Use of oligonucleotide microarrays for rapid detection and serotyping of acute respiratory disease-associated adenoviruses

Journal of Clinical Microbiology

Volumn 42, Issue 7, 2004, Pages 3232-3239

  Lin, Baochuan ^a,b   Vora, Gary J ^a,b   Thach, Dzung ^a,b   Walter, Elizabeth ^b,c   Metzgar, David ^b,d   Tibbetts, Clark ^b   Stenger, David A ^a,b  

^a NAVAL RESEARCH LABORATORY   (United States)

^b USAF/SGX   (United States)

^c Lackland Air Force Base ^*  (United States)

^d NAVAL MEDICAL CENTER SAN DIEGO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE;

ACUTE RESPIRATORY TRACT DISEASE; ADENOVIRUS; ADENOVIRUS 4; ADENOVIRUS 7; ARTICLE; DIAGNOSTIC TEST; DNA MICROARRAY; E1A GENE; EARLY DIAGNOSIS; FIBER GENE; GENE; HEXON GENE; HUMAN; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; SEROTYPING; SOLDIER; VACCINATION; VIRUS DETECTION; VIRUS IDENTIFICATION; VIRUS TRANSMISSION;

ACUTE DISEASE; ADENOVIRIDAE; HUMANS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMERASE CHAIN REACTION; RESPIRATION DISORDERS; SENSITIVITY AND SPECIFICITY; SEROTYPING;

ADENOVIRIDAE; DNA VIRUSES; HUMAN ADENOVIRUS TYPE 7; SUBGROUP C;

EID: 3142740881     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.42.7.3232-3239.2004     Document Type: Article

References (37)

