Quasispecies Analysis of JC Virus DNA Present in Urine of Healthy Subjects

PLoS ONE

Volumn 8, Issue 8, 2013, Pages

  Van Loy, Tom ^a   Thys, Kim ^a   Tritsmans, Luc ^a   Stuyver, Lieven J ^a  

^a JANSSEN RESEARCH FOUNDATION   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN VP1; VIRUS DNA;

ADULT; AGED; ARTICLE; CONTROLLED STUDY; DNA DETERMINATION; FEMALE; GENE DELETION; GENE INSERTION; GENE REARRANGEMENT; GENE SEQUENCE; HUMAN; JC VIRUS; LEUKOENCEPHALOPATHY; MALE; NEXT GENERATION SEQUENCING; NONHUMAN; NORMAL HUMAN; NUCLEOTIDE SEQUENCE; OPPORTUNISTIC INFECTION; PHYLOGENY; PROGRESSIVE MULTIFOCAL LEUCOENCEPHALOPATHY; PYROSEQUENCING; QUASISPECIES ANALYSIS; SANGER SEQUENCING; URINE; VIRAL TROPISM; VIRUS SHEDDING; VIRUS STRAIN;

ADULT; AGED; DNA, VIRAL; FEMALE; HUMANS; JC VIRUS; MALE; MIDDLE AGED; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYOMAVIRUS INFECTIONS; REPRODUCIBILITY OF RESULTS; VIRAL PROTEINS; YOUNG ADULT;

EID: 84881581327     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0070950     Document Type: Article

References (33)

