Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones

Louise Roer; Søren Overballe-Petersen; Frank Hansen; Kristian Schønning; Mikala Wang; Bent L. Røder; Dennis S. Hansen; Ulrik S. Justesen; Leif P. Andersen; David Fulgsang-Damgaard; Katie L. Hopkins; Neil Woodford; Linda Falgenhauer; Trinad Chakraborty; Ørjan Samuelsen; Karin Sjöström; Thor B. Johannesen; Kim Ng; Jens Nielsen; Steen Ethelberg; Marc Stegger; Anette M. Hammerum; Henrik Hasman

doi:10.1128/mSphere.00337-18

Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones

Louise Roer, Søren Overballe-Petersen, Frank Hansen, Kristian Schønning, Mikala Wang, Bent L. Røder, Dennis S. Hansen, Ulrik S. Justesen, Leif P. Andersen, David Fulgsang-Damgaard, Katie L. Hopkins, Neil Woodford, Linda Falgenhauer, Trinad Chakraborty, Ørjan Samuelsen, Karin Sjöström, Thor B. Johannesen, Kim Ng, Jens Nielsen, Steen EthelbergMarc Stegger, Anette M. Hammerum, Henrik Hasman

Department of Clinical Medicine

61 Citations (Scopus)

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Abstract

Escherichia coli sequence type 410 (ST410) has been reported worldwide as an extraintestinal pathogen associated with resistance to fluoroquinolones, third-generation cephalosporins, and carbapenems. In the present study, we investigated national epidemiology of ST410 E. coli isolates from Danish patients. Furthermore, E. coli ST410 was investigated in a global context to provide further insight into the acquisition of the carbapenemase genes bla_OXA-181 and bla_NDM-5 of this successful lineage. From 127 whole-genome-sequenced isolates, we reconstructed an evolutionary framework of E. coli ST410 which portrays the antimicrobial-resistant clades B2/H24R, B3/H24Rx, and B4/H24RxC. The B2/H24R and B3/H24Rx clades emerged around 1987, concurrently with the C1/H30R and C2/H30Rx clades in E. coli ST131. B3/H24Rx appears to have evolved by the acquisition of the extendedspectrum lactamase (ESBL)-encoding gene bla_CTX-M-15 and an IncFII plasmid, encoding IncFIA and IncFIB. Around 2003, the carbapenem-resistant clade B4/H24RxC emerged when ST410 acquired an IncX3 plasmid carrying a bla_OXA-181 carbapenemase gene. Around 2014, the clade B4/H24RxC acquired a second carbapenemase gene, bla_NDM-5, on a conserved IncFII plasmid. From an epidemiological investigation of 49 E. coli ST410 isolates from Danish patients, we identified five possible regional outbreaks, of which one outbreak involved nine patients with bla_OXA-181- and bla_NDM-5-carrying B4/H24RxC isolates. The accumulated multidrug resistance in E. coli ST410 over the past two decades, together with its proven potential of transmission between patients, poses a high risk in clinical settings, and thus, E. coli ST410 should be considered a lineage with emerging "high-risk" clones, which should be monitored closely in the future.

Original language	English
Journal	mSphere
Volume	3
Issue number	4
ISSN	2379-5042
DOIs	https://doi.org/10.1128/mSphere.00337-18
Publication status	Published - 1 Jul 2018

Keywords

BEAST
epidemiology
Escherichia coli
evolution
high-risk clone
outbreak

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10.1128/mSphere.00337-18Licence: CC BY

Escherichia coli Sequence Type 410 Is Causing New International High-Risk ClonesFinal published version, 2.32 MBLicence: CC BY

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Roer, L., Overballe-Petersen, S., Hansen, F., Schønning, K., Wang, M., Røder, B. L., Hansen, D. S., Justesen, U. S., Andersen, L. P., Fulgsang-Damgaard, D., Hopkins, K. L., Woodford, N., Falgenhauer, L., Chakraborty, T., Samuelsen, Ø., Sjöström, K., Johannesen, T. B., Ng, K., Nielsen, J., ... Hasman, H. (2018). Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones. mSphere, 3(4). https://doi.org/10.1128/mSphere.00337-18

