College of Animal Science and Technology, Gansu Agricultural University, Lanzhou, China.
College of Science, Gansu Agricultural University, Lanzhou, China.
Front Immunol. 2022 May 17;13:802731. doi: 10.3389/fimmu.2022.802731. eCollection 2022.
Fish skin is a vital immune organ that forms the first protective barrier preventing entry of external pathogens. Rainbow trout is an important aquaculture fish species that is farmed worldwide. However, our knowledge of innate immunity differences between wild-type (WR_S) and yellow mutant rainbow trout (YR_S) remains limited. In this study, we performed whole transcriptome analysis of skin from WR_S and YR_S cultured in a natural flowing water pond. A total of 2448 mRNAs, 1630 lncRNAs, 22 circRNAs and 50 miRNAs were found to be differentially expressed (DE). Among these DEmRNAs, numerous key immune-related genes, including , , , , , , , , , , and several other genes associated with metabolism (, , and ) were identified. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses of DEmRNAs revealed that many were significantly enriched in innate immune-related GO terms and pathways, including NAD+ADP-ribosyltransferase activity, complement binding, immune response and response to bacterium GO terms, and RIG-I-like receptor signaling, NOD-like receptor signaling and phagosome KEGG pathways. Furthermore, the immune-related competing endogenous RNA networks were constructed, from which we found that lncRNAs MSTRG.11484.2, MSTRG.32014.1 and MSTRG.29012.1 regulated at least three immune-related genes (, and ) through PC-5p-43254_34, PC-3p-28352_70 and bta-miR-11987_L-1R-1_1ss8TA, and was regulated by two circRNAs (circRNA5279 and circRNA5277) by oni-mir-124a-2-p5_1ss13GA. The findings expand our understanding of the innate immune system of rainbow trout, and lay the foundation for further study of immune mechanisms and disease resistance breeding.
鱼皮是形成第一道防止外部病原体进入的保护性屏障的重要免疫器官。虹鳟是一种重要的养殖鱼类，在全球范围内养殖。然而，我们对野生型（WR_S）和黄色突变虹鳟（YR_S）之间先天免疫差异的了解仍然有限。在这项研究中，我们对在天然流水池塘中养殖的 WR_S 和 YR_S 的皮肤进行了全转录组分析。共发现 2448 个 mRNAs、1630 个 lncRNAs、22 个 circRNAs 和 50 个 miRNAs 存在差异表达（DE）。在这些 DEmRNAs 中，许多关键的免疫相关基因，包括 、 、 、 、 、 、 、 、 和几个与代谢相关的基因（ 、 、 ）被鉴定出来。DEmRNAs 的基因本体论（GO）和京都基因与基因组百科全书（KEGG）通路富集分析表明，许多基因在先天免疫相关的 GO 术语和通路中显著富集，包括 NAD+ADP-ribosyltransferase 活性、补体结合、免疫反应和对细菌的反应 GO 术语，以及 RIG-I 样受体信号、NOD 样受体信号和吞噬体 KEGG 通路。此外，构建了免疫相关的竞争性内源 RNA 网络，从中发现 lncRNAs MSTRG.11484.2、MSTRG.32014.1 和 MSTRG.29012.1 通过 PC-5p-43254_34、PC-3p-28352_70 和 bta-miR-11987_L-1R-1_1ss8TA 调控至少三个免疫相关基因（ 、 和 ），而 则由两个 circRNAs（circRNA5279 和 circRNA5277）通过 oni-mir-124a-2-p5_1ss13GA 调控。这些发现扩展了我们对虹鳟先天免疫系统的理解，为进一步研究免疫机制和抗病性育种奠定了基础。
