Characterization of internal ribosome entry sites according to secondary structure analysis to classify border disease virus strains

J Virol Methods. 2020 Jan:275:113704. doi: 10.1016/j.jviromet.2019.113704. Epub 2019 Sep 10.

Abstract

Applying palindromic nucleotide substitutions (PNS) method, variable loci of the internal ribosome entry site (IRES) secondary structure in the 5' untranslated region (UTR) of Border disease virus sequences were analysed allowing their allocation into ten IRES classes within the species. Sequence characteristics of Turkish and Chinese strains were highly divergent from other genogroups, indicating geographic segregation and micro-evolutive steps within the species. Observed heterogeneity in the BDV species has to be considered for potential implications on diagnostic tests, control and preventive measures.

Keywords: Border disease virus; Internal ribosome entry site; Secondary structure.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • 5' Untranslated Regions / genetics
  • Animals
  • Border disease virus / classification*
  • Border disease virus / genetics*
  • Genome, Viral*
  • Internal Ribosome Entry Sites*
  • Inverted Repeat Sequences
  • Nucleic Acid Conformation
  • Phylogeny*
  • RNA, Viral / chemistry

Substances

  • 5' Untranslated Regions
  • Internal Ribosome Entry Sites
  • RNA, Viral