Genome-wide mapping of DNA methylation in Nile Tilapia
Genome-wide mapping of DNA methylation in Nile Tilapia
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DOI：
10.1007/s10750-016-2823-6
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发表时间：
2017-05-01
期刊：
影响因子：
2.6
通讯作者：
Zhao, Jinliang
中科院分区：
文献类型：
--
作者：
Chen, Xiaowu;Wang, Zhipeng;Zhao, Jinliang
胞嘧啶DNA甲基化是基因调控和维持基因组稳定性的关键。然而，详细的尼罗罗非鱼甲基组仍然没有特征。在这项研究中，我们提出了第一个高分辨率的甲基化DNA免疫沉淀(MeDIP)和高通量测序罗非鱼性腺甲基组。在卵巢中，145个基因的基因体和启动子区域分别有265个和56个甲基化峰。在睾丸组织中，在144个基因的基因体和启动子区域分别检测到293和80个甲基化峰。此外，卵巢中有8个和49个基因的启动子区域甲基化率分别高于和低于睾丸。定量PCR结果显示，成纤维细胞生长因子16(Fgf16)、唾液酸酶-3样蛋白、成纤维细胞生长因子20、芳香化酶(Cyp19a)、雌激素受体和促性腺激素受体II前体在卵巢和睾丸中的表达水平与其甲基化水平呈负相关。用亚硫酸氢盐测序聚合酶链式反应技术验证了cyp19a和fgf16的甲基化水平，结果与MeDIP结果一致。因此，除了生成第一个甲基化图谱外，这项研究还产生了一个候选基因库，为探索DNA甲基化与性别分化或维持之间的关系提供了额外的选择。
Cytosine DNA methylation is crucial for gene regulation and maintenance of genome stability. However, the detailed nile tilapia methylome remains uncharacterized. In this study, we present the first high-resolution methylome of tilapia gonad generated using methylated DNA immunoprecipitation (MeDIP) and high-throughput sequencing. In the ovary, 265 and 56 methylation peaks were identified in the genebody and promoter region of 145 genes, respectively. In the testis, 293 and 80 methylation peaks were identified in the genebody and promoter region of 144 genes. Furthermore, 8 and 49 genes showed differentially higher and lower promoter-region methylation rates, respectively, in the ovary relative to those of the testis. Quantitative PCR results revealed that the expression level of fibroblast growth factor 16 (fgf16), sialidase-3-like, fibroblast growth factor 20, aromatase (cyp19a), estrogen receptor, and gonadotropin receptor II precursor were negatively correlated to their methylation levels in the ovary and testis. The methylated levels of cyp19a and fgf16 were validated by bisulfite sequencing PCR technology, and the results were consistent with the MeDIP results. Thus, apart from generating the first methylation map, this study produced a candidate gene repository that provides additional options to explore the relationship between DNA methylation and sex differentiation or maintenance.