PDF(Sci-hub)
Abstract：
Campylobacter jejuni (C. jejuni), is considered among the most common bacterial causes of human bacterial gastroenteritis worldwide. The epidemiology and the transmission dynamics of campylobacteriosis in Egypt remain poorly defined due to the limited use of high-resolution typing methods. In this pilot study, we evaluated the discriminatory power of multiple typing \'gene-by-gene based\' techniques to characterize C. jejuni obtained from different sources and estimate the relative contribution of different potential sources of C. jejuni infection in Egypt. Whole genome sequencing (WGS) was performed on 90 C. jejuni isolates recovered from clinical samples, retail chicken, and dairy products in Egypt from 2017 to 2018. Comparative genomic analysis was performed using conventional seven-locus multilocus sequence typing (MLST), ribosomal MLST (rMLST), core genome MLST (cgMLST), allelic variation in 15 host-segregating (HS) markers, and comparative genomic fingerprinting (CGF40). The probabilistic source attribution was performed via STRUCTURE software using MLST, CGF40, cgMLST and allelic variation in HS markers. Comparison of the discriminatory power of the aforementioned genotyping methods revealed cgMLST to be the most discriminative method, followed by HS markers. The source attribution analysis showed the role of retail chicken as a source of infection among clinical cases in Egypt when HS and cgMLST were used (64.2% and 52.3% of clinical isolates were assigned to this source, respectively). Interestingly, the cattle reservoir was also identified as a contributor to C. jejuni infection in Egypt; 35.8% and 47.7% of clinical isolates were assigned to this source by HS and cgMLST, respectively. Here, we provided evidence of the importance of using WGS typing methods to facilitate source tracking of C. jejuni. Our findings suggest the importance of non-poultry sources, together with the previously reported role of retail chicken in human campylobacteriosis in Egypt that can provide insights to inform national control measures.
摘要：
空肠弯曲杆菌（C.jejuni),被认为是世界范围内人类细菌性胃肠炎最常见的细菌原因之一。由于高分辨率分型方法的使用有限，埃及弯曲杆菌病的流行病学和传播动力学仍然不明确。在这项试点研究中，我们评估了基于基因的多重分型技术对来自不同来源的空肠弯曲菌进行定性的辨别能力,并估计了埃及空肠弯曲菌感染的不同潜在来源的相对贡献。对从临床样品中回收的90株空肠弯曲菌进行全基因组测序(WGS)。零售鸡肉，2017年至2018年埃及的乳制品。使用常规的七基因座多位点序列分型（MLST）进行比较基因组分析，核糖体MLST（rMLST），核心基因组MLST（cgMLST），15个宿主分离（HS）标记的等位基因变异，和比较基因组指纹图谱（CGF40）。通过STRUCTURE软件使用MLST进行概率源归属，CGF40、cgMLST和HS标记的等位基因变异。上述基因分型方法的鉴别力比较显示cgMLST是最具鉴别力的方法，其次是HS标记。来源归因分析显示，当使用HS和cgMLST时，在埃及的临床病例中，零售鸡作为感染源的作用（64.2％和52.3％的临床分离株被分配到该来源，分别)。有趣的是,在埃及，牛水库也被确定为空肠弯曲杆菌感染的贡献者；通过HS和cgMLST将35.8%和47.7%的临床分离株分配到该来源，分别。这里,我们提供了使用WGS分型方法促进空肠弯曲杆菌来源追踪的重要性的证据.我们的研究结果表明非家禽来源的重要性，以及先前报道的零售鸡肉在埃及人类弯曲杆菌病中的作用，可以为国家控制措施提供见解。