1. Allard, A., B. Albinsson, and G. Wadell. 2001. Rapid typing of human adenoviruses by a general PCR combined with restriction endonuclease analysis. J. Clin. Microbiol. 39:498-505.
2. Avellón, A., P. Perez, J. C. Aguilar, R. Lejarazu, and J. E. Echevarria. 2001. Rapid and sensitive diagnosis of human adenovirus infections by a generic polymerase chain reaction. J. Virol. Methods 92:113-120.
3. Charles, P. T., G. J. Vora, J. D. Andreadis, A. J. Fortney, C. E. Meador, C. S. Dulcey, and D. A. Stenger. 2003. Fabrication and surface characterization of DNA microarrays using amine- and thiol-terminated oligonucleotide probes. Langmuir 19:1586-1591.
4. Chizhikov, V., M. Wagner, A. Ivshina, Y. Hoshino, A. Z. Kapikian, and K. Chumakov. 2002. Detection and genotyping of human group A rotaviruses by oligonucleotide microarray hybridization. J. Clin. Microbiol. 40:2398-2407.
5. 1 and D, respectively. J. Clin. Microbiol. 37:3940-3945.
6. Echavarria, M., M. Forman, J. Ticeburst, J. S. Dumler, and P. Charache. 1998. PCR method for detection of adenovirus in urine of healthy and human immunodeficiency virus-infected individuals. J. Clin. Microbiol. 36:3323-3326.
7. Echavarria, M., S. A. Kolavic, S. Cersovsky, F. Mitchell, J. L. Sanchez, C. Polyak, B. L. Innis, and L. N. Binn. 2000. Detection of adenoviruses (AdV) in culture-negative environmental samples by PCR during an AdV-associated respiratory disease outbreak. J. Clin. Microbiol. 38:2982-2984.
8. Echavarria, M., J. L. Sanchez, S. A. Kolavic-Gray, C. S. Polyak, F. Mitchell-Raymundo, B. L. Innis, D. Vaughn, R. Reynolds, and L. N. Binn. 2003. Rapid detection of adenovirus in throat swab specimens by PCR during respiratory disease outbreaks among military recruits. J. Clin. Microbiol. 41:810-812.
9. Eiz, B., T. Adrian, and P. Pring-Akerblom. 1995. Immunological adenovirus variant strains of subgenus D: comparison of the hexon and fiber sequences. Virology 213:313-320.
10. Elnifro, E. M., R. J. Cooper, P. E. Klapper, and A. S. Bailey. 2000. PCR and restriction endonuclease analysis for rapid identification of human adenovirus subgenera. J. Clin. Microbiol. 38:2055-2061.
11. Forbes, B. A., D. F. Sahm, and A. S. Weissfeld. 2002. Laboratory methods in basic virology, p. 832-833. In Bailey & Scott's diagnostic microbiology, 11th ed. Mosby, St. Louis, Mo.
12. Gray, G. C., P. R. Goswami, M. D. Malasig, A. W. Hawksworth, D. H. Trump, M. A. Ryan, and D. P. Schnurr. 2000. Adult adenovirus infections: loss of orphaned vaccine precipitates military respiratory disease epidemics. Clin. Infect. Dis. 31:663-670.
13. Gröndahl, B., W. Puppe, A. Hoppe, I. Kuhne, J. A. Weigl, and H. J. Schmitt. 1999. Rapid identification of nine microorganisms causing acute respiratory tract infections by single-tube multiplex reverse transcription-PCR: feasibility study. J. Clin. Microbiol. 37:1-7.
14. Gruber, W. C., D. J. Russell, and C. Tibbetts. 1993. Fiber gene and genomic origin of human adenovirus type 4. Virology 196:603-611.
15. Heim, A., C. Ebnet, G. Harste, and P. Pring-Akerblom. 2003. Rapid and quantitative detection of human adenovirus DNA by real-time PCR. J. Med. Virol. 70:228-239.
16. Horwitz, M. S. 2001. Adenoviruses, p. 2301-2326. In B. N. Fields, D. M. Knipe, and P. M. Howley (ed.), Virology, 4th ed. Lippincott-Raven, New York, N.Y.
17. Houng, H. S., S. Liang, C. M. Chen, J. Keith, M. Echavarria, J. L. Sanchez, S. A. Kolavic, D. W. Vaughn, and L. N. Binn. 2002. Rapid type-specific diagnosis of adenovirus type 4 infection using a hexon-based quantitative fluorogenic PCR. Diagn. Microbiol. Infect. Dis. 42:227-236.
18. Hughes, T. R., M. Mao, A. R. Jones, J. Burchard, M. J. Marton, K. W. Shannon, S. M. Lefkowitz, M. Ziman, J. M. Schelter, M. R. Meyer, S. Kobayashi, C. Davis, H. Dai, Y. D. He, S. B. Stephaniants, G. Cavet, W. L. Walker, A. West, E. Coffey, D. D. Shoemaker, R. Stoughton, A. P. Blanchard, S. H. Friend, and P. S. Linsley. 2001. Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nat. Biotechnol. 19:342-347.
