Genomic investigation of antimicrobial resistance determinants and virulence factors in Salmonella enterica serovars isolated from contaminated food and human stool samples in Brazil
Genomic investigation of antimicrobial resistance determinants and virulence factors in Salmonella enterica serovars isolated from contaminated food and human stool samples in Brazil
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DOI：
10.1016/j.ijfoodmicro.2021.109091
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发表时间：
2021-02-24
影响因子：
5.4
通讯作者：
Macarisin, Dumitru
中科院分区：
文献类型：
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作者：
de Melo, Adma Nadja Ferreira;Monte, Daniel F. M.;Macarisin, Dumitru
本研究利用全基因组测序（WG-5）研究了与巴西7年多暴发有关的人类粪便和受污染食品中分离的37株肠沙门氏菌的抗微生物药物耐药性决定因素、毒力因素，并鉴定出semvars。对所选血清型（鼠伤寒沙门氏菌、婴儿沙门氏菌、伦敦沙门氏菌和约翰内斯堡沙门氏菌）进行系统发育分析。鉴定出10个不同的半分型，51%的测试菌株（n = 19）与以前的常规半分型不一致。抗菌素耐药性（AMR）决定因素或质粒在不同菌株之间存在差异。抗性组分析显示存在氨基糖苷类[aac（6′）-laa, aph（3′）-lb, aph（6′）-Id， aadAl和aadA2]，磺胺类（sul1），三甲氧嘧啶（dfrA8），磷霉素（fosA7）和四环素类（tetA, tetB, tetC）的耐药基因，以及parC （T575）和gyrA （583F）的点突变。质粒中存在IncHI2、IncHI2A、IncFIB(5)、IncFII(5)、Inch和p0111质粒。在评估的基因组中鉴定出8个沙门氏菌致病性岛和多达102个应激和/或毒力基因。K88菌毛粘附素毒力基因首次在肠链球菌（S. Pomona、S. Bredeney和S. Mbandaka菌株）中报道。pilW基因最早在S. Pomona中被发现。系统发育分析表明，一些semvar在巴西传播了几十年，主要在家禽生产链中传播。研究结果强调了菌株的毒力和抗菌素耐药性决定因素可能导致反复发生的食物疫情。
This study investigated the antimicrobial resistance determinants, virulence factors and identified semvars in 37 Salmonella enterica strains isolated from human stool and contaminated foods linked to outbreaks that occurred in Brazil over 7 years using whole genome sequencing (WG-5). Phylogenetic analysis of selected serovars (S. Typhimurium, S. Infantis, S. London, and S. Johannesburg) was performed. Ten distinct semvars were identified and, 51% of the tested strains (n = 19) showed disagreement with the previous conventional semtyping. The antimicrobial resistance (AMR) determinants or plasmids varied among the strains. Resistome analysis revealed the presence of resistance genes to aminoglycosides [aac (6')-laa, aph (3 '')-lb, aph (6)-Id, aadAl and aadA2], sulfonamides (sul1), trimethoprin (dfrA8), fosfomycin (fosA7) and tetracyclines (tetA, tetB, tetC), as well as point mutations in parC (T575) and gyrA (583F). Plasmidome showed the presence of IncHI2, IncHI2A, IncFIB (5), IncFII (5), Inch and p0111 plasmids. Eight Salmonella pathogenicity islands and up to 102 stress and/or virulence genes were identified in the evaluated genomes. Virulence genes of K88 fimbrial adhesin were first reported in S. enterica (S. Pomona, S. Bredeney and S. Mbandaka strains). pilW gene was first identified in S. Pomona. Phylogenetic analysis showed that some semvars circulated in Brazil for decades, primarily within the poultry production chain. Findings highlighted the virulence and AMR determinants in strains that may lead to recurring food outbreaks.