Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system

Kazutaka Niira, Mika Ito, Tsuneyuki Masuda, Toshiya Saitou, Tadatsugu Abe, Satoshi Komoto, Mitsuo Sato, Hiroshi Yamasato, Mai Kishimoto, Yuki Naoi, Kaori Sano, Shinobu Tuchiaka, Takashi Okada, Tsutomu Omatsu, Tetsuya Furuya, Hiroshi Aoki, Yukie Katayama, Mami Oba, Junsuke Shirai, Koki TaniguchiTetsuya Mizutani, Makoto Nagai

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

Porcine rotavirus C (RVC) is distributed throughout the world and is thought to be a pathogenic agent of diarrhea in piglets. Although, the VP7, VP4, and VP6 gene sequences of Japanese porcine RVCs are currently available, there is no whole-genome sequence data of Japanese RVC. Furthermore, only one to three sequences are available for porcine RVC VP1-VP3 and NSP1-NSP3 genes. Therefore, we determined nearly full-length whole-genome sequences of nine Japanese porcine RVCs from seven piglets with diarrhea and two healthy pigs and compared them with published RVC sequences from a database. The VP7 genes of two Japanese RVCs from healthy pigs were highly divergent from other known RVC strains and were provisionally classified as G12 and G13 based on the 86% nucleotide identity cut-off value. Pairwise sequence identity calculations and phylogenetic analyses revealed that candidate novel genotypes of porcine Japanese RVC were identified in the NSP1, NSP2 and NSP3 encoding genes, respectively. Furthermore, VP3 of Japanese porcine RVCs was shown to be closely related to human RVCs, suggesting a gene reassortment event between porcine and human RVCs and past interspecies transmission. The present study demonstrated that porcine RVCs show greater genetic diversity among strains than human and bovine RVCs.

Original languageEnglish
Pages (from-to)106-113
Number of pages8
JournalInfection, Genetics and Evolution
Volume44
DOIs
Publication statusPublished - 01-10-2016

Fingerprint

Rotavirus C
Rotavirus
genotype
Swine
genome
Genotype
Genome
taxonomy
swine
gene
Genes
genes
pig
piglets
Diarrhea
diarrhea
phylogenetics

All Science Journal Classification (ASJC) codes

  • Microbiology
  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Genetics
  • Microbiology (medical)
  • Infectious Diseases

Cite this

Niira, Kazutaka ; Ito, Mika ; Masuda, Tsuneyuki ; Saitou, Toshiya ; Abe, Tadatsugu ; Komoto, Satoshi ; Sato, Mitsuo ; Yamasato, Hiroshi ; Kishimoto, Mai ; Naoi, Yuki ; Sano, Kaori ; Tuchiaka, Shinobu ; Okada, Takashi ; Omatsu, Tsutomu ; Furuya, Tetsuya ; Aoki, Hiroshi ; Katayama, Yukie ; Oba, Mami ; Shirai, Junsuke ; Taniguchi, Koki ; Mizutani, Tetsuya ; Nagai, Makoto. / Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system. In: Infection, Genetics and Evolution. 2016 ; Vol. 44. pp. 106-113.
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abstract = "Porcine rotavirus C (RVC) is distributed throughout the world and is thought to be a pathogenic agent of diarrhea in piglets. Although, the VP7, VP4, and VP6 gene sequences of Japanese porcine RVCs are currently available, there is no whole-genome sequence data of Japanese RVC. Furthermore, only one to three sequences are available for porcine RVC VP1-VP3 and NSP1-NSP3 genes. Therefore, we determined nearly full-length whole-genome sequences of nine Japanese porcine RVCs from seven piglets with diarrhea and two healthy pigs and compared them with published RVC sequences from a database. The VP7 genes of two Japanese RVCs from healthy pigs were highly divergent from other known RVC strains and were provisionally classified as G12 and G13 based on the 86{\%} nucleotide identity cut-off value. Pairwise sequence identity calculations and phylogenetic analyses revealed that candidate novel genotypes of porcine Japanese RVC were identified in the NSP1, NSP2 and NSP3 encoding genes, respectively. Furthermore, VP3 of Japanese porcine RVCs was shown to be closely related to human RVCs, suggesting a gene reassortment event between porcine and human RVCs and past interspecies transmission. The present study demonstrated that porcine RVCs show greater genetic diversity among strains than human and bovine RVCs.",
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Niira, K, Ito, M, Masuda, T, Saitou, T, Abe, T, Komoto, S, Sato, M, Yamasato, H, Kishimoto, M, Naoi, Y, Sano, K, Tuchiaka, S, Okada, T, Omatsu, T, Furuya, T, Aoki, H, Katayama, Y, Oba, M, Shirai, J, Taniguchi, K, Mizutani, T & Nagai, M 2016, 'Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system', Infection, Genetics and Evolution, vol. 44, pp. 106-113. https://doi.org/10.1016/j.meegid.2016.06.041

Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system. / Niira, Kazutaka; Ito, Mika; Masuda, Tsuneyuki; Saitou, Toshiya; Abe, Tadatsugu; Komoto, Satoshi; Sato, Mitsuo; Yamasato, Hiroshi; Kishimoto, Mai; Naoi, Yuki; Sano, Kaori; Tuchiaka, Shinobu; Okada, Takashi; Omatsu, Tsutomu; Furuya, Tetsuya; Aoki, Hiroshi; Katayama, Yukie; Oba, Mami; Shirai, Junsuke; Taniguchi, Koki; Mizutani, Tetsuya; Nagai, Makoto.

In: Infection, Genetics and Evolution, Vol. 44, 01.10.2016, p. 106-113.

Research output: Contribution to journalArticle

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T1 - Whole genome sequences of Japanese porcine species C rotaviruses reveal a high diversity of genotypes of individual genes and will contribute to a comprehensive, generally accepted classification system

AU - Niira, Kazutaka

AU - Ito, Mika

AU - Masuda, Tsuneyuki

AU - Saitou, Toshiya

AU - Abe, Tadatsugu

AU - Komoto, Satoshi

AU - Sato, Mitsuo

AU - Yamasato, Hiroshi

AU - Kishimoto, Mai

AU - Naoi, Yuki

AU - Sano, Kaori

AU - Tuchiaka, Shinobu

AU - Okada, Takashi

AU - Omatsu, Tsutomu

AU - Furuya, Tetsuya

AU - Aoki, Hiroshi

AU - Katayama, Yukie

AU - Oba, Mami

AU - Shirai, Junsuke

AU - Taniguchi, Koki

AU - Mizutani, Tetsuya

AU - Nagai, Makoto

PY - 2016/10/1

Y1 - 2016/10/1

N2 - Porcine rotavirus C (RVC) is distributed throughout the world and is thought to be a pathogenic agent of diarrhea in piglets. Although, the VP7, VP4, and VP6 gene sequences of Japanese porcine RVCs are currently available, there is no whole-genome sequence data of Japanese RVC. Furthermore, only one to three sequences are available for porcine RVC VP1-VP3 and NSP1-NSP3 genes. Therefore, we determined nearly full-length whole-genome sequences of nine Japanese porcine RVCs from seven piglets with diarrhea and two healthy pigs and compared them with published RVC sequences from a database. The VP7 genes of two Japanese RVCs from healthy pigs were highly divergent from other known RVC strains and were provisionally classified as G12 and G13 based on the 86% nucleotide identity cut-off value. Pairwise sequence identity calculations and phylogenetic analyses revealed that candidate novel genotypes of porcine Japanese RVC were identified in the NSP1, NSP2 and NSP3 encoding genes, respectively. Furthermore, VP3 of Japanese porcine RVCs was shown to be closely related to human RVCs, suggesting a gene reassortment event between porcine and human RVCs and past interspecies transmission. The present study demonstrated that porcine RVCs show greater genetic diversity among strains than human and bovine RVCs.

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