Phylogenetic evidence of widespread distribution of genotype 3 JC virus in Africa and identification of a type 7 isolate in an African AIDS patient

Journal of General Virology

Volumn 85, Issue 8, 2004, Pages 2215-2219

  Venter, Marietjie ^a   Smit, Sheilagh B ^a   Leman, Patricia ^a   Swanepoel, Robert ^a  

^a NATIONAL INSTITUTE FOR COMMUNICABLE DISEASES   (South Africa)

Author keywords

[No Author keywords available]

Indexed keywords

ACQUIRED IMMUNE DEFICIENCY SYNDROME; AFRICA; AGED; ARTICLE; CAUCASIAN; CEREBROSPINAL FLUID EXAMINATION; CLINICAL ARTICLE; GENE SEQUENCE; GENOTYPE; HUMAN; JC VIRUS; LEUKEMIA; MIGRATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; PROGRESSIVE MULTIFOCAL LEUKOENCEPHALOPATHY; VIRUS GENOME; VIRUS IDENTIFICATION; VIRUS ISOLATION; VIRUS TRANSMISSION; CLASSIFICATION; ISOLATION AND PURIFICATION; MOLECULAR GENETICS; VIROLOGY;

JC VIRUS; STAPHYLOCOCCUS PHAGE 3A;

ACQUIRED IMMUNODEFICIENCY SYNDROME; AFRICA; BASE SEQUENCE; GENOTYPE; HUMANS; JC VIRUS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

EID: 4043092770     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.80027-0     Document Type: Article

References (32)

