Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan

ABSTRACT Antimicrobial resistance genes (ARGs) and the bacteria that harbor them are widely distributed in the environment, especially in surface water, sewage treatment plant effluent, soil, and animal waste. In this study, we isolated a KPC-2-producing Klebsiella pneumoniae strain (GSU10-3) from a...

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Autores principales:	Tsuyoshi Sekizuka, Koji Yatsu, Yuba Inamine, Takaya Segawa, Miho Nishio, Norimi Kishi, Makoto Kuroda
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2018
Materias:	Klebsiella pneumoniae blaKPC-2 carbapenemase effluent urban sewage Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/29f0af1e432c41469e0d991a49cb41a6
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spelling	oai:doaj.org-article:29f0af1e432c41469e0d991a49cb41a62021-11-15T15:22:26ZComplete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan10.1128/mSphere.00314-182379-5042https://doaj.org/article/29f0af1e432c41469e0d991a49cb41a62018-10-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSphere.00314-18https://doaj.org/toc/2379-5042ABSTRACT Antimicrobial resistance genes (ARGs) and the bacteria that harbor them are widely distributed in the environment, especially in surface water, sewage treatment plant effluent, soil, and animal waste. In this study, we isolated a KPC-2-producing Klebsiella pneumoniae strain (GSU10-3) from a sampling site in Tokyo Bay, Japan, near a wastewater treatment plant (WWTP) and determined its complete genome sequence. Strain GSU10-3 is resistant to most β-lactam antibiotics and other antimicrobial agents (quinolones and aminoglycosides). This strain is classified as sequence type 11 (ST11), and a core genome phylogenetic analysis indicated that strain GSU10-3 is closely related to KPC-2-positive Chinese clinical isolates from 2011 to 2017 and is clearly distinct from strains isolated from the European Union (EU), United States, and other Asian countries. Strain GSU10-3 harbors four plasmids, including a blaKPC-2-positive plasmid, pGSU10-3-3 (66.2 kb), which is smaller than other blaKPC-2-positive plasmids and notably carries dual replicons (IncFII [pHN7A8] and IncN). Such downsizing and the presence of dual replicons may promote its maintenance and stable replication, contributing to its broad host range with low fitness costs. A second plasmid, pGSU10-3-1 (159.0 kb), an IncA/C2 replicon, carries a class 1 integron (containing intI1, dfrA12, aadA2, qacEΔ1, and sul1) with a high degree of similarity to a broad-host-range plasmid present in the family Enterobacteriaceae. The plasmid pGSU10-3-2 (134.8 kb), an IncFII(K) replicon, carries the IS26-mediated ARGs [aac(6')Ib-cr , blaOXA-1, catB4 (truncated), and aac(3)-IId], tet(A), and a copper/arsenate resistance locus. GSU10-3 is the first nonclinical KPC-2-producing environmental Enterobacteriaceae isolate from Japan for which the whole genome has been sequenced. IMPORTANCE We isolated and determined the complete genome sequence of a KPC-2-producing K. pneumoniae strain from a sampling site in Tokyo Bay, Japan, near a wastewater treatment plant (WWTP). In Japan, the KPC type has been very rarely detected, while IMP is the most predominant type of carbapenemase in clinical carbapenemase-producing Enterobacteriaceae (CPE) isolates. Although laboratory testing thus far suggested that Japan may be virtually free of KPC-producing Enterobacteriaceae, we have detected it from effluent from a WWTP. Antimicrobial resistance (AMR) monitoring of WWTP effluent may contribute to the early detection of future AMR bacterial dissemination in clinical settings and communities; indeed, it will help illuminate the whole picture in which environmental contamination through WWTP effluent plays a part.Tsuyoshi SekizukaKoji YatsuYuba InamineTakaya SegawaMiho NishioNorimi KishiMakoto KurodaAmerican Society for MicrobiologyarticleKlebsiella pneumoniaeblaKPC-2carbapenemaseeffluenturban sewageMicrobiologyQR1-502ENmSphere, Vol 3, Iss 5 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Klebsiella pneumoniae blaKPC-2 carbapenemase effluent urban sewage Microbiology QR1-502
