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

Virus Res. 2018 Sep 15;257:68-73. doi: 10.1016/j.virusres.2018.09.003. Epub 2018 Sep 15.

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.

Keywords: Complete genome; Enterovirus/Sapelovirus supergroup; Novel picornavirus; Porcine feces.

MeSH terms

  • 3' Untranslated Regions
  • 5' Untranslated Regions
  • Animals
  • Diarrhea / veterinary*
  • Diarrhea / virology
  • Enterovirus
  • Feces / virology*
  • Genome, Viral*
  • Japan / epidemiology
  • Metagenomics
  • Nucleic Acid Conformation
  • Open Reading Frames
  • Phylogeny
  • Picornaviridae / classification
  • Picornaviridae / genetics*
  • Picornaviridae / isolation & purification
  • Picornaviridae Infections / veterinary*
  • RNA, Viral / genetics
  • Sequence Analysis, DNA
  • Swine / virology*
  • Viral Proteins / genetics

Substances

  • 3' Untranslated Regions
  • 5' Untranslated Regions
  • RNA, Viral
  • Viral Proteins