Re-evaluation of the genome sequence of guinea pig cytomegalovirus

Journal of General Virology

Volumn 92, Issue 5, 2011, Pages 1005-1020

  Kanai, Kyosuke ^a   Yamada, Souichi ^a   Yamamoto, Yumiko ^a   Fukui, Yoshiko ^a   Kurane, Ichiro ^a   Inoue, Naoki ^a  

^a NATIONAL INSTITUTE OF INFECTIOUS DISEASES   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CYTOMEGALOVIRUS; GENE LOCUS; GENE MUTATION; GENE SEQUENCE; GUINEA PIG CYTOMEGALOVIRUS; IMMEDIATE EARLY GENE; IN VITRO STUDY; NONHUMAN; NUCLEOTIDE SEQUENCE; PREDICTION; PRIORITY JOURNAL; VIRUS GENE; VIRUS GENOME; VIRUS STRAIN;

ADAPTATION, BIOLOGICAL; ANIMALS; CELL LINE; DNA, VIRAL; GUINEA PIGS; MOLECULAR SEQUENCE DATA; ROSEOLOVIRUS; SEQUENCE ANALYSIS, DNA; SERIAL PASSAGE; VIRAL PROTEINS; VIRUS CULTIVATION;

ANIMALIA; GUINEA PIG CYTOMEGALOVIRUS; HUMAN HERPESVIRUS 5;

EID: 79955599157     PISSN: 00221317     EISSN: 14652099     Source Type: Journal    
DOI: 10.1099/vir.0.027789-0     Document Type: Article

References (44)