spellingShingle	Klebsiella pneumoniae blaKPC-2 carbapenemase effluent urban sewage Microbiology QR1-502 Tsuyoshi Sekizuka Koji Yatsu Yuba Inamine Takaya Segawa Miho Nishio Norimi Kishi Makoto Kuroda Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
description	ABSTRACT Antimicrobial resistance genes (ARGs) and the bacteria that harbor them are widely distributed in the environment, especially in surface water, sewage treatment plant effluent, soil, and animal waste. In this study, we isolated a KPC-2-producing Klebsiella pneumoniae strain (GSU10-3) from a sampling site in Tokyo Bay, Japan, near a wastewater treatment plant (WWTP) and determined its complete genome sequence. Strain GSU10-3 is resistant to most β-lactam antibiotics and other antimicrobial agents (quinolones and aminoglycosides). This strain is classified as sequence type 11 (ST11), and a core genome phylogenetic analysis indicated that strain GSU10-3 is closely related to KPC-2-positive Chinese clinical isolates from 2011 to 2017 and is clearly distinct from strains isolated from the European Union (EU), United States, and other Asian countries. Strain GSU10-3 harbors four plasmids, including a blaKPC-2-positive plasmid, pGSU10-3-3 (66.2 kb), which is smaller than other blaKPC-2-positive plasmids and notably carries dual replicons (IncFII [pHN7A8] and IncN). Such downsizing and the presence of dual replicons may promote its maintenance and stable replication, contributing to its broad host range with low fitness costs. A second plasmid, pGSU10-3-1 (159.0 kb), an IncA/C2 replicon, carries a class 1 integron (containing intI1, dfrA12, aadA2, qacEΔ1, and sul1) with a high degree of similarity to a broad-host-range plasmid present in the family Enterobacteriaceae. The plasmid pGSU10-3-2 (134.8 kb), an IncFII(K) replicon, carries the IS26-mediated ARGs [aac(6')Ib-cr , blaOXA-1, catB4 (truncated), and aac(3)-IId], tet(A), and a copper/arsenate resistance locus. GSU10-3 is the first nonclinical KPC-2-producing environmental Enterobacteriaceae isolate from Japan for which the whole genome has been sequenced. IMPORTANCE We isolated and determined the complete genome sequence of a KPC-2-producing K. pneumoniae strain from a sampling site in Tokyo Bay, Japan, near a wastewater treatment plant (WWTP). In Japan, the KPC type has been very rarely detected, while IMP is the most predominant type of carbapenemase in clinical carbapenemase-producing Enterobacteriaceae (CPE) isolates. Although laboratory testing thus far suggested that Japan may be virtually free of KPC-producing Enterobacteriaceae, we have detected it from effluent from a WWTP. Antimicrobial resistance (AMR) monitoring of WWTP effluent may contribute to the early detection of future AMR bacterial dissemination in clinical settings and communities; indeed, it will help illuminate the whole picture in which environmental contamination through WWTP effluent plays a part.
format	article
author	Tsuyoshi Sekizuka Koji Yatsu Yuba Inamine Takaya Segawa Miho Nishio Norimi Kishi Makoto Kuroda
author_facet	Tsuyoshi Sekizuka Koji Yatsu Yuba Inamine Takaya Segawa Miho Nishio Norimi Kishi Makoto Kuroda
author_sort	Tsuyoshi Sekizuka
title	Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
title_short	Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
title_full	Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
title_fullStr	Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
title_full_unstemmed	Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan
title_sort	complete genome sequence of a <italic toggle="yes">bla</italic><sub>kpc-2</sub>-positive <named-content content-type="genus-species">klebsiella pneumoniae</named-content> strain isolated from the effluent of an urban sewage treatment plant in japan
publisher	American Society for Microbiology
publishDate	2018
url	https://doaj.org/article/29f0af1e432c41469e0d991a49cb41a6
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Complete Genome Sequence of a <italic toggle="yes">bla</italic><sub>KPC-2</sub>-Positive <named-content content-type="genus-species">Klebsiella pneumoniae</named-content> Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan

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