In 2016, a whole-genome sequence (WGS)-based genotyping framework (GenoTyphi) was developed and provided a phylogenetically informative nomenclature for lineages of Salmonella Typhi, the etiological agent of typhoid fever. Subsequent surveillance studies have revealed additional epidemiologically important subpopulations, which require the definition of new genotypes and extension of associated software to facilitate the detection of antimicrobial resistance (AMR) mutations. Analysis of 4632 WGS provide an updated overview of the global S Typhi population structure and genotyping framework, revealing the widespread nature of haplotype 58 ([H58] 4.3.1) genotypes and the diverse range of genotypes carrying AMR mutations.

中文翻译：

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GenoTyphi 五年：全球伤寒沙门氏菌基因分型框架的更新

2016 年，开发了一个基于全基因组序列 (WGS) 的基因分型框架 (GenoTyphi)，并为伤寒的病原体伤寒沙门氏菌谱系提供了系统发育信息命名法。随后的监测研究揭示了其他流行病学上重要的亚群，这需要定义新的基因型和扩展相关软件以促进检测抗菌素耐药性 (AMR) 突变。对 4632 WGS 的分析提供了全球伤寒沙门氏菌种群结构和基因分型框架的最新概述，揭示了单倍型 58 ([H58] 4.3.1) 基因型的广泛性和携带 AMR 突变的多种基因型。