叶和花之间的差异基因表达模式，提供了一个有用的基因组资源，也可用于功能基因组学研究的L.日本在未来
The perennial and evergreen twining vine, Lonicera japonica is an important herbal medicine with great economic value. However, gene expression information for flowers and leaves of L. japonica remains elusive, which greatly impedes functional genomics research on this species. In this study, transcriptome profiles from leaves and flowers of L. japonica were examined using next-generation sequencing technology. A total of 239.41 million clean reads were used for de novo assembly with Trinity software, which generated 150,523 unigenes with N50 containing 947 bp. All the unigenes were annotated using Nr, SwissProt, COGs (Clusters of Orthologous Groups), GO (Gene Ontology), and KEGG (Kyoto Encyclopedia of Genes and Genomes) databases. A total of 35,327 differentially expressed genes (DEGs, P ≤ 0.05) between leaves and flowers were detected. Among them, a total of 6602 DEGs were assigned with important biological processes including “Metabolic process,” “Response to stimulus,” “Cellular process,” and etc. KEGG analysis showed that three possible enzymes involved in the biosynthesis of chlorogenic acid were up-regulated in flowers. Furthermore, the TF-based regulation network in L. japonica identified three differentially expressed transcription factors between leaves and flowers, suggesting distinct regulatory roles in L. japonica. Taken together, this study has provided a global picture of differential gene expression patterns between leaves and flowers in L japonica, providing a useful genomic resource that can also be used for functional genomics research on L. japonica in the future.