イマイ　カズオ   IMAI Kazuo   今井　一男    所属   埼玉医科大学  医学部 臨床検査医学（中央検査部）    職種   専任講師
論文種別	学術雑誌(原著)
言語種別	英語
査読の有無	査読あり
表題	Rapid and accurate species identification of mitis group streptococci using the MinION nanopore sequencer
掲載誌名	正式名：Frontiers in Cellular and Infection Microbiology
巻・号・頁	10,11-11頁
著者・共著者	Kazuo Imai,Norihito Tarumoto,Rina Nemoto,Masahiro Kodana,Jun Sakai,Toru Kawamura,Kenji Ikebuchi,Kotaro Mitsutake,Takashi Murakami,Shigefumi Maesaki,Taku Fujiwara,Satoshi Hayakawa,Tomonori Hoshino,Mitsuko Seki,Takuya Maeda
発行年月	2020/01
概要	Differentiation between mitis group streptococci (MGS) bacteria in routine laboratory tests has become important for obtaining accurate epidemiological information on the characteristics of MGS and understanding their clinical significance. The most reliable method of MGS species identification is multilocus sequence analysis (MLSA) with seven house-keeping genes; however, because this method is time-consuming, it is deemed unsuitable for use in most clinical laboratories. In this study, we established a scheme for identifying 12 species of MGS (S. pneumoniae, S. pseudopneumoniae, S. mitis, S. oralis, S. peroris, S. infantis, S. australis, S. parasanguinis, S. sinensis, S. sanguinis, S. gordonii, and S. cristatus) using the MinION nanopore sequencer (Oxford Nanopore Technologies, Oxford, UK) with the taxonomic aligner"What's in My Pot?"(WIMP; Oxford Nanopore's cloud-based analysis platform) and Kraken2 pipeline with the custom database adjusted for MGS species identification. The identities of the species in reference genomes (n = 514), clinical isolates (n = 31), and reference strains (n = 4) were confirmed via MLSA. The nanopore simulation reads were generated from reference ge
DOI	10.3389/fcimb.2020.00011
PMID	32083020