1887

Abstract

In the process of searching for the recently described small anelloviruses 1 and 2 (SAVs) with the genomic DNA length of 2.2 or 2.6 kb in human sera, we isolated a novel virus with its genomic organization resembling those of torque teno virus (TTV) of 3.8–3.9 kb and torque teno mini virus (TTMV) of 2.8–2.9 kb. The entire genomic sequence of three isolates (MD1-032, MD1-073 and MD2-013), which comprised 3242–3253 bases and exhibited 76–99 % identities with the SAVs within the overlapping sequence, was determined. Although the MD1-032, MD1-073 and MD2-013 isolates differed by 10–28 % from each other over the entire genome, they segregated into the same cluster and were phylogenetically distinguishable from all reported TTVs and TTMVs. These results suggest that SAVs are deletion mutants of the novel virus with intermediate genomic length between those of TTV and TTMV and that the novel virus can be classified into a third group of the genus .

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2007-07-01
2019-11-12
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References

  1. Andreoli, E., Maggi, F., Pistello, M., Meschi, S., Vatteroni, M., Nelli, L. C. & Bendinelli, M. ( 2006; ). Small anellovirus in hepatitis C patients and healthy controls. Emerg Infect Dis 12, 1175–1176.[CrossRef]
    [Google Scholar]
  2. Bendinelli, M., Pistello, M., Maggi, F., Fornai, C., Freer, G. & Vatteroni, M. L. ( 2001; ). Molecular properties, biology, and clinical implications of TT virus, a recently identified widespread infectious agent of humans. Clin Microbiol Rev 14, 98–113.[CrossRef]
    [Google Scholar]
  3. Biagini, P., Gallian, P., Attoui, H., Touinssi, M., Cantaloube, J., de Micco, P. & de Lamballerie, X. ( 2001; ). Genetic analysis of full-length genomes and subgenomic sequences of TT virus-like mini virus human isolates. J Gen Virol 82, 379–383.
    [Google Scholar]
  4. Biagini, P., Todd, D., Bendinelli, M., Hino, S., Mankertz, A., Mishiro, S., Niel, C., Okamoto, H., Radial, S. & other authors ( 2005; ). Anellovirus. In Virus Taxonomy, Eighth Report of the International Committee on Taxonomy of Viruses, pp. 335–341. Edited by C. M. Fauquet, M. A. Mayo, J. Maniloff, U. Desselberger & L. A. Ball. California: Elsevier/Academic Press.
  5. Biagini, P., de Micco, P. & de Lamballerie, X. ( 2006; ). Identification of a third member of the Anellovirus genus (‘small anellovirus’) in French blood donors. Arch Virol 151, 405–408.[CrossRef]
    [Google Scholar]
  6. Cong, M. E., Nichols, B., Dou, X. G., Spelbring, J. E., Krawczynski, K., Fields, H. A. & Khudyakov, Y. E. ( 2000; ). Related TT viruses in chimpanzees. Virology 274, 343–355.[CrossRef]
    [Google Scholar]
  7. Erker, J. C., Leary, T. P., Desai, S. M., Chalmers, M. L. & Mushahwar, I. K. ( 1999; ). Analyses of TT virus full-length genomic sequences. J Gen Virol 80, 1743–1750.
    [Google Scholar]
  8. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  9. Hallett, R. L., Clewley, J. P., Bobet, F., McKiernan, P. J. & Teo, C. G. ( 2000; ). Characterization of a highly divergent TT virus genome. J Gen Virol 81, 2273–2279.
    [Google Scholar]
  10. Hijikata, M., Takahashi, K. & Mishiro, S. ( 1999; ). Complete circular DNA genome of a TT virus variant (isolate name SANBAN) and 44 partial ORF2 sequences implicating a great degree of diversity beyond genotypes. Virology 260, 17–22.[CrossRef]
    [Google Scholar]
  11. Hino, S. ( 2002; ). TTV, a new human virus with single stranded circular DNA genome. Rev Med Virol 12, 151–158.[CrossRef]
    [Google Scholar]
