A geographically widespread outbreak investigation and development of a rapid screening method using whole genome sequences of enterohemorrhagic Escherichia coli O121

Ken Ichi Lee, Tomoko Morita-Ishihara, Sunao Iyoda, Yoshitoshi Ogura, Tetsuya Hayashi, Tsuyoshi Sekizuka, Makoto Kuroda, Makoto Ohnishi, Hiroko Takenuma, Junji Seto, Yu Suzuki, Kyoko Mashiko, Shigenori Matsui, Shinichiro Hirai, Eiji Yokoyama, Noriko Konishi, Hiromi Obata, Akemi Kai, Atsuko Ogawa, Yuko MatsumotoAyako Kikuchi, Emiko Kitagawa, Hitomi Kasahara, Maki Sekiguchi, Yuji Tsuchiya, Hiromi Nakamura, Kazuko Seto, Junko Tanabe, Mayumi Tsujimoto, Hisahiro Kawai, Hiroko Dannnoue, Ritsuko Ohata, Hiroshi Nakajima, Hiroko Yamada, Kanako Masuda, Fuyuki Okamoto, Shuji Yoshino, Kazuyoshi Hozumi, Working Group in Japan EHEC Working Group in Japan

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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.

Original languageEnglish
Article number701
JournalFrontiers in Microbiology
Volume8
Issue numberAPR
DOIs
Publication statusPublished - Apr 20 2017

All Science Journal Classification (ASJC) codes

  • Microbiology
  • Microbiology (medical)

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    Lee, K. I., Morita-Ishihara, T., Iyoda, S., Ogura, Y., Hayashi, T., Sekizuka, T., Kuroda, M., Ohnishi, M., Takenuma, H., Seto, J., Suzuki, Y., Mashiko, K., Matsui, S., Hirai, S., Yokoyama, E., Konishi, N., Obata, H., Kai, A., Ogawa, A., ... EHEC Working Group in Japan, W. G. I. J. (2017). A geographically widespread outbreak investigation and development of a rapid screening method using whole genome sequences of enterohemorrhagic Escherichia coli O121. Frontiers in Microbiology, 8(APR), [701]. https://doi.org/10.3389/fmicb.2017.00701