Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Nanjing Road 106, Qingdao 266071, China; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China.
Key Laboratory for Sustainable Utilization of Marine Fisheries Resources, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Nanjing Road 106, Qingdao 266071, China; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266071, PR China.
Fish Shellfish Immunol. 2018 Apr;75:132-138. doi: 10.1016/j.fsi.2018.01.045. Epub 2018 Jan 31.
White spot syndrome (WSS) is one of the most damaging phenomena in the culturing of shrimp. To characterize the mechanisms of the molecular responses to WSSV infection in 'Huanghai No. 2'' Fenneropenaeus chinensis, we used next-generation sequencing to observe the transcriptome after oral infection. A total of 108.6 million clean reads were obtained and assembled into 64,103 final unigenes with an average length of 845 bp (N50 = 1534 bp). The assembled unigenes contained 14,263 significant unigenes after BLASTX against the Nr database (E-value cut-off of 10). After comparison of digital gene expression data between challenged and control shrimp, a total of 896 DEGs after WSSV infection were identified. Gene pathway analysis indicated that 92, 131 and 142 metabolic pathways were affected at early, peak and late phases respectively. Some pathways were related to the immune response, such as the phagosome, complement and coagulation cascades, the antigen processing and presentation pathway and so on. Many immune-related genes were also identified after pathway analysis. Interestingly, some growth-related genes, such as cathepsin L, myosin regulatory light chain 2 smooth muscle, and alpha-amylase were also differentially expressed after WSSV infection, and the correlation between growth trait and WSSV-resistance trait need further research. The expression patterns of eight DEGs were confirmed by quantitative real-time reverse transcription polymerase chain reaction, and there was good agreement between RNA-seq and qRT-PCR. These data will provide valuable information for characterizing the immune mechanism of the response of shrimp's to WSSV.
白斑综合征（WSS）是虾类养殖中最具破坏性的现象之一。为了研究对 WSSV 感染的分子反应机制，我们使用下一代测序技术观察了‘黄海 2 号’中国对虾经口感染后的转录组。共获得 1.086 亿条清洁reads，组装成 64103 条最终的 unigenes，平均长度为 845bp（N50=1534bp）。将组装的 unigenes与 Nr 数据库进行 BLASTX 比对（E 值截止值为 10）后，共得到 14263 个显著的 unigenes。对 challenged 和 control 虾的数字基因表达数据进行比较后，共鉴定出 896 个 WSSV 感染后的差异表达基因（DEGs）。基因通路分析表明，在早期、高峰和晚期分别有 92、131 和 142 个代谢通路受到影响。一些通路与免疫反应有关，如吞噬体、补体和凝血级联、抗原加工和呈递途径等。通路分析后还鉴定出许多与免疫相关的基因。有趣的是，一些与生长相关的基因，如组织蛋白酶 L、肌球蛋白轻链 2 平滑肌和α-淀粉酶，在 WSSV 感染后也表现出差异表达，生长性状与 WSSV 抗性性状之间的相关性需要进一步研究。通过定量实时逆转录聚合酶链反应（qRT-PCR）验证了 8 个 DEGs 的表达模式，RNA-seq 和 qRT-PCR 之间具有良好的一致性。这些数据将为研究虾类对 WSSV 反应的免疫机制提供有价值的信息。
