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

• DOI: 10.1007/s11262-013-1003-2
• Publication Date: 2013-10-29T11:07:07Z
• Authors: A Reum Kim; Hee Chun Chung; Hye Kwon Kim; Eun Ok Kim; Van Giap Nguyen; Min Gyung Choi; Hye Jung Yang; Jung Ah Kim; Bong Kyun Park
• Keywords: 0301 basic medicine; 0303 health sciences; Korea; Molecular Sequence Data; DNA Viruses; DNA, Single-Stranded; Sequence Homology; DNA-Directed DNA Polymerase; Genome, Viral; Sequence Analysis, DNA; DNA Virus Infections; 3. Good health; Feces; Open Reading Frames; 03 medical and health sciences; DNA, Viral; 8. Economic growth; Cluster Analysis; Nucleic Acid Conformation; Capsid Proteins; Phylogeny

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.