Yoko Nukui1, Alafate Ayibieke2, Makoto Taniguchi3, Yoshibumi Aiso4, Yuka Shibuya4, Kazunari Sonobe5, Jun Nakajima5, Saki Kanehira5, Yoshiro Hadano4, Shuji Tohda6, Ryuji Koike4, Ryoichi Saito7. 1. Department of Infection Control and Prevention, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan. Electronic address: nucku-tky@umin.ac.jp. 2. Department of Molecular Microbiology, Tokyo Medical and Dental University, Tokyo, Japan. 3. Oral Microbiome Center, Kagawa, Japan. 4. Department of Infection Control and Prevention, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan. 5. Department of Infection Control and Prevention, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan; Department of Clinical Laboratory, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan. 6. Department of Clinical Laboratory, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan. 7. Department of Infection Control and Prevention, Medical Hospital, Tokyo Medical and Dental University, Tokyo, Japan; Department of Molecular Microbiology, Tokyo Medical and Dental University, Tokyo, Japan.
Abstract
OBJECTIVES: The emergence and spread of carbapenemase-producing Enterobacteriaceae is a worldwide concern. This study reports the whole genome sequence of an NDM-5-, CTX-M-14-, OXA-10- and MCR-1-co-producing Escherichia coli sequence type 167 (ST167) multidrug-resistant clinical strain (EC129) isolated from a sputum sample of a hospitalised patient diagnosed with pneumonia. METHODS: The genome of E. coli EC129 was subjected to next-generation sequencing and reads were assembled. The draft genome was annotated using DDBJ Read Annotation Pipeline DFAST server, followed by subsequent in silico analysis. RESULTS: The genome of E. coli ST167 strain EC129 is 5319159 bp in length and contains 5022 protein-coding sequences. The blaNDM-5, blaCTX-M-14, blaOXA-10 and mcr-1 genes were detected along with other antimicrobial resistance genes conferring resistance to aminoglycosides, fluoroquinolones, sulfonamides, trimethoprim and tetracyclines. Antimicrobial susceptibility testing revealed that the isolate was resistant to all antimicrobial agents except colistin. CONCLUSION: To our knowledge, this study is the first to report anE. coli ST167 strain co-producing NDM-5, CTX-M-14, OXA-10 and MCR-1 isolated from a sputum sample of an individual with pneumonia in Japan, thus elucidating the molecular characteristics and resistance gene diversity of this strain.
OBJECTIVES: The emergence and spread of carbapenemase-producing Enterobacteriaceae is a worldwide concern. This study reports the whole genome sequence of an NDM-5-, CTX-M-14-, OXA-10- and MCR-1-co-producing Escherichia coli sequence type 167 (ST167) multidrug-resistant clinical strain (EC129) isolated from a sputum sample of a hospitalised patient diagnosed with pneumonia. METHODS: The genome of E. coliEC129 was subjected to next-generation sequencing and reads were assembled. The draft genome was annotated using DDBJ Read Annotation Pipeline DFAST server, followed by subsequent in silico analysis. RESULTS: The genome of E. coli ST167 strain EC129 is 5319159 bp in length and contains 5022 protein-coding sequences. The blaNDM-5, blaCTX-M-14, blaOXA-10 and mcr-1 genes were detected along with other antimicrobial resistance genes conferring resistance to aminoglycosides, fluoroquinolones, sulfonamides, trimethoprim and tetracyclines. Antimicrobial susceptibility testing revealed that the isolate was resistant to all antimicrobial agents except colistin. CONCLUSION: To our knowledge, this study is the first to report anE. coli ST167 strain co-producing NDM-5, CTX-M-14, OXA-10 and MCR-1 isolated from a sputum sample of an individual with pneumonia in Japan, thus elucidating the molecular characteristics and resistance gene diversity of this strain.