沙门氏菌泛耐药基因组特征分析

Characteristics analysis of pan-resistant genome of Salmonella

摘要:

[目的] 分析沙门氏菌的泛耐药基因组特征。[方法] 以EnteroBase数据库中16365株沙门氏菌为对象，利用课题组自主研发的泛耐药基因组分析软件（PRAP），进行泛耐药基因组结构的鉴定，通过曼-惠特尼秩和检验和皮尔逊检验，来分析耐药基因与血清型、序列型（sequence type，ST）及分离株样本来源信息间的相关性。[结果] 沙门氏菌共有104种耐药基因，其中核心耐药基因18种，附属耐药基因86种，且沙门氏菌拥有一个开放型的泛耐药基因组；相同的血清型（或ST型）有相似的耐药基因谱，不同血清型（或ST型）间耐药基因的分布差异显著（P<0.05），耐药基因与样本来源、分离国家及年份间也存在一定的相关性；在测试的23种获得性耐药基因中，43.48%（10/23）的占比逐年升高，73.91%（17/23）以单一亚型为优势。[结论] 利用PRAP软件分析获得的这些结果揭示了近年来沙门氏菌耐药基因的时空分布规律，为沙门氏菌等食源性致病菌耐药性的研究提供了新思路。

Abstract:

[Objective] Analyze the characteristics of the pan-resistant genome of Salmonella. [Methods] In this study, the pan-resistome analysis pipeline developed in our previous researches was used to identify the pan-resistant genomic structure and to analyze the correlation between drug-resistant genes and serotype, sequence type and isolation information, etc. based on the sequencing of 16,365 Salmonella strains downloaded from the EnteroBase database.[Results] All drug-resistant genes were categorized into 104 alleles, among which 18 alleles belonged to the core resistome and 86 alleles belonged to the accessory resistome. It had an open pan-resistant genome. The same serotype (or sequence type) had similar drug-resistant genes profile, however, the distribution of drug-resistant genes in different serotypes (or sequence types) is significantly different (P<0.05). Moreover, there was a certain correlation between drug-resistant genes and sample sources, separation countries and isolated years. The proportion of 23 acquired drug-resistant genes and their subtypes revealed that 10 (43.48%) of them increased yearly, and 10 (73.91%) of them had only one dominant type. [Conclusion] All the results obtained in this study have revealed the distribution and trend of Salmonella drug-resistant genes in recent years, in further to provide new ideas to study the drug-resistance of pathogens.