1. Akter, P., Cunningham, C., McSharry, B. P., Dolan, A., Addison, C., Dargan, D. J., Hassan-Walker, A. F., Emery, V. C., Griffiths, P. D. & other authors (2003). Two novel spliced genes in human cyto-megalovirus. J Gen Virol 84, 1117-1122.
2. Bates, M., Monze, M., Bima, H., Kapambwe, M., Kasolo, F. C., Gompels, U. A. & CIGNIS study group (2008). High human cytomegalovirus loads and diverse linked variable genotypes in both HIV-1 infected and exposed, but uninfected, children in Africa. Virology 382, 28-36.
3. Besemer, J., Lomsadze, A. & Borodovsky, M. (2001). GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions. Nucleic Acids Res 29, 2607-2618.
4. Bradley, A. J., Kovács, I.J.,Gatherer D.,Dargan D.J.,Alkharsah K.R.,Chan P. K.,Karman F.,Dedicoat M. Emery V. C. & other authors (2008). Genotypic analysis of two hypervariable human cytomegalovirus genes. J Med Virol 80, 1615-1623.
5. Bradley, A. J., Lurain, N. S., Ghazal, P., Trivedi, U., Cunningham, C., Baluchova, K., Gatherer, D., Wilkinson, G. W., Dargan, D. J. & Davison, A. J. (2009). High-throughput sequence analysis of variants of human cytomegalovirus strains Towne and AD169. J Gen Virol 90, 2375-2380.
6. Brocchieri, L., Kledal, T. N., Karlin, S. & Mocarski, E. S. (2005). Predicting coding potential from genome sequence: application to betaherpesviruses infecting rats and mice. J Virol 79, 7570-7596.
7. Bühler B.,Keil G. M.,Weiland F. & Koszinowski U. H.(1990).Characterization of the murine cytomegalovirus early transcription unit e1 that is induced by immediate-early proteins. J Virol 64, 1907-1919.
8. Cha, T. A., Tom, E., Kemble, G. W., Duke, G. M., Mocarski, E. S. & Spaete, R. R. (1996). Human cytomegalovirus clinical isolates carry at least 19 genes not found in laboratory strains. J Virol 70, 78-83.
9. Cheng, T. P., Valentine, M. C., Gao, J., Pingel, J. T. & Yokoyama, W. M. (2010). Stability of murine cytomegalovirus genome after in vitro and in vivo passage. J Virol 84, 2623-2628.
10. Ciocco-Schmitt, G. M., Karabekian, Z., Godfrey, E. W., Stenberg, R. M., Campbell, A. E. & Kerry, J. A. (2002). Identification and characterization of novel murine cytomegalovirus M112-113 (e1) gene products. Virology 294, 199-208.
11. Cui, X., McGregor, A., Schleiss, M. R. & McVoy, M. A. (2008). Cloning the complete guinea pig cytomegalovirus genome as an infectious bacterial artificial chromosome with excisable origin of replication. J Virol Methods 149, 231-239.
12. Cunningham, C., Gatherer, D., Hilfrich, B., Baluchova, K., Dargan, D. J., Thomson, M., Griffiths, P. D., Wilkinson, G. W., Schulz, T. F. & Davison, A. J. (2010). Sequences of complete human cytomegalovirus genomes from infected cell cultures and clinical specimens. J Gen Virol 91, 605-615.
13. Dargan, D. J., Douglas, E., Cunningham, C., Jamieson, F., Stanton, R. J., Baluchova, K., McSharry, B. P., Tomasec, P., Emery, V. C. & other authors (2010). Sequential mutations associated with adaptation of human cytomegalovirus to growth in cell culture. J Gen Virol 91, 1535-1546.
14. Davison, A. J., Dolan, A., Akter, P., Addison, C., Dargan, D. J., Alcendor, D. J., McGeoch, D. J. & Hayward, G. S. (2003). The human cytomegalovirus genome revisited: comparison with the chimpanzee cytomegalovirus genome. J Gen Virol 84, 17-28.
15. Dolan, A., Cunningham, C., Hector, R. D., Hassan-Walker, A. F., Lee, L., Addison, C., Dargan, D. J., McGeoch, D. J., Gatherer, D. & other authors (2004). Genetic content of wild-type human cytomegalo-virus. J Gen Virol 85, 1301-1312.
16. Dominguez, G., Dambaugh, T. R., Stamey, F. R., Dewhurst, S., Inoue, N. & Pellett, P. E. (1999). Human herpesvirus 6B genome sequence: coding content and comparison with human herpesvirus 6A. J Virol 73, 8040-8052.
17. Hahn, G., Revello, M. G., Patrone, M., Percivalle, E., Campanini, G., Sarasini, A., Wagner, M., Gallina, A., Milanesi, G. & other authors (2004). Human cytomegalovirus UL131-128 genes are indispensable for virus growth in endothelial cells and virus transfer to leukocytes. J Virol 78, 10023-10033.
18. Hassan-Walker, A. F., Okwuadi, S., Lee, L., Griffiths, P. D. & Emery, V. C. (2004). Sequence variability of the alpha-chemokine UL146 from clinical strains of human cytomegalovirus. J Med Virol 74, 573-579.
19. Hirt, B. (1967). Selective extraction of polyoma DNA from infected mouse cell cultures. J Mol Biol 26, 365-369.
20. Igarashi, K., Fawl, R., Roller, R. J. & Roizman, B. (1993). Construction and properties of a recombinant herpes simplex virus 1 lacking both S-component origins of DNA synthesis. J Virol 67, 2123-2132.
21. Katano, H., Sato, Y., Tsutsui, Y., Sata, T., Maeda, A., Nozawa, N., Inoue, N., Nomura, Y. & Kurata, T. (2007). Pathogenesis of cytomegalovirus-associated labyrinthitis in a guinea pig model. Microbes Infect 9, 183-191.
22. Kern, E. R. (2006). Pivotal role of animal models in the development of new therapies for cytomegalovirus infections. Antiviral Res 71, 164-171.
23. Koyano, S., Inoue, N., Nagamori, T., Yan, H., Asanuma, H., Yagyu, K., Osaki, M., Seiwa, C. & Fujieda, K. (2009). Dried umbilical cords in the retrospective diagnosis of congenital cytomegalovirus infection as a cause of developmental delays. Clin Infect Dis 48, e93-e95.
