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Article

Genomic Analysis of Two MDR Isolates of Salmonella enterica Serovar Infantis from a Spanish Hospital Bearing the blaCTX-M-65 Gene with or without fosA3 in pESI-like Plasmids

1
Área de Microbiología, Departamento de Biología Funcional, Universidad de Oviedo (UO), 33006 Oviedo, Spain
2
Instituto de Investigación Sanitaria del Principado de Asturias (ISPA), 33011 Oviedo, Spain
3
Servicio de Microbiología, Hospital Universitario Central de Asturias (HUCA), 33011 Oviedo, Spain
4
Research & Innovation, Artificial Intelligence and Statistical Department, Pragmatech AI Solutions, 33003 Oviedo, Spain
5
Centro de Investigación Biomédica en Red-Enfermedades Respiratorias, 20029 Madrid, Spain
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Servicio de Microbiología, Hospital Universitario Marqués de Valdecilla (IDIVAL), 39008 Santander, Spain
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CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, 28029 Madrid, Spain
8
Departamento de Bioquímica y Biología Molecular, Universidad de Oviedo (UO), 33006 Oviedo, Spain
*
Author to whom correspondence should be addressed.
Academic Editor: Teresa V. Nogueira
Antibiotics 2022, 11(6), 786; https://doi.org/10.3390/antibiotics11060786
Received: 12 May 2022 / Revised: 2 June 2022 / Accepted: 5 June 2022 / Published: 9 June 2022
(This article belongs to the Special Issue Genomic Analysis of Antibiotics Resistance in Pathogens)
Salmonella enterica serovar Infantis (S. Infantis) is a broiler-associated pathogen which ranks in the fourth position as a cause of human salmonellosis in the European Union. Here, we report a comparative genomic analysis of two clinical S. Infantis isolates recovered in Spain from children who just returned from Peru. The isolates were selected on the basis of resistance to cefotaxime, one of the antibiotics of choice for treatment of S. enterica infections. Antimicrobial susceptibility testing demonstrated that they were resistant to eight classes of antimicrobial agents: penicillins, cephalosporins, phenicols, aminoglycosides, tetracyclines, inhibitors of folate synthesis, (fluoro)quinolones and nitrofurans, and one of them was also resistant to fosfomycin. As shown by whole-genome sequence analysis, each isolate carried a pESI-like megaplasmid of ca. 300 kb harboring multiple resistance genes [blaCTX-M-65, aph(4)-Ia, aac(3)-IVa, aph(3′)-Ia, floR, dfrA14, sul1, tet(A), aadA1 ± fosA3], as well as genes for resistance to heavy metals and disinfectants (mer, ars and qacEΔ1). These genes were distributed in two complex regions, separated by DNA belonging to the plasmid backbone, and associated with a wealth of transposable elements. The two isolates had a D87Y amino acid substitution in the GyrA protein, and truncated variants of the nitroreductase genes nfsA and nsfB, accounting for chromosomally encoded resistances to nalidixic acid and nitrofurantoin, respectively. The two S. Infantis isolates were assigned to sequence type ST32 by in silico multilocus sequence typing (MLST). Phylogenetic analysis revealed that they were closely related, differing only by 12 SNPs, although they were recovered from different children two years apart. They were also genetically similar to blaCTX-M-65-positive ± fosA3 isolates obtained from humans and along the poultry production chain in the USA, South America, as well as from humans in several European countries, usually associated with a travel history to America. However, this is the first time that the S. Infantis blaCTX-M-65 ± fosA3 MDR clone has been reported in Spain. View Full-Text
Keywords: S. Infantis; multidrug-resistance; blaCTX-M-65; fosA3; heavy-metal resistance; pESI-like megaplasmid; whole-genome sequencing S. Infantis; multidrug-resistance; blaCTX-M-65; fosA3; heavy-metal resistance; pESI-like megaplasmid; whole-genome sequencing
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MDPI and ACS Style

Vázquez, X.; Fernández, J.; Rodríguez-Lozano, J.; Calvo, J.; Rodicio, R.; Rodicio, M.R. Genomic Analysis of Two MDR Isolates of Salmonella enterica Serovar Infantis from a Spanish Hospital Bearing the blaCTX-M-65 Gene with or without fosA3 in pESI-like Plasmids. Antibiotics 2022, 11, 786. https://doi.org/10.3390/antibiotics11060786

AMA Style

Vázquez X, Fernández J, Rodríguez-Lozano J, Calvo J, Rodicio R, Rodicio MR. Genomic Analysis of Two MDR Isolates of Salmonella enterica Serovar Infantis from a Spanish Hospital Bearing the blaCTX-M-65 Gene with or without fosA3 in pESI-like Plasmids. Antibiotics. 2022; 11(6):786. https://doi.org/10.3390/antibiotics11060786

Chicago/Turabian Style

Vázquez, Xenia, Javier Fernández, Jesús Rodríguez-Lozano, Jorge Calvo, Rosaura Rodicio, and M. Rosario Rodicio. 2022. "Genomic Analysis of Two MDR Isolates of Salmonella enterica Serovar Infantis from a Spanish Hospital Bearing the blaCTX-M-65 Gene with or without fosA3 in pESI-like Plasmids" Antibiotics 11, no. 6: 786. https://doi.org/10.3390/antibiotics11060786

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