Roer, L, Overballe-Petersen, S, Hansen, F, Schønning, K, Wang, M, Røder, BL, Hansen, DS, Justesen, US, Andersen, LP, Fulgsang-Damgaard, D, Hopkins, KL, Woodford, N, Falgenhauer, L, Chakraborty, T, Samuelsen, Ø, Sjöström, K, Johannesen, TB, Ng, K, Nielsen, J, Ethelberg, S, Stegger, M, Hammerum, AM & Hasman, H 2018, 'Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones', mSphere, vol. 3, no. 4. https://doi.org/10.1128/mSphere.00337-18

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title = "Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones",

abstract = "Escherichia coli sequence type 410 (ST410) has been reported worldwide as an extraintestinal pathogen associated with resistance to fluoroquinolones, third-generation cephalosporins, and carbapenems. In the present study, we investigated national epidemiology of ST410 E. coli isolates from Danish patients. Furthermore, E. coli ST410 was investigated in a global context to provide further insight into the acquisition of the carbapenemase genes blaOXA-181 and blaNDM-5 of this successful lineage. From 127 whole-genome-sequenced isolates, we reconstructed an evolutionary framework of E. coli ST410 which portrays the antimicrobial-resistant clades B2/H24R, B3/H24Rx, and B4/H24RxC. The B2/H24R and B3/H24Rx clades emerged around 1987, concurrently with the C1/H30R and C2/H30Rx clades in E. coli ST131. B3/H24Rx appears to have evolved by the acquisition of the extendedspectrum lactamase (ESBL)-encoding gene blaCTX-M-15 and an IncFII plasmid, encoding IncFIA and IncFIB. Around 2003, the carbapenem-resistant clade B4/H24RxC emerged when ST410 acquired an IncX3 plasmid carrying a blaOXA-181 carbapenemase gene. Around 2014, the clade B4/H24RxC acquired a second carbapenemase gene, blaNDM-5, on a conserved IncFII plasmid. From an epidemiological investigation of 49 E. coli ST410 isolates from Danish patients, we identified five possible regional outbreaks, of which one outbreak involved nine patients with blaOXA-181- and blaNDM-5-carrying B4/H24RxC isolates. The accumulated multidrug resistance in E. coli ST410 over the past two decades, together with its proven potential of transmission between patients, poses a high risk in clinical settings, and thus, E. coli ST410 should be considered a lineage with emerging {"}high-risk{"} clones, which should be monitored closely in the future.",

keywords = "BEAST, epidemiology, Escherichia coli, evolution, high-risk clone, outbreak",

author = "Louise Roer and S{\o}ren Overballe-Petersen and Frank Hansen and Kristian Sch{\o}nning and Mikala Wang and R{\o}der, {Bent L.} and Hansen, {Dennis S.} and Justesen, {Ulrik S.} and Andersen, {Leif P.} and David Fulgsang-Damgaard and Hopkins, {Katie L.} and Neil Woodford and Linda Falgenhauer and Trinad Chakraborty and {\O}rjan Samuelsen and Karin Sj{\"o}str{\"o}m and Johannesen, {Thor B.} and Kim Ng and Jens Nielsen and Steen Ethelberg and Marc Stegger and Hammerum, {Anette M.} and Henrik Hasman",

year = "2018",

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doi = "10.1128/mSphere.00337-18",

language = "English",

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journal = "mSphere",

issn = "2379-5042",

publisher = "American Society for Microbiology",

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T1 - Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones

AU - Roer, Louise

AU - Overballe-Petersen, Søren

AU - Hansen, Frank

AU - Schønning, Kristian

AU - Wang, Mikala

AU - Røder, Bent L.

AU - Hansen, Dennis S.

AU - Justesen, Ulrik S.

AU - Andersen, Leif P.

AU - Fulgsang-Damgaard, David

AU - Hopkins, Katie L.

AU - Woodford, Neil

AU - Falgenhauer, Linda

AU - Chakraborty, Trinad

AU - Samuelsen, Ørjan

AU - Sjöström, Karin

AU - Johannesen, Thor B.

AU - Ng, Kim

AU - Nielsen, Jens

AU - Ethelberg, Steen

AU - Stegger, Marc

AU - Hammerum, Anette M.

