Epidemiology typing and molecular analysis of vancomycin-resistant Enterococcus faecium in haematooncological patients

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F65269705%3A_____%2F20%3A00073539" target="_blank" >RIV/65269705:_____/20:00073539 - isvavai.cz</a>

Výsledek na webu

<a href="https://markterfolg.de/ESCMID/Abstractbook2020.pdf" target="_blank" >https://markterfolg.de/ESCMID/Abstractbook2020.pdf</a>

DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Epidemiology typing and molecular analysis of vancomycin-resistant Enterococcus faecium in haematooncological patients

Popis výsledku v původním jazyce

Background: A long-term increased prevalence of vancomycin-resistant Enterococci (VRE) colonization has been observed in the haemato-oncological department of the University hospital Brno (CZ). The aim of this study was to describe the genetic diversity of the local VRE population and determine the nosocomial transmission rate. An additional goal was to focus on establishing a rapid VRE typing method suitable for routine practice. Materials/methods: Between 06/2019-07/2019, all hospitalized patients in one ward were screened for VRE presence. In total, 99 patients were screened on admission, at discharge and once a week during their hospitalization using rectal swabs. All collected VRE isolates were analysed using mini-MLST and whole genome sequencing (WGS). Results: In total, 331 samples were taken, from which 24 VRE strains and one linezolid-resistant Enterococcus faecium isolate were isolated from 16 patients (16%, n=99). Using mini-MLST, 22/24 (88%) VRE isolates were identified as MelT55 and 3/24 (12%) as MelT420. In silico MLST was performed and allocated the obtained isolates to 6 ST (ST17, ST80, ST117, ST761, ST787 and one new ST). All isolates were VanA positive, 5 isolates were both VanA and VanB positive. The single-nucleotide variant (SNV) number was determined using SeqSphere+ software and was in a range from 1 to 5,687 within the isolates belonging to the same ST. Conclusions: The whole genome SNV analysis showed high genetic diversity in the VRE population in our haematology ward. Most patients had their unique strain, indicating a lower rate of transmission than expected considering the generally accepted assumption that hospital transmission is the main source of VRE. Thus, other factors such as ATB treatment or patient&apos;s overall health condition are likely to affect higher VRE colonization rates. The current mini-MLST scheme does not have sufficient resolution power to distinguish VRE strains within our population. Therefore, we developed a new universal algorithm for WGS data to find variable regions that can be used to extend the existing mini-MLST scheme or to replace it with population-specific markers.

Název v anglickém jazyce

Epidemiology typing and molecular analysis of vancomycin-resistant Enterococcus faecium in haematooncological patients

Popis výsledku anglicky

Background: A long-term increased prevalence of vancomycin-resistant Enterococci (VRE) colonization has been observed in the haemato-oncological department of the University hospital Brno (CZ). The aim of this study was to describe the genetic diversity of the local VRE population and determine the nosocomial transmission rate. An additional goal was to focus on establishing a rapid VRE typing method suitable for routine practice. Materials/methods: Between 06/2019-07/2019, all hospitalized patients in one ward were screened for VRE presence. In total, 99 patients were screened on admission, at discharge and once a week during their hospitalization using rectal swabs. All collected VRE isolates were analysed using mini-MLST and whole genome sequencing (WGS). Results: In total, 331 samples were taken, from which 24 VRE strains and one linezolid-resistant Enterococcus faecium isolate were isolated from 16 patients (16%, n=99). Using mini-MLST, 22/24 (88%) VRE isolates were identified as MelT55 and 3/24 (12%) as MelT420. In silico MLST was performed and allocated the obtained isolates to 6 ST (ST17, ST80, ST117, ST761, ST787 and one new ST). All isolates were VanA positive, 5 isolates were both VanA and VanB positive. The single-nucleotide variant (SNV) number was determined using SeqSphere+ software and was in a range from 1 to 5,687 within the isolates belonging to the same ST. Conclusions: The whole genome SNV analysis showed high genetic diversity in the VRE population in our haematology ward. Most patients had their unique strain, indicating a lower rate of transmission than expected considering the generally accepted assumption that hospital transmission is the main source of VRE. Thus, other factors such as ATB treatment or patient&apos;s overall health condition are likely to affect higher VRE colonization rates. The current mini-MLST scheme does not have sufficient resolution power to distinguish VRE strains within our population. Therefore, we developed a new universal algorithm for WGS data to find variable regions that can be used to extend the existing mini-MLST scheme or to replace it with population-specific markers.

Druh

O - Ostatní výsledky

CEP obor

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OECD FORD obor

10606 - Microbiology

Projekt

<a href="/cs/project/NV19-09-00430" target="_blank" >NV19-09-00430: Celogenomové sekvenování pro nemocniční epidemiologii a detekci outbreaků způsobených multirezistentními bakteriemi</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2020

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů