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

Research output: Contribution to journalArticle

7 Citations (Scopus)

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

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Enterohemorrhagic Escherichia coli
Disease Outbreaks
Genome
Pulsed Field Gel Electrophoresis
Single Nucleotide Polymorphism
Sequence Analysis
Polymerase Chain Reaction
Costs and Cost Analysis

All Science Journal Classification (ASJC) codes

  • Microbiology
  • Microbiology (medical)

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A geographically widespread outbreak investigation and development of a rapid screening method using whole genome sequences of enterohemorrhagic Escherichia coli O121. / Lee, Ken Ichi; Morita-Ishihara, Tomoko; Iyoda, Sunao; Ogura, Yoshitoshi; Hayashi, Tetsuya; Sekizuka, Tsuyoshi; Kuroda, Makoto; Ohnishi, Makoto; 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; EHEC Working Group in Japan, Working Group in Japan.

In: Frontiers in Microbiology, Vol. 8, No. APR, 701, 20.04.2017.

Research output: Contribution to journalArticle

Lee, KI, 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, Matsumoto, Y, Kikuchi, A, Kitagawa, E, Kasahara, H, Sekiguchi, M, Tsuchiya, Y, Nakamura, H, Seto, K, Tanabe, J, Tsujimoto, M, Kawai, H, Dannnoue, H, Ohata, R, Nakajima, H, Yamada, H, Masuda, K, Okamoto, F, Yoshino, S, Hozumi, K & EHEC Working Group in Japan, WGIJ 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, vol. 8, no. APR, 701. https://doi.org/10.3389/fmicb.2017.00701
Lee, Ken Ichi ; Morita-Ishihara, Tomoko ; Iyoda, Sunao ; Ogura, Yoshitoshi ; Hayashi, Tetsuya ; Sekizuka, Tsuyoshi ; Kuroda, Makoto ; Ohnishi, Makoto ; 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 ; EHEC Working Group in Japan, Working Group in Japan. / A geographically widespread outbreak investigation and development of a rapid screening method using whole genome sequences of enterohemorrhagic Escherichia coli O121. In: Frontiers in Microbiology. 2017 ; Vol. 8, No. APR.
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AU - Iyoda, Sunao

AU - Ogura, Yoshitoshi

AU - Hayashi, Tetsuya

AU - Sekizuka, Tsuyoshi

AU - Kuroda, Makoto

AU - Ohnishi, Makoto

AU - Takenuma, Hiroko

AU - Seto, Junji

AU - Suzuki, Yu

AU - Mashiko, Kyoko

AU - Matsui, Shigenori

AU - Hirai, Shinichiro

AU - Yokoyama, Eiji

AU - Konishi, Noriko

AU - Obata, Hiromi

AU - Kai, Akemi

AU - Ogawa, Atsuko

AU - Matsumoto, Yuko

AU - Kikuchi, Ayako

AU - Kitagawa, Emiko

AU - Kasahara, Hitomi

AU - Sekiguchi, Maki

AU - Tsuchiya, Yuji

AU - Nakamura, Hiromi

AU - Seto, Kazuko

AU - Tanabe, Junko

AU - Tsujimoto, Mayumi

AU - Kawai, Hisahiro

AU - Dannnoue, Hiroko

AU - Ohata, Ritsuko

AU - Nakajima, Hiroshi

AU - Yamada, Hiroko

AU - Masuda, Kanako

AU - Okamoto, Fuyuki

AU - Yoshino, Shuji

AU - Hozumi, Kazuyoshi

AU - EHEC Working Group in Japan, Working Group in Japan

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