De Novo Transcriptome Analysis Provides Insights into Immune Related Genes and the RIG-I-Like Receptor Signaling Pathway in the Freshwater Planarian (Dugesia japonica).
De Novo Transcriptome Analysis Provides Insights into Immune Related Genes and the RIG-I-Like Receptor Signaling Pathway in the Freshwater Planarian (Dugesia japonica).
复制标题
从头转录组分析可深入了解淡水涡虫 (Dugesia japonica) 中的免疫相关基因和 RIG-I 样受体信号通路
DOI：
10.1371/journal.pone.0151597
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发表时间：
2016
期刊：
影响因子：
3.7
通讯作者：
Zhao B
中科院分区：
文献类型：
--
作者：
Pang Q;Gao L;Hu W;An Y;Deng H;Zhang Y;Sun X;Zhu G;Liu B;Zhao B
研究背景日本三角涡虫Dugesia japonica（D. japonica）具有再生失去的器官或身体部位的非凡能力。有趣的是，在再生过程中，几乎没有伤口感染，这表明D。日本具有强大的先天免疫系统。免疫系统的重要性促使我们寻找免疫相关基因和RIG-I样受体信号通路。结果D.在IlluminaHiSeq 2000平台上进行。通过Trinity汇编程序共获得27，180个转录本。CEGMA分析和将所有修剪的读段映射回组装结果表明，我们的转录组组装覆盖了整个转录组的大部分。经BLASTX分析，在27,180个转录本中，有23,888个含有开放阅读片段（ORF），与曼氏血吸虫（Schistosomamansoni）的ORF高度相似。Blast 2GO和KEGG分别注释了8,079个转录本（29.7%）和8,668个转录本（31.9%）。克隆了DYNLRB样基因以验证其在免疫应答中的作用。最后，对RIG-I样受体信号通路中的4个基因（RIG-I、TRAF 3、TRAF 6、P38）进行了表达谱分析，结果表明它们很可能参与了真涡虫的免疫应答。结论基于新一代测序技术的RNA-Seq分析是发现关键基因并了解其生物学功能的有效途径。通过GO和KEGG分析，确定了RIG-I样受体信号通路的几条关键和保守的信号通路及相关基因。选择了4个候选基因，以确定它们在病原体刺激过程中的表达动态。本文对D.为以后研究其他重要途径提供了有用资源。
Background The freshwater planarian Dugesia japonica (D. japonica) possesses extraordinary ability to regenerate lost organs or body parts. Interestingly, in the process of regeneration, there is little wound infection, suggesting that D. japonica has a formidable innate immune system. The importance of immune system prompted us to search for immune-related genes and RIG-I-like receptor signaling pathways. Results Transcriptome sequencing of D. japonica was performed on an IlluminaHiSeq2000 platform. A total of 27,180 transcripts were obtained by Trinity assembler. CEGMA analysis and mapping of all trimmed reads back to the assembly result showed that our transcriptome assembly covered most of the whole transcriptome. 23,888 out of 27,180 transcripts contained ORF (open reading fragment), and were highly similar to those in Schistosoma mansoni using BLASTX analysis. 8,079 transcripts (29.7%) and 8,668 (31.9%) were annotated by Blast2GO and KEGG respectively. A DYNLRB-like gene was cloned to verify its roles in the immune response. Finally, the expression patterns of 4 genes (RIG-I, TRAF3, TRAF6, P38) in the RIG-I-like receptor signaling pathway were detected, and the results showed they are very likely to be involved in planarian immune response. Conclusion RNA-Seq analysis based on the next-generation sequencing technology was an efficient approach to discover critical genes and to understand their corresponding biological functions. Through GO and KEGG analysis, several critical and conserved signaling pathways and genes related to RIG-I-like receptor signaling pathway were identified. Four candidate genes were selected to identify their expression dynamics in the process of pathogen stimulation. These annotated transcripts of D. japonica provide a useful resource for subsequent investigation of other important pathways.
影响因子：
4.1
作者：
Jin, Qunyan;Gao, Guofeng;Mulder, Kathleen M.
通讯作者：
Mulder, Kathleen M.