细菌全基因组测序技术用于沙门氏菌流行病学调查的可行性分析
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S852.61

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国家自然科学基金面上项目(31872499);国家重点研发计划项目(2018YFD0500500)


Feasibility Analysis on Bacterial Whole Genome Sequencing for Epidemiological Investigation on Salmonella
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    摘要:

    为探讨细菌全基因组测序(whole genome sequencing,WGS)技术在基层沙门氏菌防控中的优势与可行性,对前期分离的9株沙门氏菌进行细菌全基因组测序,并进行血清型预测、多位点序列分型(multilocus sequence typing,MLST)和耐药基因分析,将全基因组测序结果与传统血清分型和耐药性分析结果进行对比。结果显示:基于全基因组测序数据的血清分型结果与传统血清分型结果符合率为100%,两种方法对9株沙门氏菌血清分型结果完全一致;两种方法分析出的β-内酰胺类、氯霉素类、喹诺酮类和氨基糖苷类药物的耐药基因与耐药表型符合率为100%,即耐药菌株中均含有4大类抗菌药物的耐药基因;用全基因组测序检测到利福平、磺胺类和四环素3大类抗菌药物的7个耐药基因,表明9株沙门氏菌可能对这3大类抗菌药物耐药。结果表明:全基因组测序结果与传统实验室诊断结果完全一致,且具有快速、低成本、操作简单等优势,并且随着测序技术的发展,其检测成本和周期将进一步缩减,因此基于细菌全基因组测序开发沙门氏菌快速分型和耐药性分析方法有一定的应用价值和可行性。

    Abstract:

    In order to identify the advantages and feasibility of bacterial whole genome sequencing(WGS)in grassroots prevention and control of Salmonella,the bacterial whole genome of 9 isolated strains of Salmonella was sequenced,followed by serotype prediction,multilocus sequence typing(MLST)and analysis on drug resistance gene,to compare the results of WGS with those of traditional serotyping and drug resistance analysis. The results showed that the coincidence rate of serological typing based on WGS data was 100% with that of traditional serological typing,by both of which,the results of 9 strains of Salmonella serotyping were completely consistent;and the coincidence rate of drug resistance genes and drug resistance phenotype of β-lactams,chloramphenicols,quinolones and aminoglycosides was 100%,that was,drug resistance genes of four categories of antibiotics were contained in all drug-resistant strains;7 resistance genes of rifampicin,sulfanilamide and tetracycline were detected by WGS,indicating that the 9 strains of Salmonella might be resistant to these three categories of antibiotics. It was concluded that WGS was with the advantages such as rapidity,low cost and simple operation,its results were completely consistent with those by traditional laboratory diagnosis,and its costs and cycle for detection would be further reduced with the development of sequencing technology. Therefore,there would be certain value of application and feasibility to develop a method for rapid typing and drug resistance analysis of Salmonella based on bacterial whole genome sequencing.

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林本夫,任欣悦,袁晓琪,梁梦诗,丘穗萍,潘婧淇,原丽红.细菌全基因组测序技术用于沙门氏菌流行病学调查的可行性分析[J].《中国动物检疫》编辑部,2022,39(6):125-131.

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