New variants of porcine epidemic diarrhea virus with large deletions in the spike protein, identified in the United States, 2016-2017

Arch Virol. 2018 Sep;163(9):2485-2489. doi: 10.1007/s00705-018-3874-y. Epub 2018 May 22.

Abstract

Four types of porcine epidemic diarrhea virus (PEDV) variants with a large deletion in the spike protein were detected, together with the original US PEDV, from pig fecal and oral fluid samples collected during 2016-2017 in the US. Two of the variants are similar to those identified in Japan: one contains a 194-aa deletion, the same as PEDV variant TTR-2/JPN/2014, while the other contains a 204-aa deletion, the same as PEDV variant JKa-292/CS1de204. Two new S1 NTD-del PEDV variants were found: one contains a 201-aa deletion located at residues 30-230 and the other contains a 202-aa deletion located at residues 24-225 of the S protein. This is the first report on coinfection of S1 NTD-del PEDV variants and the original US PEDV strain in US pigs, indicating that PEDV continues to evolve in pigs and might be responsible for disease pattern changes.

MeSH terms

  • Animals
  • Base Sequence
  • Coronavirus Infections / epidemiology
  • Coronavirus Infections / transmission
  • Coronavirus Infections / veterinary*
  • Coronavirus Infections / virology
  • Farms
  • Feces / virology
  • Genotype*
  • Incidence
  • Molecular Typing
  • Phylogeny
  • Porcine epidemic diarrhea virus / classification
  • Porcine epidemic diarrhea virus / genetics*
  • Porcine epidemic diarrhea virus / isolation & purification
  • RNA, Viral / genetics*
  • Sequence Deletion*
  • Spike Glycoprotein, Coronavirus / genetics*
  • Swine
  • Swine Diseases / epidemiology*
  • Swine Diseases / transmission
  • Swine Diseases / virology
  • United States / epidemiology

Substances

  • RNA, Viral
  • Spike Glycoprotein, Coronavirus