Genomic characterization of extended-spectrum cephalosporin-resistant Salmonella enterica in the Colombian poultry chain

Luis Ricardo Castellanos, Linda van der Graaf-van Bloois, Pilar Donado-Godoy, Maribel León, Viviana Clavijo, Alejandra Arévalo, Johan F. Bernal, Dik J. Mevius, Jaap A. Wagenaar, Aldert Zomer, Joost Hordijk*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

4 Citations (Scopus)

Abstract

Salmonella enterica serovars have been isolated from Colombian broilers and broiler meat. The aim of this study was to investigate the diversity of ESBL/pAmpC genes in extended-spectrum cephalosporin resistant Salmonella enterica and the phylogeny of ESBL/pAmpC-carrying Salmonella using Whole Genome Sequencing (WGS). A total of 260 cefotaxime resistant Salmonella isolates, obtained between 2008 and 2013 from broiler farms, slaughterhouses and retail, were included. Isolates were screened by PCR for ESBL/pAmpC genes. Gene and plasmid subtyping and strain Multi Locus Sequence Typing was performed in silico for a selection of fully sequenced isolates. Coregenome-based analyses were performed per ST encountered. blaCMY-2-like was carried in 168 isolates, 52 carried blaCTX-M-2 group, 7 blaSHV, 5 a combination of blaCMY-2-like-blaSHV and 3 a combination of blaCMY-2-likeblaCTX-M-2 group. In 25 isolates no ESBL/pAmpC genes that were screened for were found. WGS characterization of 36 selected strains showed plasmid-encoded blaCMY-2 in 21, blaCTX-M-165 in 11 and blaSHV-12 in 7 strains. These genes were mostly carried on IncI1/ST12, IncQ1, and IncI1/ST231 plasmids, respectively. Finally, 17 strains belonged to S. Heidelberg ST15, 16 to S. Paratyphi B variant Java ST28, 1 to S. Enteritidis ST11, 1 to S. Kentucky ST152 and 1 to S. Albany ST292. Phylogenetic comparisons with publicly available genomes showed separate clustering of Colombian S. Heidelberg and S. Paratyphi B var. Java. In conclusion, resistance to extended-spectrum cephalosporins in Salmonella from Colombian poultry is mainly encoded by blaCMY-2 and blaCTX-M-165 genes. These genes are mostly associated with IncI1/ST12 and IncQ1 plasmids, respectively. Evolutionary divergence is observed between Colombian S. Heidelberg and S. Paratyphi B var. Java and those from other countries..

Original languageEnglish
Article number2431
JournalFrontiers in Microbiology
Volume9
Issue numberOCT
DOIs
Publication statusPublished - 26 Oct 2018

Keywords

  • Chicken
  • Latin America
  • MLST
  • pMLST
  • S. Heidelberg
  • S. Java
  • S. paratyphi B d-tartrate positive

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    Castellanos, L. R., van der Graaf-van Bloois, L., Donado-Godoy, P., León, M., Clavijo, V., Arévalo, A., ... Hordijk, J. (2018). Genomic characterization of extended-spectrum cephalosporin-resistant Salmonella enterica in the Colombian poultry chain. Frontiers in Microbiology, 9(OCT), [2431]. https://doi.org/10.3389/fmicb.2018.02431