The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation

Here we present current global epidemiological and microbiological trends for typhoid fever, as well as describe antimicrobial susceptibility and resistance mechanisms of S. Typhi. The data on examining 299 S. Typhi isolates collected in 2005—2018 in the Russian Federation were analyzed from the Rus...

Descripción completa

Guardado en:
Detalles Bibliográficos
Autores principales: S. A. Egorova, K. V. Kuleshov, L. A. Kaftyreva, Zoya N. Matveeva
Formato: article
Lenguaje:RU
Publicado: Sankt-Peterburg : NIIÈM imeni Pastera 2020
Materias:
snv
Acceso en línea:https://doaj.org/article/6ef300e9bbee41dfaefe5f70cce140fd
Etiquetas: Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
id oai:doaj.org-article:6ef300e9bbee41dfaefe5f70cce140fd
record_format dspace
spelling oai:doaj.org-article:6ef300e9bbee41dfaefe5f70cce140fd2021-11-22T07:09:54ZThe antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation2220-76192313-739810.15789/10.15789/2220-7619-ASM-1171https://doaj.org/article/6ef300e9bbee41dfaefe5f70cce140fd2020-04-01T00:00:00Zhttps://www.iimmun.ru/iimm/article/view/1171https://doaj.org/toc/2220-7619https://doaj.org/toc/2313-7398Here we present current global epidemiological and microbiological trends for typhoid fever, as well as describe antimicrobial susceptibility and resistance mechanisms of S. Typhi. The data on examining 299 S. Typhi isolates collected in 2005—2018 in the Russian Federation were analyzed from the Russian S. Typhi Reference Center. It was found that S. Typhi population consisted of the isolates with different resistance phenotypes and mechanisms as well as genetic heterogeneity. Moreover, antimicrobial susceptibility was detected in as low as 10.4% S. Typhi strains, whereas 89.6% isolates showed fluoroquinolone resistance (including 7.3% high-level resistance) and 3.0% — multidrug resistance to am-picillin, chloramphenicol, trimethoprim/sulfamethoxazole, tetracycline and fluoroquinolones. All strains preserved susceptibility to extended-spectrum cephalosporins and azithromycin. Fluoroquinolone low-level resistance in S. Typhi was due to single nucleotide substitutions in the gyrA: Asp87Asn (78.7%) Ser83Tyr (5.0%) and Ser83Phe (3.2%). In addition, a plasmid-mediated low-level fluoroquinolone resistance (qnrS) was found in one isolate. In contrast, a fluoroquinolone high-level resistance in S. Typhi was due to accumulation of three single nucleotide substitutions in the genes gyrA (Asp87Asn+Ser83Phe) andparC (Ser80Ile). In multidrug resistant S. Typhi isolates, pHCMl plasmids of incompatibility group IncHI1B(R27) (consisted of blaTEM.1, catA1, dfrA7 and tetB) and single nucleotide substitutions Ser83Tyr or Asp87Asn in gene gyrA were detected. The data of phylogenetic reconstruction based on the analysis of core singlenucleotide variations among examined and previously sequenced S. Typhi genomes, demonstrated that more than 80.0% of S. Typhi isolated in Russia were referred to the Asian genotype as they belonged to subclade 4.3.1 (by Wong et al.) or dominant H58 clade (H58 haplotype by Roumagnac et al.). More than 60.0% isolates in this dominant phylogenetic group possessed a fluoroquinolone low-level resistance due to gyrA Asp87Asn. Less than 20.0% of S. Typhi strains isolated in Russia phylogenetically belonged to the subclades other than 4.3.1 (non-H58) and differed from the major S. Typhi population by lacked antibiotic resistance or exerted fluoroquinolone resistance due to gyrA Ser83Phe. The study data allowed to expand our understanding on genetic diversity in S. Typhi strains isolated recently and pinpoint features of phylogenetic structure for S. Typhi population in the Russian Federation.S. A. EgorovaK. V. KuleshovL. A. KaftyrevaZoya N. MatveevaSankt-Peterburg : NIIÈM imeni Pasteraarticletyphoid fevers. typhiantimicrobial resistancesnvfluoroquinolonesnucleotide substitutionsInfectious and parasitic diseasesRC109-216RUInfekciâ i Immunitet, Vol 10, Iss 1, Pp 99-110 (2020)
institution DOAJ
collection DOAJ
language RU
topic typhoid fever
s. typhi
antimicrobial resistance
snv
fluoroquinolones
nucleotide substitutions
Infectious and parasitic diseases
RC109-216
spellingShingle typhoid fever
s. typhi
antimicrobial resistance
snv
fluoroquinolones