19. Hwang, T. S., J. K. Jeong, M. Park, H. S. Han, H. K. Choi, and T. S. Park. 2003. Detection and typing of HPV genotypes in various cervical lesions by HPV oligonucleotide microarray. Gynecol. Oncol. 90:51-56.
20. Kawaguchi, K., S. Kaneko, M. Honda, H. F. Kawai, Y. Shirota, and K. Kobayashi. 2003. Detection of hepatitis B virus DNA in sera from patients with chronic hepatitis B virus infection by DNA microarray method. J. Clin. Microbiol. 41:1701-1704.
21. Kidd, A. H., M. Jonsson, D. Garwicz, A. E. Kajon, A. G. Wermenbol, M. W. Verweij, and J. C. De Jong. 1996. Rapid subgenus identification of human adenovirus isolates by a general PCR. J. Clin. Microbiol. 34:622-627.
22. Kolavic-Gray, S. A., L. N. Binn, J. L. Sanchez, S. B. Cersovsky, C. S. Polyak, F. Mitchell-Raymundo, L. V. Asher, D. W. Vaughn, B. H. Feighner, and B. L. Innis. 2002. Large epidemic of adenovirus type 4 infection among military trainees: epidemiological, clinical, and laboratory studies. Clin. Infect. Dis. 35:808-818.
23. Lapa, S., M. Mikheev, S. Shchelkunov, V. Mikhailovich, A. Sobolev, V. Blinon, I. Babkin, A. Guskov, E. Sokunova, A. Zasedatelev, L. Sandakhchiev, and A. Mirzabekov. 2002. Species-level identification of orthopoxviruses with an oligonucleotide microchip. J. Clin. Microbiol. 40:753-757.
24. Malasig, M. D., P. R. Goswami, L. K. Crawford-Miksza, D. P. Schnurr, and G. C. Gray. 2001. Simplified microneutralization test for serotyping adenovirus isolates. J. Clin. Microbiol. 39:2984-2986.
25. Mitchell, S., H. J. O'Neill, G. M. Ong, S. Christie, P. Duprex, D. E. Wyatt, C. McCaughey, V. J. Armstrong, S. Feeney, L. Metwally, and P. V. Coyle. 2003. Clinical assessment of a generic DNA amplification assay for the identification for respiratory adenovirus infections. J. Clin. Virol. 26:331-338.
26. Na, B. K., J. H. Kim, G. C. Shin, J. Y. Lee, J. S. Lee, C. Kang, and W. J. Kim. 2002. Detection and typing of respiratory adenoviruses in a single-tube multiplex polymerase chain reaction. J. Med. Virol. 66:512-517.
27. Norrby, E. 1969. The structural and functional diversity of adenovirus capsid components. J. Gen. Virol. 5:221-236.
28. Poddar, S. K. 1999. Detection of adenovirus using PCR and molecular beacon. J. Virol. Methods 82:19-26.
29. Pring-Åkerblom, P., F. E. J. Trijssenaar, T. Adrian, and H. Hoyer. 1999. Multiplex polymerase chain reaction for subgenus-specific detection of human adenoviruses in clinical samples. J. Med. Virol. 58:87-92.
30. Ryan, M. A. K., G. C. Gray, B. Smith, J. A. McKeehan, A. W. Hawksworth, and M. D. Malasig. 2002. Large epidemic of respiratory illness due to adenovirus types 7 and 3 in healthy young adults. Clin. Infect. Dis. 34:577-582.
31. Saitoh-Inagawa, W., A. Oshima, K. Aoki, N. Itoh, K. Isobe, E. Uchio, S. Ohno, H. Nakajima, K. Hata, and H. Ishiko. 1996. Rapid diagnosis of adenoviral conjunctivitis by PCR and restriction fragment length polymorphism analysis. J. Clin. Microbiol. 34:2113-2116.
32. Shenk, T. E. 2001. Adenoviruses, p. 2265-2300. In B. N. Fields, D. M. Knipe, and P. M. Howley, (ed.), Virology, 4th ed. Lippincott-Raven, New York, N.Y.
33. Takeuchi, S., N. Itoh, E. Uchio, K. Aoki, and S. Ohno. 1999. Serotyping of adenoviruses on conjunctival scrapings by PCR and sequence analysis. J. Clin. Microbiol. 37:1839-1845.
34. Wang, D., L. Coscoy, M. Zylberberg, P. C. Avila, H. A. Boushey, D. Ganem, and J. L. DeRisi. 2002. Microarray-based detection and genotyping of viral pathogens. Proc. Natl. Acad. Sci. USA 99:15687-15692.
35. Willcox, N., and V. Mautner. 1976. Antigenic determinants of adenovirus capsids. II. Homogeneity of hexons, and accessibility of their determinants, in the virion. J. Immunol. 116:25-29.
36. Xu, W., M. C. McDonough, and D. D. Erdman. 2000. Species-specific identification of human adenoviruses by a multiplex PCR assay. J. Clin. Microbiol. 38:4114-4120.
37. Xu, W., and D. D. Erdman. 2001. Type-specific identification of human adenovirus 3, 7 and 21 by a multiplex PCR assay. J. Med. Virol. 64:537-542.