title: Identification of several clades of novel single-stranded circular DNA viruses with conserved stem-loop structures in pig feces.
abstract: Metagenomic analysis of fecal samples collected from diarrheal swine detected sequences encoding a replication initiator protein (Rep). The genomes of ten novel single-stranded DNA viruses were determined, and they exhibited a similar genome organization. The two putative open reading frames (ORFs) encoding Rep and the capsid protein are bidirectionally transcribed and separated by two intergenic regions. Stem-loop structure(s) typical of genomes that undergo the rolling-circle DNA replication mechanism were observed. Phylogenetically, these ten genomes are in a monophyletic clade with the previously described porcine stool-associated virus (PoSCV) but are divergent enough to be further classified into to six distinct virus clades.
authors.affiliation: Virus and Prion Diseases Research Unit, National Animal Disease Center, USDA, Agricultural Research Service, PO Box 70, Ames, IA, 50010, USA, Andrew.Cheung@ars.usda.gov.
authors.forename: Andrew K
authors.initials: AK
authors.lastname: Cheung
authors.forename: Terry Fei Fan
authors.initials: TF
authors.lastname: Ng
authors.forename: Kelly M
authors.initials: KM
authors.lastname: Lager
authors.forename: David P
authors.initials: DP
authors.lastname: Alt
authors.forename: Eric
authors.initials: E
authors.lastname: Delwart
authors.forename: Roman M
authors.initials: RM
authors.lastname: Pogranichniy
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D017124:Conserved Sequence; D004267:DNA Viruses / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D004277:DNA, Single-Stranded / Q000235:genetics; D004279:DNA, Viral / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*; D003967:Diarrhea / Q000662:veterinary* / Q000821:virology; D005243:Feces / Q000821:virology*; D015967:Gene Expression Regulation, Viral / Q000502:physiology; D008969:Molecular Sequence Data; D058974:Phylogeography; D013552:Swine; D013553:Swine Diseases / Q000821:virology*; D014764:Viral Proteins / Q000235:genetics / Q000378:metabolism
chemical_list: D004277:DNA, Single-Stranded; D004279:DNA, Viral; D014764:Viral Proteins