  12. Ina, Y. ( 1994; ). oden: a program package for molecular evolutionary analysis and database search of DNA and amino acid sequences. Comput Appl Biosci 10, 11–12.
    [Google Scholar]
  13. Inami, T., Obara, T., Moriyama, M., Arakawa, Y. & Abe, K. ( 2000; ). Full-length nucleotide sequence of a simian TT virus isolate obtained from a chimpanzee: evidence for a new TT virus-like species. Virology 277, 330–335.[CrossRef]
    [Google Scholar]
  14. Itoh, K., Takahashi, M., Ukita, M., Nishizawa, T. & Okamoto, H. ( 1999; ). Influence of primers on the detection of TT virus DNA by polymerase chain reaction. J Infect Dis 180, 1750–1751.
    [Google Scholar]
  15. Jones, M. S., Kapoor, A., Lukashov, V. V., Simmonds, P., Hecht, F. & Delwart, E. ( 2005; ). New DNA viruses identified in patients with acute viral infection syndrome. J Virol 79, 8230–8236.[CrossRef]
    [Google Scholar]
  16. Kamahora, T., Hino, S. & Miyata, H. ( 2000; ). Three spliced mRNAs of TT virus transcribed from a plasmid containing the entire genome in COS1 cells. J Virol 74, 9980–9986.[CrossRef]
    [Google Scholar]
  17. Khudyakov, Y. E., Cong, M. E., Nichols, B., Reed, D., Dou, X. G., Viazov, S. O., Chang, J., Fried, M. W., Williams, I. & other authors ( 2000; ). Sequence heterogeneity of TT virus and closely related viruses. J Virol 74, 2990–3000.[CrossRef]
    [Google Scholar]
  18. Leary, T. P., Erker, J. C., Chalmers, M. L., Desai, S. M. & Mushahwar, I. K. ( 1999; ). Improved detection systems for TT virus reveal high prevalence in humans, non-human primates and farm animals. J Gen Virol 80, 2115–2120.
    [Google Scholar]
  19. Miyata, H., Tsunoda, H., Kazi, A., Yamada, A., Khan, M. A., Murakami, J., Kamahora, T., Shiraki, K. & Hino, S. ( 1999; ). Identification of a novel GC-rich 113-nucleotide region to complete the circular, single-stranded DNA genome of TT virus, the first human circovirus. J Virol 73, 3582–3586.
    [Google Scholar]
  20. Mushahwar, I. K., Erker, J. C., Muerhoff, A. S., Leary, T. P., Simons, J. N., Birkenmeyer, L. G., Chalmers, M. L., Pilot-Matias, T. J. & Desai, S. M. ( 1999; ). Molecular and biophysical characterization of TT virus: evidence for a new virus family infecting humans. Proc Natl Acad Sci U S A 96, 3177–3182.[CrossRef]
    [Google Scholar]
  21. Nishizawa, T., Okamoto, H., Konishi, K., Yoshizawa, H., Miyakawa, Y. & Mayumi, M. ( 1997; ). A novel DNA virus (TTV) associated with elevated transaminase levels in posttransfusion hepatitis of unknown etiology. Biochem Biophys Res Commun 241, 92–97.[CrossRef]
    [Google Scholar]
  22. Okamoto, H., Nishizawa, T., Kato, N., Ukita, M., Ikeda, H., Iizuka, H., Miyakawa, Y. & Mayumi, M. ( 1998; ). Molecular cloning and characterization of a novel DNA virus (TTV) associated with posttransfusion hepatitis of unknown etiology. Hepatol Res 10, 1–16.[CrossRef]
    [Google Scholar]
  23. Okamoto, H., Nishizawa, T., Ukita, M., Takahashi, M., Fukuda, M., Iizuka, H., Miyakawa, Y. & Mayumi, M. ( 1999a; ). The entire nucleotide sequence of a TT virus isolate from the United States (TUS01): comparison with reported isolates and phylogenetic analysis. Virology 259, 437–448.[CrossRef]
    [Google Scholar]
  24. Okamoto, H., Takahashi, M., Nishizawa, T., Ukita, M., Fukuda, M., Tsuda, F., Miyakawa, Y. & Mayumi, M. ( 1999b; ). Marked genomic heterogeneity and frequent mixed infection of TT virus demonstrated by PCR with primers from coding and noncoding regions. Virology 259, 428–436.[CrossRef]
    [Google Scholar]
  25. Okamoto, H., Fukuda, M., Tawara, A., Nishizawa, T., Itoh, Y., Hayasaka, I., Tsuda, F., Tanaka, T., Miyakawa, Y. & Mayumi, M. ( 2000a; ). Species-specific TT viruses and cross-species infection in nonhuman primates. J Virol 74, 1132–1139.[CrossRef]
