Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan

Tsuneyuki Masuda; Fujiko Sunaga; Yuki Naoi; Mika Ito; Hiroki Takagi; Yukie Katayama; Tsutomu Omatsu; Mami Oba; Shoichi Sakaguchi; Tetsuya Furuya; Hiroshi Yamasato; Junsuke Shirai; Shinji Makino; Tetsuya Mizutani; Makoto Nagai

doi:10.1016/j.virusres.2018.09.003

Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan

Tsuneyuki Masuda, Fujiko Sunaga, Yuki Naoi, Mika Ito, Hiroki Takagi, Yukie Katayama, Tsutomu Omatsu, Mami Oba, Shoichi Sakaguchi, Tetsuya Furuya, Hiroshi Yamasato, Junsuke Shirai, Shinji Makino, Tetsuya Mizutani, Makoto Nagai

Microbiology And Immunology

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

Abstract

A novel virus related to the Enterovirus/Sapelovirus supergroup in the family Picornaviridae was identified in healthy porcine feces in Japan by using a metagenomics approach. The genome of the virus, named Sapelo-like porcine picornavirus Japan (SPPVJ) Pig/Isi-Im1/JPN/2016, had a type-IV internal ribosomal entry site and carried a 6978-nucleotide-long single open reading frame encoding a 2326 amino acids (aa) polyprotein precursor. The coding sequence region consisted of leader protein (68 aa), a structural protein region P1 (824 aa), and the non-structural protein regions P2 (672 aa) and P3 (762 aa). Among representative picornaviruses, the P1, 2C, and 3CD regions of SPPVJ had the highest aa identities of 64.4%, 61.9%, and 73.3%, respectively, with the corresponding regions of sapelo-like bat picornavirus BtVs-PicoV/SC2013. Sequencing analysis of the RT-PCR products derived from the 5’ untranslated and 3D regions revealed the presence of SPPVJ in 17.8% (19/107) of the feces from healthy and diarrheal pigs in 12 farms in 2015–2016. Further studies are needed to determine the origin and pathogenic potential of SPPJV in pigs and other mammals.

Original language	English (US)
Pages (from-to)	68-73
Number of pages	6
Journal	Virus Research
Volume	257
DOIs	https://doi.org/10.1016/j.virusres.2018.09.003
State	Published - Sep 15 2018

Keywords

Complete genome
Enterovirus/Sapelovirus supergroup
Novel picornavirus
Porcine feces

ASJC Scopus subject areas

Infectious Diseases
Cancer Research
Virology

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10.1016/j.virusres.2018.09.003

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Masuda, T., Sunaga, F., Naoi, Y., Ito, M., Takagi, H., Katayama, Y., Omatsu, T., Oba, M., Sakaguchi, S., Furuya, T., Yamasato, H., Shirai, J., Makino, S., Mizutani, T., & Nagai, M. (2018). Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan. Virus Research, 257, 68-73. https://doi.org/10.1016/j.virusres.2018.09.003

Masuda, T, Sunaga, F, Naoi, Y, Ito, M, Takagi, H, Katayama, Y, Omatsu, T, Oba, M, Sakaguchi, S, Furuya, T, Yamasato, H, Shirai, J, Makino, S, Mizutani, T & Nagai, M 2018, 'Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan', Virus Research, vol. 257, pp. 68-73. https://doi.org/10.1016/j.virusres.2018.09.003

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title = "Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan",

abstract = "A novel virus related to the Enterovirus/Sapelovirus supergroup in the family Picornaviridae was identified in healthy porcine feces in Japan by using a metagenomics approach. The genome of the virus, named Sapelo-like porcine picornavirus Japan (SPPVJ) Pig/Isi-Im1/JPN/2016, had a type-IV internal ribosomal entry site and carried a 6978-nucleotide-long single open reading frame encoding a 2326 amino acids (aa) polyprotein precursor. The coding sequence region consisted of leader protein (68 aa), a structural protein region P1 (824 aa), and the non-structural protein regions P2 (672 aa) and P3 (762 aa). Among representative picornaviruses, the P1, 2C, and 3CD regions of SPPVJ had the highest aa identities of 64.4%, 61.9%, and 73.3%, respectively, with the corresponding regions of sapelo-like bat picornavirus BtVs-PicoV/SC2013. Sequencing analysis of the RT-PCR products derived from the 5{\textquoteright} untranslated and 3D regions revealed the presence of SPPVJ in 17.8% (19/107) of the feces from healthy and diarrheal pigs in 12 farms in 2015–2016. Further studies are needed to determine the origin and pathogenic potential of SPPJV in pigs and other mammals.",

