Complete genome analysis of porcine kobuviruses from the feces of pigs in Japan View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2017-08

AUTHORS

Masataka Akagami, Mika Ito, Kazutaka Niira, Moegi Kuroda, Tsuneyuki Masuda, Kei Haga, Shinobu Tsuchiaka, Yuki Naoi, Mai Kishimoto, Kaori Sano, Tsutomu Omatsu, Hiroshi Aoki, Yukie Katayama, Mami Oba, Tomoichiro Oka, Toru Ichimaru, Hiroshi Yamasato, Yoshinao Ouchi, Junsuke Shirai, Kazuhiko Katayama, Tetsuya Mizutani, Makoto Nagai

ABSTRACT

Porcine kobuviruses (PoKoVs) are ubiquitously distributed in pig populations worldwide and are thought to be enteric viruses in swine. Although PoKoVs have been detected in pigs in Japan, no complete genome data for Japanese PoKoVs are available. In the present study, 24 nearly complete or complete sequences of the PoKoV genome obtained from 10 diarrheic feces and 14 non-diarrheic feces of Japanese pigs were analyzed using a metagenomics approach. Japanese PoKoVs shared 85.2-100% identity with the complete coding nucleotide (nt) sequences and the closest relationship of 85.1-98.3% with PoKoVs from other countries. Twenty of 24 Japanese PoKoVs carried a deletion of 90 nt in the 2B coding region. Phylogenetic tree analyses revealed that PoKoVs were not grouped according to their geographical region of origin and the phylogenetic trees of the L, P1, P2, and P3 genetic regions showed topologies different from each other. Similarity plot analysis using strains from a single farm revealed partially different similarity patterns among strains from identical farm origins, suggesting that recombination events had occurred. These results indicate that various PoKoV strains are prevalent and not restricted geographically on pig farms worldwide and the coexistence of multiple strains leads to recombination events of PoKoVs and contributes to the genetic diversity and evolution of PoKoVs. More... »

PAGES

593-602

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1007/s11262-017-1464-9

    DOI

    http://dx.doi.org/10.1007/s11262-017-1464-9

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1085218738

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/28484931


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