Transcriptome analysis on Chinese shrimp Fenneropenaeus chinensis during WSSV acute infection.
Transcriptome analysis on Chinese shrimp Fenneropenaeus chinensis during WSSV acute infection.
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DOI：
10.1371/journal.pone.0058627
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Xiang J
中科院分区：
文献类型：
--
作者：
Li S;Zhang X;Sun Z;Li F;Xiang J
前期的研究已经在甲壳动物中发现了许多与白色斑点综合征病毒（WSSV）感染相关的免疫相关基因。然而，很少有信息是关于WSSV急性感染阶段在自然感染的虾宿主反应的潜在机制。本研究采用新一代测序技术和生物信息学技术，对对虾潜伏感染期和急性感染期的转录组差异进行了研究。生成总共64，188，426个Illumina读段，包括来自潜伏感染组的31，685，758个读段和来自急性感染组的32，502，668个读段，并组装成46，676个单基因（平均长度：676 bp;范围：200- 15，094 bp）。基于同源性搜索、基因本体、蛋白质的邻位组簇和生物学途径作图，预测并分类了大约24，000种肽。其中，805个差异表达基因被鉴定，并根据其可能的功能分为11组。发现Toll和IMD途径中的基因、Ras激活的内吞过程、RNA干扰途径、抗脂多糖因子等许多基因在虾从潜伏感染期到急性感染期都被激活。首次发现抗细菌的PO原激活级联反应可能参与抗病毒过程。这些基因不仅包含了在宿主防御WSSV中发挥作用的成员，而且还包含了WSSV快速增殖所利用的基因。此外，转录组数据为在缺乏对虾基因组数据库的情况下鉴定新基因提供了详细的信息。
Previous studies have discovered a lot of immune-related genes responding to white spot syndrome virus (WSSV) infection in crustacean. However, little information is available in relation to underlying mechanisms of host responses during the WSSV acute infection stage in naturally infected shrimp. In this study, we employed next-generation sequencing and bioinformatic techniques to observe the transcriptome differences of the shrimp between latent infection stage and acute infection stage. A total of 64,188,426 Illumina reads, including 31,685,758 reads from the latent infection group and 32,502,668 reads from the acute infection group, were generated and assembled into 46,676 unigenes (mean length: 676 bp; range: 200–15,094 bp). Approximately 24,000 peptides were predicted and classified based on homology searches, gene ontology, clusters of orthologous groups of proteins, and biological pathway mapping. Among which, 805 differentially expressed genes were identified and categorized into 11 groups based on their possible function. Genes in the Toll and IMD pathways, the Ras-activated endocytosis process, the RNA interference pathway, anti-lipopolysaccharide factors and many other genes, were found to be activated in shrimp from latent infection stage to acute infection stage. The anti-bacterially proPO-activating cascade was firstly uncovered to be probably participated in antiviral process. These genes contain not only members playing function in host defense against WSSV, but also genes utilized by WSSV for its rapid proliferation. In addition, the transcriptome data provides detail information for identifying novel genes in absence of the genome database of shrimp.
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影响因子：
2.9
作者：
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通讯作者：
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发表时间：
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