Genomic characterization of clinical Enterobacter roggenkampii co-harbouring blaIMP-1- and blaGES-5-encoding IncP6 and mcr-9-encoding IncHI2 plasmids isolated in Japan

Kaoru Umeda; Hiromi Nakamura; Akira Fukuda; Yuki Matsumoto; Daisuke Motooka; Shota Nakamura; Yoshinori Yasui; Hideki Yoshida; Ryuji Kawahara

doi:10.1016/j.jgar.2020.11.028

Genomic characterization of clinical Enterobacter roggenkampii co-harbouring bla_IMP-1- and bla_GES-5-encoding IncP6 and mcr-9-encoding IncHI2 plasmids isolated in Japan

J Glob Antimicrob Resist. 2021 Mar:24:220-227. doi: 10.1016/j.jgar.2020.11.028. Epub 2020 Dec 29.

Authors

Kaoru Umeda¹, Hiromi Nakamura², Akira Fukuda³, Yuki Matsumoto⁴, Daisuke Motooka⁴, Shota Nakamura⁴, Yoshinori Yasui⁵, Hideki Yoshida⁶, Ryuji Kawahara²

Affiliations

¹ Division of Microbiology, Osaka Institute of Public Health, 8-34 Tojo-cho, Tennoji-ku, Osaka, Japan. Electronic address: kaor-umeda@iph.osaka.jp.
² Division of Microbiology, Osaka Institute of Public Health, 8-34 Tojo-cho, Tennoji-ku, Osaka, Japan.
³ Division of Microbiology, Osaka Institute of Public Health, 8-34 Tojo-cho, Tennoji-ku, Osaka, Japan; Department of Health and Environmental Sciences, School of Veterinary Medicine, Rakuno Gakuen University, 582 Bunkyodai Midorimachi, Ebetsu, Hokkaido, Japan.
⁴ Genome Information Research Center, Research Institute for Microbial Diseases, Osaka University, 3-1 Yamadaoka, Suita, Osaka, Japan.
⁵ Osaka Saiseikai Nakatsu Hospital, 2-10-39 Shibata, Kita-ku, Osaka, Japan.
⁶ Osaka City Public Health Office, 1-2-7-1000 Asahi-cho, Abeno-ku, Osaka, Japan.

PMID: 33385587
DOI: 10.1016/j.jgar.2020.11.028

Abstract

Objectives: The spread of carbapenemase-producing Enterobacterales (CPE) with colistin resistance is a critical public health issue. We genetically characterized the clinical isolate Enterobacter roggenkampii OIPH-N260, which harboured carbapenemase genes bla_IMP-1 and bla_GES-5 with multiple resistance genes, including mcr-9 and bla_CTX-M-9.

Methods: This isolate was characterized by whole-genome sequencing, comparative analysis of resistance plasmids, susceptibility tests, bacterial conjugation, S1-nuclease digested pulsed-field-gel electrophoresis, and Southern blot hybridization.

Results: The OIPH-N260 isolate exhibited resistance to most β-lactams and colistin. It co-harboured two resistance plasmids, the bla_IMP-1- and bla_GES-5-encoding IncP6 plasmid pN260-3 and mcr-9- and bla_CTX-M-9-encoding IncHI2 plasmid pN260-1. The comparative analysis of pN260-3 indicated that a unique bla_IMP-1-surrounding region was inserted into the bla_GES-5-encoding plasmid with the mobile element IS26, which plays an important role in the spread of resistance genes. pN260-1 did not possess the mcr-9 expression regulative gene qseBC. Both plasmids were transferable into other bacterial species via conjugation.

Conclusions: This is the first study to report not only a bla_IMP-1 and bla_GES-5 co-encoding plasmid, but also the co-harbouring of another plasmid carrying mcr-9 and bla_CTX-M-9 in Enterobacter cloacae complex. The development of advanced resistance via IS26-mediated insertion and the co-harbouring of resistance plasmids highlights the need to monitor for resistance genes in CPE.

Keywords: Carbapenemase-producing Enterobacterales; IS26; Whole-genome sequencing; bla(GES-5); bla(IMP-1); mcr-9.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Anti-Bacterial Agents* / pharmacology
Enterobacter*
Genomics
Japan
Microbial Sensitivity Tests
Plasmids / genetics

Substances

Anti-Bacterial Agents

Supplementary concepts

Enterobacter roggenkampii