Skip to main content

Advertisement

SpringerLink
Log in

A gyrovirus infecting a sea bird

  • Brief Report
  • Published:
Archives of Virology Aims and scope Submit manuscript

Abstract

We characterized the genome of a highly divergent gyrovirus (GyV8) in the spleen and uropygial gland tissues of a diseased northern fulmar (Fulmarus glacialis), a pelagic bird beached in San Francisco, California. No other exogenous viral sequences could be identified using viral metagenomics. The small circular DNA genome shared no significant nucleotide sequence identity, and only 38-42 % amino acid sequence identity in VP1, with any of the previously identified gyroviruses. GyV8 is the first member of the third major phylogenetic clade of this viral genus and the first gyrovirus detected in an avian species other than chicken.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1

References

  1. Adair BM (2000) Immunopathogenesis of chicken anemia virus infection. Dev Comp Immunol 24:247–255

    Article  CAS  PubMed  Google Scholar 

  2. Biagini P, Bedarida S, Touinssi M, Galicher V, de Micco P (2013) Human gyrovirus in healthy blood donors, France. Emerg Infect Dis 19:1014–1015

    Article  PubMed Central  PubMed  Google Scholar 

  3. Bullenkamp J, Cole D, Malik F, Alkhatabi H, Kulasekararaj A, Odell EW, Farzaneh F, Gaken J, Tavassoli M (2012) Human Gyrovirus Apoptin shows a similar subcellular distribution pattern and apoptosis induction as the chicken anaemia virus derived VP3/Apoptin. Cell Death Dis 3:e296

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  4. Chu DK, Poon LL, Chiu SS, Chan KH, Ng EM, Bauer I, Cheung TK, Ng IH, Guan Y, Wang D, Peiris JS (2012) Characterization of a novel gyrovirus in human stool and chicken meat. J Clin Virol 55:209–213

    Article  PubMed Central  PubMed  Google Scholar 

  5. de Smit MH, Noteborn MH (2009) Apoptosis-inducing proteins in chicken anemia virus and TT virus. Curr Top Microbiol Immunol 331:131–149

    PubMed  Google Scholar 

  6. Deng X, Naccache SN, Ng T, Federman S, Li L, Chiu CY, Delwart EL (2015) An ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next-generation sequencing data. Nucleic Acids Res 43(7):e46

    Article  PubMed Central  PubMed  Google Scholar 

  7. Feher E, Pazar P, Kovacs E, Farkas SL, Lengyel G, Jakab F, Martella V, Banyai K (2014) Molecular detection and characterization of human gyroviruses identified in the ferret fecal virome. Arch Virol 159:3401–3406

    Article  CAS  PubMed  Google Scholar 

  8. Feher E, Pazar P, Lengyel G, Phan TG, Banyai K (2015) Sequence and phylogenetic analysis identifies a putative novel gyrovirus 3 genotype in ferret feces. Virus Genes 50(1):137–141

    Article  CAS  PubMed  Google Scholar 

  9. Gia Phan T, Phung Vo N, Sdiri-Loulizi K, Aouni M, Pothier P, Ambert-Balay K, Deng X, Delwart E (2013) Divergent gyroviruses in the feces of Tunisian children. Virology 446:346–348

    Article  PubMed  Google Scholar 

  10. Hino S, Prasetyo AA (2009) Relationship of Torque teno virus to chicken anemia virus. Curr Top Microbiol Immunol 331:117–130

    CAS  PubMed  Google Scholar 

  11. Huang X, Madan A (1999) CAP3: a DNA sequence assembly program. Genome Res 9:868–877

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  12. Langmead B, Salzberg SL (2012) Fast gapped-read alignment with Bowtie 2. Nat Methods 9:357–359

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  13. Li L, Diab S, McGraw S, Barr B, Traslavina R, Higgins R, Talbot T, Blanchard P, Rimoldi G, Fahsbender E, Page B, Phan TG, Wang C, Deng X, Pesavento P, Delwart E (2013) Divergent astrovirus associated with neurologic disease in cattle. Emerg Infect Dis 19:1385–1392

