Genotyping of Acinetobacter baumannii strains isolated at a Japanese hospital over five years using targeted next-generation sequencing

Mohamed Mahdi Alshahni; Miwa Asahara; Sayoko Kawakami; Ryuichi Fujisaki; Naohisa Matsunaga; Taiji Furukawa; Tamio Teramoto; Koichi Makimura

doi:10.1016/j.jiac.2015.03.009

Genotyping of Acinetobacter baumannii strains isolated at a Japanese hospital over five years using targeted next-generation sequencing

J Infect Chemother. 2015 Jul;21(7):512-5. doi: 10.1016/j.jiac.2015.03.009. Epub 2015 Mar 20.

Authors

Mohamed Mahdi Alshahni¹, Miwa Asahara², Sayoko Kawakami³, Ryuichi Fujisaki⁴, Naohisa Matsunaga⁵, Taiji Furukawa⁶, Tamio Teramoto⁷, Koichi Makimura⁸

Affiliations

¹ Laboratory of Space and Environmental Medicine, Graduate School of Medicine, Teikyo University, Japan; General Medical Education and Research Center, Teikyo University, Japan.
² Department of Clinical Laboratory, Teikyo University Hospital, Japan.
³ Department of Infection Control and Prevention, Teikyo University Hospital, Japan.
⁴ Department of Sports and Medical Science, Faculty of Medical Technology, Teikyo University, Japan; Department of Emergency Medicine, Faculty of Medicine, Teikyo University, Japan.
⁵ Department of Infection Control and Prevention, Teikyo University Hospital, Japan; Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Department of Medicine, School of Medicine, Teikyo University, Japan.
⁶ Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Department of Laboratory Medicine, School of Medicine, Teikyo University, Japan.
⁷ Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Teikyo Academic Research Center, Teikyo University, Japan.
⁸ Laboratory of Space and Environmental Medicine, Graduate School of Medicine, Teikyo University, Japan; General Medical Education and Research Center, Teikyo University, Japan; Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Teikyo University Institute of Medical Mycology, Japan. Electronic address: [email protected].

PMID: 25862195
DOI: 10.1016/j.jiac.2015.03.009

Abstract

Acinetobacter baumannii is a Gram-negative bacterial agent involved in nosocomial infections. In this five-year retrospective study, phylogenetic relationships among carbapenem-resistant A. baumannii strains that were isolated at Teikyo University Hospital in Tokyo metropolis, Japan, were explored. A panel of 72 carbapenem-resistant A. baumannii strains that isolated from January 2006 until August 2010 was studied. Next-Generation sequencing (NGS) was employed to perform large-scale genotyping of these isolates. They were separated, according to the time of isolation, into two genetically distinct groups, one correspondent to strains of the outbreak reported to local public health department in 2010 and the other contained strains from earlier isolations, suggesting different origins of the isolates. Moreover, taxa in each group showed two main clustering patterns. Multilocus sequence typing (MLST) study on 8 isolates from the last outbreak showed that they were from one sequence type, 92, displaying less discriminatory power comparing to large-sequence typing. The clonal lineage profiles produced in this retrospective study will be used as a reference database to compare future isolations of A. baumannii. This study demonstrates the power of NGS in conducting epidemiological researches, allowing a high resolution genotyping.

Keywords: Acinetobacter baumannii; Bacteria; Carbapenem-resistant; Next-generation sequencing; Outbreak.

Publication types

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

MeSH terms

Acinetobacter Infections / microbiology*
Acinetobacter baumannii / classification
Acinetobacter baumannii / genetics*
Cross Infection / microbiology
DNA, Bacterial / analysis
DNA, Bacterial / genetics
Disease Outbreaks
Drug Resistance, Bacterial
Genotype
Genotyping Techniques / methods*
Humans
Molecular Typing / methods*
Retrospective Studies
Sequence Analysis, DNA / methods*
Tokyo

Substances

DNA, Bacterial