    [Google Scholar]
  26. Okamoto, H., Nishizawa, T., Tawara, A., Peng, Y., Takahashi, M., Kishimoto, J., Tanaka, T., Miyakawa, Y. & Mayumi, M. ( 2000b; ). Species-specific TT viruses in humans and nonhuman primates and their phylogenetic relatedness. Virology 277, 368–378.[CrossRef]
    [Google Scholar]
  27. Okamoto, H., Nishizawa, T., Tawara, A., Takahashi, M., Kishimoto, J., Sai, T. & Sugai, Y. ( 2000c; ). TT virus mRNAs detected in the bone marrow cells from an infected individual. Biochem Biophys Res Commun 279, 700–707.[CrossRef]
    [Google Scholar]
  28. Okamoto, H., Nishizawa, T., Takahashi, M., Asabe, S., Tsuda, F. & Yoshikawa, A. ( 2001a; ). Heterogeneous distribution of TT virus of distinct genotypes in multiple tissues from infected humans. Virology 288, 358–368.[CrossRef]
    [Google Scholar]
  29. Okamoto, H., Nishizawa, T., Takahashi, M., Tawara, A., Peng, Y., Kishimoto, J. & Wang, Y. ( 2001b; ). Genomic and evolutionary characterization of TT virus (TTV) in tupaias and comparison with species-specific TTVs in humans and non-human primates. J Gen Virol 82, 2041–2050.
    [Google Scholar]
  30. Okamoto, H., Takahashi, M., Nishizawa, T., Tawara, A., Fukai, K., Muramatsu, U., Naito, Y. & Yoshikawa, A. ( 2002; ). Genomic characterization of TT viruses (TTVs) in pigs, cats and dogs and their relatedness with species-specific TTVs in primates and tupaias. J Gen Virol 83, 1291–1297.
    [Google Scholar]
  31. Okamoto, H., Nishizawa, T. & Takahashi, M. ( 2004; ). Torque teno virus (TTV): molecular virology and clinical implications. In Viral Hepatitis: Molecular Biology, Diagnosis, Epidemiology and Control, pp. 241–254. Edited by I. K. Mushahwar. California: Elsevier.
  32. Page, R. D. M. ( 1996; ). treeview: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12, 357–358.
    [Google Scholar]
  33. Peng, Y. H., Nishizawa, T., Takahashi, M., Ishikawa, T., Yoshikawa, A. & Okamoto, H. ( 2002; ). Analysis of the entire genomes of thirteen TT virus variants classifiable into the fourth and fifth genetic groups, isolated from viremic infants. Arch Virol 147, 21–41.[CrossRef]
    [Google Scholar]
  34. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  35. Takahashi, K., Hijikata, M., Samokhvalov, E. I. & Mishiro, S. ( 2000a; ). Full or near full length nucleotide sequences of TT virus variants (types SANBAN and YONBAN) and the TT virus-like mini virus. Intervirology 43, 119–123.[CrossRef]
    [Google Scholar]
  36. Takahashi, K., Iwasa, Y., Hijikata, M. & Mishiro, S. ( 2000b; ). Identification of a new human DNA virus (TTV-like mini virus, TLMV) intermediately related to TT virus and chicken anemia virus. Arch Virol 145, 979–993.[CrossRef]
    [Google Scholar]
  37. Thom, K., Morrison, C., Lewis, J. C. & Simmonds, P. ( 2003; ). Distribution of TT virus (TTV), TTV-like minivirus, and related viruses in humans and nonhuman primates. Virology 306, 324–333.[CrossRef]
    [Google Scholar]
  38. Thompson, J. D., Higgins, D. G. & Gibson, T. J. ( 1994; ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef]
    [Google Scholar]
  39. Verschoor, E. J., Langenhuijzen, S. & Heeney, J. L. ( 1999; ). TT viruses (TTV) of non-human primates and their relationship to the human TTV genotypes. J Gen Virol 80, 2491–2499.
    [Google Scholar]
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vol. , part 7, pp. 1939 - 1944

Detection of TTMDV DNA in human sera

Positions and nucleotide sequence of oligonucleotide primers [Single PDF](43 KB)



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