nucleotide substitutions
Infectious and parasitic diseases
RC109-216
S. A. Egorova
K. V. Kuleshov
L. A. Kaftyreva
Zoya N. Matveeva
The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
description Here we present current global epidemiological and microbiological trends for typhoid fever, as well as describe antimicrobial susceptibility and resistance mechanisms of S. Typhi. The data on examining 299 S. Typhi isolates collected in 2005—2018 in the Russian Federation were analyzed from the Russian S. Typhi Reference Center. It was found that S. Typhi population consisted of the isolates with different resistance phenotypes and mechanisms as well as genetic heterogeneity. Moreover, antimicrobial susceptibility was detected in as low as 10.4% S. Typhi strains, whereas 89.6% isolates showed fluoroquinolone resistance (including 7.3% high-level resistance) and 3.0% — multidrug resistance to am-picillin, chloramphenicol, trimethoprim/sulfamethoxazole, tetracycline and fluoroquinolones. All strains preserved susceptibility to extended-spectrum cephalosporins and azithromycin. Fluoroquinolone low-level resistance in S. Typhi was due to single nucleotide substitutions in the gyrA: Asp87Asn (78.7%) Ser83Tyr (5.0%) and Ser83Phe (3.2%). In addition, a plasmid-mediated low-level fluoroquinolone resistance (qnrS) was found in one isolate. In contrast, a fluoroquinolone high-level resistance in S. Typhi was due to accumulation of three single nucleotide substitutions in the genes gyrA (Asp87Asn+Ser83Phe) andparC (Ser80Ile). In multidrug resistant S. Typhi isolates, pHCMl plasmids of incompatibility group IncHI1B(R27) (consisted of blaTEM.1, catA1, dfrA7 and tetB) and single nucleotide substitutions Ser83Tyr or Asp87Asn in gene gyrA were detected. The data of phylogenetic reconstruction based on the analysis of core singlenucleotide variations among examined and previously sequenced S. Typhi genomes, demonstrated that more than 80.0% of S. Typhi isolated in Russia were referred to the Asian genotype as they belonged to subclade 4.3.1 (by Wong et al.) or dominant H58 clade (H58 haplotype by Roumagnac et al.). More than 60.0% isolates in this dominant phylogenetic group possessed a fluoroquinolone low-level resistance due to gyrA Asp87Asn. Less than 20.0% of S. Typhi strains isolated in Russia phylogenetically belonged to the subclades other than 4.3.1 (non-H58) and differed from the major S. Typhi population by lacked antibiotic resistance or exerted fluoroquinolone resistance due to gyrA Ser83Phe. The study data allowed to expand our understanding on genetic diversity in S. Typhi strains isolated recently and pinpoint features of phylogenetic structure for S. Typhi population in the Russian Federation.
format article
author S. A. Egorova
K. V. Kuleshov
L. A. Kaftyreva
Zoya N. Matveeva
author_facet S. A. Egorova
K. V. Kuleshov
L. A. Kaftyreva
Zoya N. Matveeva
author_sort S. A. Egorova
title The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
title_short The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
title_full The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
title_fullStr The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
title_full_unstemmed The antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of S. Typhi isolated in 2005-2018 in the Russian Federation
title_sort antimicrobial susceptibility, resistance mechanisms and phylogenetic structure of s. typhi isolated in 2005-2018 in the russian federation
publisher Sankt-Peterburg : NIIÈM imeni Pastera
publishDate 2020
url https://doaj.org/article/6ef300e9bbee41dfaefe5f70cce140fd
work_keys_str_mv AT saegorova theantimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT kvkuleshov theantimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT lakaftyreva theantimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT zoyanmatveeva theantimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT saegorova antimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT kvkuleshov antimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT lakaftyreva antimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
AT zoyanmatveeva antimicrobialsusceptibilityresistancemechanismsandphylogeneticstructureofstyphiisolatedin20052018intherussianfederation
_version_ 1718417922599157760