Abstract
General properties of human polyomavirus BK (BKV) such as its clinical significance, propagation, and serological assays are described in Chapter 3. In this chapter, two molecular methods for detection of a subtype-specific sequence of BKV are described. Both methods were developed based on polymerase chain reaction (PCR) amplification and subsequent identification of BKV subtypes by either sequencing or restriction enzyme analysis.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Pagnani, M., Negrini, M., Reschiglian, P., Corallini, A., Balboni, P. G., Scherneck, S., et al. (1986) Molecular and biological properties of BK virus-IR, a BK virus variant isolated from a human tumor. J. Virol. 59, 500–505.
Watanabe, S. and Yoshiike, K. (1986) Evolutionary changes of transcriptional control region in a minute-plaque viable deletion mutant of BK virus. J. Virol. 59, 260–266.
Sugimoto, C., Hara, K., Taguchi, F., and Yogo, Y. (1989) Growth efficiency of naturally occurring BK virus variants in vivo and in vitro. J. Virol. 63, 3195–3199.
Rubinstein. R. and Harley, E.H. (1989) BK virus DNA cloned directly from human urine confirms an archetypal structure for the transcription control region. Virus Genes 2, 157–165.
Jin, L. and Gibson, P. E. (1996) Genomic function and variation of human polyomavirus BK (BKV). Rev. Med. Virol. 6, 201–214.
Jin, L., Gibson, P. E., Knowles, W. A., and Clewley, J. P. (1993a) BK virus antigenic variants: Sequence analysis within the capsid VP1 epitope. J. Med. Virol. 39, 50–56.
Jin, L., Gibson, P. E., Booth, J. C., and Clewley, J. P. (1993b) Genomic typing of BK virus in clinical specimens by direct sequencing of polymerase chain reaction products. J. Med. Virol. 41, 11–17.
Jin, L., Pietropaolo, V., Booth, J. C., Ward, K., and Brown, D. W. (1995) Prevalence and subtype distribution of BK virus in healthy people and immunocompromised patients detected by PCR-restriction enzyme analysis. Clin. Diagn. Virol. 3, 285–295.
Di Taranto, C., Pietropaolo, V., Orsi, G. B., Jin, L., Sinibaldi, L., and Degener, A.M. (1997) Detection of BK polyomavirus genotypes in healthy and HIV-positive children. Eur. J. Epidemiol. 13, 653–657.
Gibson, P. E. and Gardner, S. D. (1983) Strain differences and some serological observations on several isolates of human polyomaviruses, in Polyomaviruses and Human Neurological Diseases (Sever, J. L. and Madden, D. L., eds,), Alan R. Liss, New York, pp. 119–132.
Knowles, W. A., Gibson, P. E., and Gardner, S. D. (1989) Serological typing scheme for BK-like isolates of human polyomavirus. J. Med. Virol. 28, 118–123.
Tavis, J. E., Walker, D. L., Gardner, S. D., and Frisque, R. J. (1989) Nucleotide sequence of the human polyomavirus AS virus, an antigenic variant of BK virus. J. Virol. 63, 901–911.
Tavis, J. E., Frisque, R. J., Walker, D. L., White III, F. A. (1990) Antigenic and transforming properties of the DB strain of the human polyomavirus BK virus. Virology 178, 568–572.
Jin, L. (1993) Rapid genomic typing of BK virus directly from clinical specimens. Mol. Cell. Probes 7, 331–334.
Pietropaolo, V., Di Taranto, C., Degener, A. M., Jin, L., Sinibaldi, L., Baiocchini, A., et al. (1998) Transplacental transmission of human polyomavirus BK. J. Med. Virol. 56, 372–376.
Moens, U., Johansen, T., Johnsen, J. I., Seternes, O. M., and Traavik, T. (1995) Noncoding control region of naturally occurring BK virus variants: sequence comparison and function analysis. Virus Genes 10, 261–275.
Gibson, P. E., Knowles, W. A., Hand, J. F., and Brown, W. G. (1993) Detection of JC virus in the cerebrospinal fluid of patients with progressive multifocal leukoencephalopathy. J. Med. Virol. 39, 278–281.
Voltz, R., Jager, G., Seelos, K., Fuhry, L., and Hohlfeld, R. (1997) BK virus encephalitis in an immunocompetent patient. Arch. Neurol. 53, 101–103.
Hedquist, B. G., Bratt, G., Hammarin, A. L., Grandien, M., Nennesmo, I., Sundelin, B., et al. (1999) Identification of BK virus in a patient with acquired immune deficiency syndrome and bilateral atypical retinitis. Ophthalmology 106, 129–132.
Degener, A. M., Pietropaolo, V., Di Taranto, C., Rizzuti, V., Ameglio, F., Cordiali, F. P., et al. (1997) Detection of JC and BK viral genome in specimens of HIV-1 infected subjects. New Microbiol. 20, 115–122.
Sanger, F., Nicklen, S., and Coulson, A. R. (1977) DNA sequencing with chainterminating inhibitors. Proc. Natl. Acad. Sci. USA 74, 5463–5467.
Simmonds, P., Zhang, L. Q., McOmish, F., Balfe, P., Ludlam, C. A., and Brown, A. J. (1991) Discontinuous sequence change of human immunodeficiency virus (HIV) type 1 env sequences in plasma viral and lymphocyte-associated proviral populations in vivo: implications for models of HIV pathogenesis. J. Virol. 65, 6266–6276.
Holmes, E. C. (1993) The pattern and process of base substitution in immunodeficiency viruses. Binary 5, 189–190.
Boom, R., Sol, C. J. A., Salimans, H. M. M., Jansen, C. L., Wertheim-van Dillen, P. E. M., and Van der Noordaa, J. (1990) Rapid and simple method for purification of nucleic acids. J. Clin. Microbiol. 28, 495–503.
Seif, I., Khoury, G., and Dhar, R. (1979) The genome of human papovavirus BKV. Cell 18, 963–977.
Howley, P. M., Khoury, G., Byrne, J. C., Takemoto, K. K., and Martin, M. A. (1975) Physical map of the BK virus genome. J. Virol. 16, 959–973.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2001 Humana Press Inc., Totowa, NJ
About this protocol
Cite this protocol
Jin, L. (2001). Molecular Methods for Identification and Genotyping of BK Virus. In: Raptis, L. (eds) SV40 Protocols. Methods in Molecular Biology™, vol 165. Humana Press. https://doi.org/10.1385/1-59259-117-5:33
Download citation
DOI: https://doi.org/10.1385/1-59259-117-5:33
Publisher Name: Humana Press
Print ISBN: 978-0-89603-653-6
Online ISBN: 978-1-59259-117-6
eBook Packages: Springer Protocols