JC virus Type 1 has multiple subtypes: three new complete genomes.
The complete genomes of three new Type 1 strains of JC virus (JCV) from urine have been analysed. These were subtype 1A, subtype 1B and Type 4 as assigned from a short typing fragment in the VP1 gene. They differ from Mad1 (subtype 1A) by less than 1.0% of the DNA sequence. Based on its complete genome, the JCV Type 4 strain falls into a Type 1 subgroup. Type 4, with several Type 3-like sites in the short typing fragment, is a possible recombinant strain. The consensus of Type 1 DNA sequences is distinguished within the coding region from both Type 2 (strain GS/B) and five Type 3 (African and African American) strains at 64 sites. Most mutations are silent, but at 21 positions amino acid changes occur. Our findings define the subtypes of JCV Type 1 and support the validity of genotyping within the short VP1 fragment.
Agostini
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Neurotoxicology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD 20892-4126, USA.
Ryschkewitsch
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Stoner
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D001483:Base Sequence; D016384:Consensus Sequence; D004279:DNA, Viral / Q000235:genetics; D016679:Genome, Viral; D006801:Humans; D007577:JC Virus / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D008297:Male; D008875:Middle Aged; D008969:Molecular Sequence Data; D030361:Papillomavirus Infections / Q000821:virology; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D014412:Tumor Virus Infections / Q000821:virology; D014556:Urine / Q000821:virology
D004279:DNA, Viral