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  14. Li L, McGraw S, Zhu K, Leutenegger CM, Marks SL, Kubiski S, Gaffney P, Dela Cruz FN Jr, Wang C, Delwart E, Pesavento PA (2013) Circovirus in tissues of dogs with vasculitis and hemorrhage. Emerg Infect Dis 19:534–541

    Article  PubMed Central  PubMed  Google Scholar 

  15. Li L, Deng X, Mee ET, Collot-Teixeira S, Anderson R, Schepelmann S, Minor PD, Delwart E (2015) Comparing viral metagenomics methods using a highly multiplexed human viral pathogens reagent. J Virol Methods 213:139–146

    Article  CAS  PubMed  Google Scholar 

  16. Luo R, Liu B, Xie Y, Li Z, Huang W, Yuan J, He G, Chen Y, Pan Q, Liu Y, Tang J, Wu G, Zhang H, Shi Y, Yu C, Wang B, Lu Y, Han C, Cheung DW, Yiu SM, Peng S, Xiaoqian Z, Liu G, Liao X, Li Y, Yang H, Wang J, Lam TW (2012) SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. GigaScience 1:18

    Article  PubMed Central  PubMed  Google Scholar 

  17. Macera L, Focosi D, Giannelli R, Bulleri M, Zucca A, Scatena F, Pistello M, Ceccherini Nelli L, Maggi F (2013) Human gyrovirus is not found in human CD34+ hematopoietic stem cells from peripheral blood or umbilical cord. J Clin Virol 57:182–183

    Article  PubMed  Google Scholar 

  18. Maggi F, Macera L, Focosi D, Vatteroni ML, Boggi U, Antonelli G, Eloit M, Pistello M (2012) Human gyrovirus DNA in human blood, Italy. Emerg Infect Dis 18:956–959

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  19. McGinnis S, Madden TL (2004) BLAST: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res 32:W20–W25

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  20. Namiki T, Hachiya T, Tanaka H, Sakakibara Y (2012) MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads. Nucleic Acids Res 40:e155

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  21. Noteborn MH, de Boer GF, van Roozelaar DJ, Karreman C, Kranenburg O, Vos JG, Jeurissen SH, Hoeben RC, Zantema A, Koch G et al (1991) Characterization of cloned chicken anemia virus DNA that contains all elements for the infectious replication cycle. J Virol 65:3131–3139

    CAS  PubMed Central  PubMed  Google Scholar 

  22. Oude Munnink BB, Canuti M, Deijs M, de Vries M, Jebbink MF, Rebers S, Molenkamp R, van Hemert FJ, Chung K, Cotten M, Snijders F, Sol CJ, van der Hoek L (2014) Unexplained diarrhoea in HIV-1 infected individuals. BMC Infect Dis 14:22

    Article  PubMed Central  PubMed  Google Scholar 

  23. Peters MA, Jackson DC, Crabb BS, Browning GF (2002) Chicken anemia virus VP2 is a novel dual specificity protein phosphatase. J Biol Chem 277:39566–39573

    Article  CAS  PubMed  Google Scholar 

  24. Phan TG, Li L, O’Ryan MG, Cortes H, Mamani N, Bonkoungou IJ, Wang C, Leutenegger CM, Delwart E (2012) A third gyrovirus species in human faeces. J Gen Virol 93:1356–1361

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  25. Reese MG (2001) Application of a time-delay neural network to promoter annotation in the Drosophila melanogaster genome. Comput Chem 26:51–56

    Article  CAS  PubMed  Google Scholar 

  26. Rijsewijk FA, Dos Santos HF, Teixeira TF, Cibulski SP, Varela AP, Dezen D, Franco AC, Roehe PM (2011) Discovery of a genome of a distant relative of chicken anemia virus reveals a new member of the genus Gyrovirus. Arch Virol 156:1097–1100

