Characterization of a complete genome of a circular single-stranded DNA virus from porcine stools in Korea

Virus Genes. 2014 Feb;48(1):81-8. doi: 10.1007/s11262-013-1003-2. Epub 2013 Oct 30.

Abstract

Porcine circular single-stranded DNA viruses have been just identified from swine feces in Korea. This virus was mentioned as bovine stool-associated circular DNA virus (BoSCV)-like virus discovered from porcine stools. However, the thorough characteristics of the virus were not identified. Therefore, this research focuses on finding a full genome sequence and analyzing the genetic features of the virus. The virus, now called porcine stool-associated circular DNA virus in Korea (PoSCV Kor), consists of 2,589 bases forming circular structure. It has two major ORFs inversely encoding replicase and capsid protein, with each stem-loop structure between 5' ends and 3' ends of the two putative ORFs. This characteristics is the same as PoSCV in New Zealand, but different from chimpanzee stool-associated circular virus (ChiSCVs) and BoSCV, which have one stem-loop structure. Therefore, it would be sure that PoSCV Kor is very similar to PoSCV in respect to the genetic aspect; the same number of nucleotide bases and the amino acid identity of replicase and capsid protein (96 and 93 %, respectively). This fact could be certified through the finding that PoSCV Kor and PoSCV are in the same cluster by phylogenetic analysis based on the comparison with full-sequences of other circular ssDNA viruses.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Capsid Proteins / genetics
  • Cluster Analysis
  • DNA Virus Infections / veterinary*
  • DNA Viruses / genetics*
  • DNA Viruses / isolation & purification
  • DNA, Single-Stranded / chemistry
  • DNA, Single-Stranded / genetics
  • DNA, Viral / chemistry*
  • DNA, Viral / genetics*
  • DNA-Directed DNA Polymerase / genetics
  • Feces / virology*
  • Genome, Viral*
  • Korea
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Open Reading Frames
  • Phylogeny
  • Sequence Analysis, DNA
  • Sequence Homology

Substances

  • Capsid Proteins
  • DNA, Single-Stranded
  • DNA, Viral
  • DNA replicase
  • DNA-Directed DNA Polymerase

Associated data

  • GENBANK/KF193403
  • RefSeq/NC_024119