Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations

Abstract Carbapenems resistant Enterobacteriaceae infections are increasing worldwide representing an emerging public health problem. The application of phylogenetic and phylodynamic analyses to bacterial whole genome sequencing (WGS) data have become essential in the epidemiological surveillance of...

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Autores principales:	Eleonora Cella, Massimo Ciccozzi, Alessandra Lo Presti, Marta Fogolari, Taj Azarian, Mattia Prosperi, Marco Salemi, Michele Equestre, Francesca Antonelli, Alessia Conti, Marina De Cesaris, Silvia Spoto, Raffaele Antonelli Incalzi, Roberto Coppola, Giordano Dicuonzo, Silvia Angeletti
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0fee4c11e8644dd5a176398146135713
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spelling	oai:doaj.org-article:0fee4c11e8644dd5a1763981461357132021-12-02T15:06:01ZMulti-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations10.1038/s41598-017-03581-42045-2322https://doaj.org/article/0fee4c11e8644dd5a1763981461357132017-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-03581-4https://doaj.org/toc/2045-2322Abstract Carbapenems resistant Enterobacteriaceae infections are increasing worldwide representing an emerging public health problem. The application of phylogenetic and phylodynamic analyses to bacterial whole genome sequencing (WGS) data have become essential in the epidemiological surveillance of multi-drug resistant nosocomial pathogens. Between January 2012 and February 2013, twenty-one multi-drug resistant K. pneumoniae strains, were collected from patients hospitalized among different wards of the University Hospital Campus Bio-Medico. Epidemiological contact tracing of patients and Bayesian phylogenetic analysis of bacterial WGS data were used to investigate the evolution and spatial dispersion of K. pneumoniae in support of hospital infection control. The epidemic curve of incident K. pneumoniae cases showed a bimodal distribution of cases with two peaks separated by 46 days between November 2012 and January 2013. The time-scaled phylogeny suggested that K. pneumoniae strains isolated during the study period may have been introduced into the hospital setting as early as 2007. Moreover, the phylogeny showed two different epidemic introductions in 2008 and 2009. Bayesian genomic epidemiology is a powerful tool that promises to improve the surveillance and control of multi-drug resistant pathogens in an effort to develop effective infection prevention in healthcare settings or constant strains reintroduction.Eleonora CellaMassimo CiccozziAlessandra Lo PrestiMarta FogolariTaj AzarianMattia ProsperiMarco SalemiMichele EquestreFrancesca AntonelliAlessia ContiMarina De CesarisSilvia SpotoRaffaele Antonelli IncalziRoberto CoppolaGiordano DicuonzoSilvia AngelettiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Eleonora Cella Massimo Ciccozzi Alessandra Lo Presti Marta Fogolari Taj Azarian Mattia Prosperi Marco Salemi Michele Equestre Francesca Antonelli Alessia Conti Marina De Cesaris Silvia Spoto Raffaele Antonelli Incalzi Roberto Coppola Giordano Dicuonzo Silvia Angeletti Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
description	Abstract Carbapenems resistant Enterobacteriaceae infections are increasing worldwide representing an emerging public health problem. The application of phylogenetic and phylodynamic analyses to bacterial whole genome sequencing (WGS) data have become essential in the epidemiological surveillance of multi-drug resistant nosocomial pathogens. Between January 2012 and February 2013, twenty-one multi-drug resistant K. pneumoniae strains, were collected from patients hospitalized among different wards of the University Hospital Campus Bio-Medico. Epidemiological contact tracing of patients and Bayesian phylogenetic analysis of bacterial WGS data were used to investigate the evolution and spatial dispersion of K. pneumoniae in support of hospital infection control. The epidemic curve of incident K. pneumoniae cases showed a bimodal distribution of cases with two peaks separated by 46 days between November 2012 and January 2013. The time-scaled phylogeny suggested that K. pneumoniae strains isolated during the study period may have been introduced into the hospital setting as early as 2007. Moreover, the phylogeny showed two different epidemic introductions in 2008 and 2009. Bayesian genomic epidemiology is a powerful tool that promises to improve the surveillance and control of multi-drug resistant pathogens in an effort to develop effective infection prevention in healthcare settings or constant strains reintroduction.
format	article
author	Eleonora Cella Massimo Ciccozzi Alessandra Lo Presti Marta Fogolari Taj Azarian Mattia Prosperi Marco Salemi Michele Equestre Francesca Antonelli Alessia Conti Marina De Cesaris Silvia Spoto Raffaele Antonelli Incalzi Roberto Coppola Giordano Dicuonzo Silvia Angeletti
author_facet	Eleonora Cella Massimo Ciccozzi Alessandra Lo Presti Marta Fogolari Taj Azarian Mattia Prosperi Marco Salemi Michele Equestre Francesca Antonelli Alessia Conti Marina De Cesaris Silvia Spoto Raffaele Antonelli Incalzi Roberto Coppola Giordano Dicuonzo Silvia Angeletti
author_sort	Eleonora Cella
title	Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
title_short	Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
title_full	Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
title_fullStr	Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
title_full_unstemmed	Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations
title_sort	multi-drug resistant klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and bayesian phylogenetic analysis for outbreak investigations
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/0fee4c11e8644dd5a176398146135713
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Multi-drug resistant Klebsiella pneumoniae strains circulating in hospital setting: whole-genome sequencing and Bayesian phylogenetic analysis for outbreak investigations

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