1. Agostini, H. T. & Stoner, G. L. (1995). Amplification of the complete polyomavirus JC genome from brain, cerebrospinal fluid and urine using pre-PCR restriction enzyme digestion. J Neurovirol 1, 316-320.
2. Agostini, H. T., Brubaker, G. R., Shao, J., Levin, A., Ryschkewitsch, C. F., Blattner, W. A. & Stoner, G. L. (1995). BK virus and a new type of JC virus excreted by HIV-1 positive patients in rural Tanzania. Arch Virol 140, 1919-1934.
3. Agostini, H. T., Ryschkewitsch, C. F. & Stoner, G. L. (1996). Genotype profile of human polyomavirus JC excreted in urine of immunocompetent individuals. J Clin Microbiol 34, 159-164.
4. Agostini, H. T., Ryschkewitsch, C. F., Brubaker, G. R., Shao, J. & Stoner, G. I. (1997a). Five complete genomes of JC virus type 3 from Africans and African Americans. Arch Virol 142, 637-655.
5. Agostini, H. T., Ryschkewitsch, C. F., Mory, R., Singer, E. J. & Stoner, G. L. (1997b). JC virus (JCV) genotypes in brain tissue from patients with progressive multifocal leukoecephalopathy (PML) and in urine from controls without PML: increased frequency of JCV type 2 in PML. J Infect Dis 176, 1-8.
6. Agostini, H. T., Ryschkewitsch, C. F., Singer, E. J. & Stoner, G. L. (1997c). JC virus regulatory region rearrangements and genotypes in progressive multifocal leukoencephalopathy: two independent aspects of virus variation. J Gen Virol 78, 659-604.
7. Agostini, H. T., Yanagihara, R., Davis, V., Ryschkewitsch, C. F. & Stoner, G. L. (1997d). Asian genotypes of JC virus in Native Americans and in a Pacific Island population: markers of viral evolution and human migration. Proc Natl Acad Sci U S A 94, 14542-14546.
8. Agostini, H. T., Ryschkewitsch, C. F., Singer, E. J., Baumhefner, R. W. & Stoner, G. L. (1998). JC virus type 2B is found more frequently in brain tissue of progressive multifocal leukoencephalopathy patients than in urine from controls. J Hum Virol 1, 200-206.
9. Agostini, H. T., Deckhut, A., Jobes, D. V. & 7 other authors (2001). Genotypes of IC virus in East, Central and Southwest Europe. J Gen Virol 82, 1221-1231.
10. Berger, J. R. & Concha, M. (1995). Progressive multifocal leukoencephalopathy: the evolution of a disease once considered rare. J Neurovirol 1, 5-18.
11. Berger, J. R. & Levy, R. M. (1993). The neurologic complications of human immunodeficiency virus infection. Med Clin North Am 77, 1-23.
12. Berger, J. R., Pall, L., Lanska, D. & Whiteman, M. (1998). Progressive multifocal leukoencephalopathy in patients with HIV infection. J Neurovirol 4, 59-68.
13. Boldorini, R., Pagani, E., Car, P. G., Omodeo-Zorini, E., Borghi, E., Tarantini, L., Bellotti, C., Ferrante, P. & Monga, G. (2003). Molecular characterisation of JC virus strains detected in human brain tumours. Pathology 35, 248-253.
14. Caldarelli-Stefano, R., Boldorini, R., Monga, G., Meraviglia, E., Zorini, E. O. & Ferrante, P. (2000). JC virus in human glial-derived tumors. Hum Pathol 31, 394-395.
15. Chima, S. C., Agostini, H. T., Ryschkewitsch, C. F., Lucas, S. B. & Stoner, G. L. (1999). Progressive multifocal leukoencephalopathy and JC virus genotypes in West African patients with acquired immunodeficiency syndrome: a pathologic and DNA sequence analysis of 4 cases. Arch Pathol Lab Med 123, 395-403.
16. Dubois, V., Moret, H., Lafon, M. E. & 8 other authors (2001). JC virus genotype in France: molecular epidemiology and potential significance for progressive multifocal leukoencephalopathy. J Infect Dis 183, 213-217.
17. Felsenstein, J. (1993). PHYLIP (Phylogeny Inference Package), version 3.5c. Distributed by the author. University of Washington, Seattle, WA, USA.
18. Hammond, M. G., du Toit, E. D., Sanchez-Mazas, A. & 8 other authors (1997). HLA in sub-Saharan Africa (12th IHWC SSAF report). In Genetic Diversity of HLA: Functional and Medical Implications, vol. II, pp. 345-353. Edited by D. Charron. France: EDK Sevres.
19. Hatwell, J. N. & Sharp, P. M. (2000). Evolution of human polyomavirus JC. J Gen Virol 81, 1191-1200.
20. Jensen, P. N. & Major, E. O. (2001). A classification scheme for human polyomavirus JCV variants based on the nucleotide sequence of the non-coding regulatory region. J Neurovirol 7, 280-287.
21. Jobes, D. V., Chima, S. C., Ryschkewitsch, C. F. & Stoner, G. L. (1998). Phylogenetic analysis of 22 complete genomes of the human polyomavirus JC virus. J Gen Virol 79, 2491-2498.
22. Kumar, S., Tamura, K., Jakobsen, I. & Nei, M. (2000). MEGA: molecular evolutionary genetics analyses, version 2.0. University Park: Pennsylvania State University.
23. Kumar, S., Tamura, K., Jakobsen, I. & Nei, M. (2001). MEGA2: Molecular Evolutionary Genetics Analysis software, version 2.1. Tempe, AZ: Arizona State University.
24. Kunitake, T., Kitamura, T., Guo, J., Taguchi, F., Kawabe, K. & Yogo, Y. (1995). Parent-to-child transmission is relatively common in the spread of the human polyomavirus JC virus. J Clin Microbiol 33, 1448-1451.
25. Newman, J. T. & Frisque, R. J. (1999). Identification of JC virus variants in multiple tissues of pediatric and adult PML patients. J Med Virol 58, 79-86.
26. Oliver, R. (1991). The African Experience. Chatham: Pimlico.
27. Ou, W. C., Tsai, R. T., Wang, M., Fung, C. Y., Hseu, T. H. & Chang, D. (1997). Genomic cloning and sequence analysis of Taiwan-3 human polyomavirus JC virus. J Formos Med Assoc 96, 511-516.
28. Stoner, G. L., Agostini, H. T., Ryschkewitsch, C. F., Mazlo, M., Gullotta, F., Wamukota, W. & Lucas, S. (1998). Detection of JC virus in two African cases of progressive multifocal leukoencephalopathy including identification of JCV type 3 in a Gambian AIDS patient. J Med Microbiol 47, 733-742.
29. Stoner, G. L., Jobes, D. V., Fernandez Cobo, M., Agostini, H. T., Chima, S. C. & Ryschkewitsch, C. F. (2000). JC virus as a marker of human migration to the Americas. Microbes Infect 2, 1905-1911.
30. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTER_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.
31. UNAIDS (2003). AIDS Epidemic Update 2003. www.unaids.org/en/resources/publications/corporate+publications.asp
32. Yogo, Y., Kitamura, T., Sugimoto, C., Ueki, T., Aso, Y., Hara, K. & Taguchi, F. (1990). Isolation of a possible archetypal JC virus DNA sequence from nonimmunocompromised individuals. J Virol 64, 3139-3143.