金色的Pompano,卵裂器,作为一种营养丰富的有商业价值的海鱼,由于其快速增长,已成为许多养鱼户的首选物种之一,广泛的适应性,易于喂养和管理。然而,随着水产养殖规模的扩大,细菌和寄生虫病也已成为金pompano行业的主要威胁。这项研究,基于比较基因组学,通过分析14种海鱼和淡水鱼的系统发育关系和发散时间,表明淡水鱼优先于海鱼进化的可能性。此外,我们从基因组水平鉴定了14个物种的抗菌肽基因,发现推定的抗菌肽的数量可能与物种进化有关。随后,我们根据APD3提供的分类,将来自金膜的341个鉴定的AMP分为38个类别。其中,TCP所占比例最高,占总数的23.2%,其次是scolopendin,凝集素,趋化因子,BPTI,和组蛋白衍生的肽。同时,AMP在染色体中的分布随类型而变化,协方差分析显示其重复事件的频率。富集分析和PPI表明,AMP主要集中在与疾病免疫相关的途径中。此外,我们的转录组数据测量了12个正常组织中假定的金pompanoAMP的表达,以及在肝脏中,脾,脾和肾脏感染无乳链球菌和皮肤感染隐虫。随着无乳链球菌和刺激梭菌感染的进展,我们观察到响应性AMP的数量和类型的组织特异性。AMP基因的阳性选择可能通过MAPK信号通路参与免疫应答。在金pompano中对抗菌肽的全基因组鉴定提供了潜在AMP的完整数据库,可有助于进一步了解病原体的免疫机制。AMPs有望取代传统抗生素,并发展成为针对特定细菌和寄生虫病原体的靶向药物,以进行更精确和有效的治疗,以提高水产养殖产量。
Golden pompano, Trachinotus ovatus, as a highly nutritious commercially valuable marine fish, has become one of the preferred species for many fish farmers due to its rapid growth, wide adaptability, and ease of feeding and management. However, with the expansion of aquaculture scale, bacterial and parasitic diseases have also become major threats to the golden pompano industry. This study, based on comparative genomics, shows the possibility of preferential evolution of freshwater fish over marine fish by analyzing the phylogenetic relationships and divergence times of 14 marine fish and freshwater fish. Furthermore, we identified antimicrobial peptide genes from 14 species at the genomic level and found that the number of putative antimicrobial peptides may be related to species evolution. Subsequently, we classified the 341 identified AMPs from golden pompano into 38 categories based on the classification provided by the APD3. Among them, TCP represented the highest proportion, accounting for 23.2% of the total, followed by scolopendin, lectin, chemokine, BPTI, and histone-derived peptides. At the same time, the distribution of AMPs in chromosomes varied with type, and covariance analysis showed the frequency of its repeat events. Enrichment analysis and PPI indicated that AMP was mainly concentrated in pathways associated with disease immunity. In addition, our transcriptomic data measured the expression of putative AMPs of golden pompano in 12 normal tissues, as well as in the liver, spleen, and kidney infected with Streptococcus agalactiae and skin infected with Cryptocaryon irritans. As the infection with S. agalactiae and C. irritans progressed, we observed tissue specificity in the number and types of responsive AMPs. Positive selection of AMP genes may participate in the immune response through the MAPK signaling pathway. The genome-wide identification of antimicrobial peptides in the golden pompano provided a complete database of potential AMPs that can contribute to further understanding the immune mechanisms in pathogens. AMPs were expected to replace traditional antibiotics and be developed into targeted drugs against specific bacterial and parasitic pathogens for more precise and effective treatment to improve aquaculture production.