Complete genome sequence of an IMP-8, CTX-M-14, CTX-M-3 and QnrS1 co-producing Enterobacter asburiae isolate from a patient with wound infection

Shichao Yuan; Guiyang Wu; Beiwen Zheng

doi:10.1016/j.jgar.2019.05.029

Complete genome sequence of an IMP-8, CTX-M-14, CTX-M-3 and QnrS1 co-producing Enterobacter asburiae isolate from a patient with wound infection

J Glob Antimicrob Resist. 2019 Sep:18:52-54. doi: 10.1016/j.jgar.2019.05.029. Epub 2019 Jun 7.

Authors

Shichao Yuan¹, Guiyang Wu¹, Beiwen Zheng²

Affiliations

¹ Department of Gastrointestinal Surgery, Taizhou Municipal Hospital, Taizhou, China.
² Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, The First Affiliated Hospital, College of Medicine, Zhejiang University, Hangzhou, China. Electronic address: zhengbw@zju.edu.cn.

PMID: 31181270
DOI: 10.1016/j.jgar.2019.05.029

Abstract

Objectives: The aim of this study was to investigate the characteristics and complete genome sequence of an IMP-8, CTX-M-14, CTX-M-3 and QnrS1 co-producing multidrug-resistant Enterobacter asburiae isolate (EN3600) from a patient with wound infection.

Methods: Species identification was confirmed by matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry (MALDI-TOF/MS). Carbapenemase genes were identified by PCR and Sanger sequencing. The complete genome sequence of E. asburiae EN3600 was obtained using a PacBio RS II platform. Genome annotation was done by Rapid Annotation using Subsystem Technology (RAST) server. Acquired antimicrobial resistance genes (ARGs) and plasmid replicons were detected using ResFinder 2.1 and PlasmidFinder 1.3, respectively.

Results: The genome of E. asburiae EN3600 consists of a 4.8-Mbp chromosome and five plasmids. The annotated genome contains various ARGs conferring resistance to aminoglycosides, β-lactams, fluoroquinolones, fosfomycin, macrolides, phenicols, rifampicin and sulfonamides. In addition, plasmids of incompatibility (Inc) groups IncHI2A, IncFIB(pECLA), IncFIB(pQil) and IncP1 were identified. The genes bla_IMP-8, bla_CTX-M-14 and bla_CTX-M-3 were located on different plasmids. The bla_IMP-8 gene was carried by an 86-kb IncFIB(pQil) plasmid. The bla_CTX-M-3 and qnrS1 genes were co-harboured by an IncP1 plasmid. In addition, bla_CTX-M-14 was associated with bla_TEM-1B, bla_OXA-1, catB3 and sul1 genes in a 116-kb non-typeable plasmid.

Conclusion: To our knowledge, this is the first complete genome sequence of an E. asburiae isolate co-producing IMP-8, CTX-M-14, CTX-M-3 and QnrS1. This genome may facilitate the understanding of the resistome, pathogenesis and genomic features of Enterobacter cloacae complex (ECC) and will provide valuable information for accurate identification of ECC.

Keywords: Enterobacter asburiae; bla(CTX-M-13); bla(CTX-M-14); bla(IMP-8); qnrS1.

Publication types

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

MeSH terms

Anti-Bacterial Agents / pharmacology
Bacterial Proteins / genetics
Drug Resistance, Multiple, Bacterial / genetics
Enterobacter / drug effects
Enterobacter / enzymology
Enterobacter / genetics*
Humans
Microbial Sensitivity Tests
Sequence Analysis, DNA
Whole Genome Sequencing*
Wound Infection / microbiology*
beta-Lactamases / genetics*

Substances

Anti-Bacterial Agents
Bacterial Proteins
IMP-8 enzyme
beta-lactamase CTX-M-14
beta-lactamase CTX-M-3
beta-Lactamases

Supplementary concepts

Enterobacter asburiae