Fisheries College, Jimei University/Engineering Research Center of the Modern Industry Technology for Eel. Ministry of Education of PR China, Xiamen, 361021, China.
College of Overseas Education, Jimei University, Xiamen, 361021, China.
Fish Shellfish Immunol. 2022 Jan;120:745-757. doi: 10.1016/j.fsi.2021.12.051. Epub 2021 Dec 31.
Many studies have explored differentially expressed genes (DEGs) between some pathogens and hosts, but no study has focused on the interaction of DEGs between Edwardsiella anguillarum (Ea) and Anguilla anguilla (Aa). In this study, we examined the interactions of DEGs during Ea infection and Aa anti-infection processes by dual RNA sequencing. Total RNA from in vitro and in vivo (Aa liver) Ea culture was extracted. Using high-throughput transcriptomics, significant DEGs that were expressed between Ea cultured in vitro versus in vivo and those in the liver of the infected group versus control group were identified. Protein-protein interactions between the pathogen and host were explored using Cytoscape according to the HPIDB 3.0 interaction transcription database. The results showed that the liver in the infection group presented with severe bleeding and a large number of thrombi in the hepatic vessels. We found 490 upregulated and 398 downregulated DEGs of Ea in vivo versus Ea cultured in vitro, and 2177 upregulated and 970 downregulated genes in the liver of the infected eels. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis of the pathogen DEGs revealed that the upregulated genes were mainly enriched in migration, colonization, biofilm formation, and significantly enriched in ABC transport and quorum sensing; the downregulated genes were mainly involved in metabolism, information transduction, organelle formation, enzyme catalysis, molecular transport, and binding. GO of the host DEGs showed that metabolic process, catalytic activity, single organism metabolic process, small molecule binding, nucleotide binding, nucleotide phosphate binding, and anion binding were markedly enriched. Finally, we found that 79 Ea and 148 Aa proteins encoded by these DEGs were involved in an interaction network, and some pathogen (DegP, gcvP, infC, carB, rpoC, trpD, sthA, and FhuB) and host proteins (MANBA, STAT1, ETS2, ZEP1, TKT1, NMI and RBPMS) appear to play crucial roles in infection. Thus, determining the interaction networks revealed crucial molecular mechanisms underlying the process of pathogenic infection and host anti-infection.
许多研究已经探索了一些病原体和宿主之间差异表达基因（DEGs），但尚无研究关注爱德华氏菌（Ea）和鳗鲡（Aa）之间 DEGs 的相互作用。在这项研究中，我们通过双 RNA 测序研究了 Ea 感染和 Aa 抗感染过程中 DEGs 的相互作用。从体外和体内（Aa 肝脏）Ea 培养物中提取总 RNA。使用高通量转录组学，鉴定了在体外培养的 Ea 与体内培养的 Ea 之间以及感染组与对照组之间表达的显著差异表达基因。根据 HPIDB 3.0 互作转录数据库，使用 Cytoscape 探索病原体和宿主之间的蛋白质-蛋白质相互作用。结果表明，感染组的肝脏出现严重出血，肝血管内有大量血栓。我们发现，与体外培养的 Ea 相比，体内 Ea 有 490 个上调和 398 个下调的 DEGs，感染鳗鱼肝脏中有 2177 个上调和 970 个下调的基因。对病原体 DEGs 的基因本体论（GO）和京都基因与基因组百科全书（KEGG）分析表明，上调基因主要富集在迁移、定植、生物膜形成，并显著富集在 ABC 转运和群体感应中；下调基因主要参与代谢、信息转导、细胞器形成、酶催化、分子运输和结合。宿主 DEGs 的 GO 显示代谢过程、催化活性、单个生物体代谢过程、小分子结合、核苷酸结合、核苷酸磷酸盐结合和阴离子结合显著富集。最后，我们发现，这些 DEGs 编码的 79 个 Ea 和 148 个 Aa 蛋白参与了一个相互作用网络，一些病原体（DegP、gcvP、infC、carB、rpoC、trpD、sthA 和 FhuB）和宿主蛋白（MANBA、STAT1、ETS2、ZEP1、TKT1、NMI 和 RBPMS）似乎在感染中发挥关键作用。因此，确定相互作用网络揭示了致病感染和宿主抗感染过程中的关键分子机制。
