基于性别的成熟斑马鱼（Danio rerio）大脑中转录组差异表达 mRNA 和 lncRNA 的分析。
Transcriptome profiling analysis of sex-based differentially expressed mRNAs and lncRNAs in the brains of mature zebrafish (Danio rerio).
机构信息
Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources (Shanghai Ocean University), Ministry of Education, Shanghai, 201306, China.
National Pathogen Collection Center for Aquatic Animals, Ministry of Agriculture, Shanghai, 201306, China.
出版信息
BMC Genomics. 2019 Nov 8;20(1):830. doi: 10.1186/s12864-019-6197-9.
BACKGROUND
Similar to humans, the zebrafish brain plays a central role in regulating sexual reproduction, maturation and sexual behavior. However, systematic studies of the dimorphic patterns of gene expression in the brain of male and female zebrafish are lacking.
RESULTS
In this study, the mRNA and lncRNA expression profiles were obtained from the brain tissue samples of the three male and three female zebrafish by high-throughput transcriptome sequencing. We identified a total of 108 mRNAs and 50 lncRNAs with sex-based differential expression. We randomly selected four differentially expressed genes for RT-qPCR verification and the results certified that the expression pattern showed a similar trend between RNA-seq and RT-qPCR results. Protein-protein interaction network analysis, Gene Ontology (GO) analysis, and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were performed to obtain the biological significance of differentially expressed mRNA in the brain dimorphism of zebrafish. Finally, a Pearson correlation analysis was performed to construct the co-expression network of the mRNAs and lncRNAs.
CONCLUSIONS
We found that 12 new lncRNAs not only have significant gender specificity in the brain of zebrafish, and this finding may provide a clue to further study of the functional difference between male and female zebrafish brain.
背景
与人类相似，斑马鱼的大脑在调节生殖、成熟和性行为方面起着核心作用。然而，缺乏对雄性和雌性斑马鱼大脑中基因表达二态性的系统研究。
结果
在这项研究中，通过高通量转录组测序从 3 只雄性和 3 只雌性斑马鱼的脑组织样本中获得了 mRNA 和 lncRNA 表达谱。我们总共鉴定出 108 个具有性别差异表达的 mRNAs 和 50 个 lncRNAs。我们随机选择了四个差异表达基因进行 RT-qPCR 验证，结果表明 RNA-seq 和 RT-qPCR 结果之间的表达模式具有相似的趋势。进行蛋白质-蛋白质相互作用网络分析、基因本体论（GO）分析和京都基因与基因组百科全书（KEGG）分析，以获得在斑马鱼大脑二态性中差异表达 mRNA 的生物学意义。最后，进行 Pearson 相关性分析以构建 mRNAs 和 lncRNAs 的共表达网络。
结论
我们发现 12 个新的 lncRNAs 不仅在斑马鱼的大脑中具有显著的性别特异性，这一发现可能为进一步研究雄性和雌性斑马鱼大脑的功能差异提供线索。
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