A rapid and efficient method BK polyomavirus genotyping by high-resolution melting analysis

Journal of Medical Virology

Volumn 83, Issue 12, 2011, Pages 2128-2134

  Matsuda, Yasuhiro ^a,b   Qazi, Yasir ^a   Iwaki, Yuichi ^a  

^a UNIVERSITY OF SOUTHERN CALIFORNIA   (United States)

^b HOKKAIDO UNIVERSITY   (Japan)

Author keywords

BK polyomavirus; BKV associated nephropathy; High resolution melt analysis; Real time PCR; Renal transplantation; Single nucleotide variation

Indexed keywords

ARTICLE; BK VIRUS; CONTROLLED STUDY; COST CONTROL; DIAGNOSTIC VALUE; DNA SEQUENCE; DNA VIRUS INFECTION; GENETIC ANALYSIS; GENOTYPE; GRAFT RECIPIENT; HIGH RESOLUTION MELTING ANALYSIS; HIGH THROUGHPUT SEQUENCING; HUMAN; KIDNEY TRANSPLANTATION; NONHUMAN; NUCLEOTIDE SEQUENCE; RELIABILITY; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; VALIDATION PROCESS; VIRUS LOAD; VIRUS STRAIN;

BK VIRUS; DNA, VIRAL; GENOTYPE; HUMANS; KIDNEY TRANSPLANTATION; MOLECULAR TYPING; POLYOMAVIRUS INFECTIONS; SEQUENCE ANALYSIS, DNA; TRANSITION TEMPERATURE; TRANSPLANTATION; VIROLOGY;

BK POLYOMAVIRUS;

EID: 80054856750     PISSN: 01466615     EISSN: 10969071     Source Type: Journal    
DOI: 10.1002/jmv.22239     Document Type: Article

References (21)

1. Boldorini R, Allegrini S, Miglio U, Paganotti A, Veggiani C. 2009a. Detection, distribution, and pathologic significance of BK virus strains isolated from patients with kidney transplants, with and without polyomavirus-associated nephropathy. Arch Pathol Lab Med 133: 766-774.
2. Boldorini R, Allegrini S, Miglio U, Paganotti A, Veggiani C, Mischitelli M, Monga G, Pietropaolo V. 2009b. Genomic mutations of viral protein 1 and BK virus nephropathy in kidney transplant recipients. J Med Virol 81: 1385-1393.
3. Bonvoisin C, Weekers L, Xhignesse P, Grosch S, Milicevic M, Krzesinski JM. 2008. Polyomavirus in renal transplantation: A hot problem. Transplantation 85: S42-S48.
4. Chan GS, Tsoi HW, Wong SS, Li CL, Tse H, Un IK, Yuen KY, Chan KW. 2009. BK virus nephropathy due to KOM-3 strain. Am J Kidney Dis 54: 122-126.
5. Cimbaluk D, Pitelka L, Kluskens L, Gattuso P. 2009. Update on human polyomavirus BK nephropathy. Diagn Cytopathol 37: 773-779.
6. The Council for International Organizations of Medical Sciences (CIOMS) in collaboration with the World Health Organization (WHO) 2002a. International Ethical Guidelines for Biomedical Research Involving Human Subjects. p24-p30.
7. The Council for International Organizations of Medical Sciences (CIOMS) in collaboration with the World Health Organization (WHO) 2002b. International Ethical Guidelines for Biomedical Research Involving Human Subjects. p89-95.
8. Hirsch HH, Steiger J. 2003. Polyomavirus BK. Lancet Infect Dis 3: 611-623.
9. Hirsch HH, Brennan DC, Drachenberg CB, Ginevri F, Gordon J, Limaye AP, Mihatsch MJ, Nickeleit V, Ramos E, Randhawa P, Shapiro R, Steiger J, Suthanthiran M, Trofe J. 2005. Polyomavirus-associated nephropathy in renal transplantation: Interdisciplinary analyses and recommendations. Transplantation 79: 1277-1286.
10. Hung CC, Lin SY, Lee CN, Cheng HY, Lin CY, Chang CH, Chiu HH, Yu CC, Lin SP, Cheng WF, Ho HN, Niu DM, Su YN. 2009. Identification of fibrillin-1 gene mutations in Marfan syndrome by high-resolution melting analysis. Anal Biochem 389: 102-106.
11. Iwaki KK, Qazi SH, Garcia-Gomez J, Zeng D, Matsuda Y, Matsuda K, Martinez ME, Toyoda M, Kore A, Stevens WT, Smogorzewski M, Iwaki DD, Qazi Y, Iwaki Y. 2010. Development of a real-time quantitative PCR assay for detection of a stable genomic region of BK virus. Virol J 7: 295.
12. Jin L, Gibson PE, Booth JC, Clewley JP. 1993. Genomic typing of BK virus in clinical specimens by direct sequencing of polymerase chain reaction products. J Med Virol 41: 11-17.
13. Krautkramer E, Klein TM, Sommerer C, Schnitzler P, Zeier M. 2009. Mutations in the BC-loop of the BKV VP1 region do not influence viral load in renal transplant patients. J Med Virol 81: 75-781.
14. Kumar S, Nei M, Dudley J, Tamura K. 2008. MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief Bioinform 9: 299-306.
15. Lin JH, Tseng CP, Chen YJ, Lin CY, Chang SS, Wu HS, Cheng JC. 2008. Rapid differentiation of influenza A virus subtypes and genetic screening for virus variants by high-resolution melting analysis. J Clin Microbiol 46: 1090-1097.
16. Luo C, Bueno M, Kant J, Martinson J, Randhawa P. 2009. Genotyping schemes for polyomavirus BK, using gene-specific phylogenetic trees and single nucleotide polymorphism analysis. J Virol 83: 2285-2297.
17. Randhawa P, Ho A, Shapiro R, Vats A, Swalsky P, Finkelstein S, Uhrmacher J, Weck K. 2004. Correlates of quantitative measurement of BK polyomavirus (BKV) DNA with clinical course of BKV infection in renal transplant patients. J Clin Microbiol 42: 1176-1180.
18. Steer PA, Kirkpatrick NC, O'Rourke D, Noormohammadi AH. 2009. Classification of fowl adenovirus serotypes by use of high-resolution melting-curve analysis of the hexon gene region. J Clin Microbiol 47: 311-321.
19. Tremolada S, Akan S, Otte J, Khalili K, Ferrante P, Chaudhury PR, Woodle ES, Trofe-Clark J, White MK, Gordon J. 2010a. Rare subtypes of BK virus are viable and frequently detected in renal transplant recipients with BK virus-associated nephropathy. Virology 404: 312-318.
20. Tremolada S, Delbue S, Castagnoli L, Allegrini S, Miglio U, Boldorini R, Elia F, Gordon J, Ferrante P. 2010b. Mutations in the external loops of BK virus VP1 and urine viral load in renal transplant recipients. J Cell Physiol 222: 195-199.
21. Vossen RH, Aten E, Roos A, den Dunnen JT. 2009. High-resolution melting analysis (HRMA): More than just sequence variant screening. Hum Mutat 30: 860-866.