AU - Hasman, Henrik

PY - 2018/7/1

Y1 - 2018/7/1

N2 - Escherichia coli sequence type 410 (ST410) has been reported worldwide as an extraintestinal pathogen associated with resistance to fluoroquinolones, third-generation cephalosporins, and carbapenems. In the present study, we investigated national epidemiology of ST410 E. coli isolates from Danish patients. Furthermore, E. coli ST410 was investigated in a global context to provide further insight into the acquisition of the carbapenemase genes blaOXA-181 and blaNDM-5 of this successful lineage. From 127 whole-genome-sequenced isolates, we reconstructed an evolutionary framework of E. coli ST410 which portrays the antimicrobial-resistant clades B2/H24R, B3/H24Rx, and B4/H24RxC. The B2/H24R and B3/H24Rx clades emerged around 1987, concurrently with the C1/H30R and C2/H30Rx clades in E. coli ST131. B3/H24Rx appears to have evolved by the acquisition of the extendedspectrum lactamase (ESBL)-encoding gene blaCTX-M-15 and an IncFII plasmid, encoding IncFIA and IncFIB. Around 2003, the carbapenem-resistant clade B4/H24RxC emerged when ST410 acquired an IncX3 plasmid carrying a blaOXA-181 carbapenemase gene. Around 2014, the clade B4/H24RxC acquired a second carbapenemase gene, blaNDM-5, on a conserved IncFII plasmid. From an epidemiological investigation of 49 E. coli ST410 isolates from Danish patients, we identified five possible regional outbreaks, of which one outbreak involved nine patients with blaOXA-181- and blaNDM-5-carrying B4/H24RxC isolates. The accumulated multidrug resistance in E. coli ST410 over the past two decades, together with its proven potential of transmission between patients, poses a high risk in clinical settings, and thus, E. coli ST410 should be considered a lineage with emerging "high-risk" clones, which should be monitored closely in the future.

AB - Escherichia coli sequence type 410 (ST410) has been reported worldwide as an extraintestinal pathogen associated with resistance to fluoroquinolones, third-generation cephalosporins, and carbapenems. In the present study, we investigated national epidemiology of ST410 E. coli isolates from Danish patients. Furthermore, E. coli ST410 was investigated in a global context to provide further insight into the acquisition of the carbapenemase genes blaOXA-181 and blaNDM-5 of this successful lineage. From 127 whole-genome-sequenced isolates, we reconstructed an evolutionary framework of E. coli ST410 which portrays the antimicrobial-resistant clades B2/H24R, B3/H24Rx, and B4/H24RxC. The B2/H24R and B3/H24Rx clades emerged around 1987, concurrently with the C1/H30R and C2/H30Rx clades in E. coli ST131. B3/H24Rx appears to have evolved by the acquisition of the extendedspectrum lactamase (ESBL)-encoding gene blaCTX-M-15 and an IncFII plasmid, encoding IncFIA and IncFIB. Around 2003, the carbapenem-resistant clade B4/H24RxC emerged when ST410 acquired an IncX3 plasmid carrying a blaOXA-181 carbapenemase gene. Around 2014, the clade B4/H24RxC acquired a second carbapenemase gene, blaNDM-5, on a conserved IncFII plasmid. From an epidemiological investigation of 49 E. coli ST410 isolates from Danish patients, we identified five possible regional outbreaks, of which one outbreak involved nine patients with blaOXA-181- and blaNDM-5-carrying B4/H24RxC isolates. The accumulated multidrug resistance in E. coli ST410 over the past two decades, together with its proven potential of transmission between patients, poses a high risk in clinical settings, and thus, E. coli ST410 should be considered a lineage with emerging "high-risk" clones, which should be monitored closely in the future.

KW - BEAST

KW - epidemiology

KW - Escherichia coli

KW - evolution

KW - high-risk clone

KW - outbreak

U2 - 10.1128/mSphere.00337-18

DO - 10.1128/mSphere.00337-18

M3 - Journal article

C2 - 30021879

AN - SCOPUS:85056746222

SN - 2379-5042

VL - 3

JO - mSphere

JF - mSphere

IS - 4

ER -

Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones

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