International high-risk clone of fluoroquinolone-resistant Escherichia coli O15:H1-D-ST393 in remote communities of Brazilian Amazon

Marco Aurelio Vianello; Brenda Cardoso; Danny Fuentes-Castillo; Quézia Moura; Fernanda Esposito; Bruna Fuga; Nilton Lincopan; Eryvaldo Sócrates T Egito

doi:10.1016/j.meegid.2021.104808

International high-risk clone of fluoroquinolone-resistant Escherichia coli O15:H1-D-ST393 in remote communities of Brazilian Amazon

Infect Genet Evol. 2021 Jul:91:104808. doi: 10.1016/j.meegid.2021.104808. Epub 2021 Mar 16.

Authors

Marco Aurelio Vianello¹, Brenda Cardoso², Danny Fuentes-Castillo³, Quézia Moura⁴, Fernanda Esposito⁵, Bruna Fuga⁶, Nilton Lincopan⁷, Eryvaldo Sócrates T Egito¹

Affiliations

¹ Graduate Program in Health Sciences, Federal University of Rio Grande do Norte, Natal, RN, Brazil.
² Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, São Paulo, Brazil.
³ Department of Pathology, School of Veterinary Medicine and Animal Sciences, University of São Paulo, São Paulo, Brazil.
⁴ Faculty of Health Sciences, Federal University of Grande Dourados, Dourados, Brazil.
⁵ Department of Clinical Analysis, Faculty of Pharmacy, Universidade of São Paulo, São Paulo, Brazil.
⁶ Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, São Paulo, Brazil; Department of Clinical Analysis, Faculty of Pharmacy, Universidade of São Paulo, São Paulo, Brazil.
⁷ Departamento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, São Paulo, Brazil; Department of Clinical Analysis, Faculty of Pharmacy, Universidade of São Paulo, São Paulo, Brazil. Electronic address: lincopan@usp.br.

PMID: 33737229
DOI: 10.1016/j.meegid.2021.104808

Abstract

The global dissemination of multidrug-resistant Escherichia coli lineages belonging to high- risk clones poses a significant public health threat. Herein we report the identification and genomic profiling of two multidrug-resistant E. coli strains [BL-II-03(2) and BL-II-11(3)] belonging to the O15:H1-D-ST393 (clonal complex 31) worldwide spread clone, isolated from fecal samples of indigenous peoples belonging to two different ethnic groups of remote communities of Brazilian Amazon. Genomic analysis revealed genes and mutations conferring resistance to β-lactams [bla_TEM-1], aminoglycosides [aadA5, aph(3″)-Ib, aph(6)-Id], tetracyclines [tetB], sulfamethoxazole/trimethoprim [sul1, sul2, dfrA17], and fluoroquinolones [gyrA (D87N, S83L), parC (S80I, S57T), parE (L416F)]; and presence of IncQ1, IncFIA, and IncFIB(pB171) plasmids. On the other hand, phylogenomics of globally reported E. coli ST393 assigned E. coli strains BL-II-03(2) and BL-II-11(3) to a cluster comprising human isolates from Australia, Canada, China, Sweden, and United States of America. These results might provide valuable information for understanding dissemination of intercontinental multidrug-resistant clones in remote communities with low levels of antibiotic exposure.

Keywords: Ciprofloxacin-resistant; Clonal complex CC31; Enterobacterales; ExPEC; Fecal carriage; Multidrug-resistant.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Anti-Bacterial Agents / pharmacology*
Drug Resistance, Multiple, Bacterial / genetics*
Escherichia coli / classification
Escherichia coli / genetics
Escherichia coli / isolation & purification*
Feces / microbiology
Fluoroquinolones / pharmacology*
Humans
Indians, South American
Rural Population

Substances

Anti-Bacterial Agents
Fluoroquinolones