    Article  CAS  PubMed  Google Scholar 

  27. Rosenberger JK, Cloud SS (1998) Chicken anemia virus. Poult Sci 77:1190–1192

    Article  CAS  PubMed  Google Scholar 

  28. Sauvage V, Cheval J, Foulongne V, Gouilh MA, Pariente K, Manuguerra JC, Richardson J, Dereure O, Lecuit M, Burguiere A, Caro V, Eloit M (2011) Identification of the first human gyrovirus, a virus related to chicken anemia virus. J Virol 85:7948–7950

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  29. Schat KA (2009) Chicken anemia virus. Curr Top Microbiol Immunol 331:151–183

    CAS  PubMed  Google Scholar 

  30. Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I (2009) ABySS: a parallel assembler for short read sequence data. Genome Res 19:1117–1123

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  31. Smuts HE (2014) Novel Gyroviruses, including Chicken Anaemia Virus, in Clinical and Chicken Samples from South Africa. Adv Virol 2014:321284

    Article  PubMed Central  PubMed  Google Scholar 

  32. Takahashi K, Iwasa Y, Hijikata M, Mishiro S (2000) 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

    Article  CAS  PubMed  Google Scholar 

  33. Wang C, Wang W, Wang J, Zhan H, Jiang L, Yan R, Hou Z, Zhu H, Yu L, Shi Y, Ding M, Ke C (2013) Apoptin induces apoptosis in nude mice allograft model of human bladder cancer by altering multiple bladder tumor-associated gene expression profiles. Tumour Biol 34:1667–1678

    Article  CAS  PubMed  Google Scholar 

  34. Welch J, Bienek C, Gomperts E, Simmonds P (2006) Resistance of porcine circovirus and chicken anemia virus to virus inactivation procedures used for blood products. Transfusion 46:1951–1958

    Article  CAS  PubMed  Google Scholar 

  35. Zhan H, Wang JS, Wang HF, Zuo YG, Wang CH, Ding MX (2012) Apoptin induces apoptosis in human bladder cancer EJ and BIU-87 cells. Asian Pac J Cancer Prev 13:135–138

    Article  PubMed  Google Scholar 

  36. Zhang W, Li L, Deng X, Kapusinszky B, Delwart E (2014) What is for dinner? Viral metagenomics of US store bought beef, pork, and chicken. Virology 468–470:303–310

    Article  PubMed  Google Scholar 

  37. Zhang X, Liu Y, Ji J, Chen F, Sun B, Xue C, Ma J, Bi Y, Xie Q (2014) Identification of a chicken anemia virus variant-related gyrovirus in stray cats in China, 2012. BioMed Res Int 2014:313252

    PubMed Central  PubMed  Google Scholar 

Download references

Acknowledgements

The work was supported by the Blood Systems Research Institute and NIH R01 HL083254 to Dr. Delwart.

Author information

Authors and Affiliations

  1. Blood Systems Research Institute, 270 Masonic Ave., San Francisco, CA, 94118, USA

    Linlin Li, Tung Gia Phan, Wen Zhang, Xutao Deng & Eric Delwart

  2. Department of Laboratory Medicine, University of California, San Francisco, CA, USA

    Linlin Li, Tung Gia Phan, Wen Zhang, Xutao Deng & Eric Delwart

  3. Department of Pathology, Microbiology and Immunology, School of Veterinary Medicine, University of California, Davis, CA, USA

    Patricia A. Pesavento & Anne M. Gaynor

  4. International Bird Rescue, San Francisco Bay Center, Fairfield, CA, USA

    Rebecca S. Duerr

  5. Department of Microbiology, School of Medicine, Jiangsu University, Zhejiang, 212013, Jiangsu, China

    Wen Zhang

Authors
  1. Linlin Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Patricia A. Pesavento
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Anne M. Gaynor
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Rebecca S. Duerr
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Tung Gia Phan
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Wen Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Xutao Deng
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Eric Delwart
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Eric Delwart.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Li, L., Pesavento, P.A., Gaynor, A.M. et al. A gyrovirus infecting a sea bird. Arch Virol 160, 2105–2109 (2015). https://doi.org/10.1007/s00705-015-2468-1

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00705-015-2468-1

Keywords

Search

Navigation