1. Major EO, (2010) Progressive Multifocal Leukoencephalopathy in Patients on Immunomodulatory Therapies. Annual Review of Medicine 61: 35-47.
2. White MK, Khalili K, (2011) Pathogenesis of progressive multifocal leukoencephalopathy-revisited. J Infect Dis 203: 578-586.
3. Keene DL, Legare C, Taylor E, Gallivan J, Cawthorn GM, et al. (2011) Monoclonal antibodies and progressive multifocal leukoencephalopathy. Can J Neurol Sci 38: 565-571.
4. Langer-Gould A, Atlas SW, Green AJ, Bollen AW, Pelletier D, (2005) Progressive multifocal leukoencephalopathy in a patient treated with natalizumab. N Engl J Med 353: 375-381.
5. Bennett SM, Broekema NM, Imperiale MJ, (2012) BK polyomavirus: emerging pathogen. Microbes Infect 14: 672-683.
6. Barcena-Panero A, Van Ghelue M, Khan MT, Echevarria JE, Fedele G, et al. (2012) BK virus-associated infection in cerebrospinal fluid of neurological patients and mutation analysis of the complete VP1 gene in different patient groups. J Cell Physiol 227: 136-145.
7. Drachenberg CB, Hirsch HH, Papadimitriou JC, Gosert R, Wali RK, et al. (2007) Polyomavirus BK versus JC replication and nephropathy in renal transplant recipients: a prospective evaluation. Transplantation 84: 323-330.
8. Kazory A, Ducloux D, Chalopin JM, Angonin R, Fontaniere B, et al. (2003) The first case of JC virus allograft nephropathy. Transplantation 76: 1653-1655.
9. Wu KN, McCue PA, Berger A, Spiegel JR, Wang ZX, et al. (2010) Detection of Merkel cell carcinoma polyomavirus in mucosal Merkel cell carcinoma. Int J Surg Pathol 18: 342-346.
10. Schowalter RM, Pastrana DV, Pumphrey KA, Moyer AL, Buck CB, (2010) Merkel cell polyomavirus and two previously unknown polyomaviruses are chronically shed from human skin. Cell Host Microbe 7: 509-515.
11. van der Meijden E, Janssens RW, Lauber C, Bouwes Bavinck JN, Gorbalenya AE, et al. (2010) Discovery of a new human polyomavirus associated with trichodysplasia spinulosa in an immunocompromized patient. PLoS Pathog 6: e1001024.
12. Frisque RJ, Bream GL, Cannella MT, (1984) Human polyomavirus JC virus genome. J Virol 51: 458-469.
13. Frisque RJ, (2001) Structure and function of JC virus T' proteins. J Neurovirol 7: 293-297.
14. Prins C, Frisque RJ, (2001) JC virus T' proteins encoded by alternatively spliced early mRNAs enhance T antigen-mediated viral DNA replication in human cells. J Neurovirol 7: 250-264.
15. Marshall LJ, Dunham L, Major EO, (2010) Transcription factor Spi-B binds unique sequences present in the tandem repeat promoter/enhancer of JC virus and supports viral activity. J Gen Virol 91: 3042-3052.
16. Ault GS, (1997) Activity of JC virus archetype and PML-type regulatory regions in glial cells. J Gen Virol 78 (Pt 1): 163-169.
17. Gosert R, Kardas P, Major EO, Hirsch HH, (2010) Rearranged JC virus noncoding control regions found in progressive multifocal leukoencephalopathy patient samples increase virus early gene expression and replication rate. J Virol 84: 10448-10456.
18. Ferenczy MW, Marshall LJ, Nelson CD, Atwood WJ, Nath A, et al. (2012) Molecular biology, epidemiology, and pathogenesis of progressive multifocal leukoencephalopathy, the JC virus-induced demyelinating disease of the human brain. Clin Microbiol Rev 25: 471-506.
19. Yogo Y, Kitamura T, Sugimoto C, Ueki T, Aso Y, et al. (1990) Isolation of a possible archetypal JC virus DNA sequence from nonimmunocompromised individuals. J Virol 64: 3139-3143.
20. Jensen PN, Major EO, (2001) A classification scheme for human polyomavirus JCV variants based on the nucleotide sequence of the noncoding regulatory region. J Neurovirol 7: 280-287.
21. Reid CE, Li H, Sur G, Carmillo P, Bushnell S, et al. (2011) Sequencing and analysis of JC virus DNA from natalizumab-treated PML patients. J Infect Dis 204: 237-244.
22. Daniel AM, Swenson JJ, Mayreddy RP, Khalili K, Frisque RJ, (1996) Sequences within the early and late promoters of archetype JC virus restrict viral DNA replication and infectivity. Virology 216: 90-101.
23. Yogo Y, Zhong S, Shibuya A, Kitamura T, Homma Y, (2008) Transcriptional control region rearrangements associated with the evolution of JC polyomavirus. Virology 380: 118-123.
24. Marshall LJ, Major EO, (2010) Molecular regulation of JC virus tropism: insights into potential therapeutic targets for progressive multifocal leukoencephalopathy. J Neuroimmune Pharmacol 5: 404-417.
25. Ryschkewitsch C, Jensen P, Hou J, Fahle G, Fischer S, et al. (2004) Comparison of PCR-southern hybridization and quantitative real-time PCR for the detection of JC and BK viral nucleotide sequences in urine and cerebrospinal fluid. J Virol Methods 121: 217-221.
26. Agostini HT, Deckhut A, Jobes DV, Girones R, Schlunck G, et al. (2001) Genotypes of JC virus in East, Central and Southwest Europe. J Gen Virol 82: 1221-1331.
27. Agostini HT, Ryschkewitsch CF, Stoner GL, (1996) Genotype profile of human polyomavirus JC excreted in urine of immunocompetent individuals. J Clin Microbiol 34: 159-164.
28. Berger JR, Miller CS, Mootoor Y, Avdiushko SA, Kryscio RJ, et al. (2006) JC virus detection in bodily fluids: clues to transmission. Clin Infect Dis 43: e9-12.
29. Ryschkewitsch CF, Friedlaender JS, Mgone CS, Jobes DV, Agostini HT, et al. (2000) Human polyomavirus JC variants in Papua New Guinea and Guam reflect ancient population settlement and viral evolution. Microbes Infect 2: 987-996.
30. Egli A, Infanti L, Dumoulin A, Buser A, Samaridis J, et al. (2009) Prevalence of polyomavirus BK and JC infection and replication in 400 healthy blood donors. J Infect Dis 199: 837-846.
31. Johnson EM, Wortman MJ, Dagdanova AV, Lundberg PS, Daniel DC, (2013) Polyomavirus JC in the Context of Immunosuppression: A Series of Adaptive, DNA Replication-Driven Recombination Events in the Development of Progressive Multifocal Leukoencephalopathy. Clin Dev Immunol 2013: 197807.
32. Gosert R, Rinaldo CH, Funk GA, Egli A, Ramos E, et al. (2008) Polyomavirus BK with rearranged noncoding control region emerge in vivo in renal transplant patients and increase viral replication and cytopathology. J Exp Med 205: 841-852.
33. Olsen GH, Hirsch HH, Rinaldo CH, (2009) Functional analysis of polyomavirus BK non-coding control region quasispecies from kidney transplant recipients. J Med Virol 81: 1959-1967.