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Molecular Characteristics of Extraintestinal Pathogenic E. coli (ExPEC), Uropathogenic E. coli (UPEC), and Multidrug Resistant E. coli Isolated from Healthy Dogs in Spain. Whole Genome Sequencing of Canine ST372 Isolates and Comparison with Human Isolates Causing Extraintestinal Infections

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Laboratorio de Referencia de E. coli (LREC), Departamento de Microbioloxía e Parasitoloxía, Facultade de Veterinaria, Universidade de Santiago de Compostela (USC), 27002 Lugo, Spain
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Instituto de Investigación Sanitaria de Santiago de Compostela (IDIS), 15706 Santiago de Compostela, Spain
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Plataforma de Genómica y Bioinformática, Centro de Investigación Biomédica de La Rioja (CIBIR), 26006 Logroño, Spain
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Unidade de Microbioloxía, Hospital Universitario Lucus Augusti (HULA), 27003 Lugo, Spain
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Servicio de Medicina Interna, Hospital Veterinario Universitario Rof Codina, USC, 27002 Lugo, Spain
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Departamento de Anatomía, Producción Animal e Ciencias Clínicas Veterinarias, USC, 27002 Lugo, Spain
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Université de Paris, IAME, UMR1137, INSERM, F-75018 Paris, France
*
Author to whom correspondence should be addressed.
Microorganisms 2020, 8(11), 1712; https://doi.org/10.3390/microorganisms8111712
Received: 11 September 2020 / Revised: 23 October 2020 / Accepted: 30 October 2020 / Published: 31 October 2020
(This article belongs to the Section Molecular Microbiology and Immunology)
Under a one health perspective and the worldwide antimicrobial resistance concern, we investigated extraintestinal pathogenic Escherichia coli (ExPEC), uropathogenic E. coli (UPEC), and multidrug resistant (MDR) E. coli from 197 isolates recovered from healthy dogs in Spain between 2013 and 2017. A total of 91 (46.2%) isolates were molecularly classified as ExPEC and/or UPEC, including 50 clones, among which (i) four clones were dominant (B2-CH14-180-ST127, B2-CH52-14-ST141, B2-CH103-9-ST372 and F-CH4-58-ST648) and (ii) 15 had been identified among isolates causing extraintestinal infections in Spanish and French humans in 2015 and 2016. A total of 28 (14.2%) isolates were classified as MDR, associated with B1, D, and E phylogroups, and included 24 clones, of which eight had also been identified among the human clinical isolates. We selected 23 ST372 strains, 21 from healthy dogs, and two from human clinical isolates for whole genome sequencing and built an SNP-tree with these 23 genomes and 174 genomes (128 from canine strains and 46 from human strains) obtained from public databases. These 197 genomes were segregated into six clusters. Cluster 1 comprised 74.6% of the strain genomes, mostly composed of canine strain genomes (p < 0.00001). Clusters 4 and 6 also included canine strain genomes, while clusters 2, 3, and 5 were significantly associated with human strain genomes. Finding several common clones and clone-related serotypes in dogs and humans suggests a potentially bidirectional clone transfer that argues for the one health perspective. View Full-Text
Keywords: Escherichia coli; dogs; virulence genes; antibiotic resistance; WGS; ST372; clonal structure Escherichia coli; dogs; virulence genes; antibiotic resistance; WGS; ST372; clonal structure
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MDPI and ACS Style

Flament-Simon, S.-C.; de Toro, M.; García, V.; Blanco, J.E.; Blanco, M.; Alonso, M.P.; Goicoa, A.; Díaz-González, J.; Nicolas-Chanoine, M.-H.; Blanco, J. Molecular Characteristics of Extraintestinal Pathogenic E. coli (ExPEC), Uropathogenic E. coli (UPEC), and Multidrug Resistant E. coli Isolated from Healthy Dogs in Spain. Whole Genome Sequencing of Canine ST372 Isolates and Comparison with Human Isolates Causing Extraintestinal Infections. Microorganisms 2020, 8, 1712. https://doi.org/10.3390/microorganisms8111712

AMA Style

Flament-Simon S-C, de Toro M, García V, Blanco JE, Blanco M, Alonso MP, Goicoa A, Díaz-González J, Nicolas-Chanoine M-H, Blanco J. Molecular Characteristics of Extraintestinal Pathogenic E. coli (ExPEC), Uropathogenic E. coli (UPEC), and Multidrug Resistant E. coli Isolated from Healthy Dogs in Spain. Whole Genome Sequencing of Canine ST372 Isolates and Comparison with Human Isolates Causing Extraintestinal Infections. Microorganisms. 2020; 8(11):1712. https://doi.org/10.3390/microorganisms8111712

Chicago/Turabian Style

Flament-Simon, Saskia-Camille, María de Toro, Vanesa García, Jesús E. Blanco, Miguel Blanco, María P. Alonso, Ana Goicoa, Juan Díaz-González, Marie-Hélène Nicolas-Chanoine, and Jorge Blanco. 2020. "Molecular Characteristics of Extraintestinal Pathogenic E. coli (ExPEC), Uropathogenic E. coli (UPEC), and Multidrug Resistant E. coli Isolated from Healthy Dogs in Spain. Whole Genome Sequencing of Canine ST372 Isolates and Comparison with Human Isolates Causing Extraintestinal Infections" Microorganisms 8, no. 11: 1712. https://doi.org/10.3390/microorganisms8111712

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