Genomic Features and Phylogenetic Analysis of Antimicrobial-Resistant Salmonella Mbandaka ST413 Strains

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  • Valdinete P. Benevides
  • Mauro M.S. Saraiva
  • Camila F. Nascimento
  • Enrique J. Delgado-Suárez
  • Celso J.B. Oliveira
  • Saura R. Silva
  • Vitor F.O. Miranda
  • Christensen, Henrik
  • Olsen, John Elmerdahl
  • Angelo Berchieri Junior
In recent years, Salmonella enterica subsp. enterica serovar Mbandaka (S. Mbandaka) has beenincreasingly isolated fromlaying hens and shell eggs around theworld. Moreover, this serovar has beenidentified as the causative agent of several salmonellosis outbreaks in humans. Surprisingly, little is knownabout the characteristics of this emerging serovar, and therefore, we investigated antimicrobial resistance,virulence, and prophage genes of six selected Brazilian strains of SalmonellaMbandaka usingWholeGenomeSequencing (WGS).Multi-locus sequence typing revealed that the tested strains belong to Sequence Type413 (ST413), which has been linked to recent multi-country salmonellosis outbreaks in Europe. A totalof nine resistance genes were detected, and themost frequent oneswere aac(6′)-Iaa, sul1, qacE, blaOXA-129,tet(B), and aadA1. A point mutation in ParC at the 57th position (threonine → serine) associated withquinolone resistance was present in all investigated genomes. A 112,960 bp IncHI2A plasmid wasmappedin 4/6 strains. This plasmid harboured tetracycline (tetACDR) andmercury (mer) resistance genes, genescontributing to conjugative transfer, and genes involved in plasmidmaintenance. Most strains (four/six)carried Salmonella genomic island 1 (SGI1). All S.Mbandaka genomes carried seven pathogenicity islands(SPIs) involved in intracellular survival and virulence: SPIs 1-5, 9, and C63PI. The virulence genes csgC, fimY,tcfA, sscA, (two/six), and ssaS (one/six) were absent in some of the genomes; conversely, fimA, prgH, andmgtC were present in all of them. Five Salmonella bacteriophage sequences (with homology to Escherichiaphage phiV10, Enterobacteria phage Fels-2, Enterobacteria phageHK542, Enterobacteria phage ST64T, Salmonellaphage SW9) were identified, with protein counts between 31 and 54, genome lengths of 24.7 bp and 47.7 bp,and averageGCcontent of 51.25%. In the phylogenetic analysis, the genomes of strains isolated frompoultryin Brazil clustered into well-supported clades with a heterogeneous distribution, primarily associated withstrains isolated fromhumans and food. The phylogenetic relationship of Brazilian S.Mbandaka suggeststhe presence of strains with high epidemiological significance and the potential to be linked to foodborneoutbreaks. Overall, our results show that isolated strains of S. Mbandaka are multidrug-resistant andencode a rather conserved virulencemachinery, which is an epidemiological hallmark of Salmonella strainsthat have successfully disseminated both regionally and globally.
OriginalsprogEngelsk
Artikelnummer312
TidsskriftMicroorganisms
Vol/bind12
Udgave nummer2
Antal sider16
ISSN2076-2607
DOI
StatusUdgivet - 2024

Bibliografisk note

Funding Information:
This research was funded by the São Paulo Research Foundation (FAPESP) [Grant Number 2020/07018-6 and 2021/10285-9 (Valdinete Pereira Benevides)]. This study was financed in part by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior—Brasil (CAPES)—Finance Code 001.

Publisher Copyright:
© 2024 by the authors.

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