Long non-coding RNAs (lncRNAs) have emerged as a hot topic in research as mounting evidence has indicated their transcriptional or post-transcriptional regulatory potential in multiple biological processes. Previous studies have revealed the involvement of lncRNAs in the immunoregulation of mammalian macrophages by changing mRNA expression; however, studies on the lncRNAs in fish macrophages and their potential roles in the immune system remain unknown. Primary macrophages were isolated from the head kidney (HK) of red common carp (Cyprinus carpio) and high-throughput lncRNA-mRNA sequencing was performed using the Illumina HiSeq platform. The results revealed that the most highly expressed mRNAs in primary HK macrophages were mainly involved in immune-related signal pathways. Furthermore, the most enriched immune-related GO term and KEGG pathway of the mRNAs were “immune system development” and “chemokine signaling pathway,” respectively. A total of 20,333 lncRNAs, composed of 10,512 known and 9821 novel lncRNAs, were identified, and functional enrichment analysis of the lncRNA-mRNA network indicated that the expressed lncRNAs in primary HK macrophages could be associated with the regulation of multiple immune-related signaling pathways. In addition, the expressions of several selected lncRNAs and their related mRNAs were determined in carp macrophages following a 6-h exposure to lipopolysaccharide (LPS) and Poly(I: C), the results of which confirmed the co-expression regulation of lncRNAs and target mRNAs in the immune response of carp macrophages. These results suggest the correlative of the lncRNA-mRNA network in fish macrophage immune response, which may further affect the cross-talk of various signaling pathways by interaction with other network genes. Here, we provided fundamental data about the transcriptome profiles of primary HK macrophages from red common carp by analysis of the lncRNA-mRNA network, and ultimately suggest the potential roles of lncRNA-mRNA networks in immune regulation in teleost fish.

长链非编码 RNA (lncRNA) 已成为研究的热门话题，因为越来越多的证据表明它们在多个生物过程中具有转录或转录后调控潜力。先前的研究揭示了lncRNAs通过改变mRNA表达参与哺乳动物巨噬细胞的免疫调节；然而，对鱼类巨噬细胞中的 lncRNA 及其在免疫系统中的潜在作用的研究仍然未知。从红鲤 ( Cyprinus carpio) 和使用 Illumina HiSeq 平台进行高通量 lncRNA-mRNA 测序。结果表明，原代HK巨噬细胞中表达量最高的mRNA主要参与免疫相关信号通路。此外，mRNA 中最丰富的免疫相关 GO 术语和 KEGG 通路分别是“免疫系统发育”和“趋化因子信号通路”。共鉴定出20,333个lncRNA，由10,512个已知lncRNA和9821个新lncRNA组成，lncRNA-mRNA网络的功能富集分析表明，在原代HK巨噬细胞中表达的lncRNA可能与多种免疫相关信号通路的调控有关. 此外，在与脂多糖 (LPS) 和 Poly(I: C) 接触 6 小时后，在鲤鱼巨噬细胞中测定了几种选定的 lncRNA 及其相关 mRNA 的表达，其结果证实了 lncRNA 和目标 mRNA 在鲤鱼巨噬细胞中的共表达调控。鲤鱼巨噬细胞的免疫反应。这些结果表明lncRNA-mRNA网络在鱼类巨噬细胞免疫反应中的相关性，可能通过与其他网络基因的相互作用进一步影响各种信号通路的串扰。在这里，我们通过分析 lncRNA-mRNA 网络提供了关于来自红鲤鱼的原代 HK 巨噬细胞转录组谱的基本数据，并最终提出了 lncRNA-mRNA 网络在硬骨鱼免疫调节中的潜在作用。其结果证实了lncRNAs和靶mRNAs在鲤鱼巨噬细胞免疫反应中的共表达调控。这些结果表明lncRNA-mRNA网络在鱼类巨噬细胞免疫反应中的相关性，可能通过与其他网络基因的相互作用进一步影响各种信号通路的串扰。在这里，我们通过分析 lncRNA-mRNA 网络提供了关于来自红鲤鱼的原代 HK 巨噬细胞转录组谱的基本数据，并最终提出了 lncRNA-mRNA 网络在硬骨鱼免疫调节中的潜在作用。其结果证实了lncRNAs和靶mRNAs在鲤鱼巨噬细胞免疫反应中的共表达调控。这些结果表明lncRNA-mRNA网络在鱼类巨噬细胞免疫反应中的相关性，可能通过与其他网络基因的相互作用进一步影响各种信号通路的串扰。在这里，我们通过分析 lncRNA-mRNA 网络提供了关于来自红鲤鱼的原代 HK 巨噬细胞转录组谱的基本数据，并最终提出了 lncRNA-mRNA 网络在硬骨鱼免疫调节中的潜在作用。这可能通过与其他网络基因的相互作用进一步影响各种信号通路的串扰。在这里，我们通过分析 lncRNA-mRNA 网络提供了关于来自红鲤鱼的原代 HK 巨噬细胞转录组谱的基本数据，并最终提出了 lncRNA-mRNA 网络在硬骨鱼免疫调节中的潜在作用。这可能通过与其他网络基因的相互作用进一步影响各种信号通路的串扰。在这里，我们通过分析 lncRNA-mRNA 网络提供了关于来自红鲤鱼的原代 HK 巨噬细胞转录组谱的基本数据，并最终提出了 lncRNA-mRNA 网络在硬骨鱼免疫调节中的潜在作用。