24. Lai, L. & Britt, W. J. (2003). The interaction between the major capsid protein and the smallest capsid protein of human cytomegalovirus is dependent on two linear sequences in the smallest capsid protein. J Virol 77, 2730-2735.
25. Lilja, A. E. & Shenk, T. (2008). Efficient replication of rhesus cytomegalovirus variants in multiple rhesus and human cell types. Proc Natl Acad Sci U S A 105, 19950-19955.
26. Lurain, N. S., Fox, A. M., Lichy, H. M., Bhorade, S. M., Ware, C. F., Huang, D. D., Kwan, S. P., Garrity, E. R. & Chou, S. (2006). Analysis of the human cytomegalovirus genomic region from UL146 through UL147A reveals sequence hypervariability, genotypic stability, and overlapping transcripts. Virol J 3, 4.
27. Mattick, C., Dewin, D., Polley, S., Sevilla-Reyes, E., Pignatelli, S., Rawlinson, W., Wilkinson, G., Dal Monte, P. & Gompels, U. A. (2004). Linkage of human cytomegalovirus glycoprotein gO variant groups identified from worldwide clinical isolates with gN genotypes, implications for disease associations and evidence for N-terminal sites of positive selection. Virology 318, 582-597.
28. Murphy, E., Yu, D., Grimwood, J., Schmutz, J., Dickson, M., Jarvis, M. A., Hahn, G., Nelson, J. A., Myers, R. M. & Shenk, T. E. (2003). Coding potential of laboratory and clinical strains of human cytomegalovirus. Proc Natl Acad Sci U S A 100, 14976-14981.
29. Nozawa, N., Yamamoto, Y., Fukui, Y., Katano, H., Tsutsui, Y., Sato, Y., Yamada, S., Inami, Y., Nakamura, K. & other authors (2008). Identification of a 1.6 kb genome locus of guinea pig cytomegalovirus required for efficient viral growth in animals but not in cell culture. Virology 379, 45-54.
30. Ogawa, H., Suzutani, T., Baba, Y., Koyano, S., Nozawa, N., Ishibashi, K., Fujieda, K., Inoue, N. & Omori, K. (2007). Etiology of severe sensorineural hearing loss in children: independent impact of congenital cytomegalo-virus infection and GJB2 mutations. J Infect Dis 195, 782-788.
31. Pass, R. F. (2001). Cytomegalovirus. In Fields Virology, pp. 2675- 2705. Edited by D. M. Knipe & P. M. Howley. Philadelphia: Lippincott Williams & Wilkins.
32. Rivailler, P., Kaur, A., Johnson, R. P. & Wang, F. (2006). Genomic sequence of rhesus cytomegalovirus 180.92: insights into the coding potential of rhesus cytomegalovirus. J Virol 80, 4179-4182.
33. Ryckman, B. J., Rainish, B. L., Chase, M. C., Borton, J. A., Nelson, J. A., Jarvis, M. A. & Johnson, D. C. (2008). Characterization of the human cytomegalovirus gH/gL/UL128-131 complex that mediates entry into epithelial and endothelial cells. J Virol 82, 60-70.
34. Schleiss, M. R. (2006). Nonprimate models of congenital cyto-megalovirus (CMV) infection: gaining insight into pathogenesis and prevention of disease in newborns. ILAR J 47, 65-72.
35. Schleiss, M. R., McGregor, A., Choi, K. Y., Date, S. V., Cui, X. & McVoy, M. A. (2008). Analysis of the nucleotide sequence of the guinea pig cytomegalovirus (GPCMV) genome. Virol J 5, 139.
36. Stanton, R., Westmoreland, D., Fox, J. D., Davison, A. J. & Wilkinson, G. W. (2005). Stability of human cytomegalovirus genotypes in persistently infected renal transplant recipients. J Med Virol 75, 42-46.
37. Stanton, R.J., Baluchova, K., Dargan, D. J., Cunningham, C., Sheehy, O., Seirafian, S., McSharry, B. P., Neale, M. L., Davies, J. A. & other authors (2010). Reconstruction of the complete human cytomegalovirus genome in a BAC reveals RL13 to be a potent inhibitor of replication. J Clin Invest 120, 3191-3208.
38. Wang, D. & Shenk, T. (2005a). Human cytomegalovirus UL131 open reading frame is required for epithelial cell tropism. J Virol 79, 10330-10338.
39. Wang, D. & Shenk, T. (2005b). Human cytomegalovirus virion protein complex required for epithelial and endothelial cell tropism. Proc Natl Acad Sci USA 102, 18153-18158.
40. Wood, L. J., Baxter, M. K., Plafker, S. M. & Gibson, W. (1997). Human cytomegalovirus capsid assembly protein precursor (pUL80.5) interacts with itself and with the major capsid protein (pUL86) through two different domains. J Virol 71, 179-190.
41. Wright, D. A. & Spector, D. H. (1989). Posttranscriptional regulation of a class of human cytomegalovirus phosphoproteins encoded by an early transcription unit. J Virol 63, 3117-3127.
42. Yamada, S., Nozawa, N., Katano, H., Fukui, Y., Tsuda, M., Tsutsui, Y., Kurane, I. & Inoue, N. (2009). Characterization of the guinea pig cytomegalovirus genome locus that encodes homologs of human cytomegalovirus major immediate-early genes, UL128, and UL130. Virology 391, 99-106.
43. Yan, H., Koyano, S., Inami, Y., Yamamoto, Y., Suzutani, T., Mizuguchi, M., Ushijima, H., Kurane, I. & Inoue, N. (2008). Genetic linkage among human cytomegalovirus glycoprotein N (gN) and gO genes, with evidence for recombination from congenitally and postnatally infected Japanese infants. J Gen Virol 89, 2275-2279.
44. Yu, X., Shah, S., Atanasov, I., Lo, P., Liu, F., Britt, W. J. & Zhou, Z. H. (2005). Three-dimensional localization of the smallest capsid protein in the human cytomegalovirus capsid. J Virol 79, 1327-1332.