PLoS ONE (Jan 2018)

Genetic diversity and recombination of enterovirus G strains in Japanese pigs: High prevalence of strains carrying a papain-like cysteine protease sequence in the enterovirus G population.

  • Shinobu Tsuchiaka,
  • Yuki Naoi,
  • Ryo Imai,
  • Tsuneyuki Masuda,
  • Mika Ito,
  • Masataka Akagami,
  • Yoshinao Ouchi,
  • Kazuo Ishii,
  • Shoichi Sakaguchi,
  • Tsutomu Omatsu,
  • Yukie Katayama,
  • Mami Oba,
  • Junsuke Shirai,
  • Yuki Satani,
  • Yasuhiro Takashima,
  • Yuji Taniguchi,
  • Masaki Takasu,
  • Hiroo Madarame,
  • Fujiko Sunaga,
  • Hiroshi Aoki,
  • Shinji Makino,
  • Tetsuya Mizutani,
  • Makoto Nagai

DOI
https://doi.org/10.1371/journal.pone.0190819
Journal volume & issue
Vol. 13, no. 1
p. e0190819

Abstract

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To study the genetic diversity of enterovirus G (EV-G) among Japanese pigs, metagenomics sequencing was performed on fecal samples from pigs with or without diarrhea, collected between 2014 and 2016. Fifty-nine EV-G sequences, which were >5,000 nucleotides long, were obtained. By complete VP1 sequence analysis, Japanese EV-G isolates were classified into G1 (17 strains), G2 (four strains), G3 (22 strains), G4 (two strains), G6 (two strains), G9 (six strains), G10 (five strains), and a new genotype (one strain). Remarkably, 16 G1 and one G2 strain identified in diarrheic (23.5%; four strains) or normal (76.5%; 13 strains) fecal samples possessed a papain-like cysteine protease (PL-CP) sequence, which was recently found in the USA and Belgium in the EV-G genome, at the 2C-3A junction site. This paper presents the first report of the high prevalence of viruses carrying PL-CP in the EV-G population. Furthermore, possible inter- and intragenotype recombination events were found among EV-G strains, including G1-PL-CP strains. Our findings may advance the understanding of the molecular epidemiology and genetic evolution of EV-Gs.