Chen Qi-Liang, Luo Zhi, Huang Chao, Pan Ya-Xiong, Wu Kun
Key Laboratory of Freshwater Animal Breeding, Ministry of Agriculture of China, Fishery College, Huazhong Agricultural University, Wuhan, 430070, China.
Freshwater Aquaculture Collaborative Innovative Centre of Hubei Province, Wuhan, 430070, China.
Fish Physiol Biochem. 2016 Jun;42(3):979-94. doi: 10.1007/s10695-015-0190-2. Epub 2015 Dec 30.
Previous studies have investigated the physiological responses to chronic copper (Cu) exposure in the liver of Synechogobius hasta; however, little information is available on the underlying molecular mechanisms. In an effort to better understand the mechanisms of Cu toxicity and to illuminate global gene expression patterns modulated by Cu exposure, we obtained the liver transcriptome information of S. hasta by RNA sequencing (RNA-seq) technology and also investigated the differential expression of genes following waterborne Cu exposure. Using the Illumina sequencing platform, as many as 60,217 unigenes were generated, with 815 bp of average length and 1298 bp of unigene N50 after filtering and assembly. For functional annotation analysis, 34,860, 31,526, 31,576, 25,808, 11,542, and 21,721 unigenes were annotated to the NR, NT, Swiss-Prot, KEGG, COG, and GO databases, respectively, and total annotation unigenes were 37,764. After 30 days of exposure to 55 μg Cu/l, a total of 292 and 1076 genes were significantly up- and down-regulated, respectively. By KEGG analysis, 660 had a specific pathway annotation. Subsequent bioinformatics analysis revealed that the differentially expressed genes were mainly related to lipid metabolism, immune system, apoptosis, and signal transduction, suggesting that these signaling pathways may be regulated by Cu exposure. The present study provides comprehensive sequence information for subsequent gene expression studies regarding S. hasta, and the transcriptome profiling after Cu exposure is also expected to improve our understanding of the molecular toxicology of Cu.
以往的研究已调查了矛尾复虾虎鱼肝脏对慢性铜（Cu）暴露的生理反应；然而，关于潜在分子机制的信息却很少。为了更好地理解铜毒性机制并阐明铜暴露所调节的整体基因表达模式，我们通过RNA测序（RNA-seq）技术获得了矛尾复虾虎鱼的肝脏转录组信息，并研究了水体铜暴露后基因的差异表达。使用Illumina测序平台，经过过滤和组装后，共产生了多达60,217个单基因，平均长度为815 bp，单基因N50为1298 bp。对于功能注释分析，分别有34,860、31,526、31,576、25,808、11,542和21,721个单基因被注释到NR、NT、Swiss-Prot、KEGG、COG和GO数据库中，总注释单基因数为37,764个。在暴露于55μg Cu/l 30天后，分别有292个和1076个基因显著上调和下调。通过KEGG分析，有660个具有特定的通路注释。随后的生物信息学分析表明，差异表达基因主要与脂质代谢、免疫系统、细胞凋亡和信号转导有关，这表明这些信号通路可能受铜暴露调控。本研究为后续关于矛尾复虾虎鱼的基因表达研究提供了全面的序列信息，并且铜暴露后的转录组图谱也有望增进我们对铜分子毒理学的理解。
