Fu Jianjun, Zhu Wenbin, Wang Lanmei, Luo Mingkun, Jiang Bingjie, Dong Zaijie
Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center of Chinese Academy of Fishery Sciences, Wuxi, China.
Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Education, Shanghai Ocean University, Shanghai, China.
Front Genet. 2022 Jan 19;12:821403. doi: 10.3389/fgene.2021.821403. eCollection 2021.
The early development of fish is regulated through dynamic and complex mechanisms involving the regulation of various genes. Many genes are subjected to post-transcriptional regulation by microRNAs (miRNAs). In the Chinese aquaculture industry, the native species bighead carp () is important. However, the genetic regulation related to the early development of bighead carp is unknown. Here, we generated developmental profiles by miRNA sequencing to study the dynamic regulation of miRNAs during bighead carp early development. This study identified 1 046 miRNAs, comprising 312 known miRNAs and 734 uncharacterized miRNAs. Changes in miRNA expression were identified in the six early development stages. An obviously increased expression trend was detected during the development process, with the main burst of activity occurring after the earliest stage (early blastula, DS1). Investigations revealed that several miRNAs were dominantly expressed during the development process, especially in the later stages (e.g., miR-10b-5p, miR-21, miR-92a-3p, miR-206-3p, and miR-430a-3p), suggesting that these miRNAs exerted important functions during embryonic development. The differentially expressed miRNAs (DEMs) and time-serial analysis (profiles) of DEMs were analyzed. A total of 372 miRNAs were identified as DEMs (fold-change >2, and false discovery rate <0.05), and three expression profiles of the DEMs were detected to have co-expression patterns ( > 0.7, and < 0.05). The broad negative regulation of target genes by miRNAs was speculated, and many development-related biological processes and pathways were enriched for the targets of the DEMs, which might be associated with maternal genome degradation and embryogenesis processes. In conclusion, we revealed the repertoire of miRNAs that are active during early development of bighead carp. These findings will increase our understanding of the regulatory mechanisms of early development of fish.
鱼类的早期发育是通过涉及多种基因调控的动态复杂机制来调节的。许多基因受到微小RNA（miRNA）的转录后调控。在中国水产养殖业中，本土物种鳙鱼（）很重要。然而，与鳙鱼早期发育相关的遗传调控尚不清楚。在这里，我们通过miRNA测序生成了发育图谱，以研究鳙鱼早期发育过程中miRNA的动态调控。本研究鉴定出1046个miRNA，包括312个已知miRNA和734个未鉴定的miRNA。在六个早期发育阶段鉴定出了miRNA表达的变化。在发育过程中检测到明显的表达增加趋势，主要的活性爆发发生在最早阶段（早期囊胚，DS1）之后。研究发现，一些miRNA在发育过程中占主导表达，特别是在后期阶段（例如，miR-10b-5p、miR-21, miR-92a-3p、miR-206-3p和miR-430a-3p），这表明这些miRNA在胚胎发育过程中发挥了重要作用。对差异表达的miRNA（DEM）和DEM的时间序列分析（图谱）进行了分析。共鉴定出372个miRNA为DEM（变化倍数>2，错误发现率<0.05），并检测到DEM的三种表达图谱具有共表达模式（>0.7，<0.05）。推测miRNA对靶基因具有广泛的负调控作用，许多与发育相关的生物学过程和途径在DEM的靶标中富集，这可能与母本基因组降解和胚胎发生过程有关。总之，我们揭示了鳙鱼早期发育过程中活跃的miRNA库。这些发现将增进我们对鱼类早期发育调控机制的理解。
