Molecular epidemiology of Salmonella Infantis in Europe: insights into the success of the bacterial host and its parasitic pESI-like megaplasmid

Patricia Alba, Pimlapas Leekitcharoenphon, Virginia Carfora, Roberta Amoruso, Gessica Cordaro, Paola Di Matteo, Angela Ianzano, Manuela Iurescia, Elena L Diaconu, Engage-Eurl-Ar Network Study Group, Susanne Karlsmose Pedersen, Beatriz Guerra, Rene S. Hendriksen, Alessia Franco, Antonio Battisti*

*Corresponding author for this work

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Abstract

Salmonella Infantis is one of the five serovars most frequently causing human salmonellosis in Europe, mainly associated with poultry. A clone harbouring a conjugative plasmid of emerging S. Infantis (pESI)-like megaplasmid, carrying multidrug resistant (MDR) and extended-spectrum beta-lactamases (ESBL) genes, has spread in the Italian broiler chicken industry also causing human illness. This work is aimed at elucidating the molecular epidemiology of S. Infantis and pESI-like in Europe using whole-genome sequencing and bioinformatics analysis, and to investigate the genetic relatedness of S. Infantis clones and pESI-like from animals, meat, feed and humans provided by institutions of nine European countries. Two genotyping approaches were used: chromosome or plasmid SNP-based analysis and the minimum spanning tree (MST) algorithm based on core-genome multilocus sequence typing (cgMLST). The European S. Infantis population appeared heterogeneous, with different genetic clusters defined at core-genome level. However, pESI-like variants present in 64.1 % of the isolates were more genetically homogeneous and capable of infecting different clonal lineages in most of the countries. Two different pESI-like with ESBL genes (n=82) were observed: bla CTX-M-1-positive in European isolates and bla CTX-M-65-positive in American isolates (study outgroup). Both variants had toxin-antitoxin systems, resistance genes towards tetracyclines, trimethoprim, sulphonamides and aminoglycosides, heavy metals (merA) and disinfectants (qacEΔ). Worryingly, 66 % of the total isolates studied presented different gyrA chromosomal point mutations associated with (fluoro)quinolone resistance (MIC range 0.125-0.5 mg/L), while 18 % displayed transferable macrolide resistance mediated by mph, mef and erm(B) genes. Proper intervention strategies are needed to prevent further dissemination/transmission of MDR S. Infantis and pESI-like along the food chain in Europe.
Original languageEnglish
JournalMicrobial Genomics
Volume6
Issue number5
Number of pages12
DOIs
Publication statusPublished - 2020

Cite this

Alba, P., Leekitcharoenphon, P., Carfora, V., Amoruso, R., Cordaro, G., Di Matteo, P., Ianzano, A., Iurescia, M., Diaconu, E. L., Study Group, E-E-A. N., Karlsmose Pedersen, S., Guerra, B., Hendriksen, R. S., Franco, A., & Battisti, A. (2020). Molecular epidemiology of Salmonella Infantis in Europe: insights into the success of the bacterial host and its parasitic pESI-like megaplasmid. Microbial Genomics, 6(5). https://doi.org/10.1099/mgen.0.000365