Draft genome sequence of a metallo-β-lactamase (blaAIM-1)-producing Klebsiella pneumoniae ST1916 isolated from a patient with chronic diarrhoea

Huoxiang Zhou; Wei Guo; Jiangfeng Zhang; Yi Li; Pengyuan Zheng; Hongmei Zhang

doi:10.1016/j.jgar.2019.01.010

Draft genome sequence of a metallo-β-lactamase (bla_AIM-1)-producing Klebsiella pneumoniae ST1916 isolated from a patient with chronic diarrhoea

J Glob Antimicrob Resist. 2019 Mar:16:165-167. doi: 10.1016/j.jgar.2019.01.010. Epub 2019 Jan 15.

Authors

Huoxiang Zhou¹, Wei Guo², Jiangfeng Zhang³, Yi Li³, Pengyuan Zheng⁴, Hongmei Zhang⁵

Affiliations

¹ Marshall B.J. Medical Research Center, The Fifth Affiliated Hospital of Zhengzhou University, No. 3 Kangfu Front Street, Zhengzhou, He'nan 450052, China; Laboratory of Microbiology and Immunology, Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, No. 40 North Daxue Road, Zhengzhou, He'nan 450052, China.
² Laboratory of Microbiology and Immunology, Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, No. 40 North Daxue Road, Zhengzhou, He'nan 450052, China.
³ Department of Clinical Laboratory, He'nan Provincial People's Hospital, Zhengzhou 450003, China.
⁴ Marshall B.J. Medical Research Center, The Fifth Affiliated Hospital of Zhengzhou University, No. 3 Kangfu Front Street, Zhengzhou, He'nan 450052, China. Electronic address: medp7123@126.com.
⁵ Laboratory of Microbiology and Immunology, Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, No. 40 North Daxue Road, Zhengzhou, He'nan 450052, China. Electronic address: hongmei_zhang@zzu.edu.cn.

PMID: 30658201
DOI: 10.1016/j.jgar.2019.01.010

Abstract

Objectives: Klebsiella pneumoniae colonisation of the human gastrointestinal tract is a significant risk factor for extraintestinal infections in severely ill patients. Recent reports have indicated the high rate of K. pneumoniae infection resulting from the patient's own gut microbiota. Here we report the draft genome sequence of a multidrug-resistant (MDR) K. pneumoniae strain (SM32) harbouring the bla_AIM-1 gene isolated from a patient with chronic diarrhoea in China.

Methods: Whole genomic DNA was sequenced using an Illumina MiSeq platform. The generated reads were de novo assembled using SOAPdenovo v.2.04. All probable coding sequences were predicted by Glimmer v.3.02 and were annotated using information from GenBank, Pfam, Nr, COG, String, GO and KEGG. Resistance-related genes were also further identified.

Results: The draft genome of K. pneumoniae SM32, belonging to sequence type (ST) 1916, was assembled into 165 contigs comprising 5238542bp. A total of 5013 protein-coding sequences and several genes associated with resistance to β-lactams, tetracycline, aminoglycosides, fluoroquinolones and trimethoprim/sulfamethoxazole were preliminarily identified.

Conclusions: MDR K. pneumoniae colonising the human gastrointestinal tract provides a potential reservoir for extraintestinal infections. The genome sequence of K. pneumoniae SM32 will be helpful to reveal the key role of mobile genetic elements in the adaptive translocation and spread of antimicrobial resistance.

Keywords: Intestinal colonisation; Klebsiella pneumoniae; Multidrug resistance; Whole-genome sequencing; bla(AIM-1).

Publication types

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

MeSH terms

Adult
Anti-Bacterial Agents / pharmacology
Chronic Disease
Diarrhea / microbiology*
Drug Resistance, Multiple, Bacterial / genetics*
Genome, Bacterial*
Humans
Klebsiella Infections / microbiology*
Klebsiella pneumoniae / drug effects*
Klebsiella pneumoniae / enzymology
Klebsiella pneumoniae / genetics*
Male
Whole Genome Sequencing
beta-Lactamases / genetics

Substances

Anti-Bacterial Agents
beta-Lactamases