The impact of Piscirickettsia salmonis infection on genome-wide DNA methylation profile in Atlantic Salmon
The impact of Piscirickettsia salmonis infection on genome-wide DNA methylation profile in Atlantic Salmon
复制标题
鲑鱼鱼立克次体感染对大西洋鲑鱼全基因组 DNA 甲基化谱的影响
DOI：
10.1016/j.ygeno.2022.110503
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发表时间：
2022
期刊：
影响因子：
4.4
通讯作者：
Mukiibi R
中科院分区：
文献类型：
--
作者：
Mukiibi R
鲑鱼立克次体败血症（SRS），由细菌Piscirickettsia salmonis（P. salmonis）引起，是智利养殖大西洋鲑鱼死亡率高的原因。目前还没有有效的治疗或预防措施，这种疾病，虽然遗传选择或基因组工程，以增加鲑鱼抗SRS是有前途的战略。这些策略的准确性和效率通常受到疾病的生物学背景知识的影响。本研究的目的是研究P.大西洋鲑鱼头肾和肝脏组织中的沙门氏菌感染，以及相同组织中基因表达和DNA甲基化之间的相互作用。采用还原亚硫酸氢盐测序法（RRBS）对66条幼鲑的头肾和肝脏甲基化组进行了分析，并比较了P.沙门氏菌感染的动物（感染后3和9天）和未感染的对照之间以及SRS抗性鱼和敏感鱼之间的差异。甲基化与来自相同动物的匹配RNA-Seq数据相关，揭示了第一外显子中的甲基化导致基因表达的重要抑制。头肾甲基化对感染表现出明显的反应，与免疫过程如肌动蛋白细胞骨架调节、吞噬作用、内吞作用和病原体相关模式受体信号传导相关。我们的研究结果有助于对甲基化在调控基因表达和应对传染病中的作用的了解，并可以将表观遗传标记纳入抗病基因组选择和诊断表观遗传标记的设计中，以更好地管理鲑鱼养殖中的鱼类健康。
Salmon rickettsial septicaemia (SRS), caused by the bacteriaPiscirickettsia salmonis (P. salmonis),is responsible for significant mortality in farmed Atlantic salmon in Chile. Currently there are no effective treatments or preventive measures for this disease, although genetic selection or genome engineering to increase salmon resistance to SRS are promising strategies. The accuracy and efficiency of these strategies are usually influenced by the available biological background knowledge of the disease. The aim of this study was to investigate DNA methylation changes in response toP. salmonisinfection in the head kidney and liver tissue of Atlantic salmon, and the interaction between gene expression and DNA methylation in the same tissues. The head kidney and liver methylomes of 66 juvenile salmon were profiled using reduced representation bisulphite sequencing (RRBS), and compared betweenP. salmonisinfected animals (3 and 9 days post infection) and uninfected controls, and between SRS resistant and susceptible fish. Methylation was correlated with matching RNA-Seq data from the same animals, revealing that methylation in the first exon leads to an important repression of gene expression. Head kidney methylation showed a clear response to the infection, associated with immunological processes such as actin cytoskeleton regulation, phagocytosis, endocytosis and pathogen associated pattern receptor signaling. Our results contribute to the growing understanding of the role of methylation in regulation of gene expression and response to infectious diseases and could inform the incorporation of epigenetic markers into genomic selection for disease resistant and the design of diagnostic epigenetic markers to better manage fish health in salmon aquaculture.