Differential expression patterns of growth-related microRNAs in the skeletal muscle of Nile tilapia (Oreochromis niloticus)
Differential expression patterns of growth-related microRNAs in the skeletal muscle of Nile tilapia (Oreochromis niloticus)
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DOI：
10.2527/jas.2012-5142
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发表时间：
2012-12-01
影响因子：
3.3
通讯作者：
Wu, J. L.
中科院分区：
文献类型：
--
作者：
Huang, C. W.;Li, Y. H.;Wu, J. L.
MicroRNA(MiRNA)是一类小的单链非编码RNA，在转录后水平上调节mRNA的表达，在许多基本的生物学过程中发挥着重要的作用。越来越多的证据表明，miRNA是广泛的细胞功能的关键调节因子，如分化、增殖和迁移。目前，水生生物中与骨骼肌生长相关的miRNA表达谱知之甚少。本研究旨在研究尼罗罗非鱼(Oreochromis Niloticus)生长过程中的表型差异，并鉴定和量化部分生长相关转录因子miRNA在该鱼骨骼肌中的差异表达水平。为此，我们进行了下一代测序，以确定尼罗罗非鱼肌肉组织中完整的miRNA转录组，并检测两个尼罗罗非鱼品系之间差异表达的miRNA。这些罗非鱼品系在生长相关性状(体长和体重)、线粒体DNA(MtDNA)单倍型多样性以及所选生长相关基因的差异表达方面表现出显著的表型差异(P<；0.05)。转录组分析和实时定量逆转录聚合酶链式反应(qRT-PCR)结果显示，快速生长罗非鱼和对照罗非鱼miRNA的表达存在显著差异。根据获得的读取丰度进行数字基因表达谱(DGE)分析，我们发现与罗非鱼身体生长相关的下调的miRNA包括let-7J、miR-140、miR-192、miR-204、miR-218a、miR-218b、miR-301c和miR-460，上调的miRNA包括let-7b、let-7c、miR-133、miR-152、miR-15a、miR-193a、miR-30b和miR-34。这些结果通过实时定量逆转录聚合酶链式反应和微阵列分析得到了进一步验证。总之，参与GH/IGF-1轴信号通路的miRNA的上调和下调表明，与生长相关的miRNA的差异表达水平可能作为预测特定功能和诊断意义的分子标记。所获得的关于miRNA-靶标相互作用中的遗传多态的数据对尼罗罗非鱼的育种计划特别有用。
MicroRNA (miRNA) are a class of small, single-stranded, non-coding RNA that regulate mRNA expression at the post-transcriptional level and play important roles in many fundamental biological processes. There is emerging evidence that miRNA are critical regulators of widespread cellular functions, such as differentiation, proliferation, and migration. At present, little is known about miRNA expression profiles related to skeletal muscle growth in aquatic organisms. This study aimed to investigate the phenotypic variation in the body growth of the Nile tilapia (Oreochromis niloticus) and to identify and quantify the differential expression levels of selected growth-related transcriptomic miRNA in the skeletal muscle of this fish. To this end, we performed next-generation sequencing to define the full miRNA transcriptome in muscle tissue from Nile tilapia and to detect differentially expressed miRNA between 2 strains of Nile tilapia. These tilapia strains exhibited significant (P < 0.05) phenotypic variation with respect to growth-related traits (body length and BW), mitochondrial DNA (mtDNA) haplotype diversity, and the differential expression of selected growth-related genes. The results obtained from the transcriptome analysis and real-time quantitative reverse transcription PCR (qRT-PCR) revealed significant differences in miRNA expression between fast-growing and control strains of tilapia. Digital gene expression (DGE) profiling was performed based on the obtained read abundance, and we identified down-regulated miRNA, including let-7j, miR-140, miR-192, miR-204, miR-218a, miR-218b, miR-301c, and miR-460, and up-regulated miRNA, including let-7b, let-7c, miR-133, miR-152, miR-15a, miR-193a, miR-30b, and miR-34, associated with body growth in tilapia. These results were further validated using real-time qRT-PCR and microarray profiling. In summary, the up-and down-regulation of miRNA involved in the GH/IGF-1 axis signaling pathway suggests that the differential expression levels of growth-related miRNA may serve as molecular markers that are predictive of specific functional and diagnostic implications. The obtained data on genetic polymorphisms in miRNA-target interactions are particularly useful for Nile tilapia breeding programs.