Pereiro Patricia, Lama Raquel, Moreira Rebeca, Valenzuela-Muñoz Valentina, Gallardo-Escárate Cristian, Novoa Beatriz, Figueras Antonio
Instituto de Investigaciones Marinas (IIM), Consejo Superior de Investigaciones Científicas (CSIC), C/Eduardo Cabello 6, 36208 Vigo, Spain.
Laboratory of Biotechnology and Aquatic Genomics, Interdisciplinary Center for Aquaculture Research (INCAR), University of Concepción, Concepción 4030000, Chile.
Biology (Basel). 2020 Jul 15;9(7):165. doi: 10.3390/biology9070165.
Long noncoding RNAs (lncRNAs) are being increasingly recognised as key modulators of various biological mechanisms, including the immune response. Although investigations in teleosts are still lagging behind those conducted in mammals, current research indicates that lncRNAs play a pivotal role in the response of fish to a variety of pathogens. During the last several years, interest in lncRNAs has increased considerably, and a small but notable number of publications have reported the modulation of the lncRNA profile in some fish species after pathogen challenge. This study was the first to identify lncRNAs in the commercial species European sea bass. A total of 12,158 potential lncRNAs were detected in the head kidney and brain. We found that some lncRNAs were not common for both tissues, and these lncRNAs were located near coding genes that are primarily involved in tissue-specific processes, reflecting a degree of cellular specialisation in the synthesis of lncRNAs. Moreover, lncRNA modulation was analysed in both tissues at 24 and 72 h after infection with nodavirus. Enrichment analysis of the neighbouring coding genes of the modulated lncRNAs revealed many terms related to the immune response and viral infectivity but also related to the stress response. An integrated analysis of the lncRNAs and coding genes showed a strong correlation between the expression of the lncRNAs and their flanking coding genes. Our study represents the first systematic identification of lncRNAs in European sea bass and provides evidence regarding the involvement of these lncRNAs in the response to nodavirus.
长链非编码RNA（lncRNAs）越来越被认为是包括免疫反应在内的各种生物学机制的关键调节因子。尽管硬骨鱼的相关研究仍落后于哺乳动物，但目前的研究表明，lncRNAs在鱼类对多种病原体的反应中起着关键作用。在过去几年中，人们对lncRNAs的兴趣大幅增加，少数但值得注意的出版物报道了病原体攻击后一些鱼类物种中lncRNA谱的调节情况。本研究首次在商业物种欧洲海鲈中鉴定出lncRNAs。在头肾和脑中总共检测到12158个潜在的lncRNAs。我们发现一些lncRNAs在这两种组织中并不常见，并且这些lncRNAs位于主要参与组织特异性过程的编码基因附近，这反映了lncRNAs合成中的一定程度的细胞特化。此外，在感染诺达病毒后24小时和72小时对这两种组织中的lncRNA调节进行了分析。对受调节的lncRNAs的相邻编码基因的富集分析揭示了许多与免疫反应和病毒感染性相关的术语，但也与应激反应相关。lncRNAs和编码基因的综合分析表明，lncRNAs的表达与其侧翼编码基因之间存在很强的相关性。我们的研究代表了欧洲海鲈中lncRNAs的首次系统鉴定，并为这些lncRNAs参与对诺达病毒的反应提供了证据。
