AUTHOR=Lee Ken-ichi , Morita-Ishihara Tomoko , Iyoda Sunao , Ogura Yoshitoshi , Hayashi Tetsuya , Sekizuka Tsuyoshi , Kuroda Makoto , Ohnishi Makoto , EHEC Working Group in Japan , Takenuma Hiroko , Seto Junji , Suzuki Yu , Mashiko Kyoko , Matsui Shigenori , Hirai Shinichiro , Yokoyama Eiji , Konishi Noriko , Obata Hiromi , Kai Akemi , Ogawa Atsuko , Matsumoto Yuko , Kikuchi Ayako , Kitagawa Emiko , Kasahara Hitomi , Sekiguchi Maki , Tsuchiya Yuji , Nakamura Hiromi , Seto Kazuko , Tanabe Junko , Tsujimoto Mayumi , Kawai Hisahiro , Dannnoue Hiroko , Ohata Ritsuko , Nakajima Hiroshi , Yamada Hiroko , Masuda Kanako , Okamoto Fuyuki , Yoshino Shuji , Hozumi Kazuyoshi TITLE=A Geographically Widespread Outbreak Investigation and Development of a Rapid Screening Method Using Whole Genome Sequences of Enterohemorrhagic Escherichia coli O121 JOURNAL=Frontiers in Microbiology VOLUME=8 YEAR=2017 URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2017.00701 DOI=10.3389/fmicb.2017.00701 ISSN=1664-302X ABSTRACT=

From 2014 to 2015, we investigated a suspected nationwide outbreak of enterohemorrhagic Escherichia coli serogroup O121. However, similar pulsed field gel electrophoresis (PFGE) profiles and the lack of epidemiological links between the isolates made detection of the outbreak difficult. To elucidate a more precise genetic distance among the isolates, whole genome sequence (WGS) analyses were implemented in the investigation. The WGS-based single nucleotide polymorphism (SNP) analysis showed that 23 out of 44 isolates formed a distinct cluster (the number of intra-cluster SNPs was ≤8). Specific genomic regions in the clustered isolates were used to develop a specific PCR analysis. The PCR analysis detected all the clustered isolates and was suitable for rapid screening during the outbreak investigation. Our results showed that WGS analyses were useful for the detection of a geographically widespread outbreak, especially for isolates showing similar PFGE profiles and for the development of a rapid and cost-effective screening method.