全基因组测序在食源性沙门氏菌监测中的应用

Application of Whole Genome Sequencing for the Monitoring Foodborne Salmonella

沙门氏菌是重要的食源性致病菌,给社会带来了严重的公共卫生和经济影响。随着高通量测序技术的发展,全基因组序列分析在沙门氏菌的监测中显示出了极大的发展潜力和价值。本文综述了全基因组序列分析在沙门氏菌血清型鉴定、分子分型以及耐药研究领域中的应用前景。利用高通量测序技术与沙门氏菌抗原相关基因数据库比对进行血清型的预测,在血清凝集方法难以确定血清型的情况下发挥重要作用。与传统的细菌分子分型方法相比,全基因组测序技术速度更快、分辨率更高,且易于实现实验室间比较,在公共卫生事件中可用于快速识别病原体并进行溯源分析。利用耐药基因数据库从基因水平上发现其携带的耐药基因,结合耐药表型进一步探索其耐药机制。随着高通量测序技术和生物信息技术的不断成熟,更多的共享数据库平台不断出现,全基因组序列分析将应用于更广泛的领域。

Salmonella is an important food-borne pathogen that is associated with serious public health and economic implications.With the development of high-throughput sequencing technology,Whole genome sequencing has shown great potential and value in the surveillance of Salmonella.The review strives to discuss the serotype identification,molecular typing and antimicrobial resistance profiles of Salmonella in Whole genome sequence and looks forward to its future.The prediction of serotypes using high-throughput sequencing technology compared with Salmonella antigen-related gene databases plays an important role in cases where serotypes are difficult to determine by serum agglutination methods.Whole genome sequencing technology is faster,higher resolution,and easy to achieve inter-laboratory comparisons than traditional bacterial molecular typing methods,and can be used for rapid identification of pathogens and traceability analysis in public health events.The drug resistance gene database is utilized to discover the drug resistance genes they carry at the gene level,and to explore their resistance mechanisms in conjunction with the drug resistance phenotype.With the continuing maturation of high-throughput sequencing and bioinformatics approaches,and the emergence of more shared database platforms,whole genome sequence analysis will be applied to a wider range of fields.