title: Genotyping of Acinetobacter baumannii strains isolated at a Japanese hospital over five years using targeted next-generation sequencing.
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.
authors: Laboratory of Space and Environmental Medicine, Graduate School of Medicine, Teikyo University, Japan; General Medical Education and Research Center, Teikyo University, Japan.
authors: Mohamed Mahdi
authors: MM
authors: Alshahni
authors: Department of Clinical Laboratory, Teikyo University Hospital, Japan.
authors: Miwa
authors: M
authors: Asahara
authors: Department of Infection Control and Prevention, Teikyo University Hospital, Japan.
authors: Sayoko
authors: S
authors: Kawakami
authors: Department of Sports and Medical Science, Faculty of Medical Technology, Teikyo University, Japan; Department of Emergency Medicine, Faculty of Medicine, Teikyo University, Japan.
authors: Ryuichi
authors: R
authors: Fujisaki
authors: 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.
authors: Naohisa
authors: N
authors: Matsunaga
authors: Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Department of Laboratory Medicine, School of Medicine, Teikyo University, Japan.
authors: Taiji
authors: T
authors: Furukawa
authors: Asia International Institute of Infectious Diseases Control, Teikyo University, Japan; Teikyo Academic Research Center, Teikyo University, Japan.
authors: Tamio
authors: T
authors: Teramoto
authors: 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: makimura@med.teikyo-u.ac.jp.
authors: Koichi
authors: K
authors: Makimura
mesh_terms: D000151:Acinetobacter Infections / Q000382:microbiology*; D040981:Acinetobacter baumannii / Q000145:classification / Q000235:genetics*; D003428:Cross Infection / Q000382:microbiology; D004269:DNA, Bacterial / Q000032:analysis / Q000235:genetics; D004196:Disease Outbreaks; D024881:Drug Resistance, Bacterial; D005838:Genotype; D060005:Genotyping Techniques / Q000379:methods*; D006801:Humans; D058889:Molecular Typing / Q000379:methods*; D012189:Retrospective Studies; D017422:Sequence Analysis, DNA / Q000379:methods*; D014041:Tokyo
chemical_list: D004269:DNA, Bacterial
keywords: Acinetobacter baumannii; Bacteria; Carbapenem-resistant; Next-generation sequencing; Outbreak