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author = "Tsuneyuki Masuda and Fujiko Sunaga and Yuki Naoi and Mika Ito and Hiroki Takagi and Yukie Katayama and Tsutomu Omatsu and Mami Oba and Shoichi Sakaguchi and Tetsuya Furuya and Hiroshi Yamasato and Junsuke Shirai and Shinji Makino and Tetsuya Mizutani and Makoto Nagai",

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AU - Masuda, Tsuneyuki

AU - Sunaga, Fujiko

AU - Naoi, Yuki

AU - Ito, Mika

AU - Takagi, Hiroki

AU - Katayama, Yukie

AU - Omatsu, Tsutomu

AU - Oba, Mami

AU - Sakaguchi, Shoichi

AU - Furuya, Tetsuya

AU - Yamasato, Hiroshi

AU - Shirai, Junsuke

AU - Makino, Shinji

AU - Mizutani, Tetsuya

AU - Nagai, Makoto

PY - 2018/9/15

Y1 - 2018/9/15

N2 - A novel virus related to the Enterovirus/Sapelovirus supergroup in the family Picornaviridae was identified in healthy porcine feces in Japan by using a metagenomics approach. The genome of the virus, named Sapelo-like porcine picornavirus Japan (SPPVJ) Pig/Isi-Im1/JPN/2016, had a type-IV internal ribosomal entry site and carried a 6978-nucleotide-long single open reading frame encoding a 2326 amino acids (aa) polyprotein precursor. The coding sequence region consisted of leader protein (68 aa), a structural protein region P1 (824 aa), and the non-structural protein regions P2 (672 aa) and P3 (762 aa). Among representative picornaviruses, the P1, 2C, and 3CD regions of SPPVJ had the highest aa identities of 64.4%, 61.9%, and 73.3%, respectively, with the corresponding regions of sapelo-like bat picornavirus BtVs-PicoV/SC2013. Sequencing analysis of the RT-PCR products derived from the 5’ untranslated and 3D regions revealed the presence of SPPVJ in 17.8% (19/107) of the feces from healthy and diarrheal pigs in 12 farms in 2015–2016. Further studies are needed to determine the origin and pathogenic potential of SPPJV in pigs and other mammals.

AB - A novel virus related to the Enterovirus/Sapelovirus supergroup in the family Picornaviridae was identified in healthy porcine feces in Japan by using a metagenomics approach. The genome of the virus, named Sapelo-like porcine picornavirus Japan (SPPVJ) Pig/Isi-Im1/JPN/2016, had a type-IV internal ribosomal entry site and carried a 6978-nucleotide-long single open reading frame encoding a 2326 amino acids (aa) polyprotein precursor. The coding sequence region consisted of leader protein (68 aa), a structural protein region P1 (824 aa), and the non-structural protein regions P2 (672 aa) and P3 (762 aa). Among representative picornaviruses, the P1, 2C, and 3CD regions of SPPVJ had the highest aa identities of 64.4%, 61.9%, and 73.3%, respectively, with the corresponding regions of sapelo-like bat picornavirus BtVs-PicoV/SC2013. Sequencing analysis of the RT-PCR products derived from the 5’ untranslated and 3D regions revealed the presence of SPPVJ in 17.8% (19/107) of the feces from healthy and diarrheal pigs in 12 farms in 2015–2016. Further studies are needed to determine the origin and pathogenic potential of SPPJV in pigs and other mammals.

KW - Complete genome

KW - Enterovirus/Sapelovirus supergroup

KW - Novel picornavirus

KW - Porcine feces

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EP - 73

JO - Virus Research

JF - Virus Research

ER -

Whole genome analysis of a novel picornavirus related to the Enterovirus/Sapelovirus supergroup from porcine feces in Japan

Abstract

Keywords

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