Phylogenomic analysis of Salmonella Indiana ST17, an emerging MDR clonal group in China

• DOI: 10.1093/jac/dkac243
• Publication Date: 2022-07-26T11:59:16Z
• Authors: Ruan-Yang Sun; Wen-Ying Guo; Ji-Xing Zhang; Min-Ge Wang; Lin-Lin Wang; Xin-Lei Lian; Bi-Xia Ke; Jian Sun; Chang-Wen Ke; Ya-Hong Liu; Xiao-Ping Liao; Liang-Xing Fang
• Keywords: Genomic island; Lineage (genetic)

Abstract Objectives To reconstruct the genomic epidemiology and evolution of MDR Salmonella Indiana in China. Methods A total 108 strains were collected from humans livestock All isolates subjected to WGS antimicrobial susceptibility testing. Phylogenetic relationships evolutionary analyses conducted using data this study NCBI database. Results Almost all displayed phenotype. Importantly, 84 possessed concurrent resistance ciprofloxacin cefotaxime. analysis revealed that class 1 integrons on chromosome IncHI2 plasmids key vectors responsible for multiple antibiotic gene (ARG) [including ESBL plasmid-mediated quinolone (PMQR) genes] transmission among Indiana. The dataset a relatively large core genome ST17 was predominant ST. Moreover, global could be divided into five distinct lineages, each which significantly associated with geographical distribution. Genomic determinants QRDR mutations Chinese almost did not occur other lineages. Using molecular clock analysis, we hypothesized have existed since 1956 underwent major population expansion 1980s 2000s genetic diversity started decrease around 2011, probably due barriers, selective pressure MDR, favouring establishment prevalent antibiotic-resistant lineage local epidemics. Conclusions This adaptation possibly pivotal recent trajectory clonal spread